=> Building science/coot Started : Friday, 8 MAR 2019 at 06:05:14 UTC Platform: 5.5-DEVELOPMENT DragonFly v5.5.0.192.g15ae7f0-DEVELOPMENT #34: Tue Feb 19 09:07:07 PST 2019 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.5-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.5-SYNTH UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 TERM=dumb PKG_CACHEDIR=/var/cache/pkg8 PKG_DBDIR=/var/db/pkg8 PORTSDIR=/xports LANG=C HOME=/root USER=root -------------------------------------------------- -- Options -------------------------------------------------- -------------------------------------------------- -- CONFIGURE_ENV -------------------------------------------------- F77="gfortran5" FC="gfortran5" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc5" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc5" MAKE=gmake PKG_CONFIG=pkgconf PYTHON="/usr/local/bin/python2.7" XDG_DATA_HOME=/construction/science/coot XDG_CONFIG_HOME=/construction/science/coot HOME=/construction/science/coot TMPDIR="/tmp" PATH=/construction/science/coot/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" CMAKE_PREFIX_PATH="/usr/local" LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 CONFIG_SITE=/xports/Templates/config.site lt_cv_sys_max_cmd_len=262144 -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- --enable-shared --disable-static --x-libraries=/usr/local/lib --x-includes=/usr/local/include --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- PYTHON=/usr/local/bin/python2.7 F77="gfortran5" FC="gfortran5" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc5" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc5" XDG_DATA_HOME=/construction/science/coot XDG_CONFIG_HOME=/construction/science/coot HOME=/construction/science/coot TMPDIR="/tmp" PATH=/construction/science/coot/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc80 ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" GPROF="/usr/local/bin/gprof" LD="/usr/local/bin/ld" NM="/usr/local/bin/nm" OBJCOPY="/usr/local/bin/objcopy" OBJDUMP="/usr/local/bin/objdump" RANLIB="/usr/local/bin/ranlib" READELF="/usr/local/bin/readelf" SIZE="/usr/local/bin/size" STRINGS="/usr/local/bin/strings" LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" -------------------------------------------------- -- MAKE_ARGS -------------------------------------------------- DESTDIR=/construction/science/coot/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- GTK2_VERSION="2.10.0" GTK3_VERSION="3.0.0" PYTHON_INCLUDEDIR=include/python2.7 PYTHON_LIBDIR=lib/python2.7 PYTHON_PLATFORM=dragonfly5 PYTHON_PYOEXTENSION=pyo PYTHON_SITELIBDIR=lib/python2.7/site-packages PYTHON_SUFFIX=27 PYTHON_VER=2.7 PYTHON_VERSION=python2.7 PYTHON2="" PYTHON3="@comment " OSREL=5.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/coot" EXAMPLESDIR="share/examples/coot" DATADIR="share/coot" WWWDIR="www/coot" ETCDIR="etc/coot" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/coot DOCSDIR=/usr/local/share/doc/coot EXAMPLESDIR=/usr/local/share/examples/coot WWWDIR=/usr/local/www/coot ETCDIR=/usr/local/etc/coot -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=Release-BE USE_PACKAGE_DEPENDS_ONLY=yes PACKAGE_BUILDING=yes BATCH=yes PKG_CREATE_VERBOSE=yes PORTSDIR=/xports DISTDIR=/distfiles WRKDIRPREFIX=/construction PORT_DBDIR=/options PACKAGES=/packages MAKE_JOBS_NUMBER_LIMIT=5 LICENSES_ACCEPTED= NONE HAVE_COMPAT_IA32_KERN= CONFIGURE_MAX_CMD_LEN=262144 _PERL5_FROM_BIN=5.28.1 _ALTCCVERSION_921dbbb2=none _OBJC_ALTCCVERSION_921dbbb2=none _SMP_CPUS=8 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500500 OSVERSION=9999999 OSREL=5.5 _OSRELEASE=5.5-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- ===> License LGPL3 accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> coot-0.8.9.1_2 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.5_5.txz Installing pkg-1.10.5_5... Extracting pkg-1.10.5_5: .......... done ===> coot-0.8.9.1_2 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of coot-0.8.9.1_2 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License LGPL3 accepted by the user ===> Fetching all distfiles required by coot-0.8.9.1_2 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License LGPL3 accepted by the user ===> Fetching all distfiles required by coot-0.8.9.1_2 for building => SHA256 Checksum OK for coot/coot-0.8.9.1.tar.gz. => SHA256 Checksum OK for coot/refmac-monomer-library.tar.gz. => SHA256 Checksum OK for coot/reference-structures.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License LGPL3 accepted by the user ===> Fetching all distfiles required by coot-0.8.9.1_2 for building ===> Extracting for coot-0.8.9.1_2 => SHA256 Checksum OK for coot/coot-0.8.9.1.tar.gz. => SHA256 Checksum OK for coot/refmac-monomer-library.tar.gz. => SHA256 Checksum OK for coot/reference-structures.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for coot-0.8.9.1_2 ===> Applying ports patches for coot-0.8.9.1_2 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> coot-0.8.9.1_2 depends on executable: update-desktop-database - not found ===> Installing existing package /packages/All/desktop-file-utils-0.23.txz Installing desktop-file-utils-0.23... `-- Installing gettext-runtime-0.19.8.1_2... | `-- Installing indexinfo-0.3.1... | `-- Extracting indexinfo-0.3.1: .... done `-- Extracting gettext-runtime-0.19.8.1_2: .......... done `-- Installing glib-2.56.3_3,1... | `-- Installing libffi-3.2.1_3... | `-- Extracting libffi-3.2.1_3: .......... done | `-- Installing libiconv-1.14_11... | `-- Extracting libiconv-1.14_11: .......... done | `-- Installing libxml2-2.9.8... | `-- Extracting libxml2-2.9.8: .......... done | `-- Installing pcre-8.42_1... | `-- Extracting pcre-8.42_1: .......... done | `-- Installing python27-2.7.15... | | `-- Installing expat-2.2.6_1... | | `-- Extracting expat-2.2.6_1: .......... done | | `-- Installing libressl-2.8.3... | | `-- Extracting libressl-2.8.3: .......... done | | `-- Installing ncurses-6.1.20190112... | | `-- Extracting ncurses-6.1.20190112: .......... done | | `-- Installing readline-7.0.5... | | `-- Extracting readline-7.0.5: .......... done | `-- Extracting python27-2.7.15: .......... done `-- Extracting glib-2.56.3_3,1: .......... done No schema files found: doing nothing. Extracting desktop-file-utils-0.23: .......... done Message from python27-2.7.15: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: bsddb databases/py-bsddb gdbm databases/py-gdbm sqlite3 databases/py-sqlite3 tkinter x11-toolkits/py-tkinter =========================================================================== ===> coot-0.8.9.1_2 depends on executable: update-desktop-database - found ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on executable: gfortran5 - not found ===> Installing existing package /packages/All/gcc5-5.5.0_6.txz Installing gcc5-5.5.0_6... `-- Installing binutils-2.32,1... `-- Extracting binutils-2.32,1: .......... done `-- Installing gmp-6.1.2_1... `-- Extracting gmp-6.1.2_1: .......... done `-- Installing mpc-1.1.0_2... | `-- Installing mpfr-4.0.2... | `-- Extracting mpfr-4.0.2: .......... done `-- Extracting mpc-1.1.0_2: ......... done Extracting gcc5-5.5.0_6: .......... done Message from gcc5-5.5.0_6: To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc5 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. ===> NOTICE: This port is deprecated; you may wish to reconsider installing it: Unsupported by upstream. Use GCC 7 or newer instead.. ===> coot-0.8.9.1_2 depends on executable: gfortran5 - found ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on executable: gmake - not found ===> Installing existing package /packages/All/gmake-4.2.1_3.txz Installing gmake-4.2.1_3... Extracting gmake-4.2.1_3: .......... done ===> coot-0.8.9.1_2 depends on executable: gmake - found ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on executable: gtk-update-icon-cache - not found ===> Installing existing package /packages/All/gtk-update-icon-cache-2.24.32.txz Installing gtk-update-icon-cache-2.24.32... `-- Installing atk-2.28.1... `-- Extracting atk-2.28.1: .......... done `-- Installing gdk-pixbuf2-2.36.12... | `-- Installing jpeg-turbo-2.0.2... | `-- Extracting jpeg-turbo-2.0.2: .......... done | `-- Installing libX11-1.6.7,1... | | `-- Installing libXau-1.0.8_5... | | `-- Extracting libXau-1.0.8_5: .......... done | | `-- Installing libXdmcp-1.1.2_2... | | `-- Installing xorgproto-2018.4... | | `-- Extracting xorgproto-2018.4: .......... done | | `-- Extracting libXdmcp-1.1.2_2: ......... done | | `-- Installing libxcb-1.13.1... | | `-- Installing libpthread-stubs-0.4... | | `-- Extracting libpthread-stubs-0.4: .... done | | `-- Extracting libxcb-1.13.1: .......... done | `-- Extracting libX11-1.6.7,1: .......... done | `-- Installing png-1.6.36... | `-- Extracting png-1.6.36: .......... done | `-- Installing shared-mime-info-1.10... | `-- Extracting shared-mime-info-1.10: .......... done | `-- Installing tiff-4.0.10... | | `-- Installing jbigkit-2.1_1... | | `-- Extracting jbigkit-2.1_1: .......... done | `-- Extracting tiff-4.0.10: .......... done `-- Extracting gdk-pixbuf2-2.36.12: .......... done `-- Installing hicolor-icon-theme-0.17... `-- Extracting hicolor-icon-theme-0.17: . done `-- Installing libXcomposite-0.4.4_5,1... | `-- Installing libXext-1.3.3_3,1... | `-- Extracting libXext-1.3.3_3,1: .......... done | `-- Installing libXfixes-5.0.3_2... | `-- Extracting libXfixes-5.0.3_2: .......... done `-- Extracting libXcomposite-0.4.4_5,1: .......... done `-- Installing libXcursor-1.1.15_2... | `-- Installing libXrender-0.9.10_2... | `-- Extracting libXrender-0.9.10_2: .......... done `-- Extracting libXcursor-1.1.15_2: .......... done `-- Installing libXdamage-1.1.4_5... `-- Extracting libXdamage-1.1.4_5: ......... done `-- Installing libXi-1.7.9_2,1... `-- Extracting libXi-1.7.9_2,1: .......... done `-- Installing libXinerama-1.1.4_2,1... `-- Extracting libXinerama-1.1.4_2,1: .......... done `-- Installing libXrandr-1.5.1_2... `-- Extracting libXrandr-1.5.1_2: .......... done `-- Installing pango-1.42.4_1... | `-- Installing cairo-1.15.12,2... | | `-- Installing fontconfig-2.12.6,1... | | `-- Installing freetype2-2.9.1... | | `-- Extracting freetype2-2.9.1: .......... done | | `-- Extracting fontconfig-2.12.6,1: .......... done Running fc-cache to build fontconfig cache... /usr/local/share/fonts: skipping, no such directory /usr/local/lib/X11/fonts: skipping, no such directory /var/db/fontconfig: cleaning cache directory fc-cache: succeeded | | `-- Installing mesa-libs-18.3.2... | | `-- Installing libXxf86vm-1.1.4_3... | | `-- Extracting libXxf86vm-1.1.4_3: .......... done | | `-- Installing libdrm-2.4.96,1... | | | `-- Installing libpciaccess-0.13.5... | | | `-- Installing pciids-20190213... | | | `-- Extracting pciids-20190213: ..... done | | | `-- Extracting libpciaccess-0.13.5: ......... done | | `-- Extracting libdrm-2.4.96,1: .......... done | | `-- Installing libelf-0.8.13_3... | | `-- Extracting libelf-0.8.13_3: .......... done | | `-- Installing libxshmfence-1.2_4... | | `-- Extracting libxshmfence-1.2_4: ......... done | | `-- Installing wayland-1.16.0... | | `-- Extracting wayland-1.16.0: .......... done | | `-- Extracting mesa-libs-18.3.2: .......... done | | `-- Installing pixman-0.34.0_1... | | `-- Extracting pixman-0.34.0_1: .......... done | | `-- Installing xcb-util-renderutil-0.3.9_1... | | `-- Installing xcb-util-0.4.0_2,1... | | `-- Extracting xcb-util-0.4.0_2,1: .......... done | | `-- Extracting xcb-util-renderutil-0.3.9_1: ......... done | `-- Extracting cairo-1.15.12,2: .......... done | `-- Installing encodings-1.0.4_4,1... | | `-- Installing font-util-1.3.1... | | `-- Extracting font-util-1.3.1: .......... done | `-- Extracting encodings-1.0.4_4,1: .......... done | `-- Installing fribidi-0.19.7... | `-- Extracting fribidi-0.19.7: .......... done | `-- Installing harfbuzz-2.3.1... | | `-- Installing graphite2-1.3.13... | | `-- Extracting graphite2-1.3.13: .......... done | `-- Extracting harfbuzz-2.3.1: .......... done | `-- Installing libXft-2.3.2_3... | `-- Extracting libXft-2.3.2_3: .......... done | `-- Installing xorg-fonts-truetype-7.7_1... | | `-- Installing dejavu-2.37... | | `-- Installing mkfontdir-1.0.7... | | | `-- Installing mkfontscale-1.1.3_2... | | | `-- Installing libfontenc-1.1.4... | | | `-- Extracting libfontenc-1.1.4: ......... done | | | `-- Extracting mkfontscale-1.1.3_2: ..... done | | `-- Extracting mkfontdir-1.0.7: ..... done | | `-- Extracting dejavu-2.37: .......... done | | `-- Installing font-bh-ttf-1.0.3_3... | | `-- Extracting font-bh-ttf-1.0.3_3: .......... done | | `-- Installing font-misc-ethiopic-1.0.3_3... | | `-- Extracting font-misc-ethiopic-1.0.3_3: ... done | | `-- Installing font-misc-meltho-1.0.3_3... | | `-- Extracting font-misc-meltho-1.0.3_3: .......... done `-- Extracting pango-1.42.4_1: .......... done Extracting gtk-update-icon-cache-2.24.32: .... done Message from freetype2-2.9.1: The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as the default, emulating a modern version of ClearType. This change inevitably leads to different rendering results, and you might change port's options to adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment variable). The environment variable "FREETYPE_PROPERTIES" can be used to control the driver properties. Example: FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ cff:no-stem-darkening=1 \ autofitter:warping=1 This allows to select, say, the subpixel hinting mode at runtime for a given application. The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/ft2-toc.html, if documentation was installed). Message from dejavu-2.37: Make sure that the freetype module is loaded. If it is not, add the following line to the "Modules" section of your X Windows configuration file: Load "freetype" Add the following line to the "Files" section of X Windows configuration file: FontPath "/usr/local/share/fonts/dejavu/" Note: your X Windows configuration file is typically /etc/X11/XF86Config if you are using XFree86, and /etc/X11/xorg.conf if you are using X.Org. ===> coot-0.8.9.1_2 depends on executable: gtk-update-icon-cache - found ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on package: pkgconf>=1.3.0_1 - not found ===> Installing existing package /packages/All/pkgconf-1.6.0,1.txz Installing pkgconf-1.6.0,1... Extracting pkgconf-1.6.0,1: .......... done ===> coot-0.8.9.1_2 depends on package: pkgconf>=1.3.0_1 - found ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on file: /usr/local/bin/python2.7 - found ===> coot-0.8.9.1_2 depends on file: /usr/local/bin/as - found ===> coot-0.8.9.1_2 depends on package: xorgproto>=0 - found ===> coot-0.8.9.1_2 depends on package: xorgproto>=0 - found ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/ice.pc - not found ===> Installing existing package /packages/All/libICE-1.0.9_3,1.txz Installing libICE-1.0.9_3,1... Extracting libICE-1.0.9_3,1: .......... done ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/ice.pc - found ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/sm.pc - not found ===> Installing existing package /packages/All/libSM-1.2.3,1.txz Installing libSM-1.2.3,1... Extracting libSM-1.2.3,1: .......... done ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/sm.pc - found ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - not found ===> Installing existing package /packages/All/libXmu-1.1.2_5,1.txz Installing libXmu-1.1.2_5,1... `-- Installing libXt-1.1.5_2,1... `-- Extracting libXt-1.1.5_2,1: .......... done Extracting libXmu-1.1.2_5,1: .......... done ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - found ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/xt.pc - found -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- ===> coot-0.8.9.1_2 depends on shared library: libccp4c.so - not found ===> Installing existing package /packages/All/libccp4-6.5.1_2.txz Installing libccp4-6.5.1_2... `-- Installing mmdb2-2.0.19... `-- Extracting mmdb2-2.0.19: .......... done Extracting libccp4-6.5.1_2: .......... done ===> coot-0.8.9.1_2 depends on shared library: libccp4c.so - found (/usr/local/lib/libccp4c.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libclipper-core.so - not found ===> Installing existing package /packages/All/clipper-2.1.20180802_1.txz Installing clipper-2.1.20180802_1... `-- Installing fftw-float-2.1.5_20... `-- Extracting fftw-float-2.1.5_20: .......... done Extracting clipper-2.1.20180802_1: .......... done Message from fftw-float-2.1.5_20: ===> NOTICE: The fftw-float port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> coot-0.8.9.1_2 depends on shared library: libclipper-core.so - found (/usr/local/lib/libclipper-core.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libcurl.so - not found ===> Installing existing package /packages/All/curl-7.64.0_1.txz Installing curl-7.64.0_1... `-- Installing ca_root_nss-3.42.1... `-- Extracting ca_root_nss-3.42.1: ........ done `-- Installing krb5-1.17_1... `-- Extracting krb5-1.17_1: .......... done `-- Installing libnghttp2-1.36.0... `-- Extracting libnghttp2-1.36.0: .......... done Extracting curl-7.64.0_1: .......... done Message from ca_root_nss-3.42.1: ********************************* WARNING ********************************* FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. *********************************** NOTE ********************************** This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem *************************************************************************** ===> coot-0.8.9.1_2 depends on shared library: libcurl.so - found (/usr/local/lib/libcurl.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libfontconfig.so - found (/usr/local/lib/libfontconfig.so) ===> coot-0.8.9.1_2 depends on shared library: libfreetype.so - found (/usr/local/lib/libfreetype.so) ===> coot-0.8.9.1_2 depends on shared library: libgtkglext-x11-1.0.so - not found ===> Installing existing package /packages/All/gtkglext-1.2.0_19.txz Installing gtkglext-1.2.0_19... `-- Installing gtk2-2.24.32... | `-- Installing cups-2.2.10... | | `-- Installing avahi-app-0.7_2... | | `-- Installing dbus-1.12.12... ===> Creating groups. Creating group 'messagebus' with gid '556'. ===> Creating users Creating user 'messagebus' with uid '556'. | | `-- Extracting dbus-1.12.12: ......... done | | `-- Installing dbus-glib-0.110... | | `-- Extracting dbus-glib-0.110: .......... done | | `-- Installing gdbm-1.18.1... | | `-- Extracting gdbm-1.18.1: .......... done | | `-- Installing gnome_subr-1.0... | | `-- Extracting gnome_subr-1.0: .... done | | `-- Installing gobject-introspection-1.56.1,1... | | | `-- Installing python36-3.6.8... | | | `-- Extracting python36-3.6.8: .......... done | | `-- Extracting gobject-introspection-1.56.1,1: .......... done | | `-- Installing libdaemon-0.14_1... | | `-- Extracting libdaemon-0.14_1: .......... done ===> Creating groups. Creating group 'avahi' with gid '558'. ===> Creating users Creating user 'avahi' with uid '558'. | | `-- Extracting avahi-app-0.7_2: .......... done | | `-- Installing gnutls-3.6.6_2... | | `-- Installing libidn2-2.1.1... | | | `-- Installing libunistring-0.9.10_1... | | | `-- Extracting libunistring-0.9.10_1: .......... done | | `-- Extracting libidn2-2.1.1: .......... done | | `-- Installing libtasn1-4.13_1... | | `-- Extracting libtasn1-4.13_1: .......... done | | `-- Installing nettle-3.4.1_1... | | `-- Extracting nettle-3.4.1_1: .......... done | | `-- Installing p11-kit-0.23.15... | | `-- Extracting p11-kit-0.23.15: .......... done | | `-- Installing trousers-0.3.14_2... | | | `-- Installing tpm-emulator-0.7.4_2... ===> Creating groups. Using existing group '_tss'. ===> Creating users Using existing user '_tss'. | | | `-- Extracting tpm-emulator-0.7.4_2: ......... done ===> Creating groups. Using existing group '_tss'. ===> Creating users Using existing user '_tss'. | | `-- Extracting trousers-0.3.14_2: .......... done | | `-- Extracting gnutls-3.6.6_2: .......... done | | `-- Installing libpaper-1.1.24.4... | | `-- Extracting libpaper-1.1.24.4: .......... done ===> Creating groups. Creating group 'cups' with gid '193'. ===> Creating users Creating user 'cups' with uid '193'. | `-- Extracting cups-2.2.10: .......... done `-- Extracting gtk2-2.24.32: .......... done `-- Installing libGLU-9.0.0_3... `-- Extracting libGLU-9.0.0_3: ...... done `-- Installing pangox-compat-0.0.2_2... `-- Extracting pangox-compat-0.0.2_2: ....... done Extracting gtkglext-1.2.0_19: .......... done Message from python36-3.6.8: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py36-gdbm databases/py-gdbm@py36 py36-sqlite3 databases/py-sqlite3@py36 py36-tkinter x11-toolkits/py-tkinter@py36 =========================================================================== Message from trousers-0.3.14_2: To run tcsd automatically, add the following line to /etc/rc.conf: tcsd_enable="YES" You might want to edit /usr/local/etc/tcsd.conf to reflect your setup. If you want to use tcsd with software TPM emulator, use the following configuration in /etc/rc.conf: tcsd_enable="YES" tcsd_mode="emulator" tpmd_enable="YES" To use TPM, add your_account to '_tss' group like following: # pw groupmod _tss -m your_account Message from gtkglext-1.2.0_19: ===> NOTICE: The gtkglext port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> coot-0.8.9.1_2 depends on shared library: libgtkglext-x11-1.0.so - found (/usr/local/lib/libgtkglext-x11-1.0.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libgsl.so - not found ===> Installing existing package /packages/All/gsl-2.5_1.txz Installing gsl-2.5_1... Extracting gsl-2.5_1: .......... done ===> coot-0.8.9.1_2 depends on shared library: libgsl.so - found (/usr/local/lib/libgsl.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libmmdb2.so - found (/usr/local/lib/libmmdb2.so) ===> coot-0.8.9.1_2 depends on shared library: libpng16.so - found (/usr/local/lib/libpng16.so) ===> coot-0.8.9.1_2 depends on shared library: libsfftw.so - found (/usr/local/lib/libsfftw.so) ===> coot-0.8.9.1_2 depends on shared library: libssm.so - not found ===> Installing existing package /packages/All/libssm-1.4.0_1.txz Installing libssm-1.4.0_1... Extracting libssm-1.4.0_1: .......... done ===> coot-0.8.9.1_2 depends on shared library: libssm.so - found (/usr/local/lib/libssm.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libintl.so - found (/usr/local/lib/libintl.so) ===> coot-0.8.9.1_2 depends on shared library: libGL.so - found (/usr/local/lib/libGL.so) ===> coot-0.8.9.1_2 depends on shared library: libGLU.so - found (/usr/local/lib/libGLU.so) ===> coot-0.8.9.1_2 depends on shared library: libglut.so - not found ===> Installing existing package /packages/All/freeglut-3.0.0_2.txz Installing freeglut-3.0.0_2... Extracting freeglut-3.0.0_2: .......... done Message from freeglut-3.0.0_2: Joystick support is untested and it is unknown if it works. Do not hesitate to contact x11@FreeBSD.org if this causes issues. ===> coot-0.8.9.1_2 depends on shared library: libglut.so - found (/usr/local/lib/libglut.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libatk-1.0.so - found (/usr/local/lib/libatk-1.0.so) ===> coot-0.8.9.1_2 depends on shared library: libcairo.so - found (/usr/local/lib/libcairo.so) ===> coot-0.8.9.1_2 depends on shared library: libgdk_pixbuf-2.0.so - found (/usr/local/lib/libgdk_pixbuf-2.0.so) ===> coot-0.8.9.1_2 depends on shared library: libglib-2.0.so - found (/usr/local/lib/libglib-2.0.so) ===> coot-0.8.9.1_2 depends on shared library: libintl.so - found (/usr/local/lib/libintl.so) ===> coot-0.8.9.1_2 depends on shared library: libgtk-x11-2.0.so - found (/usr/local/lib/libgtk-x11-2.0.so) ===> coot-0.8.9.1_2 depends on shared library: libart_lgpl_2.so - not found ===> Installing existing package /packages/All/libart_lgpl-2.3.21_3,1.txz Installing libart_lgpl-2.3.21_3,1... Extracting libart_lgpl-2.3.21_3,1: .......... done ===> coot-0.8.9.1_2 depends on shared library: libart_lgpl_2.so - found (/usr/local/lib/libart_lgpl_2.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libglade-2.0.so - not found ===> Installing existing package /packages/All/libglade2-2.6.4_9.txz Installing libglade2-2.6.4_9... `-- Installing xmlcatmgr-2.2_2... `-- Extracting xmlcatmgr-2.2_2: ......... done + Creating /usr/local/share/sgml/catalog + Registering CATALOG catalog.ports (SGML) + Creating /usr/local/share/sgml/catalog.ports + Creating /usr/local/share/xml/catalog + Registering nextCatalog catalog.ports (XML) + Creating /usr/local/share/xml/catalog.ports Extracting libglade2-2.6.4_9: .......... done Message from xmlcatmgr-2.2_2: The following catalogs are installed: 1) /usr/local/share/sgml/catalog The top level catalog for SGML stuff. It is not changed by any ports/packages except textproc/xmlcatmgr. 2) /usr/local/share/sgml/catalog.ports This catalog is for handling SGML stuff installed under /usr/local/share/sgml. It is changed by ports/packages. 3) /usr/local/share/xml/catalog The top level catalog for XML stuff. It is not changed by any ports/packages except textproc/xmlcatmgr. 4) /usr/local/share/xml/catalog.ports This catalog is for handling XML stuff installed under /usr/local/share/xml. It is changed by ports/packages. ===> coot-0.8.9.1_2 depends on shared library: libglade-2.0.so - found (/usr/local/lib/libglade-2.0.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libgnomecanvas-2.so - not found ===> Installing existing package /packages/All/libgnomecanvas-2.30.3_4.txz Installing libgnomecanvas-2.30.3_4... Extracting libgnomecanvas-2.30.3_4: .......... done ===> coot-0.8.9.1_2 depends on shared library: libgnomecanvas-2.so - found (/usr/local/lib/libgnomecanvas-2.so) ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on shared library: libxml2.so - found (/usr/local/lib/libxml2.so) ===> coot-0.8.9.1_2 depends on shared library: libpango-1.0.so - found (/usr/local/lib/libpango-1.0.so) ===> coot-0.8.9.1_2 depends on shared library: libpangox-1.0.so - found (/usr/local/lib/libpangox-1.0.so) ===> coot-0.8.9.1_2 depends on shared library: libsqlite3.so - not found ===> Installing existing package /packages/All/sqlite3-3.27.1.txz Installing sqlite3-3.27.1... Extracting sqlite3-3.27.1: .......... done ===> coot-0.8.9.1_2 depends on shared library: libsqlite3.so - found (/usr/local/lib/libsqlite3.so) ===> Returning to build of coot-0.8.9.1_2 -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for coot-0.8.9.1_2 configure: loading site script /xports/Templates/config.site checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... (cached) /bin/mkdir -p checking for gawk... (cached) /usr/bin/awk checking whether gmake sets $(MAKE)... yes checking for style of include used by gmake... GNU checking for gcc... cc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether cc accepts -g... yes checking for cc option to accept ISO C89... none needed checking dependency style of cc... gcc3 checking for library containing strerror... none required checking for gcc... (cached) cc checking whether we are using the GNU C compiler... (cached) yes checking whether cc accepts -g... (cached) yes checking for cc option to accept ISO C89... (cached) none needed checking dependency style of cc... (cached) gcc3 checking how to run the C preprocessor... cpp checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for egrep... (cached) /usr/bin/egrep checking for ANSI C header files... (cached) yes checking whether we are using the GNU C++ compiler... yes checking whether c++ accepts -g... yes checking dependency style of c++... gcc3 checking build system type... x86_64-portbld-dragonfly5.5 checking host system type... x86_64-portbld-dragonfly5.5 checking for a sed that does not truncate output... (cached) /usr/bin/sed checking for fgrep... (cached) /usr/bin/fgrep checking for ld used by cc... /usr/local/bin/ld checking if the linker (/usr/local/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/local/bin/nm checking the name lister (/usr/local/bin/nm) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... (cached) 262144 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... no checking for /usr/local/bin/ld option to reload object files... -r checking for objdump... /usr/local/bin/objdump checking how to recognize dependent libraries... pass_all checking for ar... /usr/local/bin/ar checking for strip... strip checking for ranlib... /usr/local/bin/ranlib checking command to parse /usr/local/bin/nm output from cc object... ok checking for sys/types.h... (cached) yes checking for sys/stat.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for memory.h... (cached) yes checking for strings.h... (cached) yes checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for unistd.h... (cached) yes checking for dlfcn.h... (cached) yes checking whether we are using the GNU C++ compiler... (cached) yes checking whether c++ accepts -g... (cached) yes checking dependency style of c++... (cached) gcc3 checking how to run the C++ preprocessor... c++ -E checking for objdir... .libs checking if cc supports -fno-rtti -fno-exceptions... no checking for cc option to produce PIC... -fPIC -DPIC checking if cc PIC flag -fPIC -DPIC works... yes checking if cc static flag -static works... yes checking if cc supports -c -o file.o... yes checking if cc supports -c -o file.o... (cached) yes checking whether the cc linker (/usr/local/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... dragonfly5.5 ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for ld used by c++... /usr/local/bin/ld checking if the linker (/usr/local/bin/ld) is GNU ld... yes checking whether the c++ linker (/usr/local/bin/ld) supports shared libraries... yes checking for c++ option to produce PIC... -fPIC -DPIC checking if c++ PIC flag -fPIC -DPIC works... yes checking if c++ static flag -static works... yes checking if c++ supports -c -o file.o... yes checking if c++ supports -c -o file.o... (cached) yes checking whether the c++ linker (/usr/local/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... dragonfly5.5 ld.so checking how to hardcode library paths into programs... immediate checking which libtool initialization strategy to adopt... AC-PROG-LIBTOOL checking what warning flags to pass to the C compiler... -Wall -Wunused checking what language compliance flags to pass to the C compiler... checking what warning flags to pass to the C++ compiler... -Wall -Wno-unused checking what language compliance flags to pass to the C++ compiler... checking sys/stdtypes.h usability... no checking sys/stdtypes.h presence... no checking for sys/stdtypes.h... no checking for OpenMP flag of C compiler... -fopenmp checking pkg-config is at least version 0.9.0... yes checking for GLIB... yes checking if this is MINGW on Windows... no checking for SQLite3... yes checking for mmdb2... yes checking for ssm... yes no checking for prefixed single-precision FFTW2 (sfftw.h)... yes checking for Clipper... yes Not using guile checking for gsl-config... /usr/local/bin/gsl-config checking for GSL - version >= 1.3... yes checking for GTK... yes checking for GNOME_CANVAS... yes checking for pkg-config... /usr/local/bin/pkg-config checking for GtkGLExt - version >= 1.0.0... yes (version 1.2.0) checking for glLineWidth in -lGL... yes checking for GLUT... yes checking for Python... Not using python checking for python version... 2.7 checking for python platform... dragonfly5 checking for python script directory... ${prefix}/lib/python2.7/site-packages checking for python extension module directory... ${exec_prefix}/lib/python2.7/site-packages checking for guile-gtk... checking for boostlib >= 1.20.0... configure: We could not detect the boost libraries (version 1.20 or higher). If you have a staged boost library (still not installed) please specify $BOOST_ROOT in your environment and do not give a PATH to --with-boost option. If you are sure you have boost installed, then check your version number looking in . See http://randspringer.de/boost for more documentation. checking for python2.7... /usr/local/bin/python2.7 checking for a version of Python >= '2.1.0'... yes checking for the distutils Python package... yes checking for Python include path... -I/usr/local/include/python2.7 checking for Python library path... -L/usr/local/lib -lpython2.7 checking for Python site-packages path... /usr/local/lib/python2.7/site-packages checking python extra libraries... -ldl -L/usr/local/lib -lintl -lutil -lm checking python extra linking flags... -Wl,--export-dynamic checking consistency of all components of python development environment... yes checking whether the Boost::Python library is available... no checking libglade... no Package goocanvas was not found in the pkg-config search path. Perhaps you should add the directory containing `goocanvas.pc' to the PKG_CONFIG_PATH environment variable Package 'goocanvas', required by 'virtual:world', not found checking for Goocanvas... no Not using MySQL database checking for curl >= 7.9.7... 7.64.0 checking build type... DragonFly-unknown-gtk2 configure: creating ./config.status config.status: creating Makefile config.status: creating macros/Makefile config.status: creating pdb-templates/Makefile config.status: creating scheme/Makefile config.status: creating python/Makefile config.status: creating compat/Makefile config.status: creating utils/Makefile config.status: creating coot-utils/Makefile config.status: creating protein_db/Makefile config.status: creating ccp4mg-utils/Makefile config.status: creating coords/Makefile config.status: creating db-main/Makefile config.status: creating density-contour/Makefile config.status: creating surface/Makefile config.status: creating coot-surface/Makefile config.status: creating angles/Makefile config.status: creating mini-mol/Makefile config.status: creating skeleton/Makefile config.status: creating ligand/Makefile config.status: creating geometry/Makefile config.status: creating ideal/Makefile config.status: creating build/Makefile config.status: creating analysis/Makefile config.status: creating high-res/Makefile config.status: creating tw/Makefile config.status: creating cootaneer/Makefile config.status: creating cootilus/Makefile config.status: creating greg-tests/Makefile config.status: creating python-tests/Makefile config.status: creating lidia-core/Makefile config.status: creating libgtkgraph/Makefile config.status: creating goograph/Makefile config.status: creating lbg/Makefile config.status: creating doc/Makefile config.status: creating src/Makefile config.status: creating src/coot config.status: creating python/coot_load_modules.py config.status: creating data/Makefile config.status: creating data/rama-coeffs/Makefile config.status: creating data/cho-models/Makefile config.status: creating data/cho-acedrg/Makefile config.status: creating pixmaps/Makefile config.status: creating pixmaps/icons/Makefile config.status: creating rama-data/Makefile config.status: creating man/Makefile config.status: creating pli/Makefile config.status: creating pyrogen/Makefile config.status: creating pyrogen/pyrogen config.status: creating auxil/Makefile config.status: creating auxil/catcheck/Makefile config.status: creating auxil/rama/Makefile config.status: creating auxil/sec-str/Makefile config.status: creating auxil/strand-analysis/Makefile config.status: creating auxil/vectors/Makefile config.status: creating rcrane/Makefile config.status: executing depfiles commands config.status: executing libtool commands -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for coot-0.8.9.1_2 gmake[1]: Entering directory '/construction/science/coot/coot-0.8.9.1' Making all in auxil gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil' Making all in catcheck gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/catcheck' gmake[3]: Nothing to be done for 'all'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/catcheck' Making all in rama gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/rama' gmake[3]: Nothing to be done for 'all'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/rama' Making all in sec-str gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/sec-str' gmake[3]: Nothing to be done for 'all'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/sec-str' Making all in strand-analysis gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/strand-analysis' gmake[3]: Nothing to be done for 'all'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/strand-analysis' Making all in vectors gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/vectors' gmake[3]: Nothing to be done for 'all'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/vectors' gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil' gmake[3]: Nothing to be done for 'all-am'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil' gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil' Making all in scheme gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/scheme' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/scheme' Making all in python gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/python' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/python' Making all in pdb-templates gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/pdb-templates' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pdb-templates' Making all in macros gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/macros' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/macros' Making all in compat gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/compat' /bin/sh ../libtool --tag=CC --mode=compile cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c -o getopt.lo getopt.c /bin/sh ../libtool --tag=CC --mode=compile cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c -o getopt1.lo getopt1.c libtool: compile: cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 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'/construction/science/coot/coot-0.8.9.1/compat' Making all in utils gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/utils' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c -o coot-utils.lo coot-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile 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-DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT threads.lo -MD -MP -MF .deps/threads.Tpo -c threads.cc -fPIC -DPIC -o .libs/threads.o mv -f .deps/win-compat.Tpo .deps/win-compat.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT align-utils.lo -MD -MP -MF .deps/align-utils.Tpo -c -o align-utils.lo align-utils.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT align-utils.lo -MD -MP -MF .deps/align-utils.Tpo -c align-utils.cc -fPIC -DPIC -o .libs/align-utils.o mv -f .deps/threads.Tpo .deps/threads.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT pir-alignment.lo -MD -MP -MF .deps/pir-alignment.Tpo -c -o pir-alignment.lo pir-alignment.cc mv -f .deps/atomic-numbers.Tpo .deps/atomic-numbers.Plo libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT pir-alignment.lo -MD -MP -MF .deps/pir-alignment.Tpo -c pir-alignment.cc -fPIC -DPIC -o .libs/pir-alignment.o mv -f .deps/align-utils.Tpo .deps/align-utils.Plo pir-alignment.cc:11:1: warning: 'std::ostream& coot::operator<<(std::ostream&, const coot::pir_alignment_t::matched_residue_t&)' has not been declared within 'coot' coot::operator<< (std::ostream &s, const coot::pir_alignment_t::matched_residue_t &m) { ^~~~ In file included from pir-alignment.cc:7: pir-alignment.hh:20:24: note: only here as a 'friend' friend std::ostream &operator<< (std::ostream &s, const matched_residue_t &m); ^~~~~~~~ mv -f .deps/gdk-keysyms.Tpo .deps/gdk-keysyms.Plo mv -f .deps/dodec.Tpo .deps/dodec.Plo mv -f .deps/pir-alignment.Tpo .deps/pir-alignment.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-utils.la -rpath /usr/local/lib coot-utils.lo coot-fasta.lo atomic-numbers.lo gdk-keysyms.lo hsv-rgb.lo dodec.lo win-compat.lo threads.lo align-utils.lo pir-alignment.lo libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/coot-utils.o .libs/coot-fasta.o .libs/atomic-numbers.o .libs/gdk-keysyms.o .libs/hsv-rgb.o .libs/dodec.o .libs/win-compat.o .libs/threads.o .libs/align-utils.o .libs/pir-alignment.o -L/usr/local/lib/gcc5 -L/usr/local/lib -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-utils.so.0 -o .libs/libcoot-utils.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-utils.so.0" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-utils.so" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so") libtool: link: ( cd ".libs" && rm -f "libcoot-utils.la" && ln -s "../libcoot-utils.la" "libcoot-utils.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/utils' Making all in protein_db gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/protein_db' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" 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-DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c -o rna_db.lo rna_db.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c protein_db_utils.cpp -fPIC -DPIC -o .libs/protein_db_utils.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c protein_db.cpp -fPIC -DPIC -o .libs/protein_db.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c rna_db.cpp -fPIC -DPIC -o .libs/rna_db.o mv -f .deps/rna_db.Tpo .deps/rna_db.Plo mv -f .deps/protein_db_utils.Tpo .deps/protein_db_utils.Plo mv -f .deps/protein_db.Tpo .deps/protein_db.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-protein-db.la -rpath /usr/local/lib protein_db.lo protein_db_utils.lo rna_db.lo -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/protein_db.o .libs/protein_db_utils.o .libs/rna_db.o -L/usr/local/lib/gcc5 -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-protein-db.so.0 -o .libs/libcoot-protein-db.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so.0" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so") libtool: link: ( cd ".libs" && rm -f "libcoot-protein-db.la" && ln -s "../libcoot-protein-db.la" "libcoot-protein-db.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/protein_db' Making all in mini-mol gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/mini-mol' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c -o mini-mol.lo mini-mol.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c -o mini-mol-utils.lo mini-mol-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c -o atom-quads.lo atom-quads.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c atom-quads.cc -fPIC -DPIC -o .libs/atom-quads.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c mini-mol.cc -fPIC -DPIC -o .libs/mini-mol.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c mini-mol-utils.cc -fPIC -DPIC -o .libs/mini-mol-utils.o mini-mol.cc: In member function 'coot::minimol::molecule coot::minimol::molecule::fragmentize() const': mini-mol.cc:345:31: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mini-mol.cc:379:31: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/atom-quads.Tpo .deps/atom-quads.Plo mv -f .deps/mini-mol-utils.Tpo .deps/mini-mol-utils.Plo mv -f .deps/mini-mol.Tpo .deps/mini-mol.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-mini-mol.la -rpath /usr/local/lib mini-mol.lo mini-mol-utils.lo atom-quads.lo ../utils/libcoot-utils.la -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/mini-mol.o .libs/mini-mol-utils.o .libs/atom-quads.o -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/utils/.libs -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-mini-mol.so.0 -o .libs/libcoot-mini-mol.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so.0" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so") libtool: link: ( cd ".libs" && rm -f "libcoot-mini-mol.la" && ln -s "../libcoot-mini-mol.la" "libcoot-mini-mol.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/mini-mol' Making all in geometry gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/geometry' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DDATADIR='"/usr/local/share"' -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c -o protein-geometry.lo protein-geometry.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DDATADIR='"/usr/local/share"' -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c -o protein-geometry-mmdb.lo protein-geometry-mmdb.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DDATADIR='"/usr/local/share"' -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c -o read-sbase.lo read-sbase.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DDATADIR='"/usr/local/share"' -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c -o energy-lib.lo energy-lib.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DDATADIR='"/usr/local/share"' -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT chem_mods.lo -MD -MP -MF .deps/chem_mods.Tpo -c -o chem_mods.lo chem_mods.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DDATADIR=\"/usr/local/share\" -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c protein-geometry.cc -fPIC -DPIC -o .libs/protein-geometry.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DDATADIR=\"/usr/local/share\" -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT chem_mods.lo -MD -MP -MF .deps/chem_mods.Tpo -c chem_mods.cc -fPIC -DPIC -o .libs/chem_mods.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DDATADIR=\"/usr/local/share\" -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c read-sbase.cc -fPIC -DPIC -o .libs/read-sbase.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include 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--mode=link c++ -DDATADIR='"/usr/local/share"' -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-geometry.la -rpath /usr/local/lib protein-geometry.lo protein-geometry-mmdb.lo read-sbase.lo energy-lib.lo chem_mods.lo srs-interface.lo protein-donor-acceptors.lo lbg-graph.lo dreiding.lo dict-utils.lo cif-parse.lo main-chain.lo residue-and-atom-specs.lo mol-utils-2.lo ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/protein-geometry.o .libs/protein-geometry-mmdb.o 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-DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT elastic.lo -MD -MP -MF .deps/elastic.Tpo -c elastic.cc -fPIC -DPIC -o .libs/elastic.o helix-analysis.cc: In member function 'void coot::helix_params_t::calc_A()': helix-analysis.cc:88:30: warning: catching polymorphic type 'class 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.deps/glyco-torsions.Tpo -c -o glyco-torsions.lo glyco-torsions.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT glyco-torsions.lo -MD -MP -MF .deps/glyco-torsions.Tpo -c glyco-torsions.cc -fPIC -DPIC -o .libs/glyco-torsions.o mv -f .deps/hole.Tpo .deps/hole.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-least-squares.lo -MD -MP -MF .deps/coot-least-squares.Tpo -c -o coot-least-squares.lo coot-least-squares.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-least-squares.lo -MD -MP -MF .deps/coot-least-squares.Tpo -c coot-least-squares.cc -fPIC -DPIC -o .libs/coot-least-squares.o mv -f .deps/coot-least-squares.Tpo .deps/coot-least-squares.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT atom-overlaps.lo -MD -MP -MF .deps/atom-overlaps.Tpo -c -o atom-overlaps.lo atom-overlaps.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT atom-overlaps.lo -MD -MP -MF .deps/atom-overlaps.Tpo -c atom-overlaps.cc -fPIC -DPIC -o .libs/atom-overlaps.o mv -f .deps/elastic.Tpo .deps/elastic.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT reduce.lo -MD -MP -MF .deps/reduce.Tpo -c -o reduce.lo reduce.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT reduce.lo -MD -MP -MF .deps/reduce.Tpo -c reduce.cc -fPIC -DPIC -o .libs/reduce.o mv -f .deps/read-sm-cif.Tpo .deps/read-sm-cif.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT secondary-structure-headers.lo -MD -MP -MF .deps/secondary-structure-headers.Tpo -c -o secondary-structure-headers.lo secondary-structure-headers.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT secondary-structure-headers.lo -MD -MP -MF .deps/secondary-structure-headers.Tpo -c secondary-structure-headers.cc -fPIC -DPIC -o .libs/secondary-structure-headers.o mv -f .deps/glyco-torsions.Tpo .deps/glyco-torsions.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT plane-utils.lo -MD -MP -MF .deps/plane-utils.Tpo -c -o plane-utils.lo plane-utils.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT plane-utils.lo -MD -MP -MF .deps/plane-utils.Tpo -c plane-utils.cc -fPIC -DPIC -o .libs/plane-utils.o mv -f .deps/secondary-structure-headers.Tpo .deps/secondary-structure-headers.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-shelx-ins.lo -MD -MP -MF .deps/coot-shelx-ins.Tpo -c -o coot-shelx-ins.lo coot-shelx-ins.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-shelx-ins.lo -MD -MP -MF .deps/coot-shelx-ins.Tpo -c coot-shelx-ins.cc -fPIC -DPIC -o .libs/coot-shelx-ins.o mv -f .deps/plane-utils.Tpo .deps/plane-utils.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-coord-extras.lo -MD -MP -MF .deps/coot-coord-extras.Tpo -c -o coot-coord-extras.lo coot-coord-extras.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-coord-extras.lo -MD -MP -MF .deps/coot-coord-extras.Tpo -c coot-coord-extras.cc -fPIC -DPIC -o .libs/coot-coord-extras.o coot-coord-extras.cc: In member function 'std::pair coot::match_torsions::apply_torsion(const coot::atom_name_quad&, const coot::atom_name_quad&, const string&)': coot-coord-extras.cc:545:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ coot-coord-extras.cc: In member function 'std::pair coot::match_torsions::apply_torsion_by_contacts(const coot::atom_name_quad&, const coot::atom_name_quad&, const string&)': coot-coord-extras.cc:603:30: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/atom-overlaps.Tpo .deps/atom-overlaps.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-coord-lsq.lo -MD -MP -MF .deps/coot-coord-lsq.Tpo -c -o coot-coord-lsq.lo coot-coord-lsq.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-coord-lsq.lo -MD -MP -MF .deps/coot-coord-lsq.Tpo -c coot-coord-lsq.cc -fPIC -DPIC -o .libs/coot-coord-lsq.o coot-coord-utils.cc: In function 'std::pair coot::util::create_mmdbmanager_from_residue_vector(const std::vector&, mmdb::Manager*)': coot-coord-utils.cc:3367:12: warning: 'char* strncpy(char*, const char*, size_t)' output may be truncated copying 19 bytes from a string of length 19 [-Wstringop-truncation] strncpy(link->atName1, at_1->GetAtomName(), 19); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ coot-coord-utils.cc:3368:12: warning: 'char* strncpy(char*, const char*, size_t)' output may be truncated copying 9 bytes from a string of length 19 [-Wstringop-truncation] strncpy(link->aloc1, at_1->altLoc, 9); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ coot-coord-utils.cc:3374:12: warning: 'char* strncpy(char*, const char*, size_t)' output may be truncated copying 19 bytes from a string of length 19 [-Wstringop-truncation] strncpy(link->atName2, at_2->GetAtomName(), 19); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ coot-coord-utils.cc:3375:12: warning: 'char* strncpy(char*, const char*, size_t)' output may be truncated copying 9 bytes from a string of length 19 [-Wstringop-truncation] strncpy(link->aloc2, at_2->altLoc, 9); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ mv -f .deps/coot-coord-utils.Tpo .deps/coot-coord-utils.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-tree-extras.lo -MD -MP -MF .deps/coot-tree-extras.Tpo -c -o coot-tree-extras.lo coot-tree-extras.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-tree-extras.lo -MD -MP -MF .deps/coot-tree-extras.Tpo -c coot-tree-extras.cc -fPIC -DPIC -o .libs/coot-tree-extras.o mv -f .deps/coot-coord-lsq.Tpo .deps/coot-coord-lsq.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT water-coordination.lo -MD -MP -MF .deps/water-coordination.Tpo -c -o water-coordination.lo water-coordination.cc mv -f .deps/reduce.Tpo .deps/reduce.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT lsq-improve.lo -MD -MP -MF .deps/lsq-improve.Tpo -c -o lsq-improve.lo lsq-improve.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT water-coordination.lo -MD -MP -MF .deps/water-coordination.Tpo -c water-coordination.cc -fPIC -DPIC -o .libs/water-coordination.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT lsq-improve.lo -MD -MP -MF .deps/lsq-improve.Tpo -c lsq-improve.cc -fPIC -DPIC -o .libs/lsq-improve.o water-coordination.cc: In static member function 'static bool coot::util::water_coordination_t::sort_contacts_func(const coot::util::contact_atoms_info_t&, const coot::util::contact_atoms_info_t&)': water-coordination.cc:271:30: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ coot-tree-extras.cc: In member function 'double coot::atom_tree_t::set_dihedral(const coot::map_index_t&, const coot::map_index_t&, const coot::map_index_t&, const coot::map_index_t&, double)': coot-tree-extras.cc:1417:30: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/water-coordination.Tpo .deps/water-coordination.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-coord-utils-glyco.lo -MD -MP -MF .deps/coot-coord-utils-glyco.Tpo -c -o coot-coord-utils-glyco.lo coot-coord-utils-glyco.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-coord-utils-glyco.lo -MD -MP -MF .deps/coot-coord-utils-glyco.Tpo -c coot-coord-utils-glyco.cc -fPIC -DPIC -o .libs/coot-coord-utils-glyco.o coot-coord-utils-glyco.cc: In member function 'mmdb::Residue* coot::beam_in_linked_residue::get_residue() const': coot-coord-utils-glyco.cc:316:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ coot-coord-utils-glyco.cc: In member function 'mmdb::Residue* coot::beam_in_linked_residue::get_residue_raw() const': coot-coord-utils-glyco.cc:464:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/coot-coord-extras.Tpo .deps/coot-coord-extras.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-map-utils.lo -MD -MP -MF .deps/coot-map-utils.Tpo -c -o coot-map-utils.lo coot-map-utils.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-map-utils.lo -MD -MP -MF .deps/coot-map-utils.Tpo -c coot-map-utils.cc -fPIC -DPIC -o .libs/coot-map-utils.o mv -f .deps/coot-tree-extras.Tpo .deps/coot-tree-extras.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT peak-search.lo -MD -MP -MF .deps/peak-search.Tpo -c -o peak-search.lo peak-search.cc mv -f .deps/coot-shelx-ins.Tpo .deps/coot-shelx-ins.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT peak-search-from-list.lo -MD -MP -MF .deps/peak-search-from-list.Tpo -c -o peak-search-from-list.lo peak-search-from-list.cc mv -f .deps/lsq-improve.Tpo .deps/lsq-improve.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT trim.lo -MD -MP -MF .deps/trim.Tpo -c -o trim.lo trim.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT peak-search.lo -MD -MP -MF .deps/peak-search.Tpo -c peak-search.cc -fPIC -DPIC -o .libs/peak-search.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT peak-search-from-list.lo -MD -MP -MF .deps/peak-search-from-list.Tpo -c peak-search-from-list.cc -fPIC -DPIC -o .libs/peak-search-from-list.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" 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-DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXCircle.lo -MD -MP -MF .deps/CXXCircle.Tpo -c CXXCircle.cpp -fPIC -DPIC -o .libs/CXXCircle.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXSphereNode.lo -MD -MP -MF .deps/CXXSphereNode.Tpo -c CXXSphereNode.cpp -fPIC -DPIC -o .libs/CXXSphereNode.o In file included from CXXNewHood.h:22, from CXXCircle.cpp:12: CXXBall.h:79: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) In file included from CXXNewHood.h:22, from CXXSphereElement.cpp:19: CXXBall.h:79: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) mv -f .deps/CXXSphereTriangle.Tpo .deps/CXXSphereTriangle.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXCircleNode.lo -MD -MP -MF .deps/CXXCircleNode.Tpo -c -o CXXCircleNode.lo CXXCircleNode.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXCircleNode.lo -MD -MP -MF .deps/CXXCircleNode.Tpo -c CXXCircleNode.cpp -fPIC -DPIC -o .libs/CXXCircleNode.o In file included from CXXNewHood.h:22, from CXXCircleNode.cpp:13: CXXBall.h:79: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) mv -f .deps/CXXSphereNode.Tpo .deps/CXXSphereNode.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXSphereTriangleEdge.lo -MD -MP -MF .deps/CXXSphereTriangleEdge.Tpo -c -o CXXSphereTriangleEdge.lo CXXSphereTriangleEdge.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXSphereTriangleEdge.lo -MD -MP -MF .deps/CXXSphereTriangleEdge.Tpo -c CXXSphereTriangleEdge.cpp -fPIC -DPIC -o .libs/CXXSphereTriangleEdge.o mv -f .deps/CXXCircle.Tpo .deps/CXXCircle.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXCoord.lo -MD -MP -MF .deps/CXXCoord.Tpo -c -o CXXCoord.lo CXXCoord.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXCoord.lo -MD -MP -MF .deps/CXXCoord.Tpo -c CXXCoord.cpp -fPIC -DPIC -o .libs/CXXCoord.o mv -f .deps/CXXSphereTriangleEdge.Tpo .deps/CXXSphereTriangleEdge.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXSurface.lo -MD -MP -MF .deps/CXXSurface.Tpo -c -o CXXSurface.lo CXXSurface.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXSurface.lo -MD -MP -MF .deps/CXXSurface.Tpo -c CXXSurface.cpp -fPIC -DPIC -o .libs/CXXSurface.o In file included from CXXNewHood.h:22, from CXXSurface.cpp:17: CXXBall.h:79: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) CXXSurface.cpp:593: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] #pragma omp parallel for default(none) shared(nSelAtoms, SelAtom, cout, unitSphereAtOrigin, vdwBallPntrs, contactMap, ContextSelAtom, splitReentrantProbes) schedule(dynamic, 100) //num_threads(2) CXXSurface.cpp:597: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical(cout) CXXSurface.cpp:618: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (mainTriangles) mv -f .deps/CXXCoord.Tpo .deps/CXXCoord.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXCreator.lo -MD -MP -MF .deps/CXXCreator.Tpo -c -o CXXCreator.lo CXXCreator.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXCreator.lo -MD -MP -MF .deps/CXXCreator.Tpo -c CXXCreator.cpp -fPIC -DPIC -o .libs/CXXCreator.o CXXSurface.cpp: In member function 'int CXXSurface::calculateVDWFromAtoms(mmdb::PManager, int, int, double, double, bool)': CXXSurface.cpp:497:45: warning: deleting object of abstract class type 'CXXBall' which has non-virtual destructor will cause undefined behavior [-Wdelete-non-virtual-dtor] if (vdwBallPntrs[i]) delete vdwBallPntrs[i]; ^ CXXSurface.cpp:502:54: warning: deleting object of abstract class type 'CXXBall' which has non-virtual destructor will cause undefined behavior [-Wdelete-non-virtual-dtor] if (contextBallPntrs[i]) delete contextBallPntrs[i]; ^ CXXSurface.cpp: In member function 'int CXXSurface::calculateAccessibleFromAtoms(mmdb::PManager, int, int, double, double, bool)': CXXSurface.cpp:549:45: warning: deleting object of abstract class type 'CXXBall' which has non-virtual destructor will cause undefined behavior [-Wdelete-non-virtual-dtor] if (vdwBallPntrs[i]) delete vdwBallPntrs[i]; ^ CXXSurface.cpp:554:54: warning: deleting object of abstract class type 'CXXBall' which has non-virtual destructor will cause undefined behavior [-Wdelete-non-virtual-dtor] if (contextBallPntrs[i]) delete contextBallPntrs[i]; ^ CXXSurface.cpp: In member function 'int CXXSurface::calculateFromAtoms(mmdb::PManager, int, int, double, double, bool)': CXXSurface.cpp:634:79: warning: deleting object of polymorphic class type 'CXXAtomBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] if (vdwBallPntrs[i]) delete static_cast(vdwBallPntrs[i]); ^ CXXSurface.cpp:637:87: warning: deleting object of polymorphic class type 'CXXAtomBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] if (contextBallPntrs[i]) delete static_cast(contextBallPntrs[i]); ^ CXXSurface.cpp:641:76: warning: deleting object of polymorphic class type 'CXXReentrantProbeBall' which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] delete static_cast(reentrantProbes[i]); ^ mv -f .deps/CXXSphereElement.Tpo .deps/CXXSphereElement.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXSurfaceVertex.lo -MD -MP -MF .deps/CXXSurfaceVertex.Tpo -c -o CXXSurfaceVertex.lo CXXSurfaceVertex.cpp mv -f .deps/CXXChargeTable.Tpo .deps/CXXChargeTable.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c -o CXXException.lo CXXException.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXSurfaceVertex.lo -MD -MP -MF .deps/CXXSurfaceVertex.Tpo -c CXXSurfaceVertex.cpp -fPIC -DPIC -o .libs/CXXSurfaceVertex.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c CXXException.cpp -fPIC -DPIC -o .libs/CXXException.o mv -f .deps/CXXCircleNode.Tpo .deps/CXXCircleNode.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXTorusElement.lo -MD -MP -MF .deps/CXXTorusElement.Tpo -c -o CXXTorusElement.lo CXXTorusElement.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXTorusElement.lo -MD -MP -MF .deps/CXXTorusElement.Tpo -c CXXTorusElement.cpp -fPIC -DPIC -o .libs/CXXTorusElement.o In file included from CXXNewHood.h:22, from CXXTorusElement.cpp:17: CXXBall.h:79: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) mv -f .deps/CXXSurfaceVertex.Tpo .deps/CXXSurfaceVertex.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXFFTSolventMap.lo -MD -MP -MF .deps/CXXFFTSolventMap.Tpo -c -o CXXFFTSolventMap.lo CXXFFTSolventMap.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXFFTSolventMap.lo -MD -MP -MF .deps/CXXFFTSolventMap.Tpo -c CXXFFTSolventMap.cpp -fPIC -DPIC -o .libs/CXXFFTSolventMap.o mv -f .deps/CXXException.Tpo .deps/CXXException.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXTorusNode.lo -MD -MP -MF .deps/CXXTorusNode.Tpo -c -o CXXTorusNode.lo CXXTorusNode.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXTorusNode.lo -MD -MP -MF .deps/CXXTorusNode.Tpo -c CXXTorusNode.cpp -fPIC -DPIC -o .libs/CXXTorusNode.o mv -f .deps/CXXCreator.Tpo .deps/CXXCreator.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXFortranFile.lo -MD -MP -MF .deps/CXXFortranFile.Tpo -c -o CXXFortranFile.lo CXXFortranFile.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXFortranFile.lo -MD -MP -MF .deps/CXXFortranFile.Tpo -c CXXFortranFile.cpp -fPIC -DPIC -o .libs/CXXFortranFile.o mv -f .deps/CXXTorusNode.Tpo .deps/CXXTorusNode.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXNewHood.lo -MD -MP -MF .deps/CXXNewHood.Tpo -c -o CXXNewHood.lo CXXNewHood.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXNewHood.lo -MD -MP -MF .deps/CXXNewHood.Tpo -c CXXNewHood.cpp -fPIC -DPIC -o .libs/CXXNewHood.o In file included from CXXNewHood.h:22, from CXXNewHood.cpp:15: CXXBall.h:79: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) CXXNewHood.cpp:346: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (circleNodes) CXXNewHood.cpp:377: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (mainTriangles) CXXNewHood.cpp:410: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (mainTriangles) mv -f .deps/CXXFFTSolventMap.Tpo .deps/CXXFFTSolventMap.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXTriangle.lo -MD -MP -MF .deps/CXXTriangle.Tpo -c -o CXXTriangle.lo CXXTriangle.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXTriangle.lo -MD -MP -MF .deps/CXXTriangle.Tpo -c CXXTriangle.cpp -fPIC -DPIC -o .libs/CXXTriangle.o mv -f .deps/CXXTorusElement.Tpo .deps/CXXTorusElement.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXNode.lo -MD -MP -MF .deps/CXXNode.Tpo -c -o CXXNode.lo CXXNode.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXNode.lo -MD -MP -MF .deps/CXXNode.Tpo -c CXXNode.cpp -fPIC -DPIC -o .libs/CXXNode.o mv -f .deps/CXXNode.Tpo .deps/CXXNode.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXQADSurface.lo -MD -MP -MF .deps/CXXQADSurface.Tpo -c -o CXXQADSurface.lo CXXQADSurface.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXQADSurface.lo -MD -MP -MF .deps/CXXQADSurface.Tpo -c CXXQADSurface.cpp -fPIC -DPIC -o .libs/CXXQADSurface.o In file included from CXXNewHood.h:22, from CXXQADSurface.h:11, from CXXQADSurface.cpp:1: CXXBall.h:79: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) mv -f .deps/CXXTriangle.Tpo .deps/CXXTriangle.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXBall.lo -MD -MP -MF .deps/CXXBall.Tpo -c -o CXXBall.lo CXXBall.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXBall.lo -MD -MP -MF .deps/CXXBall.Tpo -c CXXBall.cpp -fPIC -DPIC -o .libs/CXXBall.o In file included from CXXBall.cpp:10: CXXBall.h:79: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) CXXBall.cpp:34: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] #pragma omp parallel for default(none) shared(delta, nBalls, contactMap, aSurface, raggedEdges, insideOrOutside, ballPntrs) schedule(dynamic, 10) //num_threads(2) CXXBall.cpp:83: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] #pragma omp parallel for default(none) shared(trimmedBalls, contactMap, insideOrOutside, reformattedEdges, delta, aSurface) schedule(dynamic, 10) //num_threads(2) CXXBall.cpp:197: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] #pragma omp parallel for default(none) shared (binnedballs, ballRadiusX2, limits, binWidth, nBins, balls, contactMap) schedule(dynamic,10) //num_threads(2) mv -f .deps/CXXFortranFile.Tpo .deps/CXXFortranFile.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXQADSurfaceStaticData.lo -MD -MP -MF .deps/CXXQADSurfaceStaticData.Tpo -c -o CXXQADSurfaceStaticData.lo CXXQADSurfaceStaticData.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXQADSurfaceStaticData.lo -MD -MP -MF .deps/CXXQADSurfaceStaticData.Tpo -c CXXQADSurfaceStaticData.cpp -fPIC -DPIC -o .libs/CXXQADSurfaceStaticData.o In file included from CXXNewHood.h:22, from CXXQADSurface.h:11, from CXXQADSurfaceStaticData.cpp:1: CXXBall.h:79: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) mv -f .deps/CXXQADSurfaceStaticData.Tpo .deps/CXXQADSurfaceStaticData.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXSpace.lo -MD -MP -MF .deps/CXXSpace.Tpo -c -o CXXSpace.lo CXXSpace.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXSpace.lo -MD -MP -MF .deps/CXXSpace.Tpo -c CXXSpace.cpp -fPIC -DPIC -o .libs/CXXSpace.o CXXSpace.cpp: In member function 'int CXXSpace::dumpSpaceSlice(int, int, int)': CXXSpace.cpp:516:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (j == (dim[1]-1)) ^~ CXXSpace.cpp:518:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' break; ^~~~~ CXXSpace.cpp:523:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (j == (dim[1]-1)) ^~ CXXSpace.cpp:526:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' break; ^~~~~ CXXSpace.cpp:563:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (i == (dim[0]-1)) ^~ CXXSpace.cpp:566:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' break; ^~~~~ CXXSpace.cpp:571:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (i == (dim[0]-1)) ^~ CXXSpace.cpp:575:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' break; ^~~~~ CXXSpace.cpp:605:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (i == (dim[0]-1)) ^~ CXXSpace.cpp:608:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' break; ^~~~~ CXXSpace.cpp:613:8: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (i == (dim[0]-1)) ^~ CXXSpace.cpp:616:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' break; ^~~~~ mv -f .deps/CXXSurface.Tpo .deps/CXXSurface.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c -o CXXUtils.lo CXXUtils.cpp libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c CXXUtils.cpp -fPIC -DPIC -o .libs/CXXUtils.o mv -f .deps/CXXNewHood.Tpo .deps/CXXNewHood.Plo mv -f .deps/CXXSpace.Tpo .deps/CXXSpace.Plo mv -f .deps/CXXQADSurface.Tpo .deps/CXXQADSurface.Plo mv -f .deps/CXXBall.Tpo .deps/CXXBall.Plo mv -f .deps/CXXUtils.Tpo .deps/CXXUtils.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-electrostatics.la -rpath /usr/local/lib CXXSphereElement.lo CXXChargeTable.lo CXXSphereNode.lo CXXCircle.lo CXXSphereTriangle.lo CXXCircleNode.lo CXXSphereTriangleEdge.lo CXXCoord.lo CXXSurface.lo CXXCreator.lo CXXSurfaceVertex.lo CXXException.lo CXXTorusElement.lo CXXFFTSolventMap.lo CXXTorusNode.lo CXXFortranFile.lo CXXNewHood.lo CXXTriangle.lo CXXNode.lo CXXQADSurface.lo CXXBall.lo CXXQADSurfaceStaticData.lo CXXSpace.lo CXXUtils.lo -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lsrfftw -lsfftw -L/usr/local/lib -lmmdb2 libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/CXXSphereElement.o .libs/CXXChargeTable.o .libs/CXXSphereNode.o .libs/CXXCircle.o .libs/CXXSphereTriangle.o .libs/CXXCircleNode.o .libs/CXXSphereTriangleEdge.o .libs/CXXCoord.o .libs/CXXSurface.o .libs/CXXCreator.o .libs/CXXSurfaceVertex.o .libs/CXXException.o .libs/CXXTorusElement.o .libs/CXXFFTSolventMap.o .libs/CXXTorusNode.o .libs/CXXFortranFile.o .libs/CXXNewHood.o .libs/CXXTriangle.o .libs/CXXNode.o .libs/CXXQADSurface.o .libs/CXXBall.o .libs/CXXQADSurfaceStaticData.o .libs/CXXSpace.o .libs/CXXUtils.o -Wl,-rpath -Wl,/usr/local/lib -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c /usr/local/lib/libsrfftw.so /usr/local/lib/libsfftw.so -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-electrostatics.so.0 -o .libs/libcoot-electrostatics.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-electrostatics.so.0" && ln -s "libcoot-electrostatics.so.0.0.0" "libcoot-electrostatics.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-electrostatics.so" && ln -s "libcoot-electrostatics.so.0.0.0" "libcoot-electrostatics.so") libtool: link: ( cd ".libs" && rm -f "libcoot-electrostatics.la" && ln -s "../libcoot-electrostatics.la" "libcoot-electrostatics.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/surface' Making all in coot-surface gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/coot-surface' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c -o coot-surface.lo coot-surface.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c -o rgbreps.lo rgbreps.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c rgbreps.cc -fPIC -DPIC -o .libs/rgbreps.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c coot-surface.cc -fPIC -DPIC -o .libs/coot-surface.o mv -f .deps/rgbreps.Tpo .deps/rgbreps.Plo mv -f .deps/coot-surface.Tpo .deps/coot-surface.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-surface.la -rpath /usr/local/lib coot-surface.lo rgbreps.lo ../surface/libcoot-electrostatics.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -lglut -lXmu -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -lGL libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/coot-surface.o .libs/rgbreps.o -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/surface/.libs -Wl,-rpath -Wl,/usr/local/lib -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../surface/.libs/libcoot-electrostatics.so /usr/local/lib/libsrfftw.so /usr/local/lib/libsfftw.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lglut -lXmu -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -lGL -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-surface.so.0 -o .libs/libcoot-surface.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-surface.so.0" && ln -s "libcoot-surface.so.0.0.0" "libcoot-surface.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-surface.so" && ln -s "libcoot-surface.so.0.0.0" "libcoot-surface.so") libtool: link: ( cd ".libs" && rm -f "libcoot-surface.la" && ln -s "../libcoot-surface.la" "libcoot-surface.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/coot-surface' Making all in lidia-core gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/lidia-core' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 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../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT chemical-feature-clusters.lo -MD -MP -MF .deps/chemical-feature-clusters.Tpo -c -o chemical-feature-clusters.lo chemical-feature-clusters.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT bond-table-record-t.lo -MD -MP -MF .deps/bond-table-record-t.Tpo -c bond-table-record-t.cc -fPIC -DPIC -o .libs/bond-table-record-t.o mv -f .deps/bond-table-record-t.Tpo .deps/bond-table-record-t.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT atom-types.lo -MD -MP -MF .deps/atom-types.Tpo -c -o atom-types.lo atom-types.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT chemical-feature-clusters.lo -MD -MP -MF .deps/chemical-feature-clusters.Tpo -c chemical-feature-clusters.cc -fPIC -DPIC -o .libs/chemical-feature-clusters.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT atom-types.lo -MD -MP -MF .deps/atom-types.Tpo -c atom-types.cc -fPIC -DPIC -o .libs/atom-types.o mv -f .deps/chemical-feature-clusters.Tpo .deps/chemical-feature-clusters.Plo mv -f .deps/atom-types.Tpo .deps/atom-types.Plo mv -f .deps/lbg-shared.Tpo .deps/lbg-shared.Plo mv -f .deps/lig-build.Tpo .deps/lig-build.Plo lbg-molfile.cc: In member function 'void lig_build::molfile_molecule_t::read(const string&)': lbg-molfile.cc:171:32: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/lbg-molfile.Tpo .deps/lbg-molfile.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-lidia-core.la -rpath /usr/local/lib lbg-shared.lo lbg-molfile.lo lig-build.lo rdkit-interface.lo cod-types.lo bond-record-container-t.lo cod-atom-type-t.lo cod-atom-types.lo bond-table-record-t.lo chemical-feature-clusters.lo atom-types.lo ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la -L/usr/local/lib -lsqlite3 libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/lbg-shared.o .libs/lbg-molfile.o .libs/lig-build.o .libs/rdkit-interface.o .libs/cod-types.o .libs/bond-record-container-t.o .libs/cod-atom-type-t.o .libs/cod-atom-types.o .libs/bond-table-record-t.o .libs/chemical-feature-clusters.o .libs/atom-types.o -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/geometry/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/coot-utils/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/mini-mol/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/utils/.libs -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas ../utils/.libs/libcoot-utils.so -lsqlite3 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-lidia-core.so.0 -o .libs/libcoot-lidia-core.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so.0" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so") libtool: link: ( cd ".libs" && rm -f "libcoot-lidia-core.la" && ln -s "../libcoot-lidia-core.la" "libcoot-lidia-core.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/lidia-core' Making all in coords gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/coords' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DDATADIR='"/usr/local/share"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c -o Bond_lines.lo Bond_lines.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 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-I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DDATADIR='"/usr/local/share"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT mmdb-extras.lo -MD -MP -MF .deps/mmdb-extras.Tpo -c -o mmdb-extras.lo mmdb-extras.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem 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-Wno-unused -MT utils.lo -MD -MP -MF .deps/utils.Tpo -c utils.cc -fPIC -DPIC -o .libs/utils.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -DDATADIR=\"/usr/local/share\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c cos-sin.cc -fPIC -DPIC -o .libs/cos-sin.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -DDATADIR=\"/usr/local/share\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c Bond_lines.cc -fPIC -DPIC -o .libs/Bond_lines.o mv -f .deps/utils.Tpo .deps/utils.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" 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.deps/phenix-geo-bonds.Tpo -c phenix-geo-bonds.cc -fPIC -DPIC -o .libs/phenix-geo-bonds.o mv -f .deps/coot-close.Tpo .deps/coot-close.Plo mv -f .deps/phenix-geo.Tpo .deps/phenix-geo.Plo mv -f .deps/mmdb-extras.Tpo .deps/mmdb-extras.Plo mv -f .deps/phenix-geo-bonds.Tpo .deps/phenix-geo-bonds.Plo mv -f .deps/Bond_lines.Tpo .deps/Bond_lines.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -DPKGDATADIR='"/usr/local/share/coot"' -DDATADIR='"/usr/local/share"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-coords.la -rpath /usr/local/lib Bond_lines.lo Cartesian.lo cos-sin.lo mmdb-extras.lo utils.lo mmdb.lo mmdb-crystal.lo Bond_lines_ext.lo coot-close.lo phenix-geo.lo phenix-geo-bonds.lo ../geometry/libcoot-geometry.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-utils.la 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libtool: link: ( cd ".libs" && rm -f "libcoot-coords.la" && ln -s "../libcoot-coords.la" "libcoot-coords.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/coords' Making all in angles gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/angles' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -isystem /usr/local/include -g -O1 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT 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.deps/graphical_skel.Plo mv -f .deps/BuildCas.Tpo .deps/BuildCas.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-skeleton.la -rpath /usr/local/lib dm-utils.lo graphical_skel.lo BuildCas.lo ../angles/libcoot-AngleInfo.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/dm-utils.o .libs/graphical_skel.o .libs/BuildCas.o -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/angles/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/geometry/.libs -Wl,-rpath 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libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c mgtree.cc -fPIC -DPIC -o .libs/mgtree.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c cartesian.cc -fPIC -DPIC -o .libs/cartesian.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c geomutil.cc -fPIC -DPIC -o .libs/geomutil.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c matrix.cc -fPIC -DPIC -o .libs/matrix.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c quat.cc -fPIC -DPIC -o .libs/quat.o mv -f .deps/quat.Tpo .deps/quat.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c -o ppmutil.lo ppmutil.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c ppmutil.cc -fPIC -DPIC -o .libs/ppmutil.o mv -f .deps/geomutil.Tpo .deps/geomutil.Plo mv -f .deps/cartesian.Tpo .deps/cartesian.Plo mv -f .deps/matrix.Tpo .deps/matrix.Plo ppmutil.cc: In member function 'void image_info::readpng(const char*)': ppmutil.cc:2508:79: warning: 'palette' may be used uninitialized in this function [-Wmaybe-uninitialized] pixels[i*width*colourspace+j*colourspace] = palette[row_pointers[i][j]].red; ^ ppmutil.cc:2512:9: warning: 'num_trans' may be used uninitialized in this function [-Wmaybe-uninitialized] if(row_pointers[i][j] >&, const std::vector >&, const std::vector >&) const': mogul-interface.hh:27:10: warning: '.coot::mogul_item::idx_4' may be used uninitialized in this function [-Wmaybe-uninitialized] class mogul_item { ^~~~~~~~~~ mogul-interface.hh:27:10: warning: '.coot::mogul_item::dmin' may be used uninitialized in this function [-Wmaybe-uninitialized] mogul-interface.hh:16:10: warning: '*((void*)& +80)' may be used uninitialized in this function [-Wmaybe-uninitialized] class mogul_distribution { ^~~~~~~~~~~~~~~~~~ mogul-interface.hh:16:10: warning: '*((void*)& +88)' may be used uninitialized in this function [-Wmaybe-uninitialized] mogul-interface.hh: In member function 'std::pair coot::mogul::get_max_z_badness(coot::mogul_item::type_t) const': mogul-interface.hh:27:10: warning: 'worst_item' may be used uninitialized in this function [-Wmaybe-uninitialized] class mogul_item { ^~~~~~~~~~ mogul-interface.hh:27:10: warning: '*((void*)& worst_item +8)' may be used uninitialized in this function [-Wmaybe-uninitialized] mogul-interface.hh: In member function 'coot::mogul_item coot::mogul::parse_item_line(const std::vector >&, int) const': mogul-interface.hh:27:10: warning: '*((void*)& +8)' may be used uninitialized in this function [-Wmaybe-uninitialized] class mogul_item { ^~~~~~~~~~ mogul-interface.hh:27:10: warning: '.coot::mogul_item::dmin' may be used uninitialized in this function [-Wmaybe-uninitialized] mogul-interface.hh:16:10: warning: '*((void*)& +80)' may be used uninitialized in this function [-Wmaybe-uninitialized] class mogul_distribution { ^~~~~~~~~~~~~~~~~~ mogul-interface.hh:16:10: warning: '*((void*)& +88)' may be used uninitialized in this function [-Wmaybe-uninitialized] mogul-interface.hh:27:10: warning: '.coot::mogul_item::idx_4' may be used uninitialized in this function [-Wmaybe-uninitialized] class mogul_item { ^~~~~~~~~~ mogul-interface.hh:27:10: warning: '.coot::mogul_item::dmin' may be used uninitialized in this function [-Wmaybe-uninitialized] mogul-interface.hh:16:10: warning: '*((void*)& +80)' may be used uninitialized in this function [-Wmaybe-uninitialized] class mogul_distribution { ^~~~~~~~~~~~~~~~~~ mogul-interface.hh:16:10: warning: '*((void*)& +88)' may be used uninitialized in this function [-Wmaybe-uninitialized] mogul-interface.hh:27:10: warning: '*((void*)& +48)' may be used uninitialized in this function [-Wmaybe-uninitialized] class mogul_item { ^~~~~~~~~~ mogul-interface.hh:27:10: warning: '*((void*)& +56)' may be used uninitialized in this function [-Wmaybe-uninitialized] mogul-interface.hh:16:10: warning: '*((void*)& +80)' may be used uninitialized in this function [-Wmaybe-uninitialized] class mogul_distribution { ^~~~~~~~~~~~~~~~~~ mogul-interface.hh:16:10: warning: '*((void*)& +88)' may be used uninitialized in this function [-Wmaybe-uninitialized] mv -f .deps/mogul.Tpo .deps/mogul.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-analysis.la -rpath /usr/local/lib bfkurt.lo mogul.lo kolmogorov.lo stats.lo cablam.lo typed-distances.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lgsl -lgslcblas -lm libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/bfkurt.o .libs/mogul.o .libs/kolmogorov.o .libs/stats.o .libs/cablam.o .libs/typed-distances.o -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/coot-utils/.libs -Wl,-rpath 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.libs/libcoot-analysis.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-analysis.so.0" && ln -s "libcoot-analysis.so.0.0.0" "libcoot-analysis.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-analysis.so" && ln -s "libcoot-analysis.so.0.0.0" "libcoot-analysis.so") libtool: link: ( cd ".libs" && rm -f "libcoot-analysis.la" && ln -s "../libcoot-analysis.la" "libcoot-analysis.la" ) /bin/sh ../libtool --tag=CXX --mode=link c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o coot-bfactan bfactan.o libcoot-analysis.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c 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-I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT mini-rsr.o -MD -MP -MF .deps/mini-rsr.Tpo -c -o mini-rsr.o mini-rsr.cc mv -f .deps/torsion-bonds.Tpo .deps/torsion-bonds.Plo mv -f .deps/zo-rama.Tpo .deps/zo-rama.Plo mv -f .deps/link-restraints.Tpo .deps/link-restraints.Plo mv -f .deps/crankshaft.Tpo .deps/crankshaft.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-ideal.la -rpath /usr/local/lib simple-restraint.lo mods.lo distortion.lo chirals.lo flanking.lo gradients.lo extra-restraints.lo pepflip.lo regularize-minimol.lo lograma.lo extra-restraints-kk.lo simple-restraint-kk.lo torsion-bonds.lo coot-compare-residues.lo link-restraints.lo parallel-planes.lo trans-peptide.lo model-bond-deltas.lo write-png.lo zo-rama.lo crankshaft.lo phi-psi.lo ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lgsl -lgslcblas -lm -lpng libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/simple-restraint.o .libs/mods.o .libs/distortion.o .libs/chirals.o .libs/flanking.o .libs/gradients.o .libs/extra-restraints.o .libs/pepflip.o .libs/regularize-minimol.o .libs/lograma.o .libs/extra-restraints-kk.o .libs/simple-restraint-kk.o .libs/torsion-bonds.o .libs/coot-compare-residues.o .libs/link-restraints.o .libs/parallel-planes.o .libs/trans-peptide.o .libs/model-bond-deltas.o .libs/write-png.o .libs/zo-rama.o .libs/crankshaft.o .libs/phi-psi.o -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/coot-utils/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/geometry/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/coords/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/lidia-core/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/utils/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/mini-mol/.libs -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../coot-utils/.libs/libcoot-map-heavy.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-utils.so 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/usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-ideal.so.0 -o .libs/libcoot-ideal.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so.0" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so") libtool: link: ( cd ".libs" && rm -f "libcoot-ideal.la" && ln -s "../libcoot-ideal.la" "libcoot-ideal.la" ) mv -f .deps/mini-rsr.Tpo .deps/mini-rsr.Po /bin/sh ../libtool --tag=CXX --mode=link c++ -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 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-DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT dipole.lo -MD -MP -MF .deps/dipole.Tpo -c dipole.cc -fPIC -DPIC -o .libs/dipole.o mv -f .deps/richardson-rotamers.Tpo .deps/richardson-rotamers.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c -o base-pairing.lo base-pairing.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c base-pairing.cc -fPIC -DPIC -o .libs/base-pairing.o mv -f .deps/base-pairing.Tpo .deps/base-pairing.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c -o backrub-rotamer.lo backrub-rotamer.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c backrub-rotamer.cc -fPIC -DPIC -o .libs/backrub-rotamer.o mv -f .deps/rotamer.Tpo .deps/rotamer.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c -o trace.lo trace.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c trace.cc -fPIC -DPIC -o .libs/trace.o trace.cc:353: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] #pragma omp parallel for shared(scores) trace.cc:1201: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] #pragma omp parallel for // currently we write out the fragments, not store them mv -f .deps/dipole.Tpo .deps/dipole.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT trace-2.lo -MD -MP -MF .deps/trace-2.Tpo -c -o trace-2.lo trace-2.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT trace-2.lo -MD -MP -MF .deps/trace-2.Tpo -c trace-2.cc -fPIC -DPIC -o .libs/trace-2.o mv -f .deps/primitive-chi-angles.Tpo .deps/primitive-chi-angles.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT multi-peptide.lo -MD -MP -MF .deps/multi-peptide.Tpo -c -o multi-peptide.lo multi-peptide.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT multi-peptide.lo -MD -MP -MF .deps/multi-peptide.Tpo -c multi-peptide.cc -fPIC -DPIC -o .libs/multi-peptide.o backrub-rotamer.cc: In member function 'coot::minimol::fragment coot::backrub::make_test_fragment(mmdb::Residue*, double) const': backrub-rotamer.cc:156:30: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/trace-2.Tpo .deps/trace-2.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT ligands-db.lo -MD -MP -MF .deps/ligands-db.Tpo -c -o ligands-db.lo ligands-db.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT ligands-db.lo -MD -MP -MF .deps/ligands-db.Tpo -c ligands-db.cc -fPIC -DPIC -o .libs/ligands-db.o mv -f .deps/rotamer-tables.Tpo .deps/rotamer-tables.Plo c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT find-ligand.o -MD -MP -MF .deps/find-ligand.Tpo -c -o find-ligand.o find-ligand.cc find-ligand.cc: In function 'int main(int, char**)': find-ligand.cc:218:31: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ find-ligand.cc:344:32: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ find-ligand.cc:384:31: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ find-ligand.cc:463:30: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ find-ligand.cc:509:36: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error mess) { ^~~~ mv -f .deps/backrub-rotamer.Tpo .deps/backrub-rotamer.Plo c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT find-waters.o -MD -MP -MF .deps/find-waters.Tpo -c -o find-waters.o find-waters.cc mv -f .deps/multi-peptide.Tpo .deps/multi-peptide.Plo c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT make-ligands-db.o -MD -MP -MF .deps/make-ligands-db.Tpo -c -o make-ligands-db.o make-ligands-db.cc mv -f .deps/make-ligands-db.Tpo .deps/make-ligands-db.Po mv -f .deps/find-ligand.Tpo .deps/find-ligand.Po mv -f .deps/trace.Tpo .deps/trace.Plo mv -f .deps/ligands-db.Tpo .deps/ligands-db.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -DPKGDATADIR='"/usr/local/share/coot"' -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-ligand.la -rpath /usr/local/lib ligand.lo ligand-extras.lo residue_by_phi_psi.lo wiggly-ligand.lo monomer-utils.lo dunbrack.lo chi-angles-autogen.lo chi-angles.lo helix-placement.lo fast-ss-search.lo rigid-body.lo ideal-rna.lo richardson-rotamers.lo richardson-rotamer.lo rotamer.lo torsion-general.lo rotamer-tables.lo primitive-chi-angles.lo dipole.lo base-pairing.lo backrub-rotamer.lo trace.lo trace-2.lo multi-peptide.lo ligands-db.lo ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coords/libcoot-coords.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../analysis/libcoot-analysis.la ../utils/libcoot-utils.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c 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libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT high-res.lo -MD -MP -MF .deps/high-res.Tpo -c high-res.cc -fPIC -DPIC -o .libs/high-res.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c coot-atom-graph.cc -fPIC -DPIC -o .libs/coot-atom-graph.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c residue-distortions.cc -fPIC -DPIC -o .libs/residue-distortions.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -isystem /usr/local/include -DHAVE_GSL -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c sequence-assignment.cc -fPIC -DPIC -o .libs/sequence-assignment.o high-res.cc: In member function 'void coot::high_res::fill_globular_protein(const coot::minimol::molecule&, const clipper::Coord_orth&, mmdb::Manager*)': high-res.cc:177:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/residue-distortions.Tpo .deps/residue-distortions.Plo mv -f .deps/sequence-assignment.Tpo .deps/sequence-assignment.Plo mv -f .deps/high-res.Tpo .deps/high-res.Plo mv -f .deps/coot-atom-graph.Tpo .deps/coot-atom-graph.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -DHAVE_GSL -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-high-res.la -rpath /usr/local/lib high-res.lo coot-atom-graph.lo residue-distortions.lo sequence-assignment.lo ../mini-mol/libcoot-mini-mol.la ../ligand/libcoot-ligand.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/high-res.o .libs/coot-atom-graph.o .libs/residue-distortions.o .libs/sequence-assignment.o -Wl,-rpath 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--tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c -o CalphaBuild.lo CalphaBuild.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" 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"libcoot-cabuild.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-cabuild.so" && ln -s "libcoot-cabuild.so.0.0.0" "libcoot-cabuild.so") libtool: link: ( cd ".libs" && rm -f "libcoot-cabuild.la" && ln -s "../libcoot-cabuild.la" "libcoot-cabuild.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/build' Making all in greg-tests gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/greg-tests' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/greg-tests' Making all in python-tests gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/python-tests' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/python-tests' Making all in tw gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/tw' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" 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-I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT tw.lo -MD -MP -MF .deps/tw.Tpo -c tw.cc -fPIC -DPIC -o .libs/tw.o mv -f .deps/tw.Tpo .deps/tw.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-tw.la -rpath /usr/local/lib tw.lo libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/tw.o -L/usr/local/lib/gcc5 -L/usr/local/lib -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-tw.so.0 -o .libs/libcoot-tw.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-tw.so.0" && ln -s "libcoot-tw.so.0.0.0" "libcoot-tw.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-tw.so" && ln -s "libcoot-tw.so.0.0.0" "libcoot-tw.so") libtool: link: ( cd ".libs" && rm -f "libcoot-tw.la" && ln -s "../libcoot-tw.la" "libcoot-tw.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/tw' Making all in libgtkgraph gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/libgtkgraph' /bin/sh ../libtool --tag=CC --mode=compile cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT annotation.lo -MD -MP -MF .deps/annotation.Tpo -c -o annotation.lo annotation.c /bin/sh ../libtool --tag=CC --mode=compile cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT polar_util.lo -MD -MP -MF .deps/polar_util.Tpo -c -o polar_util.lo polar_util.c /bin/sh ../libtool --tag=CC --mode=compile cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c -o trace.lo trace.c /bin/sh ../libtool --tag=CC --mode=compile cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT axis.lo -MD -MP -MF .deps/axis.Tpo -c -o axis.lo axis.c /bin/sh ../libtool --tag=CC --mode=compile cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT gtkgraph.lo -MD -MP -MF .deps/gtkgraph.Tpo -c -o gtkgraph.lo gtkgraph.c libtool: compile: cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c trace.c -fPIC -DPIC -o .libs/trace.o libtool: compile: cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT annotation.lo -MD -MP -MF .deps/annotation.Tpo -c annotation.c -fPIC -DPIC -o .libs/annotation.o libtool: compile: cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT gtkgraph.lo -MD -MP -MF .deps/gtkgraph.Tpo -c gtkgraph.c -fPIC -DPIC -o .libs/gtkgraph.o libtool: compile: cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT axis.lo -MD -MP -MF .deps/axis.Tpo -c axis.c -fPIC -DPIC -o .libs/axis.o libtool: compile: cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT polar_util.lo -MD -MP -MF .deps/polar_util.Tpo -c polar_util.c -fPIC -DPIC -o .libs/polar_util.o trace.c: In function 'gtk_graph_trace_set_data': trace.c:147:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (xd[i] > xmax_store) ^~ trace.c:149:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' if (xd[i] < xmin_store ) ^~ trace.c: In function 'gtk_graph_trace_format_marker': trace.c:259:12: warning: this 'else' clause does not guard... [-Wmisleading-indentation] else ^~~~ trace.c:261:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else' break; ^~~~~ mv -f .deps/trace.Tpo .deps/trace.Plo /bin/sh ../libtool --tag=CC --mode=compile cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT polar.lo -MD -MP -MF .deps/polar.Tpo -c -o polar.lo polar.c libtool: compile: cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT polar.lo -MD -MP -MF .deps/polar.Tpo -c polar.c -fPIC -DPIC -o .libs/polar.o mv -f .deps/polar_util.Tpo .deps/polar_util.Plo /bin/sh ../libtool --tag=CC --mode=compile cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT smith.lo -MD -MP -MF .deps/smith.Tpo -c -o smith.lo smith.c libtool: compile: cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT smith.lo -MD -MP -MF .deps/smith.Tpo -c smith.c -fPIC -DPIC -o .libs/smith.o mv -f .deps/axis.Tpo .deps/axis.Plo mv -f .deps/smith.Tpo .deps/smith.Plo mv -f .deps/annotation.Tpo .deps/annotation.Plo mv -f .deps/polar.Tpo .deps/polar.Plo mv -f .deps/gtkgraph.Tpo .deps/gtkgraph.Plo /bin/sh ../libtool --tag=CC --mode=link cc -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-gtkgraph.la -rpath /usr/local/lib annotation.lo polar_util.lo trace.lo axis.lo gtkgraph.lo polar.lo smith.lo -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -lm libtool: link: cc -shared .libs/annotation.o .libs/polar_util.o .libs/trace.o .libs/axis.o .libs/gtkgraph.o .libs/polar.o .libs/smith.o -L/usr/local/lib/gcc5 -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -lm -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-gtkgraph.so.0 -o .libs/libcoot-gtkgraph.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-gtkgraph.so.0" && ln -s "libcoot-gtkgraph.so.0.0.0" "libcoot-gtkgraph.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-gtkgraph.so" && ln -s "libcoot-gtkgraph.so.0.0.0" "libcoot-gtkgraph.so") libtool: link: ( cd ".libs" && rm -f "libcoot-gtkgraph.la" && ln -s "../libcoot-gtkgraph.la" "libcoot-gtkgraph.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/libgtkgraph' Making all in lbg gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/lbg' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" 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-I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT residue-circles.lo -MD -MP -MF .deps/residue-circles.Tpo -c -o residue-circles.lo residue-circles.cc libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT lbg-flev.lo -MD -MP -MF .deps/lbg-flev.Tpo -c lbg-flev.cc -fPIC -DPIC -o .libs/lbg-flev.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT lbg.lo -MD -MP -MF .deps/lbg.Tpo -c lbg.cc -fPIC -DPIC -o .libs/lbg.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT wmolecule.lo -MD -MP -MF .deps/wmolecule.Tpo -c wmolecule.cc -fPIC -DPIC -o .libs/wmolecule.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 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.libs/lbg-search.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include 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-I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT lbg-drag-and-drop.lo -MD -MP -MF .deps/lbg-drag-and-drop.Tpo -c -o lbg-drag-and-drop.lo lbg-drag-and-drop.cc mv -f .deps/lbg-search.Tpo .deps/lbg-search.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 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-fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT qed-interface.lo -MD -MP -MF .deps/qed-interface.Tpo -c -o qed-interface.lo qed-interface.cc mv -f .deps/lbg-flev.Tpo .deps/lbg-flev.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT alerts.lo -MD -MP -MF .deps/alerts.Tpo -c -o alerts.lo alerts.cc mv -f .deps/wmolecule.Tpo .deps/wmolecule.Plo /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 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-I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT lbg-drag-and-drop.lo -MD -MP -MF .deps/lbg-drag-and-drop.Tpo -c lbg-drag-and-drop.cc -fPIC -DPIC -o .libs/lbg-drag-and-drop.o mv -f .deps/qed-interface.Tpo .deps/qed-interface.Plo c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 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-DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT qed-properties.lo -MD -MP -MF .deps/qed-properties.Tpo -c qed-properties.cc -fPIC -DPIC -o .libs/qed-properties.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT alerts-list.lo -MD -MP -MF .deps/alerts-list.Tpo -c alerts-list.cc -fPIC -DPIC -o .libs/alerts-list.o mv -f .deps/alerts.Tpo .deps/alerts.Plo c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT lbg-callbacks-outer.o -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c -o lbg-callbacks-outer.o lbg-callbacks-outer.cc mv -f .deps/lbg-drag-and-drop.Tpo .deps/lbg-drag-and-drop.Plo mv -f .deps/alerts-list.Tpo .deps/alerts-list.Plo mv -f .deps/lbg-callbacks-outer.Tpo .deps/lbg-callbacks-outer.Po mv -f .deps/qed-properties.Tpo .deps/qed-properties.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -DPKGDATADIR='"/usr/local/share/coot"' -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-lidia.la -rpath /usr/local/lib lbg.lo lbg-flev.lo wmolecule.lo lbg-search.lo residue-circles.lo lbg-drag-and-drop.lo qed-interface.lo alerts.lo alerts-list.lo qed-properties.lo ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 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-DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c nautilus-target.cpp -fPIC -DPIC -o .libs/nautilus-target.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 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( cd ".libs" && rm -f "libcootilus.la" && ln -s "../libcootilus.la" "libcootilus.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/cootilus' Making all in goograph gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/goograph' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo 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-L/usr/local/lib -o libcoot-goograph.la -rpath /usr/local/lib goograph.lo ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/goograph.o -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/lidia-core/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/coot-utils/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/geometry/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/mini-mol/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/utils/.libs -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so 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"libcoot-goograph.so" && ln -s "libcoot-goograph.so.0.0.0" "libcoot-goograph.so") libtool: link: ( cd ".libs" && rm -f "libcoot-goograph.la" && ln -s "../libcoot-goograph.la" "libcoot-goograph.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/goograph' Making all in pli gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/pli' /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT protein-ligand-interactions.lo -MD -MP -MF .deps/protein-ligand-interactions.Tpo -c -o protein-ligand-interactions.lo protein-ligand-interactions.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT flev-annotations.lo -MD -MP -MF .deps/flev-annotations.Tpo -c -o flev-annotations.lo flev-annotations.cc /bin/sh ../libtool --tag=CXX --mode=compile c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall 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-DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT protein-ligand-interactions.lo -MD -MP -MF .deps/protein-ligand-interactions.Tpo -c protein-ligand-interactions.cc -fPIC -DPIC -o .libs/protein-ligand-interactions.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT specs.lo -MD -MP -MF .deps/specs.Tpo -c specs.cc -fPIC -DPIC -o .libs/specs.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT flev-annotations.lo -MD -MP -MF .deps/flev-annotations.Tpo -c flev-annotations.cc -fPIC -DPIC -o .libs/flev-annotations.o libtool: compile: c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" "-DPACKAGE_STRING=\"coot 0.8.9.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -isystem /usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT pi-stacking.lo -MD -MP -MF .deps/pi-stacking.Tpo -c pi-stacking.cc -fPIC -DPIC -o .libs/pi-stacking.o mv -f .deps/specs.Tpo .deps/specs.Plo pi-stacking.cc: In member function 'void coot::pi_stacking_container_t::init(const coot::dictionary_residue_restraints_t&, const std::vector&, mmdb::Residue*, const std::vector > >&)': pi-stacking.cc:140:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/flev-annotations.Tpo .deps/flev-annotations.Plo mv -f .deps/pi-stacking.Tpo .deps/pi-stacking.Plo mv -f .deps/protein-ligand-interactions.Tpo .deps/protein-ligand-interactions.Plo /bin/sh ../libtool --tag=CXX --mode=link c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-pli.la -rpath /usr/local/lib protein-ligand-interactions.lo flev-annotations.lo pi-stacking.lo specs.lo ../lidia-core/libcoot-lidia-core.la -L/lib64 libtool: link: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/protein-ligand-interactions.o .libs/flev-annotations.o .libs/pi-stacking.o .libs/specs.o -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/lidia-core/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/coot-utils/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/geometry/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/mini-mol/.libs -Wl,-rpath -Wl,/construction/science/coot/coot-0.8.9.1/utils/.libs -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lsqlite3 -L/lib64 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-pli.so.0 -o .libs/libcoot-pli.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-pli.so.0" && ln -s "libcoot-pli.so.0.0.0" "libcoot-pli.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-pli.so" && ln -s "libcoot-pli.so.0.0.0" "libcoot-pli.so") libtool: link: ( cd ".libs" && rm -f "libcoot-pli.la" && ln -s "../libcoot-pli.la" "libcoot-pli.la" ) gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pli' Making all in pyrogen gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/pyrogen' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pyrogen' Making all in src gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/src' c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT fix-nomenclature.o -MD -MP -MF .deps/fix-nomenclature.Tpo -c -o fix-nomenclature.o fix-nomenclature.cc c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-nomenclature.o -MD -MP -MF .deps/coot-nomenclature.Tpo -c -o coot-nomenclature.o coot-nomenclature.cc c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE 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/usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.cc c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT boot-python.o -MD -MP -MF .deps/boot-python.Tpo -c -o boot-python.o boot-python.cc c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 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-I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT atom-overlaps.o -MD -MP -MF .deps/atom-overlaps.Tpo -c -o atom-overlaps.o atom-overlaps.cc mv -f .deps/boot-python.Tpo .deps/boot-python.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT git-revision-count.o -MD -MP -MF .deps/git-revision-count.Tpo -c -o git-revision-count.o git-revision-count.cc mv -f .deps/git-revision-count.Tpo .deps/git-revision-count.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT scm-boot-guile.o -MD -MP -MF .deps/scm-boot-guile.Tpo -c -o scm-boot-guile.o scm-boot-guile.cc mv -f .deps/scm-boot-guile.Tpo .deps/scm-boot-guile.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-analysis.o -MD -MP -MF .deps/c-interface-analysis.Tpo -c -o c-interface-analysis.o c-interface-analysis.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from main.cc:49: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from ../libgtkgraph/gtkgraph.h:47, from c-interface-analysis.cc:27: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from ../libgtkgraph/gtkgraph.h:47, from c-interface-analysis.cc:27: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from atom-overlaps.cc:39: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from atom-overlaps.cc:39: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from main.cc:49: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ coot-nomenclature.cc: In member function 'int coot::nomenclature::test_and_fix_ASP_GLU_nomenclature_errors(mmdb::Residue*, bool)': coot-nomenclature.cc:549:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/fix-nomenclature.Tpo .deps/fix-nomenclature.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-bonds.o -MD -MP -MF .deps/c-interface-bonds.Tpo -c -o c-interface-bonds.o c-interface-bonds.cc mv -f .deps/coot-nomenclature.Tpo .deps/coot-nomenclature.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-build.o -MD -MP -MF .deps/c-interface-build.Tpo -c -o c-interface-build.o c-interface-build.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-bonds.cc:23: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-bonds.cc:23: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ main.cc: In function 'int main(int, char**)': main.cc:208:19: warning: 'void g_type_init()' is deprecated [-Wdeprecated-declarations] g_type_init(); // for lbg command-line mode, so that ^ In file included from /usr/local/include/glib-2.0/gobject/gobject.h:24, from /usr/local/include/glib-2.0/gobject/gbinding.h:29, from /usr/local/include/glib-2.0/glib-object.h:23, from /usr/local/include/glib-2.0/gio/gioenums.h:28, from /usr/local/include/glib-2.0/gio/giotypes.h:28, from /usr/local/include/glib-2.0/gio/gio.h:26, from /usr/local/include/gtk-2.0/gdk/gdkapplaunchcontext.h:30, from /usr/local/include/gtk-2.0/gdk/gdk.h:32, from /usr/local/include/gtk-2.0/gtk/gtk.h:32, from main.cc:49: /usr/local/include/glib-2.0/gobject/gtype.h:686:23: note: declared here void g_type_init (void); ^~~~~~~~~~~ main.cc:208:19: warning: 'void g_type_init()' is deprecated [-Wdeprecated-declarations] g_type_init(); // for lbg command-line mode, so that ^ In file included from /usr/local/include/glib-2.0/gobject/gobject.h:24, from /usr/local/include/glib-2.0/gobject/gbinding.h:29, from /usr/local/include/glib-2.0/glib-object.h:23, from /usr/local/include/glib-2.0/gio/gioenums.h:28, from /usr/local/include/glib-2.0/gio/giotypes.h:28, from /usr/local/include/glib-2.0/gio/gio.h:26, from /usr/local/include/gtk-2.0/gdk/gdkapplaunchcontext.h:30, from /usr/local/include/gtk-2.0/gdk/gdk.h:32, from /usr/local/include/gtk-2.0/gtk/gtk.h:32, from main.cc:49: /usr/local/include/glib-2.0/gobject/gtype.h:686:23: note: declared here void g_type_init (void); ^~~~~~~~~~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-build.cc:57: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-build.cc:57: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-analysis.Tpo .deps/c-interface-analysis.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-build-morph.o -MD -MP -MF .deps/c-interface-build-morph.Tpo -c -o c-interface-build-morph.o c-interface-build-morph.cc mv -f .deps/c-interface-bonds.Tpo .deps/c-interface-bonds.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-build-main-chain.o -MD -MP -MF .deps/c-interface-build-main-chain.Tpo -c -o c-interface-build-main-chain.o c-interface-build-main-chain.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-build-morph.cc:57: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-build-morph.cc:57: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/atom-overlaps.Tpo .deps/atom-overlaps.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-build-side-chain.o -MD -MP -MF .deps/c-interface-build-side-chain.Tpo -c -o c-interface-build-side-chain.o c-interface-build-side-chain.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-build-side-chain.cc:57: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-build-side-chain.cc:57: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-build-main-chain.cc:55: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-build-main-chain.cc:55: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/main.Tpo .deps/main.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-build-symmetry.o -MD -MP -MF .deps/c-interface-build-symmetry.Tpo -c -o c-interface-build-symmetry.o c-interface-build-symmetry.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-build-symmetry.cc:57: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-build-symmetry.cc:57: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-build-morph.Tpo .deps/c-interface-build-morph.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-build-gui.o -MD -MP -MF .deps/c-interface-build-gui.Tpo -c -o c-interface-build-gui.o c-interface-build-gui.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-build-gui.cc:46: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-build-gui.cc:46: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-build.Tpo .deps/c-interface-build.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-database.o -MD -MP -MF .deps/c-interface-database.Tpo -c -o c-interface-database.o c-interface-database.cc mv -f .deps/c-interface-database.Tpo .deps/c-interface-database.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-gui.o -MD -MP -MF .deps/c-interface-gui.Tpo -c -o c-interface-gui.o c-interface-gui.cc mv -f .deps/c-interface-build-side-chain.Tpo .deps/c-interface-build-side-chain.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-gtk2.o -MD -MP -MF .deps/c-interface-gtk2.Tpo -c -o c-interface-gtk2.o c-interface-gtk2.cc mv -f .deps/c-interface-build-main-chain.Tpo .deps/c-interface-build-main-chain.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-info.o -MD -MP -MF .deps/c-interface-info.Tpo -c -o c-interface-info.o c-interface-info.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from nsv.hh:32, from c-interface-gui.cc:70: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from nsv.hh:32, from c-interface-gui.cc:70: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from c-interface-gtk2.cc:52: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ mv -f .deps/c-interface-build-symmetry.Tpo .deps/c-interface-build-symmetry.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-kk.o -MD -MP -MF .deps/c-interface-kk.Tpo -c -o c-interface-kk.o c-interface-kk.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from c-interface-gtk2.cc:52: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-info.cc:55: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-info.cc:55: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-kk.cc:33: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-kk.cc:33: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ c-interface-gui.cc: In function 'void set_baton_build_params_from_widget(GtkWidget*)': c-interface-gui.cc:5949:30: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ c-interface-info.cc: In function 'void output_residue_info_dialog(int, int)': c-interface-info.cc:368:35: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error mess) { ^~~~ c-interface-info.cc: In function 'void output_atom_info_as_text(int, const char*, int, const char*, const char*, const char*)': c-interface-info.cc:557:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error mess) { ^~~~ mv -f .deps/c-interface-build-gui.Tpo .deps/c-interface-build-gui.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-ligands.o -MD -MP -MF .deps/c-interface-ligands.Tpo -c -o c-interface-ligands.o c-interface-ligands.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-ligands.cc:38: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-ligands.cc:38: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-gtk2.Tpo .deps/c-interface-gtk2.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-ligands-gui.o -MD -MP -MF .deps/c-interface-ligands-gui.Tpo -c -o c-interface-ligands-gui.o c-interface-ligands-gui.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-ligands-gui.cc:44: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-ligands-gui.cc:44: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-kk.Tpo .deps/c-interface-kk.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-maps.o -MD -MP -MF .deps/c-interface-maps.Tpo -c -o c-interface-maps.o c-interface-maps.cc mv -f .deps/c-interface-gui.Tpo .deps/c-interface-gui.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-mmdb.o -MD -MP -MF .deps/c-interface-mmdb.Tpo -c -o c-interface-mmdb.o c-interface-mmdb.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-maps.cc:45: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-maps.cc:45: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-mmdb.cc:40: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-mmdb.cc:40: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-info.Tpo .deps/c-interface-info.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-mogul.o -MD -MP -MF .deps/c-interface-mogul.Tpo -c -o c-interface-mogul.o c-interface-mogul.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-mogul.cc:33: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-mogul.cc:33: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ c-interface-mogul.cc: In function 'void mogul_markup(int, const char*, int, const char*, const char*)': c-interface-mogul.cc:109:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/c-interface-ligands-gui.Tpo .deps/c-interface-ligands-gui.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-mogul-scripting.o -MD -MP -MF .deps/c-interface-mogul-scripting.Tpo -c -o c-interface-mogul-scripting.o c-interface-mogul-scripting.cc mv -f .deps/c-interface-mmdb.Tpo .deps/c-interface-mmdb.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-mutate.o -MD -MP -MF .deps/c-interface-mutate.Tpo -c -o c-interface-mutate.o c-interface-mutate.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from c-interface-mutate.cc:43: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from c-interface-mutate.cc:43: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-mogul-scripting.Tpo .deps/c-interface-mogul-scripting.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-ncs.o -MD -MP -MF .deps/c-interface-ncs.Tpo -c -o c-interface-ncs.o c-interface-ncs.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-ncs.cc:39: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-ncs.cc:39: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-mogul.Tpo .deps/c-interface-mogul.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-network.o -MD -MP -MF .deps/c-interface-network.Tpo -c -o c-interface-network.o c-interface-network.cc mv -f .deps/c-interface-maps.Tpo .deps/c-interface-maps.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-nucleotides.o -MD -MP -MF .deps/c-interface-nucleotides.Tpo -c -o c-interface-nucleotides.o c-interface-nucleotides.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from c-interface-network.cc:33: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from c-interface-network.cc:33: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-ligands.Tpo .deps/c-interface-ligands.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-python.o -MD -MP -MF .deps/c-interface-python.Tpo -c -o c-interface-python.o c-interface-python.cc mv -f .deps/c-interface-python.Tpo .deps/c-interface-python.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-pisa.o -MD -MP -MF .deps/c-interface-pisa.Tpo -c -o c-interface-pisa.o c-interface-pisa.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-nucleotides.cc:38: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-nucleotides.cc:38: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-mutate.Tpo .deps/c-interface-mutate.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-pisa-gui.o -MD -MP -MF .deps/c-interface-pisa-gui.Tpo -c -o c-interface-pisa-gui.o c-interface-pisa-gui.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from c-interface-pisa.cc:31: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from c-interface-pisa.cc:31: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from c-interface-pisa-gui.cc:30: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from c-interface-pisa-gui.cc:30: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-ncs.Tpo .deps/c-interface-ncs.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-preferences.o -MD -MP -MF .deps/c-interface-preferences.Tpo -c -o c-interface-preferences.o c-interface-preferences.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-preferences.cc:63: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-preferences.cc:63: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-network.Tpo .deps/c-interface-network.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-refine.o -MD -MP -MF .deps/c-interface-refine.Tpo -c -o c-interface-refine.o c-interface-refine.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-refine.cc:40: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-refine.cc:40: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-nucleotides.Tpo .deps/c-interface-nucleotides.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-residues.o -MD -MP -MF .deps/c-interface-residues.Tpo -c -o c-interface-residues.o c-interface-residues.cc mv -f .deps/c-interface-pisa.Tpo .deps/c-interface-pisa.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-refmac.o -MD -MP -MF .deps/c-interface-refmac.Tpo -c -o c-interface-refmac.o c-interface-refmac.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from cc-interface.hh:26, from c-interface-residues.cc:36: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from cc-interface.hh:26, from c-interface-residues.cc:36: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-refmac.cc:48: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-refmac.cc:48: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-pisa-gui.Tpo .deps/c-interface-pisa-gui.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-scm.o -MD -MP -MF .deps/c-interface-scm.Tpo -c -o c-interface-scm.o c-interface-scm.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-scm.cc:35: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-scm.cc:35: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-preferences.Tpo .deps/c-interface-preferences.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-sequence.o -MD -MP -MF .deps/c-interface-sequence.Tpo -c -o c-interface-sequence.o c-interface-sequence.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from c-interface-sequence.cc:28: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from c-interface-sequence.cc:28: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-refine.Tpo .deps/c-interface-refine.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-sfs.o -MD -MP -MF .deps/c-interface-sfs.Tpo -c -o c-interface-sfs.o c-interface-sfs.cc mv -f .deps/c-interface-residues.Tpo .deps/c-interface-residues.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-sharpen.o -MD -MP -MF .deps/c-interface-sharpen.Tpo -c -o c-interface-sharpen.o c-interface-sharpen.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from c-interface-sfs.cc:30: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from c-interface-sfs.cc:30: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-sharpen.cc:29: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-sharpen.cc:29: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-refmac.Tpo .deps/c-interface-refmac.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-superpose.o -MD -MP -MF .deps/c-interface-superpose.Tpo -c -o c-interface-superpose.o c-interface-superpose.cc mv -f .deps/c-interface-scm.Tpo .deps/c-interface-scm.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-validate.o -MD -MP -MF .deps/c-interface-validate.Tpo -c -o c-interface-validate.o c-interface-validate.cc mv -f .deps/c-interface-sfs.Tpo .deps/c-interface-sfs.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-view.o -MD -MP -MF .deps/c-interface-view.Tpo -c -o c-interface-view.o c-interface-view.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from c-interface-superpose.cc:38: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from c-interface-superpose.cc:38: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-validate.cc:38: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-validate.cc:38: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from cc-interface.hh:26, from c-interface-view.cc:33: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from cc-interface.hh:26, from c-interface-view.cc:33: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-sequence.Tpo .deps/c-interface-sequence.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-widgets.o -MD -MP -MF .deps/c-interface-widgets.Tpo -c -o c-interface-widgets.o c-interface-widgets.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from c-interface-widgets.cc:34: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from c-interface-widgets.cc:34: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-sharpen.Tpo .deps/c-interface-sharpen.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-waters.o -MD -MP -MF .deps/c-interface-waters.Tpo -c -o c-interface-waters.o c-interface-waters.cc c-interface-view.cc: In function 'void orient_view(int, const coot::residue_spec_t&, const coot::residue_spec_t&)': c-interface-view.cc:84:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-waters.cc:39: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-waters.cc:39: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-superpose.Tpo .deps/c-interface-superpose.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-waters-gui.o -MD -MP -MF .deps/c-interface-waters-gui.Tpo -c -o c-interface-waters-gui.o c-interface-waters-gui.cc mv -f .deps/c-interface-validate.Tpo .deps/c-interface-validate.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface.o -MD -MP -MF .deps/c-interface.Tpo -c -o c-interface.o c-interface.cc mv -f .deps/c-interface-view.Tpo .deps/c-interface-view.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT c-interface-test.o -MD -MP -MF .deps/c-interface-test.Tpo -c -o c-interface-test.o c-interface-test.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-waters-gui.cc:39: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-waters-gui.cc:39: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface.cc:88: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface.cc:88: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ c-interface-waters.cc: In function 'int blob_under_pointer_to_screen_centre()': c-interface-waters.cc:172:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error mess) { ^~~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.h:30, from c-interface-test.cc:86: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.h:30, from c-interface-test.cc:86: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-widgets.Tpo .deps/c-interface-widgets.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT cc-interface-alignment.o -MD -MP -MF .deps/cc-interface-alignment.Tpo -c -o cc-interface-alignment.o cc-interface-alignment.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from cc-interface-alignment.cc:16: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from cc-interface-alignment.cc:16: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface-waters.Tpo .deps/c-interface-waters.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT cc-interface-png.o -MD -MP -MF .deps/cc-interface-png.Tpo -c -o cc-interface-png.o cc-interface-png.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from cc-interface.hh:26, from cc-interface-png.cc:27: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from cc-interface.hh:26, from cc-interface-png.cc:27: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ c-interface.cc: In function 'int read_phs_and_make_map_with_reso_limits(int, const char*, float, float)': c-interface.cc:4019:32: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] } catch ( std::runtime_error except ) { ^~~~~~ c-interface.cc: In function 'int read_phs_and_make_map_using_cell_symm_from_mol_using_implicit_phs_filename(int)': c-interface.cc:4149:32: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] } catch ( std::runtime_error except ) { ^~~~~~ mv -f .deps/c-interface-waters-gui.Tpo .deps/c-interface-waters-gui.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT cc-interface-user-defined-atom-colours.o -MD -MP -MF .deps/cc-interface-user-defined-atom-colours.Tpo -c -o cc-interface-user-defined-atom-colours.o cc-interface-user-defined-atom-colours.cc mv -f .deps/c-interface-test.Tpo .deps/c-interface-test.Po cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT callbacks.o -MD -MP -MF .deps/callbacks.Tpo -c -o callbacks.o callbacks.c callbacks.c: In function 'on_cif_dictionary_fileselection_ok_button_clicked': callbacks.c:2746:7: warning: variable 'new_compid_idx' set but not used [-Wunused-but-set-variable] int new_compid_idx; ^~~~~~~~~~~~~~ callbacks.c: In function 'on_cif_dictionary_filechooserdialog1_response': callbacks.c:10930:7: warning: variable 'new_compid_idx' set but not used [-Wunused-but-set-variable] int new_compid_idx; ^~~~~~~~~~~~~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from ./graphics-info.h:37, from cc-interface-user-defined-atom-colours.hh:6, from cc-interface-user-defined-atom-colours.cc:22: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from ./graphics-info.h:37, from cc-interface-user-defined-atom-colours.hh:6, from cc-interface-user-defined-atom-colours.cc:22: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/cc-interface-alignment.Tpo .deps/cc-interface-alignment.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT cfc.o -MD -MP -MF .deps/cfc.Tpo -c -o cfc.o cfc.cc mv -f .deps/cfc.Tpo .deps/cfc.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT change-dir.o -MD -MP -MF .deps/change-dir.Tpo -c -o change-dir.o change-dir.cc mv -f .deps/callbacks.Tpo .deps/callbacks.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT cmtz-interface.o -MD -MP -MF .deps/cmtz-interface.Tpo -c -o cmtz-interface.o cmtz-interface.cc mv -f .deps/cc-interface-png.Tpo .deps/cc-interface-png.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT command-line.o -MD -MP -MF .deps/command-line.Tpo -c -o command-line.o command-line.cc mv -f .deps/change-dir.Tpo .deps/change-dir.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT command-line-extern.o -MD -MP -MF .deps/command-line-extern.Tpo -c -o command-line-extern.o command-line-extern.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from command-line-extern.cc:41: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from command-line-extern.cc:41: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from cmtz-interface.cc:43: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from cmtz-interface.cc:43: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from command-line.cc:58: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from command-line.cc:58: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/c-interface.Tpo .deps/c-interface.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-colour.o -MD -MP -MF .deps/coot-colour.Tpo -c -o coot-colour.o coot-colour.cc mv -f .deps/coot-colour.Tpo .deps/coot-colour.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include 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.deps/coot_pythonmodule.Tpo -c -o coot_pythonmodule.o coot_pythonmodule.cc mv -f .deps/coot_pythonmodule.Tpo .deps/coot_pythonmodule.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot-setup-python.o -MD -MP -MF .deps/coot-setup-python.Tpo -c -o coot-setup-python.o coot-setup-python.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from coot-setup-python.cc:30: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from coot-setup-python.cc:30: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/coot-hydrogens.Tpo .deps/coot-hydrogens.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT coot_wrap_guile.o -MD -MP -MF .deps/coot_wrap_guile.Tpo -c -o coot_wrap_guile.o coot_wrap_guile.cc mv -f .deps/coot_wrap_guile.Tpo .deps/coot_wrap_guile.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT drag-and-drop.o -MD -MP -MF .deps/drag-and-drop.Tpo -c -o drag-and-drop.o drag-and-drop.cc mv -f .deps/coot-align.Tpo .deps/coot-align.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT draw-generic-display-objects.o -MD -MP -MF .deps/draw-generic-display-objects.Tpo -c -o draw-generic-display-objects.o draw-generic-display-objects.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from drag-and-drop.cc:28: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from drag-and-drop.cc:28: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from draw-generic-display-objects.cc:9: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from draw-generic-display-objects.cc:9: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/command-line.Tpo .deps/command-line.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT flev.o -MD -MP -MF .deps/flev.Tpo -c -o flev.o flev.cc mv -f .deps/cmtz-interface.Tpo .deps/cmtz-interface.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT generic-objects.o -MD -MP -MF .deps/generic-objects.Tpo -c -o generic-objects.o generic-objects.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from generic-objects.cc:34: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from generic-objects.cc:34: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/drag-and-drop.Tpo .deps/drag-and-drop.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT geometry-graphs.o -MD -MP -MF .deps/geometry-graphs.Tpo -c -o geometry-graphs.o geometry-graphs.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from flev.cc:41: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from flev.cc:41: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from geometry-graphs.cc:40: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from geometry-graphs.cc:40: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ flev.cc: In member function 'bool coot::flev_attached_hydrogens_t::add_named_torsion(mmdb::Atom*, mmdb::Atom*, const coot::dictionary_residue_restraints_t&, mmdb::Manager*, int)': flev.cc:1455:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ flev.cc: In member function 'void coot::flev_attached_hydrogens_t::distances_to_protein(mmdb::Residue*, mmdb::Manager*)': flev.cc:1623:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ flev.cc: In member function 'void coot::flev_attached_hydrogens_t::distances_to_protein_using_correct_Hs(mmdb::Residue*, mmdb::Manager*, const coot::protein_geometry&)': flev.cc:1723:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/coot-setup-python.Tpo .deps/coot-setup-python.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT get-residue.o -MD -MP -MF .deps/get-residue.Tpo -c -o get-residue.o get-residue.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from get-residue.cc:9: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from get-residue.cc:9: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ geometry-graphs.cc: In member function 'void coot::geometry_graphs::render_geometry_distortion_blocks_internal(const coot::geometry_distortion_info_container_t&)': geometry-graphs.cc:280:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ geometry-graphs.cc:313:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ geometry-graphs.cc:346:35: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/draw-generic-display-objects.Tpo .deps/draw-generic-display-objects.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT get-monomer.o -MD -MP -MF .deps/get-monomer.Tpo -c -o get-monomer.o get-monomer.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from get-monomer.cc:29: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from get-monomer.cc:29: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/generic-objects.Tpo .deps/generic-objects.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT globjects.o -MD -MP -MF .deps/globjects.Tpo -c -o globjects.o globjects.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from globjects.cc:42: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from globjects.cc:42: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/flev.Tpo .deps/flev.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT globularize.o -MD -MP -MF .deps/globularize.Tpo -c -o globularize.o globularize.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from globularize.cc:6: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from globularize.cc:6: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/get-residue.Tpo .deps/get-residue.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info.o -MD -MP -MF .deps/graphics-info.Tpo -c -o graphics-info.o graphics-info.cc mv -f .deps/geometry-graphs.Tpo .deps/geometry-graphs.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-defines.o -MD -MP -MF .deps/graphics-info-defines.Tpo -c -o graphics-info-defines.o graphics-info-defines.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.cc:41: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.cc:41: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from graphics-info-defines.cc:36: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from graphics-info-defines.cc:36: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/get-monomer.Tpo .deps/get-monomer.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-graphs.o -MD -MP -MF .deps/graphics-info-graphs.Tpo -c -o graphics-info-graphs.o graphics-info-graphs.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-graphs.cc:42: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-graphs.cc:42: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/globularize.Tpo .deps/globularize.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-gui.o -MD -MP -MF .deps/graphics-info-gui.Tpo -c -o graphics-info-gui.o graphics-info-gui.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-gui.cc:42: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-gui.cc:42: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/globjects.Tpo .deps/globjects.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-modelling.o -MD -MP -MF .deps/graphics-info-modelling.Tpo -c -o graphics-info-modelling.o graphics-info-modelling.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-modelling.cc:45: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-modelling.cc:45: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-info-defines.Tpo .deps/graphics-info-defines.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-navigation.o -MD -MP -MF .deps/graphics-info-navigation.Tpo -c -o graphics-info-navigation.o graphics-info-navigation.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-navigation.cc:47: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-navigation.cc:47: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ graphics-info-modelling.cc: In member function 'coot::rotamer_probability_info_t graphics_info_t::get_rotamer_probability(mmdb::Residue*, const string&, mmdb::Manager*, float, short int)': graphics-info-modelling.cc:3636:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error e) { ^ graphics-info-modelling.cc: In member function 'short int graphics_info_t::update_residue_by_chi_change(int, mmdb::Residue*, atom_selection_container_t&, int, double)': graphics-info-modelling.cc:3773:32: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ graphics-info-modelling.cc:3778:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/graphics-info.Tpo .deps/graphics-info.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-navigation-gtk1.o -MD -MP -MF .deps/graphics-info-navigation-gtk1.Tpo -c -o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk1.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-navigation-gtk1.cc:37: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ graphics-info-navigation.cc: In member function 'pick_info graphics_info_t::find_atom_index_from_goto_info(int)': graphics-info-navigation.cc:506:13: warning: 'char* strncpy(char*, const char*, size_t)' specified bound 2 equals destination size [-Wstringop-truncation] strncpy(altconf, go_to_atom_atom_altLoc_.c_str(), 2); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-navigation-gtk1.cc:37: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-info-navigation-gtk1.Tpo .deps/graphics-info-navigation-gtk1.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-navigation-gtk2.o -MD -MP -MF .deps/graphics-info-navigation-gtk2.Tpo -c -o graphics-info-navigation-gtk2.o graphics-info-navigation-gtk2.cc mv -f .deps/graphics-info-navigation.Tpo .deps/graphics-info-navigation.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-preferences.o -MD -MP -MF .deps/graphics-info-preferences.Tpo -c -o graphics-info-preferences.o graphics-info-preferences.cc mv -f .deps/graphics-info-graphs.Tpo .deps/graphics-info-graphs.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-network.o -MD -MP -MF .deps/graphics-info-network.Tpo -c -o graphics-info-network.o graphics-info-network.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-navigation-gtk2.cc:28: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-navigation-gtk2.cc:28: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-preferences.cc:33: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-preferences.cc:33: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from graphics-info-network.cc:8: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from graphics-info-network.cc:8: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-info-gui.Tpo .deps/graphics-info-gui.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-mutate.o -MD -MP -MF .deps/graphics-info-mutate.Tpo -c -o graphics-info-mutate.o graphics-info-mutate.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-mutate.cc:58: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-mutate.cc:58: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-info-navigation-gtk2.Tpo .deps/graphics-info-navigation-gtk2.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-lsq.o -MD -MP -MF .deps/graphics-info-lsq.Tpo -c -o graphics-info-lsq.o graphics-info-lsq.cc mv -f .deps/graphics-info-modelling.Tpo .deps/graphics-info-modelling.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-pick.o -MD -MP -MF .deps/graphics-info-pick.Tpo -c -o graphics-info-pick.o graphics-info-pick.cc mv -f .deps/graphics-info-network.Tpo .deps/graphics-info-network.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-refmac.o -MD -MP -MF .deps/graphics-info-refmac.Tpo -c -o graphics-info-refmac.o graphics-info-refmac.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-lsq.cc:39: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-lsq.cc:39: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-refmac.cc:49: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-refmac.cc:49: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-info-preferences.Tpo .deps/graphics-info-preferences.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-render.o -MD -MP -MF .deps/graphics-info-render.Tpo -c -o graphics-info-render.o graphics-info-render.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from graphics-info-pick.cc:42: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from graphics-info-pick.cc:42: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from graphics-info-render.cc:38: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from graphics-info-render.cc:38: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-info-mutate.Tpo .deps/graphics-info-mutate.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-residues.o -MD -MP -MF .deps/graphics-info-residues.Tpo -c -o graphics-info-residues.o graphics-info-residues.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from graphics-info-residues.cc:30: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from graphics-info-residues.cc:30: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ graphics-info-pick.cc: In member function 'coot::Symm_Atom_Pick_Info_t graphics_info_t::symmetry_atom_pick(const coot::Cartesian&, const coot::Cartesian&) const': graphics-info-pick.cc:123:37: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] } catch ( std::runtime_error except ) { ^~~~~~ graphics-info-residues.cc: In member function 'void graphics_info_t::multi_torsion_residues(int, const std::vector&)': graphics-info-residues.cc:94:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ mv -f .deps/graphics-info-refmac.Tpo .deps/graphics-info-refmac.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-scripting.o -MD -MP -MF .deps/graphics-info-scripting.Tpo -c -o graphics-info-scripting.o graphics-info-scripting.cc mv -f .deps/graphics-info-lsq.Tpo .deps/graphics-info-lsq.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-state.o -MD -MP -MF .deps/graphics-info-state.Tpo -c -o graphics-info-state.o graphics-info-state.cc mv -f .deps/graphics-info-pick.Tpo .deps/graphics-info-pick.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-info-superpose.o -MD -MP -MF .deps/graphics-info-superpose.Tpo -c -o graphics-info-superpose.o graphics-info-superpose.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from graphics-info-scripting.cc:8: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from graphics-info-scripting.cc:8: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from graphics-info-superpose.cc:33: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from graphics-info-superpose.cc:33: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-info-residues.Tpo .deps/graphics-info-residues.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT graphics-ligand-view.o -MD -MP -MF .deps/graphics-ligand-view.Tpo -c -o graphics-ligand-view.o graphics-ligand-view.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info-state.cc:34: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info-state.cc:34: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-info-render.Tpo .deps/graphics-info-render.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT gl-matrix.o -MD -MP -MF .deps/gl-matrix.Tpo -c -o gl-matrix.o gl-matrix.cc mv -f .deps/gl-matrix.Tpo .deps/gl-matrix.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT gtk-manual.o -MD -MP -MF .deps/gtk-manual.Tpo -c -o gtk-manual.o gtk-manual.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.cc:35: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.cc:35: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-info-scripting.Tpo .deps/graphics-info-scripting.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT gtk-widget-conversion-utils.o -MD -MP -MF .deps/gtk-widget-conversion-utils.Tpo -c -o gtk-widget-conversion-utils.o gtk-widget-conversion-utils.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-widget-conversion-utils.cc:5: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-widget-conversion-utils.cc:5: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/gtk-manual.Tpo .deps/gtk-manual.Po cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT gtk2-interface.o -MD -MP -MF .deps/gtk2-interface.Tpo -c -o gtk2-interface.o gtk2-interface.c gtk-widget-conversion-utils.cc: In function 'entry_info_t coot_entry_to_val(GtkEntry*)': gtk-widget-conversion-utils.cc:24:32: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ gtk2-interface.c: In function 'create_coot_references_dialog': gtk2-interface.c:27320:15: warning: variable 'tmp_toolbar_icon_size' set but not used [-Wunused-but-set-variable] GtkIconSize tmp_toolbar_icon_size; ^~~~~~~~~~~~~~~~~~~~~ gtk2-interface.c: In function 'create_multi_residue_torsion_dialog': gtk2-interface.c:28518:7: warning: 'gdk_pixbuf_unref' is deprecated: Use 'g_object_unref' instead [-Wdeprecated-declarations] gdk_pixbuf_unref (multi_residue_torsion_dialog_icon_pixbuf); ^~~~~~~~~~~~~~~~ In file included from /usr/local/include/gdk-pixbuf-2.0/gdk-pixbuf/gdk-pixbuf.h:34, from /usr/local/include/gtk-2.0/gdk/gdkpixbuf.h:37, from /usr/local/include/gtk-2.0/gdk/gdkcairo.h:28, from /usr/local/include/gtk-2.0/gdk/gdk.h:33, from /usr/local/include/gtk-2.0/gtk/gtk.h:32, from gtk2-interface.c:18: /usr/local/include/gdk-pixbuf-2.0/gdk-pixbuf/gdk-pixbuf-core.h:232:12: note: declared here void gdk_pixbuf_unref (GdkPixbuf *pixbuf); ^~~~~~~~~~~~~~~~ mv -f .deps/gtk-widget-conversion-utils.Tpo .deps/gtk-widget-conversion-utils.Po cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT interface.o -MD -MP -MF .deps/interface.Tpo -c -o interface.o interface.c mv -f .deps/interface.Tpo .deps/interface.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT lbg-callbacks-outer.o -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c -o lbg-callbacks-outer.o lbg-callbacks-outer.cc mv -f .deps/lbg-callbacks-outer.Tpo .deps/lbg-callbacks-outer.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT lbg-interface.o -MD -MP -MF .deps/lbg-interface.Tpo -c -o lbg-interface.o lbg-interface.cc mv -f .deps/graphics-info-superpose.Tpo .deps/graphics-info-superpose.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info.o -MD -MP -MF .deps/molecule-class-info.Tpo -c -o molecule-class-info.o molecule-class-info.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from lbg-interface.cc:36: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from lbg-interface.cc:36: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/graphics-ligand-view.Tpo .deps/graphics-ligand-view.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-alignment.o -MD -MP -MF .deps/molecule-class-info-alignment.Tpo -c -o molecule-class-info-alignment.o molecule-class-info-alignment.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.hh:4, from molecule-class-info.cc:67: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.hh:4, from molecule-class-info.cc:67: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-alignment.cc:2: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-alignment.cc:2: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ molecule-class-info.cc: In member function 'std::pair molecule_class_info_t::space_group() const': molecule-class-info.cc:285:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ molecule-class-info.cc: In member function 'std::pair molecule_class_info_t::add_dipole(const std::vector&, const coot::protein_geometry&)': molecule-class-info.cc:2617:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error mess) { ^~~~ molecule-class-info.cc:2632:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error mess) { ^~~~ mv -f .deps/lbg-interface.Tpo .deps/lbg-interface.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-bonds.o -MD -MP -MF .deps/molecule-class-info-bonds.Tpo -c -o molecule-class-info-bonds.o molecule-class-info-bonds.cc mv -f .deps/graphics-info-state.Tpo .deps/graphics-info-state.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-maps.o -MD -MP -MF .deps/molecule-class-info-maps.Tpo -c -o molecule-class-info-maps.o molecule-class-info-maps.cc mv -f .deps/molecule-class-info-alignment.Tpo .deps/molecule-class-info-alignment.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-maps-2.o -MD -MP -MF .deps/molecule-class-info-maps-2.Tpo -c -o molecule-class-info-maps-2.o molecule-class-info-maps-2.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-bonds.cc:22: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-bonds.cc:22: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/gtk2-interface.Tpo .deps/gtk2-interface.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-kdc.o -MD -MP -MF .deps/molecule-class-info-kdc.Tpo -c -o molecule-class-info-kdc.o molecule-class-info-kdc.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-maps.cc:47: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-maps.cc:47: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-maps-2.cc:23: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-maps-2.cc:23: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-kdc.cc:32: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-kdc.cc:32: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/molecule-class-info-maps-2.Tpo .deps/molecule-class-info-maps-2.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-dots.o -MD -MP -MF .deps/molecule-class-info-dots.Tpo -c -o molecule-class-info-dots.o molecule-class-info-dots.cc mv -f .deps/molecule-class-info-bonds.Tpo .deps/molecule-class-info-bonds.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-dots-internal.o -MD -MP -MF .deps/molecule-class-info-dots-internal.Tpo -c -o molecule-class-info-dots-internal.o molecule-class-info-dots-internal.cc mv -f .deps/molecule-class-info-dots-internal.Tpo .deps/molecule-class-info-dots-internal.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-other.o -MD -MP -MF .deps/molecule-class-info-other.Tpo -c -o molecule-class-info-other.o molecule-class-info-other.cc mv -f .deps/molecule-class-info-dots.Tpo .deps/molecule-class-info-dots.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-build.o -MD -MP -MF .deps/molecule-class-info-build.Tpo -c -o molecule-class-info-build.o molecule-class-info-build.cc mv -f .deps/molecule-class-info-kdc.Tpo .deps/molecule-class-info-kdc.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-mutate.o -MD -MP -MF .deps/molecule-class-info-mutate.Tpo -c -o molecule-class-info-mutate.o molecule-class-info-mutate.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from molecule-class-info-other.cc:67: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from molecule-class-info-other.cc:67: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from molecule-class-info-mutate.cc:52: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from molecule-class-info-mutate.cc:52: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-build.cc:34: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-build.cc:34: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/molecule-class-info.Tpo .deps/molecule-class-info.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-residues.o -MD -MP -MF .deps/molecule-class-info-residues.Tpo -c -o molecule-class-info-residues.o molecule-class-info-residues.cc molecule-class-info-other.cc: In member function 'float molecule_class_info_t::auto_fit_best_rotamer(int, const string&, const string&, const string&, int, int, float, const coot::protein_geometry&)': molecule-class-info-other.cc:2057:34: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ molecule-class-info-other.cc: In member function 'std::pair molecule_class_info_t::backrub_rotamer(const string&, int, const string&, const string&, const coot::protein_geometry&)': molecule-class-info-other.cc:2241:31: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ molecule-class-info-other.cc: In member function 'short int molecule_class_info_t::reverse_direction_of_fragment(const string&, int)': molecule-class-info-other.cc:8168:30: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ molecule-class-info-other.cc: In member function 'void molecule_class_info_t::lsq_improve(mmdb::Manager*, const string&, const string&, int, float)': molecule-class-info-other.cc:9122:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from molecule-class-info-residues.cc:45: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from molecule-class-info-residues.cc:45: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/molecule-class-info-maps.Tpo .deps/molecule-class-info-maps.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-refine.o -MD -MP -MF .deps/molecule-class-info-refine.Tpo -c -o molecule-class-info-refine.o molecule-class-info-refine.cc molecule-class-info-build.cc: In member function 'void molecule_class_info_t::make_link(const coot::atom_spec_t&, const coot::atom_spec_t&, const string&, float, const coot::protein_geometry&)': molecule-class-info-build.cc:243:13: warning: 'char* strncpy(char*, const char*, size_t)' output may be truncated copying 19 bytes from a string of length 19 [-Wstringop-truncation] strncpy(link->atName1, at_1->GetAtomName(), 19); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ molecule-class-info-build.cc:244:13: warning: 'char* strncpy(char*, const char*, size_t)' output may be truncated copying 9 bytes from a string of length 19 [-Wstringop-truncation] strncpy(link->aloc1, at_1->altLoc, 9); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ molecule-class-info-build.cc:250:13: warning: 'char* strncpy(char*, const char*, size_t)' output may be truncated copying 19 bytes from a string of length 19 [-Wstringop-truncation] strncpy(link->atName2, at_2->GetAtomName(), 19); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ molecule-class-info-build.cc:251:13: warning: 'char* strncpy(char*, const char*, size_t)' output may be truncated copying 9 bytes from a string of length 19 [-Wstringop-truncation] strncpy(link->aloc2, at_2->altLoc, 9); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-refine.cc:40: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-refine.cc:40: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/molecule-class-info-build.Tpo .deps/molecule-class-info-build.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-kk.o -MD -MP -MF .deps/molecule-class-info-kk.Tpo -c -o molecule-class-info-kk.o molecule-class-info-kk.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-kk.cc:25: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-kk.cc:25: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/molecule-class-info-mutate.Tpo .deps/molecule-class-info-mutate.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-surface.o -MD -MP -MF .deps/molecule-class-info-surface.Tpo -c -o molecule-class-info-surface.o molecule-class-info-surface.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from molecule-class-info-surface.cc:39: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from molecule-class-info-surface.cc:39: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/molecule-class-info-kk.Tpo .deps/molecule-class-info-kk.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-patterson.o -MD -MP -MF .deps/molecule-class-info-patterson.Tpo -c -o molecule-class-info-patterson.o molecule-class-info-patterson.cc mv -f .deps/molecule-class-info-refine.Tpo .deps/molecule-class-info-refine.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-ncs.o -MD -MP -MF .deps/molecule-class-info-ncs.Tpo -c -o molecule-class-info-ncs.o molecule-class-info-ncs.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-patterson.cc:45: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-patterson.cc:45: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/molecule-class-info-residues.Tpo .deps/molecule-class-info-residues.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT molecule-class-info-widget-work.o -MD -MP -MF .deps/molecule-class-info-widget-work.Tpo -c -o molecule-class-info-widget-work.o molecule-class-info-widget-work.cc mv -f .deps/molecule-class-info-surface.Tpo .deps/molecule-class-info-surface.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT nsv.o -MD -MP -MF .deps/nsv.Tpo -c -o nsv.o nsv.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-ncs.cc:47: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-ncs.cc:47: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from nsv.hh:32, from nsv.cc:39: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from nsv.hh:32, from nsv.cc:39: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/molecule-class-info-other.Tpo .deps/molecule-class-info-other.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT pick.o -MD -MP -MF .deps/pick.Tpo -c -o pick.o pick.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-widget-work.cc:32: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from gtk-manual.h:26, from molecule-class-info.h:59, from molecule-class-info-widget-work.cc:32: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from pick.cc:43: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ molecule-class-info-ncs.cc: In member function 'void molecule_class_info_t::add_ncs_ghosts_no_explicit_master(const std::vector >&, const std::vector, int> > >&, std::vector, const std::vector&, short int, float, bool)': molecule-class-info-ncs.cc:427:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ molecule-class-info-ncs.cc: In member function 'void molecule_class_info_t::add_ncs_ghosts_using_ncs_master(const string&, const std::vector >&, const std::vector, int> > >&, const std::vector&, float)': molecule-class-info-ncs.cc:486:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ molecule-class-info-ncs.cc: In member function 'int molecule_class_info_t::copy_residue_range(mmdb::Chain*, mmdb::Chain*, int, int, clipper::RTop_orth)': molecule-class-info-ncs.cc:1261:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error mess) { ^~~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from pick.cc:43: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/nsv.Tpo .deps/nsv.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT probe-clash-score.o -MD -MP -MF .deps/probe-clash-score.Tpo -c -o probe-clash-score.o probe-clash-score.cc mv -f .deps/molecule-class-info-patterson.Tpo .deps/molecule-class-info-patterson.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT protein_db-interface.o -MD -MP -MF .deps/protein_db-interface.Tpo -c -o protein_db-interface.o protein_db-interface.cc mv -f .deps/molecule-class-info-widget-work.Tpo .deps/molecule-class-info-widget-work.Po cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT read-phs.o -MD -MP -MF .deps/read-phs.Tpo -c -o read-phs.o read-phs.c read-phs.c: In function 'phs_pdb_cell_symm': read-phs.c:239:8: warning: variable 'imol' set but not used [-Wunused-but-set-variable] int imol; ^~~~ mv -f .deps/read-phs.Tpo .deps/read-phs.Po cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT read-cif.o -MD -MP -MF .deps/read-cif.Tpo -c -o read-cif.o read-cif.c mv -f .deps/read-cif.Tpo .deps/read-cif.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT rama_mousey.o -MD -MP -MF .deps/rama_mousey.Tpo -c -o rama_mousey.o rama_mousey.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from rama_mousey.hh:3, from rama_mousey.cc:29: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from rama_mousey.hh:3, from rama_mousey.cc:29: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/protein_db-interface.Tpo .deps/protein_db-interface.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT rama_plot.o -MD -MP -MF .deps/rama_plot.Tpo -c -o rama_plot.o rama_plot.cc mv -f .deps/probe-clash-score.Tpo .deps/probe-clash-score.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT restraints-editor.o -MD -MP -MF .deps/restraints-editor.Tpo -c -o restraints-editor.o restraints-editor.cc mv -f .deps/rama_mousey.Tpo .deps/rama_mousey.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT sdf-interface.o -MD -MP -MF .deps/sdf-interface.Tpo -c -o sdf-interface.o sdf-interface.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from sdf-interface.cc:43: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from sdf-interface.cc:43: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from /usr/local/include/libgnomecanvas-2.0/libgnomecanvas/gnome-canvas.h:40, from /usr/local/include/libgnomecanvas-2.0/libgnomecanvas/libgnomecanvas.h:29, from rama_plot.hh:43, from rama_plot.cc:49: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from /usr/local/include/libgnomecanvas-2.0/libgnomecanvas/gnome-canvas.h:40, from /usr/local/include/libgnomecanvas-2.0/libgnomecanvas/libgnomecanvas.h:29, from rama_plot.hh:43, from rama_plot.cc:49: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from restraints-editor.cc:37: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from restraints-editor.cc:37: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ rama_plot.cc: In member function 'void coot::rama_plot::generate_phi_psis(mmdb::Manager*, bool)': rama_plot.cc:1664:40: warning: catching polymorphic type 'const class std::runtime_error' by value [-Wcatch-value=] catch (const std::runtime_error rte) { ^~~ rama_plot.cc: In member function 'void coot::rama_plot::generate_phi_psis_by_selection(mmdb::Manager*, bool, int)': rama_plot.cc:1713:45: warning: catching polymorphic type 'const class std::runtime_error' by value [-Wcatch-value=] catch (const std::runtime_error rte) { ^~~ mv -f .deps/pick.Tpo .deps/pick.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT sequence-view.o -MD -MP -MF .deps/sequence-view.Tpo -c -o sequence-view.o sequence-view.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from sequence-view.hh:35, from sequence-view.cc:35: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from sequence-view.hh:35, from sequence-view.cc:35: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/rama_plot.Tpo .deps/rama_plot.Po cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT seq-view-interface.o -MD -MP -MF .deps/seq-view-interface.Tpo -c -o seq-view-interface.o seq-view-interface.c mv -f .deps/seq-view-interface.Tpo .deps/seq-view-interface.Po cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT support.o -MD -MP -MF .deps/support.Tpo -c -o support.o support.c mv -f .deps/molecule-class-info-ncs.Tpo .deps/molecule-class-info-ncs.Po cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT support-gtk2-extras.o -MD -MP -MF .deps/support-gtk2-extras.Tpo -c -o support-gtk2-extras.o support-gtk2-extras.c mv -f .deps/support.Tpo .deps/support.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT testing.o -MD -MP -MF .deps/testing.Tpo -c -o testing.o testing.cc mv -f .deps/support-gtk2-extras.Tpo .deps/support-gtk2-extras.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT testing-2.o -MD -MP -MF .deps/testing-2.Tpo -c -o testing-2.o testing-2.cc mv -f .deps/sdf-interface.Tpo .deps/sdf-interface.Po cc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -Wall -Wunused -MT trackball.o -MD -MP -MF .deps/trackball.Tpo -c -o trackball.o trackball.c mv -f .deps/trackball.Tpo .deps/trackball.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT user-mods.o -MD -MP -MF .deps/user-mods.Tpo -c -o user-mods.o user-mods.cc In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from user-mods.cc:20: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from user-mods.cc:20: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ user-mods.cc: In member function 'void coot::flips_container::parse_set_or_single(const string&)': user-mods.cc:87:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error score_err) { ^~~~~~~~~ user-mods.cc:91:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ user-mods.cc: In member function 'void coot::flips_container::parse_no_adj(const string&)': user-mods.cc:132:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from testing.cc:67: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from testing.cc:67: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/testing-2.Tpo .deps/testing-2.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT xmap-utils.o -MD -MP -MF .deps/xmap-utils.Tpo -c -o xmap-utils.o xmap-utils.cc mv -f .deps/user-mods.Tpo .deps/user-mods.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT view.o -MD -MP -MF .deps/view.Tpo -c -o view.o view.cc mv -f .deps/sequence-view.Tpo .deps/sequence-view.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT density-score-by-residue-src.o -MD -MP -MF .deps/density-score-by-residue-src.Tpo -c -o density-score-by-residue-src.o density-score-by-residue-src.cc mv -f .deps/xmap-utils.Tpo .deps/xmap-utils.Po c++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.9.1\" -DPACKAGE_STRING=\"coot\ 0.8.9.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.9.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GNOME_CANVAS -I/usr/local/include/libgnomecanvas-2.0 -I/usr/local/include/libart-2.0 -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -I/usr/local/include/gail-1.0 -D_THREAD_SAFE -D_THREAD_SAFE -pthread -DCOOT_USE_GTK2_INTERFACE -I/usr/local/include/gtkglext-1.0 -I/usr/local/lib/gtkglext-1.0/include -I/usr/local/include -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -D_THREAD_SAFE -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include/gtk-2.0 -I/usr/local/include/pango-1.0 -I/usr/local/include/glib-2.0 -I/usr/local/lib/glib-2.0/include -I/usr/local/include -I/usr/local/include/fribidi -I/usr/local/include/cairo -I/usr/local/include/pixman-1 -I/usr/local/include/freetype2 -I/usr/local/include/libdrm -I/usr/local/include/libpng16 -I/usr/local/include/harfbuzz -I/usr/local/include/gdk-pixbuf-2.0 -I/usr/local/include/atk-1.0 -D_THREAD_SAFE -pthread -I/usr/local/include -DHAVE_SSMLIB -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -I/usr/local/include -I/usr/local/include -DUSE_SQLITE3 -I/usr/local/include -I/usr/local/include -isystem /usr/local/include -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -MT dynarama-main.o -MD -MP -MF .deps/dynarama-main.Tpo -c -o dynarama-main.o dynarama-main.cc testing.cc: In function 'int test_phi_psi_values()': testing.cc:266:32: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ testing.cc: In function 'int run_internal_tests(std::vector > >)': testing.cc:340:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error mess) { ^~~~ testing.cc: In function 'int test_coot_atom_tree()': testing.cc:1651:30: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ testing.cc:1668:30: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ testing.cc:1709:33: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ testing.cc: In function 'int test_geometry_distortion_info_type()': testing.cc:2410:29: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ testing.cc:2419:32: warning: catching polymorphic type 'class std::runtime_error' by value [-Wcatch-value=] catch (std::runtime_error rte) { ^~~ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from dynarama-main.cc:523: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from dynarama-main.cc:523: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:89, from graphics-info.h:37, from view.cc:27: /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:59:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:60:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:61:8: warning: unnecessary parentheses in declaration of '__gtk_reserved3' [-Wparentheses] void (*__gtk_reserved3); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:62:8: warning: unnecessary parentheses in declaration of '__gtk_reserved4' [-Wparentheses] void (*__gtk_reserved4); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:63:8: warning: unnecessary parentheses in declaration of '__gtk_reserved5' [-Wparentheses] void (*__gtk_reserved5); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:64:8: warning: unnecessary parentheses in declaration of '__gtk_reserved6' [-Wparentheses] void (*__gtk_reserved6); ^ /usr/local/include/gtk-2.0/gtk/gtkfilechooserbutton.h:65:8: warning: unnecessary parentheses in declaration of '__gtk_reserved7' [-Wparentheses] void (*__gtk_reserved7); ^ In file included from /usr/local/include/gtk-2.0/gtk/gtk.h:173, from graphics-info.h:37, from view.cc:27: /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:76:8: warning: unnecessary parentheses in declaration of '__gtk_reserved1' [-Wparentheses] void (*__gtk_reserved1); ^ /usr/local/include/gtk-2.0/gtk/gtkstatusicon.h:77:8: warning: unnecessary parentheses in declaration of '__gtk_reserved2' [-Wparentheses] void (*__gtk_reserved2); ^ mv -f .deps/dynarama-main.Tpo .deps/dynarama-main.Po /bin/sh ../libtool --tag=CXX --mode=link c++ -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o coot-fix-nomenclature-errors fix-nomenclature.o coot-nomenclature.o ../ligand/libcoot-ligand.la ../db-main/libcoot-db-main.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-shelx.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -L/usr/local/lib -lgsl -lgslcblas -lm -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 libtool: link: c++ -DPKGDATADIR=\"/usr/local/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/local/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/local/lib/python2.7/site-packages/coot\" -DDATADIR=\"/usr/local/share\" -DCOOT_SYS_BUILD_TYPE=\"DragonFly-unknown-gtk2\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -o .libs/coot-fix-nomenclature-errors fix-nomenclature.o coot-nomenclature.o -L/usr/local/lib/gcc5 -L/usr/local/lib ../ligand/.libs/libcoot-ligand.so /construction/science/coot/coot-0.8.9.1/ideal/.libs/libcoot-ideal.so /construction/science/coot/coot-0.8.9.1/db-main/.libs/libcoot-db-main.so /construction/science/coot/coot-0.8.9.1/ccp4mg-utils/.libs/libccp4mg-utils.so /construction/science/coot/coot-0.8.9.1/analysis/.libs/libcoot-analysis.so ../db-main/.libs/libcoot-db-main.so ../ideal/.libs/libcoot-ideal.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-heavy.so /construction/science/coot/coot-0.8.9.1/coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-shelx.so /construction/science/coot/coot-0.8.9.1/lidia-core/.libs/libcoot-lidia-core.so ../ccp4mg-utils/.libs/libccp4mg-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-shelx.so ../lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lm -lpng -lsqlite3 -lgsl -lgslcblas -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -Wl,-rpath -Wl,/usr/local/lib /bin/sh ../libtool --tag=CXX --mode=link c++ -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o dynarama-bin dynarama-main.o rama_plot.o rama_mousey.o ../coords/libcoot-coords.la ../utils/libcoot-utils.la ../coot-utils/libcoot-coord-utils.la ../coot-surface/libcoot-surface.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype mv -f .deps/restraints-editor.Tpo .deps/restraints-editor.Po libtool: link: c++ -DPKGDATADIR=\"/usr/local/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/local/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/local/lib/python2.7/site-packages/coot\" -DDATADIR=\"/usr/local/share\" -DCOOT_SYS_BUILD_TYPE=\"DragonFly-unknown-gtk2\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -o .libs/dynarama-bin dynarama-main.o rama_plot.o rama_mousey.o -L/usr/local/lib/gcc5 -L/usr/local/lib ../coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-shelx.so /construction/science/coot/coot-0.8.9.1/lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so ../coot-surface/.libs/libcoot-surface.so /construction/science/coot/coot-0.8.9.1/surface/.libs/libcoot-electrostatics.so /usr/local/lib/libsrfftw.so /usr/local/lib/libsfftw.so -lsqlite3 -lgsl -lgslcblas -lglut -lXmu -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -lGL -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -Wl,-rpath -Wl,/usr/local/lib mv -f .deps/density-score-by-residue-src.Tpo .deps/density-score-by-residue-src.Po /bin/sh ../libtool --tag=CXX --mode=link c++ -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o coot-density-score-by-residue-bin density-score-by-residue-src.o ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lgsl -lgslcblas -lm libtool: link: c++ -DPKGDATADIR=\"/usr/local/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/local/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/local/lib/python2.7/site-packages/coot\" -DDATADIR=\"/usr/local/share\" -DCOOT_SYS_BUILD_TYPE=\"DragonFly-unknown-gtk2\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -o .libs/coot-density-score-by-residue-bin density-score-by-residue-src.o -L/usr/local/lib/gcc5 -L/usr/local/lib ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-shelx.so /construction/science/coot/coot-0.8.9.1/lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-shelx.so ../lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lm -lsqlite3 -lgsl -lgslcblas -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -Wl,-rpath -Wl,/usr/local/lib mv -f .deps/view.Tpo .deps/view.Po mv -f .deps/testing.Tpo .deps/testing.Po /bin/sh ../libtool --tag=CXX --mode=link c++ -DPKGDATADIR='"/usr/local/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/local/share/coot/locale"' -DPKGPYTHONDIR='"/usr/local/lib/python2.7/site-packages/coot"' -DDATADIR='"/usr/local/share"' -DCOOT_SYS_BUILD_TYPE='"DragonFly-unknown-gtk2"' -DCOOT_BUILD_INFO_STRING='""' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o coot-bin main.o boot-python.o atom-overlaps.o git-revision-count.o scm-boot-guile.o c-interface-analysis.o c-interface-bonds.o c-interface-build.o c-interface-build-morph.o c-interface-build-main-chain.o c-interface-build-side-chain.o c-interface-build-symmetry.o c-interface-build-gui.o c-interface-database.o c-interface-gui.o c-interface-gtk2.o c-interface-info.o c-interface-kk.o c-interface-ligands.o c-interface-ligands-gui.o c-interface-maps.o c-interface-mmdb.o c-interface-mogul.o c-interface-mogul-scripting.o c-interface-mutate.o c-interface-ncs.o c-interface-network.o c-interface-nucleotides.o c-interface-python.o c-interface-pisa.o c-interface-pisa-gui.o c-interface-preferences.o c-interface-refine.o c-interface-residues.o c-interface-refmac.o c-interface-scm.o c-interface-sequence.o c-interface-sfs.o c-interface-sharpen.o c-interface-superpose.o c-interface-validate.o c-interface-view.o c-interface-widgets.o c-interface-waters.o c-interface-waters-gui.o c-interface.o c-interface-test.o cc-interface-alignment.o cc-interface-png.o cc-interface-user-defined-atom-colours.o callbacks.o cfc.o change-dir.o cmtz-interface.o command-line.o command-line-extern.o coot-colour.o coot-align.o coot-nomenclature.o coot-glue-gtk2.o coot-glue-gtk2-python.o coot-hydrogens.o coot_pythonmodule.o coot-setup-python.o coot_wrap_guile.o drag-and-drop.o draw-generic-display-objects.o flev.o generic-objects.o geometry-graphs.o get-residue.o get-monomer.o globjects.o globularize.o graphics-info.o graphics-info-defines.o graphics-info-graphs.o graphics-info-gui.o graphics-info-modelling.o graphics-info-navigation.o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk2.o graphics-info-preferences.o graphics-info-network.o graphics-info-mutate.o graphics-info-lsq.o graphics-info-pick.o graphics-info-refmac.o graphics-info-render.o graphics-info-residues.o graphics-info-scripting.o graphics-info-state.o graphics-info-superpose.o graphics-ligand-view.o gl-matrix.o gtk-manual.o gtk-widget-conversion-utils.o gtk2-interface.o interface.o lbg-callbacks-outer.o lbg-interface.o molecule-class-info.o molecule-class-info-alignment.o molecule-class-info-bonds.o molecule-class-info-maps.o molecule-class-info-maps-2.o molecule-class-info-kdc.o molecule-class-info-dots.o molecule-class-info-dots-internal.o molecule-class-info-other.o molecule-class-info-build.o molecule-class-info-mutate.o molecule-class-info-residues.o molecule-class-info-refine.o molecule-class-info-kk.o molecule-class-info-surface.o molecule-class-info-patterson.o molecule-class-info-ncs.o molecule-class-info-widget-work.o nsv.o pick.o probe-clash-score.o protein_db-interface.o read-phs.o read-cif.o rama_mousey.o rama_plot.o restraints-editor.o sdf-interface.o sequence-view.o seq-view-interface.o support.o support-gtk2-extras.o testing.o testing-2.o trackball.o user-mods.o xmap-utils.o view.o ../lbg/libcoot-lidia.la ../pli/libcoot-pli.la ../ligand/libcoot-ligand.la ../lidia-core/libcoot-lidia-core.la ../goograph/libcoot-goograph.la ../libgtkgraph/libcoot-gtkgraph.la ../density-contour/libcoot-isosurface.la ../build/libcoot-cabuild.la ../skeleton/libcoot-skeleton.la ../angles/libcoot-AngleInfo.la ../db-main/libcoot-db-main.la ../high-res/libcoot-high-res.la ../ideal/libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-surface/libcoot-surface.la ../surface/libcoot-electrostatics.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../protein_db/libcoot-protein-db.la ../cootilus/libcootilus.la ../cootaneer/libcootaneer.la ../compat/libcoot-compat.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lssm -lmmdb2 -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lgtkglext-x11-1.0 -lgdkglext-x11-1.0 -lGLU -lGL -lpangox-1.0 -R/usr/local/lib -lX11 -Wl,--export-dynamic -lgmodule-2.0 -pthread -lglib-2.0 -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -lglut -lXmu -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -L/usr/local/lib -lgnomecanvas-2 -lart_lgpl_2 -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -L/usr/local/lib -lgsl -lgslcblas -lm -L/usr/local/lib -lcurl -L/lib64 -L/usr/local/lib -lsqlite3 -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype libtool: link: c++ -DPKGDATADIR=\"/usr/local/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/local/share/coot/locale\" -DPKGPYTHONDIR=\"/usr/local/lib/python2.7/site-packages/coot\" -DDATADIR=\"/usr/local/share\" -DCOOT_SYS_BUILD_TYPE=\"DragonFly-unknown-gtk2\" -DCOOT_BUILD_INFO_STRING=\"\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -o .libs/coot-bin main.o boot-python.o atom-overlaps.o git-revision-count.o scm-boot-guile.o c-interface-analysis.o c-interface-bonds.o c-interface-build.o c-interface-build-morph.o c-interface-build-main-chain.o c-interface-build-side-chain.o c-interface-build-symmetry.o c-interface-build-gui.o c-interface-database.o c-interface-gui.o c-interface-gtk2.o c-interface-info.o c-interface-kk.o c-interface-ligands.o c-interface-ligands-gui.o c-interface-maps.o c-interface-mmdb.o c-interface-mogul.o c-interface-mogul-scripting.o c-interface-mutate.o c-interface-ncs.o c-interface-network.o c-interface-nucleotides.o c-interface-python.o c-interface-pisa.o c-interface-pisa-gui.o c-interface-preferences.o c-interface-refine.o c-interface-residues.o c-interface-refmac.o c-interface-scm.o c-interface-sequence.o c-interface-sfs.o c-interface-sharpen.o c-interface-superpose.o c-interface-validate.o c-interface-view.o c-interface-widgets.o c-interface-waters.o c-interface-waters-gui.o c-interface.o c-interface-test.o cc-interface-alignment.o cc-interface-png.o cc-interface-user-defined-atom-colours.o callbacks.o cfc.o change-dir.o cmtz-interface.o command-line.o command-line-extern.o coot-colour.o coot-align.o coot-nomenclature.o coot-glue-gtk2.o coot-glue-gtk2-python.o coot-hydrogens.o coot_pythonmodule.o coot-setup-python.o coot_wrap_guile.o drag-and-drop.o draw-generic-display-objects.o flev.o generic-objects.o geometry-graphs.o get-residue.o get-monomer.o globjects.o globularize.o graphics-info.o graphics-info-defines.o graphics-info-graphs.o graphics-info-gui.o graphics-info-modelling.o graphics-info-navigation.o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk2.o graphics-info-preferences.o graphics-info-network.o graphics-info-mutate.o graphics-info-lsq.o graphics-info-pick.o graphics-info-refmac.o graphics-info-render.o graphics-info-residues.o graphics-info-scripting.o graphics-info-state.o graphics-info-superpose.o graphics-ligand-view.o gl-matrix.o gtk-manual.o gtk-widget-conversion-utils.o gtk2-interface.o interface.o lbg-callbacks-outer.o lbg-interface.o molecule-class-info.o molecule-class-info-alignment.o molecule-class-info-bonds.o molecule-class-info-maps.o molecule-class-info-maps-2.o molecule-class-info-kdc.o molecule-class-info-dots.o molecule-class-info-dots-internal.o molecule-class-info-other.o molecule-class-info-build.o molecule-class-info-mutate.o molecule-class-info-residues.o molecule-class-info-refine.o molecule-class-info-kk.o molecule-class-info-surface.o molecule-class-info-patterson.o molecule-class-info-ncs.o molecule-class-info-widget-work.o nsv.o pick.o probe-clash-score.o protein_db-interface.o read-phs.o read-cif.o rama_mousey.o rama_plot.o restraints-editor.o sdf-interface.o sequence-view.o seq-view-interface.o support.o support-gtk2-extras.o testing.o testing-2.o trackball.o user-mods.o xmap-utils.o view.o -Wl,--export-dynamic -pthread -L/usr/local/lib/gcc5 -L/usr/local/lib ../lbg/.libs/libcoot-lidia.so -L/lib64 ../pli/.libs/libcoot-pli.so ../ligand/.libs/libcoot-ligand.so ../lidia-core/.libs/libcoot-lidia-core.so ../goograph/.libs/libcoot-goograph.so ../libgtkgraph/.libs/libcoot-gtkgraph.so ../density-contour/.libs/libcoot-isosurface.so ../build/.libs/libcoot-cabuild.so ../skeleton/.libs/libcoot-skeleton.so /construction/science/coot/coot-0.8.9.1/angles/.libs/libcoot-AngleInfo.so ../angles/.libs/libcoot-AngleInfo.so ../db-main/.libs/libcoot-db-main.so ../high-res/.libs/libcoot-high-res.so /construction/science/coot/coot-0.8.9.1/ligand/.libs/libcoot-ligand.so /construction/science/coot/coot-0.8.9.1/ideal/.libs/libcoot-ideal.so /construction/science/coot/coot-0.8.9.1/db-main/.libs/libcoot-db-main.so /construction/science/coot/coot-0.8.9.1/ccp4mg-utils/.libs/libccp4mg-utils.so /construction/science/coot/coot-0.8.9.1/analysis/.libs/libcoot-analysis.so ../ideal/.libs/libcoot-ideal.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-heavy.so /construction/science/coot/coot-0.8.9.1/coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-extras.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-shelx.so /construction/science/coot/coot-0.8.9.1/lidia-core/.libs/libcoot-lidia-core.so ../coot-surface/.libs/libcoot-surface.so /construction/science/coot/coot-0.8.9.1/surface/.libs/libcoot-electrostatics.so ../surface/.libs/libcoot-electrostatics.so /usr/local/lib/libsrfftw.so /usr/local/lib/libsfftw.so ../ccp4mg-utils/.libs/libccp4mg-utils.so ../coot-utils/.libs/libcoot-map-heavy.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-shelx.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so ../protein_db/.libs/libcoot-protein-db.so ../cootilus/.libs/libcootilus.so ../cootaneer/.libs/libcootaneer.so ../compat/.libs/libcoot-compat.so -lssm -lgtkglext-x11-1.0 -lgdkglext-x11-1.0 -lGLU -lpangox-1.0 -lX11 -lgmodule-2.0 /usr/local/lib/libgnomecanvas-2.so -lart_lgpl_2 -lm -lcurl -lsqlite3 -lglut -lXmu -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -lGL -lpng -lgsl -lgslcblas -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -pthread -Wl,-rpath -Wl,/usr/local/lib gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/src' Making all in data gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/data' Making all in rama-coeffs gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/data/rama-coeffs' gmake[3]: Nothing to be done for 'all'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data/rama-coeffs' Making all in cho-models gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/data/cho-models' gmake[3]: Nothing to be done for 'all'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data/cho-models' Making all in cho-acedrg gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/data/cho-acedrg' gmake[3]: Nothing to be done for 'all'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data/cho-acedrg' gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/data' gmake[3]: Nothing to be done for 'all-am'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data' gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data' Making all in man gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/man' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/man' Making all in rama-data gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/rama-data' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/rama-data' Making all in doc gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/doc' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/doc' Making all in rcrane gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/rcrane' gmake[2]: Nothing to be done for 'all'. gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/rcrane' Making all in pixmaps gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1/pixmaps' Making all in icons gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/pixmaps/icons' gmake[3]: Nothing to be done for 'all'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pixmaps/icons' gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/pixmaps' gmake[3]: Nothing to be done for 'all-am'. gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pixmaps' gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pixmaps' gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1' sed -e 's/#GTK2 //' ./cootrc.template > cootrc gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1' gmake[1]: Leaving directory '/construction/science/coot/coot-0.8.9.1' -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- ===> coot-0.8.9.1_2 depends on executable: bash - not found ===> Installing existing package /packages/All/bash-5.0.2.txz Installing bash-5.0.2... Extracting bash-5.0.2: .......... done ===> coot-0.8.9.1_2 depends on executable: bash - found ===> Returning to build of coot-0.8.9.1_2 ===> coot-0.8.9.1_2 depends on executable: update-desktop-database - found ===> coot-0.8.9.1_2 depends on executable: gfortran5 - found ===> coot-0.8.9.1_2 depends on executable: gtk-update-icon-cache - found ===> coot-0.8.9.1_2 depends on file: /usr/local/bin/python2.7 - found ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/ice.pc - found ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/sm.pc - found ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - found ===> coot-0.8.9.1_2 depends on file: /usr/local/libdata/pkgconfig/xt.pc - found -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for coot-0.8.9.1_2 ===> Generating temporary packing list gmake[1]: Entering directory '/construction/science/coot/coot-0.8.9.1' gmake INSTALL_PROGRAM="/bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s" \ install_sh_PROGRAM="/bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s" INSTALL_STRIP_FLAG=-s \ `test -z 'strip' || \ echo "INSTALL_PROGRAM_ENV=STRIPPROG='strip'"` install gmake[2]: Entering directory '/construction/science/coot/coot-0.8.9.1' Making install in auxil gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil' Making install in catcheck gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/catcheck' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/catcheck' gmake[5]: Nothing to be done for 'install-exec-am'. gmake[5]: Nothing to be done for 'install-data-am'. gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/catcheck' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/catcheck' Making install in rama gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/rama' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/rama' gmake[5]: Nothing to be done for 'install-exec-am'. gmake[5]: Nothing to be done for 'install-data-am'. gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/rama' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/rama' Making install in sec-str gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/sec-str' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/sec-str' gmake[5]: Nothing to be done for 'install-exec-am'. gmake[5]: Nothing to be done for 'install-data-am'. gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/sec-str' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/sec-str' Making install in strand-analysis gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/strand-analysis' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/strand-analysis' gmake[5]: Nothing to be done for 'install-exec-am'. gmake[5]: Nothing to be done for 'install-data-am'. gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/strand-analysis' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/strand-analysis' Making install in vectors gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/vectors' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil/vectors' gmake[5]: Nothing to be done for 'install-exec-am'. gmake[5]: Nothing to be done for 'install-data-am'. gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/vectors' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil/vectors' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/auxil' gmake[5]: Nothing to be done for 'install-exec-am'. gmake[5]: Nothing to be done for 'install-data-am'. gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/auxil' Making install in scheme gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/scheme' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/scheme' gmake[4]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/share/coot/scheme" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/scheme" install -m 0644 0-auto-rot.scm coot-utils.scm get-ebi.scm mutate.scm background-demo.scm demo-script.scm gtkin.scm my-readline.scm bit.scm extra-top-level.scm hello.scm raster3d.scm brute-lsqman.scm file-utils.scm junk.scm refmac.scm coot-gui.scm filter.scm libcheck.scm simple.scm coot.scm get-ebi.save.scm local-code.scm trivial.scm gap.scm remote-control.scm povray.scm coot-lsq.scm shelx.scm group-settings.scm fitting.scm americanisms.scm tips.scm tips-gui.scm generic-objects.scm cns2coot.scm extensions.scm ncs.scm create-server.scsh coot-crash-catcher.scm '/construction/science/coot/stage/usr/local/share/coot/scheme' install -m 0644 snarf-coot-docs.scm clear-backup.scm bones-reader.scm matrices.scm fascinating-things.scm shelx-extensions.scm parse-pisa-xml.scm check-for-updates.scm 3d-generator-import.scm gui-hole.scm gui-prosmart.scm get-recent-pdbe.scm json-reader.scm jligand.scm jligand-gui.scm redefine-functions.scm user-define-restraints.scm template-key-bindings.scm gui-add-linked-cho.scm ligand-check.scm run-mogul.scm contact-score-isolated-ligand.scm enhanced-ligand.scm gui-ligand-sliders.scm dictionary-generators.scm cho-restraints-from-models.scm interactive-nudge-residues.scm acedrg-link.scm '/construction/science/coot/stage/usr/local/share/coot/scheme' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/scheme' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/scheme' Making install in python gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/python' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/python' gmake[4]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/lib/python2.7/site-packages/coot" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/coot" install -m 0644 coot_utils.py get_ebi.py mutate.py background_demo.py hello.py raster3d.py brute_lsqman.py refmac.py coot_gui.py filter.py libcheck.py coot_load_modules.py local_code.py gap.py remote_control.py povray.py coot_lsq.py shelx.py group_settings.py fitting.py americanisms.py tips.py tips_gui.py generic_objects.py cns2coot.py extensions.py ncs.py create_server.py python_coot_docs.py clear_backup.py bones_reader.py shelx_extensions.py parse_pisa_xml.py check_for_updates.py 3d_generator_import.py gui_hole.py gui_prosmart.py get_recent_pdbe.py jligand.py jligand_gui.py '/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/coot' install -m 0644 redefine_functions.py user_define_restraints.py template_key_bindings.py gui_add_linked_cho.py ligand_check.py run_mogul.py contact_score_isolated_ligand.py gui_contact_score_isolated_ligand.py enhanced_ligand.py gui_ligand_sliders.py dictionary_generators.py cho_restraints_from_models.py interactive_nudge_residues.py acedrg_link.py coot_toolbuttons.py rcrane_loader.py pdbe_validation_data.py ligand_validation_sliders.py chemical_feature_clusters.py res_spec_utils.py '/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/coot' Byte-compiling python modules... coot_utils.pyget_ebi.pymutate.pybackground_demo.pyhello.pyraster3d.pybrute_lsqman.pyrefmac.pycoot_gui.pyfilter.pylibcheck.pycoot_load_modules.pylocal_code.pygap.pyremote_control.pypovray.pycoot_lsq.pyshelx.pygroup_settings.pyfitting.pyamericanisms.pytips.pytips_gui.pygeneric_objects.pycns2coot.pyextensions.pyncs.pycreate_server.pypython_coot_docs.pyclear_backup.pybones_reader.pyshelx_extensions.pyparse_pisa_xml.pycheck_for_updates.py3d_generator_import.pygui_hole.pygui_prosmart.pyget_recent_pdbe.pyjligand.pyjligand_gui.pyredefine_functions.pyuser_define_restraints.pytemplate_key_bindings.pygui_add_linked_cho.pyligand_check.pyrun_mogul.pycontact_score_isolated_ligand.pygui_contact_score_isolated_ligand.pyenhanced_ligand.pygui_ligand_sliders.pydictionary_generators.pycho_restraints_from_models.pyinteractive_nudge_residues.pyacedrg_link.pycoot_toolbuttons.pyrcrane_loader.pypdbe_validation_data.pyligand_validation_sliders.pychemical_feature_clusters.pyres_spec_utils.py Byte-compiling python modules (optimized versions) ... coot_utils.pyget_ebi.pymutate.pybackground_demo.pyhello.pyraster3d.pybrute_lsqman.pyrefmac.pycoot_gui.pyfilter.pylibcheck.pycoot_load_modules.pylocal_code.pygap.pyremote_control.pypovray.pycoot_lsq.pyshelx.pygroup_settings.pyfitting.pyamericanisms.pytips.pytips_gui.pygeneric_objects.pycns2coot.pyextensions.pyncs.pycreate_server.pypython_coot_docs.pyclear_backup.pybones_reader.pyshelx_extensions.pyparse_pisa_xml.pycheck_for_updates.py3d_generator_import.pygui_hole.pygui_prosmart.pyget_recent_pdbe.pyjligand.pyjligand_gui.pyredefine_functions.pyuser_define_restraints.pytemplate_key_bindings.pygui_add_linked_cho.pyligand_check.pyrun_mogul.pycontact_score_isolated_ligand.pygui_contact_score_isolated_ligand.pyenhanced_ligand.pygui_ligand_sliders.pydictionary_generators.pycho_restraints_from_models.pyinteractive_nudge_residues.pyacedrg_link.pycoot_toolbuttons.pyrcrane_loader.pypdbe_validation_data.pyligand_validation_sliders.pychemical_feature_clusters.pyres_spec_utils.py gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/python' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/python' Making install in pdb-templates gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/pdb-templates' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/pdb-templates' gmake[4]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/share/coot" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot" install -m 0644 ASN-NAG-via-NAG-ASN.pdb pyranose-pyranose-via-BETA1-4.pdb pyranose-pyranose-via-ALPHA1-2.pdb pyranose-pyranose-via-ALPHA1-3.pdb pyranose-pyranose-via-ALPHA1-6.pdb SIA-pyranose-via-ALPHA2-3.pdb link-by-torsion-to-pyranose-core-ALPHA1-2.tab link-by-torsion-to-pyranose-core-ALPHA1-3.tab link-by-torsion-to-FUC-core-ALPHA1-3.tab link-by-torsion-to-FUC-core-ALPHA1-2.tab link-by-torsion-to-FUC-core-ALPHA1-6.tab link-by-torsion-to-pyranose-core-ALPHA1-6.tab link-by-torsion-to-pyranose-core-ALPHA2-3.tab link-by-torsion-to-pyranose-core-BETA1-2.tab link-by-torsion-to-pyranose-core-BETA1-3.tab link-by-torsion-to-pyranose-core-BETA1-4.tab link-by-torsion-to-pyranose-core-BETA1-6.tab link-by-torsion-to-pyranose-core-NAG-ASN.tab link-by-torsion-to-pyranose-core-XYP-BMA.tab NAG-decorations.tab BMA-decorations.tab MAN-decorations.tab GLC-decorations.tab GAL-decorations.tab FUC-decorations.tab FUL-decorations.tab XYP-decorations.tab theor-helix-70.pdb '/construction/science/coot/stage/usr/local/share/coot' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pdb-templates' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pdb-templates' Making install in macros gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/macros' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/macros' gmake[4]: Nothing to be done for 'install-exec-am'. gmake[4]: Nothing to be done for 'install-data-am'. gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/macros' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/macros' Making install in compat gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/compat' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/compat' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-compat.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libcoot-compat.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libcoot-compat.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-compat.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-compat.so.0.0.0 libcoot-compat.so.0 || { rm -f libcoot-compat.so.0 && ln -s libcoot-compat.so.0.0.0 libcoot-compat.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-compat.so.0.0.0 libcoot-compat.so || { rm -f libcoot-compat.so && ln -s libcoot-compat.so.0.0.0 libcoot-compat.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-compat.lai /construction/science/coot/stage/usr/local/lib/libcoot-compat.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/compat" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/compat" install -m 0644 coot-getopt.h '/construction/science/coot/stage/usr/local/include/coot/compat' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/compat' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/compat' Making install in utils gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/utils' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/utils' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-utils.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libcoot-utils.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libcoot-utils.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-utils.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-utils.so.0.0.0 libcoot-utils.so.0 || { rm -f libcoot-utils.so.0 && ln -s libcoot-utils.so.0.0.0 libcoot-utils.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-utils.so.0.0.0 libcoot-utils.so || { rm -f libcoot-utils.so && ln -s libcoot-utils.so.0.0.0 libcoot-utils.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-utils.lai /construction/science/coot/stage/usr/local/lib/libcoot-utils.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/utils" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/utils" install -m 0644 coot-utils.hh coot-fasta.hh dodec.hh win-compat.hh ctpl_stl.h pir-alignment.hh '/construction/science/coot/stage/usr/local/include/coot/utils' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/utils' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/utils' Making install in protein_db gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/protein_db' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/protein_db' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-protein-db.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libcoot-protein-db.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libcoot-protein-db.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-protein-db.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-protein-db.so.0.0.0 libcoot-protein-db.so.0 || { rm -f libcoot-protein-db.so.0 && ln -s libcoot-protein-db.so.0.0.0 libcoot-protein-db.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-protein-db.so.0.0.0 libcoot-protein-db.so || { rm -f libcoot-protein-db.so && ln -s libcoot-protein-db.so.0.0.0 libcoot-protein-db.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-protein-db.lai /construction/science/coot/stage/usr/local/lib/libcoot-protein-db.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/protein_db" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/protein_db" install -m 0644 protein_db.h protein_db_utils.h rna_db.h '/construction/science/coot/stage/usr/local/include/coot/protein_db' test -z "/usr/local/share/coot/protein_db" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/protein_db" install -m 0644 protein.db '/construction/science/coot/stage/usr/local/share/coot/protein_db' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/protein_db' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/protein_db' Making install in mini-mol gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/mini-mol' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/mini-mol' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-mini-mol.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-mini-mol.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/mini-mol; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-mini-mol.la -rpath /usr/local/lib mini-mol.lo mini-mol-utils.lo atom-quads.lo ../utils/libcoot-utils.la -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/mini-mol.o .libs/mini-mol-utils.o .libs/atom-quads.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-mini-mol.so.0 -o .libs/libcoot-mini-mol.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-mini-mol.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-mini-mol.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-mini-mol.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-mini-mol.so.0.0.0 libcoot-mini-mol.so.0 || { rm -f libcoot-mini-mol.so.0 && ln -s libcoot-mini-mol.so.0.0.0 libcoot-mini-mol.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-mini-mol.so.0.0.0 libcoot-mini-mol.so || { rm -f libcoot-mini-mol.so && ln -s libcoot-mini-mol.so.0.0.0 libcoot-mini-mol.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-mini-mol.lai /construction/science/coot/stage/usr/local/lib/libcoot-mini-mol.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/mini-mol" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/mini-mol" install -m 0644 mini-mol.hh mini-mol-utils.hh atom-quads.hh '/construction/science/coot/stage/usr/local/include/coot/mini-mol' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/mini-mol' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/mini-mol' Making install in geometry gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/geometry' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/geometry' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-geometry.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-geometry.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/geometry; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DDATADIR=\"/usr/local/share\" -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-geometry.la -rpath /usr/local/lib protein-geometry.lo protein-geometry-mmdb.lo read-sbase.lo energy-lib.lo chem_mods.lo srs-interface.lo protein-donor-acceptors.lo lbg-graph.lo dreiding.lo dict-utils.lo cif-parse.lo main-chain.lo residue-and-atom-specs.lo mol-utils-2.lo ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/protein-geometry.o .libs/protein-geometry-mmdb.o .libs/read-sbase.o .libs/energy-lib.o .libs/chem_mods.o .libs/srs-interface.o .libs/protein-donor-acceptors.o .libs/lbg-graph.o .libs/dreiding.o .libs/dict-utils.o .libs/cif-parse.o .libs/main-chain.o .libs/residue-and-atom-specs.o .libs/mol-utils-2.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-geometry.so.0 -o .libs/libcoot-geometry.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-geometry.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-geometry.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-geometry.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-geometry.so.0.0.0 libcoot-geometry.so.0 || { rm -f libcoot-geometry.so.0 && ln -s libcoot-geometry.so.0.0.0 libcoot-geometry.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-geometry.so.0.0.0 libcoot-geometry.so || { rm -f libcoot-geometry.so && ln -s libcoot-geometry.so.0.0.0 libcoot-geometry.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-geometry.lai /construction/science/coot/stage/usr/local/lib/libcoot-geometry.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" STRIPPROG='strip' /bin/sh ../libtool --mode=install /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s coot-compare-dictionaries coot-make-shelx-restraints coot-available-comp-id '/construction/science/coot/stage/usr/local/bin' libtool: install: warning: `./libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/coot-compare-dictionaries /construction/science/coot/stage/usr/local/bin/coot-compare-dictionaries libtool: install: warning: `./libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/coot-make-shelx-restraints /construction/science/coot/stage/usr/local/bin/coot-make-shelx-restraints libtool: install: warning: `./libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/coot-available-comp-id /construction/science/coot/stage/usr/local/bin/coot-available-comp-id test -z "/usr/local/include/coot/geometry" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/geometry" install -m 0644 protein-geometry.hh read-sbase.hh lbg-graph.hh srs-interface.hh dict-utils.hh dict-mismatches.hh energy-lib.hh match-results.hh hb-types.hh main-chain.hh residue-and-atom-specs.hh chem_mods.hh mol-utils-2.hh '/construction/science/coot/stage/usr/local/include/coot/geometry' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/geometry' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/geometry' Making install in coot-utils gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/coot-utils' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/coot-utils' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-coord-utils.la libcoot-shelx.la libcoot-coord-extras.la libcoot-map-utils.la libcoot-map-heavy.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-coord-utils.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/coot-utils; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-coord-utils.la -rpath /usr/local/lib coot-coord-utils.lo coot-coord-utils-nucleotides.lo coot-rama.lo coot-h-bonds.lo hole.lo read-sm-cif.lo bonded-pairs.lo helix-analysis.lo elastic.lo glyco-torsions.lo coot-least-squares.lo atom-overlaps.lo reduce.lo secondary-structure-headers.lo plane-utils.lo ../geometry/libcoot-geometry.la -L/usr/local/lib -lgsl -lgslcblas -lm -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/coot-coord-utils.o .libs/coot-coord-utils-nucleotides.o .libs/coot-rama.o .libs/coot-h-bonds.o .libs/hole.o .libs/read-sm-cif.o .libs/bonded-pairs.o .libs/helix-analysis.o .libs/elastic.o .libs/glyco-torsions.o .libs/coot-least-squares.o .libs/atom-overlaps.o .libs/reduce.o .libs/secondary-structure-headers.o .libs/plane-utils.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-coord-utils.so.0 -o .libs/libcoot-coord-utils.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-coord-utils.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-coord-utils.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-coord-utils.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-coord-utils.so.0.0.0 libcoot-coord-utils.so.0 || { rm -f libcoot-coord-utils.so.0 && ln -s libcoot-coord-utils.so.0.0.0 libcoot-coord-utils.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-coord-utils.so.0.0.0 libcoot-coord-utils.so || { rm -f libcoot-coord-utils.so && ln -s libcoot-coord-utils.so.0.0.0 libcoot-coord-utils.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-coord-utils.lai /construction/science/coot/stage/usr/local/lib/libcoot-coord-utils.la libtool: install: warning: relinking `libcoot-shelx.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/coot-utils; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-shelx.la -rpath /usr/local/lib coot-shelx-ins.lo libcoot-coord-utils.la ../utils/libcoot-utils.la -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/coot-shelx-ins.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ./.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas ../utils/.libs/libcoot-utils.so -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-shelx.so.0 -o .libs/libcoot-shelx.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-shelx.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-shelx.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-shelx.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-shelx.so.0.0.0 libcoot-shelx.so.0 || { rm -f libcoot-shelx.so.0 && ln -s libcoot-shelx.so.0.0.0 libcoot-shelx.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-shelx.so.0.0.0 libcoot-shelx.so || { rm -f libcoot-shelx.so && ln -s libcoot-shelx.so.0.0.0 libcoot-shelx.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-shelx.lai /construction/science/coot/stage/usr/local/lib/libcoot-shelx.la libtool: install: warning: relinking `libcoot-coord-extras.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/coot-utils; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-coord-extras.la -rpath /usr/local/lib coot-coord-extras.lo coot-coord-lsq.lo coot-tree-extras.lo water-coordination.lo lsq-improve.lo coot-coord-utils-glyco.lo libcoot-coord-utils.la -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/coot-coord-extras.o .libs/coot-coord-lsq.o .libs/coot-tree-extras.o .libs/water-coordination.o .libs/lsq-improve.o .libs/coot-coord-utils-glyco.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ./.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-coord-extras.so.0 -o .libs/libcoot-coord-extras.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-coord-extras.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-coord-extras.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-coord-extras.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-coord-extras.so.0.0.0 libcoot-coord-extras.so.0 || { rm -f libcoot-coord-extras.so.0 && ln -s libcoot-coord-extras.so.0.0.0 libcoot-coord-extras.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-coord-extras.so.0.0.0 libcoot-coord-extras.so || { rm -f libcoot-coord-extras.so && ln -s libcoot-coord-extras.so.0.0.0 libcoot-coord-extras.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-coord-extras.lai /construction/science/coot/stage/usr/local/lib/libcoot-coord-extras.la libtool: install: warning: relinking `libcoot-map-utils.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/coot-utils; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-map-utils.la -rpath /usr/local/lib coot-map-utils.lo peak-search.lo peak-search-from-list.lo trim.lo xmap-stats.lo maps-spherical.lo libcoot-coord-utils.la -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/coot-map-utils.o .libs/peak-search.o .libs/peak-search-from-list.o .libs/trim.o .libs/xmap-stats.o .libs/maps-spherical.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ./.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-map-utils.so.0 -o .libs/libcoot-map-utils.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-map-utils.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-map-utils.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-map-utils.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-map-utils.so.0.0.0 libcoot-map-utils.so.0 || { rm -f libcoot-map-utils.so.0 && ln -s libcoot-map-utils.so.0.0.0 libcoot-map-utils.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-map-utils.so.0.0.0 libcoot-map-utils.so || { rm -f libcoot-map-utils.so && ln -s libcoot-map-utils.so.0.0.0 libcoot-map-utils.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-map-utils.lai /construction/science/coot/stage/usr/local/lib/libcoot-map-utils.la libtool: install: warning: relinking `libcoot-map-heavy.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/coot-utils; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DHAVE_GSL -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-map-heavy.la -rpath /usr/local/lib coot-map-heavy.lo coot-fffear.lo libcoot-map-utils.la libcoot-coord-utils.la -L/usr/local/lib -lgsl -lgslcblas -lm -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/coot-map-heavy.o .libs/coot-fffear.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ./.libs/libcoot-map-utils.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so ./.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-map-heavy.so.0 -o .libs/libcoot-map-heavy.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-map-heavy.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-map-heavy.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-map-heavy.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-map-heavy.so.0.0.0 libcoot-map-heavy.so.0 || { rm -f libcoot-map-heavy.so.0 && ln -s libcoot-map-heavy.so.0.0.0 libcoot-map-heavy.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-map-heavy.so.0.0.0 libcoot-map-heavy.so || { rm -f libcoot-map-heavy.so && ln -s libcoot-map-heavy.so.0.0.0 libcoot-map-heavy.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-map-heavy.lai /construction/science/coot/stage/usr/local/lib/libcoot-map-heavy.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/coot-utils" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/coot-utils" install -m 0644 peak-search.hh coot-trim.hh coot-coord-utils.hh coot-map-utils.hh coot-coord-extras.hh coot-map-heavy.hh coot-lsq-types.h coot-shelx.hh coot-rama.hh xmap-stats.hh coot-h-bonds.hh lsq-improve.hh coot-hole.hh read-sm-cif.hh bonded-pairs.hh tree.hh helix-analysis.hh elastic.hh emma.hh glyco-torsions.hh coot-least-squares.hh coot-density-stats.hh atom-overlaps.hh reduce.hh secondary-structure-headers.hh plane-utils.hh '/construction/science/coot/stage/usr/local/include/coot/coot-utils' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/coot-utils' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/coot-utils' Making install in surface gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/surface' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/surface' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-electrostatics.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libcoot-electrostatics.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libcoot-electrostatics.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-electrostatics.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-electrostatics.so.0.0.0 libcoot-electrostatics.so.0 || { rm -f libcoot-electrostatics.so.0 && ln -s libcoot-electrostatics.so.0.0.0 libcoot-electrostatics.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-electrostatics.so.0.0.0 libcoot-electrostatics.so || { rm -f libcoot-electrostatics.so && ln -s libcoot-electrostatics.so.0.0.0 libcoot-electrostatics.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-electrostatics.lai /construction/science/coot/stage/usr/local/lib/libcoot-electrostatics.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' gmake[4]: Nothing to be done for 'install-data-am'. gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/surface' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/surface' Making install in coot-surface gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/coot-surface' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/coot-surface' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-surface.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-surface.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/coot-surface; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-surface.la -rpath /usr/local/lib coot-surface.lo rgbreps.lo ../surface/libcoot-electrostatics.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -lglut -lXmu -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -lGL -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/coot-surface.o .libs/rgbreps.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../surface/.libs/libcoot-electrostatics.so /usr/local/lib/libsrfftw.so /usr/local/lib/libsfftw.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lglut -lXmu -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -lGL -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-surface.so.0 -o .libs/libcoot-surface.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-surface.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-surface.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-surface.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-surface.so.0.0.0 libcoot-surface.so.0 || { rm -f libcoot-surface.so.0 && ln -s libcoot-surface.so.0.0.0 libcoot-surface.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-surface.so.0.0.0 libcoot-surface.so || { rm -f libcoot-surface.so && ln -s libcoot-surface.so.0.0.0 libcoot-surface.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-surface.lai /construction/science/coot/stage/usr/local/lib/libcoot-surface.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' gmake[4]: Nothing to be done for 'install-data-am'. gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/coot-surface' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/coot-surface' Making install in lidia-core gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/lidia-core' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/lidia-core' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-lidia-core.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-lidia-core.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/lidia-core; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-lidia-core.la -rpath /usr/local/lib lbg-shared.lo lbg-molfile.lo lig-build.lo rdkit-interface.lo cod-types.lo bond-record-container-t.lo cod-atom-type-t.lo cod-atom-types.lo bond-table-record-t.lo chemical-feature-clusters.lo atom-types.lo ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la -L/usr/local/lib -lsqlite3 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/lbg-shared.o .libs/lbg-molfile.o .libs/lig-build.o .libs/rdkit-interface.o .libs/cod-types.o .libs/bond-record-container-t.o .libs/cod-atom-type-t.o .libs/cod-atom-types.o .libs/bond-table-record-t.o .libs/chemical-feature-clusters.o .libs/atom-types.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas ../utils/.libs/libcoot-utils.so -lsqlite3 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-lidia-core.so.0 -o .libs/libcoot-lidia-core.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-lidia-core.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-lidia-core.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-lidia-core.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-lidia-core.so.0.0.0 libcoot-lidia-core.so.0 || { rm -f libcoot-lidia-core.so.0 && ln -s libcoot-lidia-core.so.0.0.0 libcoot-lidia-core.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-lidia-core.so.0.0.0 libcoot-lidia-core.so || { rm -f libcoot-lidia-core.so && ln -s libcoot-lidia-core.so.0.0.0 libcoot-lidia-core.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-lidia-core.lai /construction/science/coot/stage/usr/local/lib/libcoot-lidia-core.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/lidia-core" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/lidia-core" install -m 0644 lbg-shared.hh lbg-molfile.hh lig-build.hh rdkit-interface.hh use-rdkit.hh cod-types.hh neighbour-sorter.hh bond-record-container-t.hh bond-table-record-t.hh cod-atom-types.hh cod-atom-type-t.hh primes.hh chemical-feature-clusters.hh third-neighbour-info-t.hh '/construction/science/coot/stage/usr/local/include/coot/lidia-core' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/lidia-core' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/lidia-core' Making install in coords gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/coords' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/coords' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-coords.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-coords.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/coords; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DPKGDATADIR=\"/usr/local/share/coot\" -DDATADIR=\"/usr/local/share\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-coords.la -rpath /usr/local/lib Bond_lines.lo Cartesian.lo cos-sin.lo mmdb-extras.lo utils.lo mmdb.lo mmdb-crystal.lo Bond_lines_ext.lo coot-close.lo phenix-geo.lo phenix-geo-bonds.lo ../geometry/libcoot-geometry.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/usr/local/lib -lmmdb2 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/Bond_lines.o .libs/Cartesian.o .libs/cos-sin.o .libs/mmdb-extras.o .libs/utils.o .libs/mmdb.o .libs/mmdb-crystal.o .libs/Bond_lines_ext.o .libs/coot-close.o .libs/phenix-geo.o .libs/phenix-geo-bonds.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-shelx.so ../coot-utils/.libs/libcoot-coord-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lgsl -lgslcblas /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lsqlite3 ../utils/.libs/libcoot-utils.so -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-coords.so.0 -o .libs/libcoot-coords.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-coords.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-coords.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-coords.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-coords.so.0.0.0 libcoot-coords.so.0 || { rm -f libcoot-coords.so.0 && ln -s libcoot-coords.so.0.0.0 libcoot-coords.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-coords.so.0.0.0 libcoot-coords.so || { rm -f libcoot-coords.so && ln -s libcoot-coords.so.0.0.0 libcoot-coords.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-coords.lai /construction/science/coot/stage/usr/local/lib/libcoot-coords.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/coords" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/coords" install -m 0644 Bond_lines.h Cartesian.h cos-sin.h mmdb.h mmdb-extras.h utils.h mmdb-crystal.h Bond_lines_ext.h coot-close.hh phenix-geo.hh ramachandran-container.hh '/construction/science/coot/stage/usr/local/include/coot/coords' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/coords' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/coords' Making install in angles gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/angles' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/angles' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-AngleInfo.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libcoot-AngleInfo.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libcoot-AngleInfo.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-AngleInfo.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-AngleInfo.so.0.0.0 libcoot-AngleInfo.so.0 || { rm -f libcoot-AngleInfo.so.0 && ln -s libcoot-AngleInfo.so.0.0.0 libcoot-AngleInfo.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-AngleInfo.so.0.0.0 libcoot-AngleInfo.so || { rm -f libcoot-AngleInfo.so && ln -s libcoot-AngleInfo.so.0.0.0 libcoot-AngleInfo.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-AngleInfo.lai /construction/science/coot/stage/usr/local/lib/libcoot-AngleInfo.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/angles" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/angles" install -m 0644 AngleInfo.h ncube.h wrapped-ncube.h '/construction/science/coot/stage/usr/local/include/coot/angles' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/angles' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/angles' Making install in skeleton gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/skeleton' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/skeleton' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-skeleton.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-skeleton.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/skeleton; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-skeleton.la -rpath /usr/local/lib dm-utils.lo graphical_skel.lo BuildCas.lo ../angles/libcoot-AngleInfo.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/dm-utils.o .libs/graphical_skel.o .libs/BuildCas.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../angles/.libs/libcoot-AngleInfo.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-shelx.so /construction/science/coot/coot-0.8.9.1/lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so -lgsl -lgslcblas -lsqlite3 /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-skeleton.so.0 -o .libs/libcoot-skeleton.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-skeleton.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-skeleton.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-skeleton.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-skeleton.so.0.0.0 libcoot-skeleton.so.0 || { rm -f libcoot-skeleton.so.0 && ln -s libcoot-skeleton.so.0.0.0 libcoot-skeleton.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-skeleton.so.0.0.0 libcoot-skeleton.so || { rm -f libcoot-skeleton.so && ln -s libcoot-skeleton.so.0.0.0 libcoot-skeleton.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-skeleton.lai /construction/science/coot/stage/usr/local/lib/libcoot-skeleton.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/skeleton" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/skeleton" install -m 0644 graphical_skel.h dm-utils.h BuildCas.h '/construction/science/coot/stage/usr/local/include/coot/skeleton' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/skeleton' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/skeleton' Making install in ccp4mg-utils gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/ccp4mg-utils' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/ccp4mg-utils' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libccp4mg-utils.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libccp4mg-utils.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libccp4mg-utils.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libccp4mg-utils.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libccp4mg-utils.so.0.0.0 libccp4mg-utils.so.0 || { rm -f libccp4mg-utils.so.0 && ln -s libccp4mg-utils.so.0.0.0 libccp4mg-utils.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libccp4mg-utils.so.0.0.0 libccp4mg-utils.so || { rm -f libccp4mg-utils.so && ln -s libccp4mg-utils.so.0.0.0 libccp4mg-utils.so; }; }) libtool: install: /usr/bin/install -c .libs/libccp4mg-utils.lai /construction/science/coot/stage/usr/local/lib/libccp4mg-utils.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/ccp4mg-utils" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/ccp4mg-utils" install -m 0644 geomutil.h mgtree.h cartesian.h matrix.h quat.h ppmutil.h '/construction/science/coot/stage/usr/local/include/coot/ccp4mg-utils' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/ccp4mg-utils' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/ccp4mg-utils' Making install in density-contour gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/density-contour' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/density-contour' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-isosurface.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-isosurface.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/density-contour; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-isosurface.la -rpath /usr/local/lib Vectors.lo CIsoSurface.lo density-contour-triangles.lo ../coords/libcoot-coords.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/Vectors.o .libs/CIsoSurface.o .libs/density-contour-triangles.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-shelx.so /construction/science/coot/coot-0.8.9.1/lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so -lgsl -lgslcblas -lsqlite3 /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-isosurface.so.0 -o .libs/libcoot-isosurface.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-isosurface.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-isosurface.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-isosurface.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-isosurface.so.0.0.0 libcoot-isosurface.so.0 || { rm -f libcoot-isosurface.so.0 && ln -s libcoot-isosurface.so.0.0.0 libcoot-isosurface.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-isosurface.so.0.0.0 libcoot-isosurface.so || { rm -f libcoot-isosurface.so && ln -s libcoot-isosurface.so.0.0.0 libcoot-isosurface.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-isosurface.lai /construction/science/coot/stage/usr/local/lib/libcoot-isosurface.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/density-contour" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/density-contour" install -m 0644 Vectors.h CIsoSurface.h density-contour-triangles.hh '/construction/science/coot/stage/usr/local/include/coot/density-contour' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/density-contour' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/density-contour' Making install in db-main gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/db-main' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/db-main' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-db-main.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-db-main.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/db-main; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DPKGDATADIR=\"/usr/local/share/coot\" -DDATADIR=\"/usr/local/share\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-db-main.la -rpath /usr/local/lib db-main.lo db-strands.lo ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/db-main.o .libs/db-strands.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so -lgsl -lgslcblas ../geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-db-main.so.0 -o .libs/libcoot-db-main.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-db-main.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-db-main.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-db-main.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-db-main.so.0.0.0 libcoot-db-main.so.0 || { rm -f libcoot-db-main.so.0 && ln -s libcoot-db-main.so.0.0.0 libcoot-db-main.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-db-main.so.0.0.0 libcoot-db-main.so || { rm -f libcoot-db-main.so && ln -s libcoot-db-main.so.0.0.0 libcoot-db-main.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-db-main.lai /construction/science/coot/stage/usr/local/lib/libcoot-db-main.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/db-main" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/db-main" install -m 0644 db-main.hh db-strands.hh '/construction/science/coot/stage/usr/local/include/coot/db-main' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/db-main' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/db-main' Making install in analysis gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/analysis' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/analysis' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-analysis.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-analysis.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/analysis; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-analysis.la -rpath /usr/local/lib bfkurt.lo mogul.lo kolmogorov.lo stats.lo cablam.lo typed-distances.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lgsl -lgslcblas -lm -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/bfkurt.o .libs/mogul.o .libs/kolmogorov.o .libs/stats.o .libs/cablam.o .libs/typed-distances.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so ../geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c ../utils/.libs/libcoot-utils.so -lmmdb2 -lgsl -lgslcblas -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-analysis.so.0 -o .libs/libcoot-analysis.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-analysis.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-analysis.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-analysis.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-analysis.so.0.0.0 libcoot-analysis.so.0 || { rm -f libcoot-analysis.so.0 && ln -s libcoot-analysis.so.0.0.0 libcoot-analysis.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-analysis.so.0.0.0 libcoot-analysis.so || { rm -f libcoot-analysis.so && ln -s libcoot-analysis.so.0.0.0 libcoot-analysis.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-analysis.lai /construction/science/coot/stage/usr/local/lib/libcoot-analysis.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" STRIPPROG='strip' /bin/sh ../libtool --mode=install /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s coot-bfactan '/construction/science/coot/stage/usr/local/bin' libtool: install: warning: `libcoot-analysis.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/coot-bfactan /construction/science/coot/stage/usr/local/bin/coot-bfactan test -z "/usr/local/include/coot/analysis" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/analysis" install -m 0644 bfkurt.hh mogul-interface.hh stats.hh '/construction/science/coot/stage/usr/local/include/coot/analysis' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/analysis' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/analysis' Making install in ideal gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/ideal' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/ideal' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-ideal.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-ideal.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/ideal; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DHAVE_GSL -I/usr/local/include -I/usr/local/include -I/usr/local/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-ideal.la -rpath /usr/local/lib simple-restraint.lo mods.lo distortion.lo chirals.lo flanking.lo gradients.lo extra-restraints.lo pepflip.lo regularize-minimol.lo lograma.lo extra-restraints-kk.lo simple-restraint-kk.lo torsion-bonds.lo coot-compare-residues.lo link-restraints.lo parallel-planes.lo trans-peptide.lo model-bond-deltas.lo write-png.lo zo-rama.lo crankshaft.lo phi-psi.lo ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lgsl -lgslcblas -lm -lpng -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/simple-restraint.o .libs/mods.o .libs/distortion.o .libs/chirals.o .libs/flanking.o .libs/gradients.o .libs/extra-restraints.o .libs/pepflip.o .libs/regularize-minimol.o .libs/lograma.o .libs/extra-restraints-kk.o .libs/simple-restraint-kk.o .libs/torsion-bonds.o .libs/coot-compare-residues.o .libs/link-restraints.o .libs/parallel-planes.o .libs/trans-peptide.o .libs/model-bond-deltas.o .libs/write-png.o .libs/zo-rama.o .libs/crankshaft.o .libs/phi-psi.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../coot-utils/.libs/libcoot-map-heavy.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-shelx.so /construction/science/coot/coot-0.8.9.1/lidia-core/.libs/libcoot-lidia-core.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lsqlite3 -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -lpng -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-ideal.so.0 -o .libs/libcoot-ideal.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-ideal.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-ideal.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-ideal.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-ideal.so.0.0.0 libcoot-ideal.so.0 || { rm -f libcoot-ideal.so.0 && ln -s libcoot-ideal.so.0.0.0 libcoot-ideal.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-ideal.so.0.0.0 libcoot-ideal.so || { rm -f libcoot-ideal.so && ln -s libcoot-ideal.so.0.0.0 libcoot-ideal.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-ideal.lai /construction/science/coot/stage/usr/local/lib/libcoot-ideal.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" install -m 555 coot-mini-rsr '/construction/science/coot/stage/usr/local/bin' test -z "/usr/local/libexec" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/libexec" STRIPPROG='strip' /bin/sh ../libtool --mode=install /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s mini-rsr-bin '/construction/science/coot/stage/usr/local/libexec' libtool: install: warning: `./libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/mini-rsr-bin /construction/science/coot/stage/usr/local/libexec/mini-rsr-bin test -z "/usr/local/include/coot/ideal" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/ideal" install -m 0644 test-indexing.hh simple-restraint.hh pepflip.hh regularize-minimol.hh lograma.h parallel-planes.hh torsion-bonds.hh extra-restraints.hh model-bond-deltas.hh '/construction/science/coot/stage/usr/local/include/coot/ideal' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/ideal' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/ideal' Making install in ligand gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/ligand' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/ligand' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-ligand.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-ligand.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/ligand; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DPKGDATADIR=\"/usr/local/share/coot\" -DUSE_SQLITE3 -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-ligand.la -rpath /usr/local/lib ligand.lo ligand-extras.lo residue_by_phi_psi.lo wiggly-ligand.lo monomer-utils.lo dunbrack.lo chi-angles-autogen.lo chi-angles.lo helix-placement.lo fast-ss-search.lo rigid-body.lo ideal-rna.lo richardson-rotamers.lo richardson-rotamer.lo rotamer.lo torsion-general.lo rotamer-tables.lo primitive-chi-angles.lo dipole.lo base-pairing.lo backrub-rotamer.lo trace.lo trace-2.lo multi-peptide.lo ligands-db.lo ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coords/libcoot-coords.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../analysis/libcoot-analysis.la ../utils/libcoot-utils.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lsqlite3 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/ligand.o .libs/ligand-extras.o .libs/residue_by_phi_psi.o .libs/wiggly-ligand.o .libs/monomer-utils.o .libs/dunbrack.o .libs/chi-angles-autogen.o .libs/chi-angles.o .libs/helix-placement.o .libs/fast-ss-search.o .libs/rigid-body.o .libs/ideal-rna.o .libs/richardson-rotamers.o .libs/richardson-rotamer.o .libs/rotamer.o .libs/torsion-general.o .libs/rotamer-tables.o .libs/primitive-chi-angles.o .libs/dipole.o .libs/base-pairing.o .libs/backrub-rotamer.o .libs/trace.o .libs/trace-2.o .libs/multi-peptide.o .libs/ligands-db.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../ideal/.libs/libcoot-ideal.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-heavy.so /construction/science/coot/coot-0.8.9.1/coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-utils.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-shelx.so /construction/science/coot/coot-0.8.9.1/lidia-core/.libs/libcoot-lidia-core.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../analysis/.libs/libcoot-analysis.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lgsl -lgslcblas ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lsqlite3 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-ligand.so.0 -o .libs/libcoot-ligand.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-ligand.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-ligand.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-ligand.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-ligand.so.0.0.0 libcoot-ligand.so.0 || { rm -f libcoot-ligand.so.0 && ln -s libcoot-ligand.so.0.0.0 libcoot-ligand.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-ligand.so.0.0.0 libcoot-ligand.so || { rm -f libcoot-ligand.so && ln -s libcoot-ligand.so.0.0.0 libcoot-ligand.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-ligand.lai /construction/science/coot/stage/usr/local/lib/libcoot-ligand.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" install -m 555 findwaters findligand '/construction/science/coot/stage/usr/local/bin' test -z "/usr/local/libexec" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/libexec" STRIPPROG='strip' /bin/sh ../libtool --mode=install /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s findligand-bin findwaters-bin coot-make-ligands-db '/construction/science/coot/stage/usr/local/libexec' libtool: install: warning: `./libcoot-ligand.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ideal/libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/db-main/libcoot-db-main.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/analysis/libcoot-analysis.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../ideal/libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../db-main/libcoot-db-main.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/findligand-bin /construction/science/coot/stage/usr/local/libexec/findligand-bin libtool: install: warning: `./libcoot-ligand.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ideal/libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/db-main/libcoot-db-main.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/analysis/libcoot-analysis.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../ideal/libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../db-main/libcoot-db-main.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/findwaters-bin /construction/science/coot/stage/usr/local/libexec/findwaters-bin libtool: install: warning: `./libcoot-ligand.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ideal/libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/db-main/libcoot-db-main.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/analysis/libcoot-analysis.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/coot-make-ligands-db /construction/science/coot/stage/usr/local/libexec/coot-make-ligands-db test -z "/usr/local/share/coot/data" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/data" install -m 0644 ligands-2016.db '/construction/science/coot/stage/usr/local/share/coot/data' test -z "/usr/local/include/coot/ligand" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/ligand" install -m 0644 ligand.hh residue_by_phi_psi.hh wligand.hh monomer-utils.hh chi-angles.hh dunbrack.hh helix-placement.hh fast-ss-search.hh rigid-body.hh ideal-rna.hh rotamer.hh richardson-rotamer.hh torsion-general.hh primitive-chi-angles.hh dipole.hh base-pairing.hh backrub-rotamer.hh trace.hh multi-peptide.hh ligands-db.hh scored-coord.hh ligand-score-card.hh scored-molecule.hh map-point-cluster.hh '/construction/science/coot/stage/usr/local/include/coot/ligand' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/ligand' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/ligand' Making install in high-res gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/high-res' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/high-res' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-high-res.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-high-res.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/high-res; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DHAVE_GSL -I/usr/local/include -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-high-res.la -rpath /usr/local/lib high-res.lo coot-atom-graph.lo residue-distortions.lo sequence-assignment.lo ../mini-mol/libcoot-mini-mol.la ../ligand/libcoot-ligand.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/high-res.o .libs/coot-atom-graph.o .libs/residue-distortions.o .libs/sequence-assignment.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../mini-mol/.libs/libcoot-mini-mol.so ../ligand/.libs/libcoot-ligand.so /construction/science/coot/coot-0.8.9.1/ideal/.libs/libcoot-ideal.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-heavy.so /construction/science/coot/coot-0.8.9.1/db-main/.libs/libcoot-db-main.so /construction/science/coot/coot-0.8.9.1/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng /construction/science/coot/coot-0.8.9.1/coords/.libs/libcoot-coords.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-shelx.so /construction/science/coot/coot-0.8.9.1/lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-extras.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-map-utils.so /construction/science/coot/coot-0.8.9.1/analysis/.libs/libcoot-analysis.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so -lgsl -lgslcblas /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lsqlite3 -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-high-res.so.0 -o .libs/libcoot-high-res.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-high-res.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-high-res.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-high-res.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-high-res.so.0.0.0 libcoot-high-res.so.0 || { rm -f libcoot-high-res.so.0 && ln -s libcoot-high-res.so.0.0.0 libcoot-high-res.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-high-res.so.0.0.0 libcoot-high-res.so || { rm -f libcoot-high-res.so && ln -s libcoot-high-res.so.0.0.0 libcoot-high-res.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-high-res.lai /construction/science/coot/stage/usr/local/lib/libcoot-high-res.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/high-res" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/high-res" install -m 0644 high-res.hh coot-atom-graph.hh coot-node-info.hh sequence-assignment.hh '/construction/science/coot/stage/usr/local/include/coot/high-res' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/high-res' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/high-res' Making install in build gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/build' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/build' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-cabuild.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-cabuild.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/build; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-cabuild.la -rpath /usr/local/lib CalphaBuild.lo ../angles/libcoot-AngleInfo.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/CalphaBuild.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../angles/.libs/libcoot-AngleInfo.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-cabuild.so.0 -o .libs/libcoot-cabuild.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-cabuild.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-cabuild.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-cabuild.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-cabuild.so.0.0.0 libcoot-cabuild.so.0 || { rm -f libcoot-cabuild.so.0 && ln -s libcoot-cabuild.so.0.0.0 libcoot-cabuild.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-cabuild.so.0.0.0 libcoot-cabuild.so || { rm -f libcoot-cabuild.so && ln -s libcoot-cabuild.so.0.0.0 libcoot-cabuild.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-cabuild.lai /construction/science/coot/stage/usr/local/lib/libcoot-cabuild.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/build" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/build" install -m 0644 CalphaBuild.hh '/construction/science/coot/stage/usr/local/include/coot/build' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/build' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/build' Making install in greg-tests gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/greg-tests' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/greg-tests' gmake[4]: Nothing to be done for 'install-exec-am'. gmake[4]: Nothing to be done for 'install-data-am'. gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/greg-tests' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/greg-tests' Making install in python-tests gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/python-tests' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/python-tests' gmake[4]: Nothing to be done for 'install-exec-am'. gmake[4]: Nothing to be done for 'install-data-am'. gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/python-tests' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/python-tests' Making install in tw gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/tw' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/tw' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-tw.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libcoot-tw.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libcoot-tw.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-tw.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-tw.so.0.0.0 libcoot-tw.so.0 || { rm -f libcoot-tw.so.0 && ln -s libcoot-tw.so.0.0.0 libcoot-tw.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-tw.so.0.0.0 libcoot-tw.so || { rm -f libcoot-tw.so && ln -s libcoot-tw.so.0.0.0 libcoot-tw.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-tw.lai /construction/science/coot/stage/usr/local/lib/libcoot-tw.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/tw" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/tw" install -m 0644 coot-tw.hh '/construction/science/coot/stage/usr/local/include/coot/tw' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/tw' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/tw' Making install in libgtkgraph gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/libgtkgraph' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/libgtkgraph' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-gtkgraph.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libcoot-gtkgraph.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libcoot-gtkgraph.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-gtkgraph.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-gtkgraph.so.0.0.0 libcoot-gtkgraph.so.0 || { rm -f libcoot-gtkgraph.so.0 && ln -s libcoot-gtkgraph.so.0.0.0 libcoot-gtkgraph.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-gtkgraph.so.0.0.0 libcoot-gtkgraph.so || { rm -f libcoot-gtkgraph.so && ln -s libcoot-gtkgraph.so.0.0.0 libcoot-gtkgraph.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-gtkgraph.lai /construction/science/coot/stage/usr/local/lib/libcoot-gtkgraph.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' gmake[4]: Nothing to be done for 'install-data-am'. gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/libgtkgraph' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/libgtkgraph' Making install in lbg gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/lbg' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/lbg' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-lidia.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-lidia.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/lbg; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -DPKGDATADIR=\"/usr/local/share/coot\" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-lidia.la -rpath /usr/local/lib lbg.lo lbg-flev.lo wmolecule.lo lbg-search.lo residue-circles.lo lbg-drag-and-drop.lo qed-interface.lo alerts.lo alerts-list.lo qed-properties.lo ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/usr/local/lib -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/usr/local/lib -lmmdb2 -L/usr/local/lib -lgsl -lgslcblas -lm -L/lib64 -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/lbg.o .libs/lbg-flev.o .libs/wmolecule.o .libs/lbg-search.o .libs/residue-circles.o .libs/lbg-drag-and-drop.o .libs/qed-interface.o .libs/alerts.o .libs/alerts-list.o .libs/qed-properties.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lsqlite3 ../utils/.libs/libcoot-utils.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas -L/lib64 -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-lidia.so.0 -o .libs/libcoot-lidia.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-lidia.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-lidia.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-lidia.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-lidia.so.0.0.0 libcoot-lidia.so.0 || { rm -f libcoot-lidia.so.0 && ln -s libcoot-lidia.so.0.0.0 libcoot-lidia.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-lidia.so.0.0.0 libcoot-lidia.so || { rm -f libcoot-lidia.so && ln -s libcoot-lidia.so.0.0.0 libcoot-lidia.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-lidia.lai /construction/science/coot/stage/usr/local/lib/libcoot-lidia.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" STRIPPROG='strip' /bin/sh ../libtool --mode=install /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s lidia '/construction/science/coot/stage/usr/local/bin' libtool: install: warning: `./libcoot-lidia.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/lidia /construction/science/coot/stage/usr/local/bin/lidia test -z "/usr/local/share/coot/pixmaps" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/pixmaps" install -m 0644 3-c-new.svg 6-c-shadow-experiment.svg single.svg 3-c-other.svg 6-c.svg sp3.svg 3-c.svg 7-c.svg stereo-out.svg 4-c.svg 8-c.svg TheStructorr_magnifying_glass-32.svg 5-c.svg Anonymous_Architetto_--_Chiave.svg TheStructorr_magnifying_glass.svg 6-c-arom.svg charge.svg triple.svg 6-c-exp-2.svg double.svg Trash-hydrogens-Andy_Trash_Can.svg face-smile.svg 05_Hotel_Icon_Hair_Salon.svg '/construction/science/coot/stage/usr/local/share/coot/pixmaps' test -z "/usr/local/lib/python2.7/site-packages/lidia" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/lidia" install -m 0644 __init__.py fetch.py '/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/lidia' Byte-compiling python modules... __init__.pyfetch.py Byte-compiling python modules (optimized versions) ... __init__.pyfetch.py test -z "/usr/local/include/coot/lbg" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/lbg" install -m 0644 lbg.hh w-atom.hh w-bond.hh wmolecule.hh topological-equivalence.hh graphics-c-interface-functions.hh lbg-drag-and-drop.hh qed-interface.hh alerts.hh solvent-exposure-difference.hh '/construction/science/coot/stage/usr/local/include/coot/lbg' test -z "/usr/local/share/coot" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot" install -m 0644 lbg.glade lbg-callbacks.cc '/construction/science/coot/stage/usr/local/share/coot' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/lbg' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/lbg' Making install in cootaneer gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/cootaneer' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/cootaneer' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcootaneer.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libcootaneer.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libcootaneer.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcootaneer.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcootaneer.so.0.0.0 libcootaneer.so.0 || { rm -f libcootaneer.so.0 && ln -s libcootaneer.so.0.0.0 libcootaneer.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcootaneer.so.0.0.0 libcootaneer.so || { rm -f libcootaneer.so && ln -s libcootaneer.so.0.0.0 libcootaneer.so; }; }) libtool: install: /usr/bin/install -c .libs/libcootaneer.lai /construction/science/coot/stage/usr/local/lib/libcootaneer.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/share/coot" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot" install -m 0644 cootaneer-llk-2.40.dat '/construction/science/coot/stage/usr/local/share/coot' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/cootaneer' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/cootaneer' Making install in cootilus gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/cootilus' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/cootilus' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcootilus.la '/construction/science/coot/stage/usr/local/lib' libtool: install: /usr/bin/install -c .libs/libcootilus.so.0.0.0 /construction/science/coot/stage/usr/local/lib/libcootilus.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcootilus.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcootilus.so.0.0.0 libcootilus.so.0 || { rm -f libcootilus.so.0 && ln -s libcootilus.so.0.0.0 libcootilus.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcootilus.so.0.0.0 libcootilus.so || { rm -f libcootilus.so && ln -s libcootilus.so.0.0.0 libcootilus.so; }; }) libtool: install: /usr/bin/install -c .libs/libcootilus.lai /construction/science/coot/stage/usr/local/lib/libcootilus.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/share/coot" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot" install -m 0644 nautilus_lib.pdb '/construction/science/coot/stage/usr/local/share/coot' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/cootilus' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/cootilus' Making install in goograph gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/goograph' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/goograph' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-goograph.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-goograph.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/goograph; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-goograph.la -rpath /usr/local/lib goograph.lo ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/usr/local/lib -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/goograph.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lsqlite3 ../utils/.libs/libcoot-utils.so -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lpthread -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lintl -lfontconfig -lfreetype -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-goograph.so.0 -o .libs/libcoot-goograph.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-goograph.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-goograph.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-goograph.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-goograph.so.0.0.0 libcoot-goograph.so.0 || { rm -f libcoot-goograph.so.0 && ln -s libcoot-goograph.so.0.0.0 libcoot-goograph.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-goograph.so.0.0.0 libcoot-goograph.so || { rm -f libcoot-goograph.so && ln -s libcoot-goograph.so.0.0.0 libcoot-goograph.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-goograph.lai /construction/science/coot/stage/usr/local/lib/libcoot-goograph.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' gmake[4]: Nothing to be done for 'install-data-am'. gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/goograph' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/goograph' Making install in pli gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/pli' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/pli' test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c -s libcoot-pli.la '/construction/science/coot/stage/usr/local/lib' libtool: install: warning: relinking `libcoot-pli.la' libtool: install: (cd /construction/science/coot/coot-0.8.9.1/pli; /bin/sh /construction/science/coot/coot-0.8.9.1/libtool --tag CXX --mode=relink c++ -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -I/usr/local/include/python2.7 -isystem /usr/local/include -Wall -Wno-unused -Wl,-rpath=/usr/local/lib/gcc5 -L/usr/local/lib/gcc5 -B/usr/local/bin -L/usr/local/lib -o libcoot-pli.la -rpath /usr/local/lib protein-ligand-interactions.lo flev-annotations.lo pi-stacking.lo specs.lo ../lidia-core/libcoot-lidia-core.la -L/lib64 -inst-prefix-dir /construction/science/coot/stage) libtool: relink: c++ -shared -nostdlib /usr/lib/crti.o /usr/lib/gcc80/crtbeginS.o .libs/protein-ligand-interactions.o .libs/flev-annotations.o .libs/pi-stacking.o .libs/specs.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc5 -L/usr/local/lib ../lidia-core/.libs/libcoot-lidia-core.so /construction/science/coot/coot-0.8.9.1/coot-utils/.libs/libcoot-coord-utils.so /construction/science/coot/coot-0.8.9.1/geometry/.libs/libcoot-geometry.so /construction/science/coot/coot-0.8.9.1/mini-mol/.libs/libcoot-mini-mol.so -lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lgsl -lgslcblas /construction/science/coot/coot-0.8.9.1/utils/.libs/libcoot-utils.so -lsqlite3 -L/lib64 -L/usr/lib/gcc80 -lstdc++ -lm -lc -lgcc -lgcc_pic /usr/lib/gcc80/crtendS.o /usr/lib/crtn.o -Wl,-rpath=/usr/local/lib/gcc5 -B/usr/local/bin -Wl,-soname -Wl,libcoot-pli.so.0 -o .libs/libcoot-pli.so.0.0.0 libtool: install: /usr/bin/install -c .libs/libcoot-pli.so.0.0.0T /construction/science/coot/stage/usr/local/lib/libcoot-pli.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/coot/stage/usr/local/lib/libcoot-pli.so.0.0.0 libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-pli.so.0.0.0 libcoot-pli.so.0 || { rm -f libcoot-pli.so.0 && ln -s libcoot-pli.so.0.0.0 libcoot-pli.so.0; }; }) libtool: install: (cd /construction/science/coot/stage/usr/local/lib && { ln -s -f libcoot-pli.so.0.0.0 libcoot-pli.so || { rm -f libcoot-pli.so && ln -s libcoot-pli.so.0.0.0 libcoot-pli.so; }; }) libtool: install: /usr/bin/install -c .libs/libcoot-pli.lai /construction/science/coot/stage/usr/local/lib/libcoot-pli.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' test -z "/usr/local/include/coot/pli" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot/pli" install -m 0644 flev-annotations.hh protein-ligand-interactions.hh pi-stacking.hh specs.hh '/construction/science/coot/stage/usr/local/include/coot/pli' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pli' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pli' Making install in pyrogen gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/pyrogen' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/pyrogen' test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" test -z "/usr/local/lib" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib" test -z "/usr/local/lib/python2.7/site-packages" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib/python2.7/site-packages" gmake install-exec-hook gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/pyrogen' gmake[5]: Nothing to be done for 'install-exec-hook'. gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pyrogen' test -z "/usr/local/lib/python2.7/site-packages/coot" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/coot" gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pyrogen' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pyrogen' Making install in src gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/src' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/src' test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" STRIPPROG='strip' /bin/sh ../libtool --mode=install /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s coot-fix-nomenclature-errors '/construction/science/coot/stage/usr/local/bin' libtool: install: warning: `../ligand/libcoot-ligand.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ideal/libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/db-main/libcoot-db-main.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/analysis/libcoot-analysis.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../db-main/libcoot-db-main.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../ideal/libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/coot-fix-nomenclature-errors /construction/science/coot/stage/usr/local/bin/coot-fix-nomenclature-errors test -z "/usr/local/bin" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/bin" install -m 555 coot coot-density-score-by-residue dynarama '/construction/science/coot/stage/usr/local/bin' test -z "/usr/local/libexec" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/libexec" STRIPPROG='strip' /bin/sh ../libtool --mode=install /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s coot-bin coot-density-score-by-residue-bin dynarama-bin '/construction/science/coot/stage/usr/local/libexec' libtool: install: warning: `../lbg/libcoot-lidia.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../pli/libcoot-pli.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../ligand/libcoot-ligand.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../goograph/libcoot-goograph.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../libgtkgraph/libcoot-gtkgraph.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../density-contour/libcoot-isosurface.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../build/libcoot-cabuild.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../skeleton/libcoot-skeleton.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/angles/libcoot-AngleInfo.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../angles/libcoot-AngleInfo.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../db-main/libcoot-db-main.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../high-res/libcoot-high-res.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ligand/libcoot-ligand.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ideal/libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/db-main/libcoot-db-main.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/analysis/libcoot-analysis.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../ideal/libcoot-ideal.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-surface/libcoot-surface.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/surface/libcoot-electrostatics.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../surface/libcoot-electrostatics.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../ccp4mg-utils/libccp4mg-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-heavy.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-extras.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../analysis/libcoot-analysis.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../protein_db/libcoot-protein-db.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../cootilus/libcootilus.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../cootaneer/libcootaneer.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/coot-bin /construction/science/coot/stage/usr/local/libexec/coot-bin libtool: install: warning: `../geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-map-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../compat/libcoot-compat.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/coot-density-score-by-residue-bin /construction/science/coot/stage/usr/local/libexec/coot-density-score-by-residue-bin libtool: install: warning: `../coords/libcoot-coords.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-shelx.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/lidia-core/libcoot-lidia-core.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-utils/libcoot-coord-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/geometry/libcoot-geometry.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/mini-mol/libcoot-mini-mol.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/utils/libcoot-utils.la' has not been installed in `/usr/local/lib' libtool: install: warning: `../coot-surface/libcoot-surface.la' has not been installed in `/usr/local/lib' libtool: install: warning: `/construction/science/coot/coot-0.8.9.1/surface/libcoot-electrostatics.la' has not been installed in `/usr/local/lib' libtool: install: /bin/sh /construction/science/coot/coot-0.8.9.1/install-sh -c -s .libs/dynarama-bin /construction/science/coot/stage/usr/local/libexec/dynarama-bin test -z "/usr/local/lib/python2.7/site-packages" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib/python2.7/site-packages" test -z "/usr/local/lib/python2.7/site-packages" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib/python2.7/site-packages" test -z "/usr/local/include/coot" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/include/coot" install -m 0644 crunch-model.hh '/construction/science/coot/stage/usr/local/include/coot' test -z "/usr/local/share/coot" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot" install -m 0644 dynarama.glade '/construction/science/coot/stage/usr/local/share/coot' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/src' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/src' Making install in data gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/data' Making install in rama-coeffs gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/data/rama-coeffs' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/data/rama-coeffs' gmake[5]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/share/coot/data/rama/zo-tables" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/data/rama/zo-tables" install -m 0644 all-non-pre-pro.tab coeffsolution.dat '/construction/science/coot/stage/usr/local/share/coot/data/rama/zo-tables' gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data/rama-coeffs' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data/rama-coeffs' Making install in cho-models gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/data/cho-models' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/data/cho-models' gmake[5]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/share/coot/data/cho-models" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/data/cho-models" install -m 0644 model-level-1-NAG-NAG-ASN-ASN.tab model-level-4-BMA-BETA1-6-BMA.tab model-level-5-MAN-ALPHA1-3-BMA.tab model-level-2-FUC-BETA1-3-NAG.tab model-level-4-BMA-BETA1-6-MAN.tab model-level-5-MAN-ALPHA1-3-MAN.tab model-level-2-FUC-BETA1-6-NAG.tab model-level-4-MAN-ALPHA1-3-BMA.tab model-level-5-MAN-ALPHA1-6-BMA.tab model-level-2-FUL-ALPHA1-3-NAG.tab model-level-4-MAN-ALPHA1-4-BMA.tab model-level-5-MAN-ALPHA1-6-MAN.tab model-level-2-FUL-ALPHA1-6-NAG.tab model-level-4-MAN-ALPHA1-6-BMA.tab model-level-5-NAG-BETA1-2-MAN.tab model-level-2-NAG-BETA1-4-NAG.tab model-level-4-MAN-ALPHA1-6-MAN.tab model-level-6-GAL-BETA1-4-NAG.tab model-level-3-BMA-BETA1-3-NAG.tab model-level-4-NAG-BETA1-4-BMA.tab model-level-6-MAN-ALPHA1-2-MAN.tab model-level-3-BMA-BETA1-4-NAG.tab model-level-5-BMA-BETA1-2-BMA.tab model-level-7-GLC-ALPHA1-3-MAN.tab model-level-3-MAN-ALPHA1-4-NAG.tab model-level-5-BMA-BETA1-6-MAN.tab model-level-4-BMA-BETA1-3-BMA.tab model-level-5-MAN-ALPHA1-2-MAN.tab '/construction/science/coot/stage/usr/local/share/coot/data/cho-models' gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data/cho-models' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data/cho-models' Making install in cho-acedrg gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/data/cho-acedrg' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/data/cho-acedrg' gmake[5]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/share/coot/data/cho-acedrg" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/data/cho-acedrg" install -m 0644 BMA-acedrg.cif FUC-acedrg.cif MAN-acedrg.cif NAG-acedrg.cif SIA-acedrg.cif XYP-acedrg.cif '/construction/science/coot/stage/usr/local/share/coot/data/cho-acedrg' gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data/cho-acedrg' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data/cho-acedrg' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/data' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/data' gmake[5]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/share/coot/data" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/data" install -m 0644 tutorial-modern.pdb rnasa-1.8-all_refmac1.mtz ligands.db '/construction/science/coot/stage/usr/local/share/coot/data' gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/data' Making install in man gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/man' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/man' gmake[4]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/man/man1" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/man/man1" install -m 0644 'coot.man' '/construction/science/coot/stage/usr/local/man/man1/coot.1' install -m 0644 'coot-density-score-by-residue.man' '/construction/science/coot/stage/usr/local/man/man1/coot-density-score-by-residue.1' install -m 0644 'coot-compare-dictionaries.man' '/construction/science/coot/stage/usr/local/man/man1/coot-compare-dictionaries.1' install -m 0644 'coot-available-comp-id.man' '/construction/science/coot/stage/usr/local/man/man1/coot-available-comp-id.1' install -m 0644 'coot-bfactan.man' '/construction/science/coot/stage/usr/local/man/man1/coot-bfactan.1' install -m 0644 'coot-fix-nomenclature-errors.man' '/construction/science/coot/stage/usr/local/man/man1/coot-fix-nomenclature-errors.1' install -m 0644 'coot-make-shelx-restraints.man' '/construction/science/coot/stage/usr/local/man/man1/coot-make-shelx-restraints.1' install -m 0644 'coot-mini-rsr.man' '/construction/science/coot/stage/usr/local/man/man1/coot-mini-rsr.1' install -m 0644 'lidia.man' '/construction/science/coot/stage/usr/local/man/man1/lidia.1' install -m 0644 'findwaters.man' '/construction/science/coot/stage/usr/local/man/man1/findwaters.1' install -m 0644 'findligand.man' '/construction/science/coot/stage/usr/local/man/man1/findligand.1' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/man' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/man' Making install in rama-data gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/rama-data' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/rama-data' gmake[4]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/share/coot/rama-data" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/rama-data" install -m 0644 rota500-arg.data rota500-asn.data rota500-asp.data rota500-cys.data rota500-gln.data rota500-glu.data rota500-his.data rota500-ile.data rota500-leu.data rota500-lys.data rota500-met.data rota500-phetyr.data rota500-pro.data rota500-ser.data rota500-thr.data rota500-trp.data rota500-val.data '/construction/science/coot/stage/usr/local/share/coot/rama-data' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/rama-data' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/rama-data' Making install in doc gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/doc' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/doc' gmake[4]: Nothing to be done for 'install-exec-am'. gmake[4]: Nothing to be done for 'install-data-am'. gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/doc' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/doc' Making install in rcrane gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/rcrane' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/rcrane' gmake[4]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/lib/python2.7/site-packages/coot/rcrane" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/coot/rcrane" install -m 0644 CHANGELOG.txt buildPhosOxy.py installRCrane.py pseudoMolecule.py selectMapDialog.py LICENSE.txt calcCoords.py launch.py pseudoPredictor.py settings.py chain.py linearInterp.py puckerList.py smoothProb.py NOTICE.txt citationPopup.py logo.svg reviewSuitesGui.py stats.py README.txt coot_gui_adapter.py menu.py revisionNum.py strucCalc.py __init__.py coot_utils_adapter.py nextPhos.py rotData.py suite.py about.py nucleotide.py rotamerSeq.py thetaEtaPredictor.py bondLength.py guiUtils.py phenixRestraints.py rotamerize.py traceGui.py buildInitSugar.py icon.svg '/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/coot/rcrane' install -m 0644 preLaunchCheck.py safelog.py extendChain.py reportInputErrors.py '/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/coot/rcrane' test -z "/usr/local/lib/python2.7/site-packages/coot/rcrane/data" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/coot/rcrane/data" install -m 0644 data/bases.pdb data/phosAngleSmoothed.csv data/sugarDists.csv data/c2p.pdb data/phosDistSmoothed.csv data/sugarPhosSugarAngleSmoothed.csv data/c3p.pdb data/pseudoChiSmoothed.csv data/thetaEtaClusts.csv data/dihedData.csv data/smoothedPuckerDist.csv data/endingPDists.csv data/startingPDists.csv '/construction/science/coot/stage/usr/local/lib/python2.7/site-packages/coot/rcrane/data' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/rcrane' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/rcrane' Making install in pixmaps gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1/pixmaps' Making install in icons gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/pixmaps/icons' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/pixmaps/icons' gmake[5]: Nothing to be done for 'install-exec-am'. for icon in hicolor_apps_48x48_coot.png hicolor_apps_64x64_coot.png hicolor_apps_96x96_coot.png hicolor_apps_256x256_coot.png hicolor_apps_scalable_coot.svg; do \ THEME=` echo $icon | cut -d_ -f1`; \ CONTEXT=` echo $icon | cut -d_ -f2`; \ SIZE=` echo $icon | cut -d_ -f3`; \ ICONFILE=`echo $icon | cut -d_ -f4`; \ mkdir -p /construction/science/coot/stage/usr/local/share/icons/$THEME/$SIZE/$CONTEXT; \ install -m 0644 ./$icon /construction/science/coot/stage/usr/local/share/icons/$THEME/$SIZE/$CONTEXT/$ICONFILE; \ done; gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pixmaps/icons' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pixmaps/icons' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1/pixmaps' gmake[5]: Entering directory '/construction/science/coot/coot-0.8.9.1/pixmaps' gmake[5]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/share/coot/pixmaps" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot/pixmaps" install -m 0644 coot-0.8.9.1.png add-alt-conf.png dna.svg probe-clash.svg add-alt-conf.svg edit-backbone.svg radacina_handcuffs-small.svg add-peptide-1.png edit-chi.png ramachandran.png add-peptide-1.svg edit-chi.svg refine-1.svg add-water.svg emsley.jpg refine.png anchor.svg env-distances.png regularize-1.svg aniso-atom.png env-distances.svg regularize.png aniso-atom.svg eugene.jpg renumber-residues.svg appointment-new.png flip-peptide.png reset-view-32.png atom-at-pointer.png flip-peptide.svg reset-view-32.svg atom-at-pointer.svg generic-display-objects.svg reset-view.png auto-fit-rotamer.png geom.svg reset-view.svg auto-fit-rotamer.svg ghosts.png residue-info.png '/construction/science/coot/stage/usr/local/share/coot/pixmaps' install -m 0644 azerbaijan2.svg ghosts.svg residue-info.svg azerbaijan.svg gln-asn-b-factors.svg rigid-body.png calculate-ghosts.svg gln-asn-b-factorssvg.svg rigid-body.svg cell+symm.png glyco-structures.svg rotamers.png cell+symm.svg gnome-run.png rotamers.svg change-chain-id.svg go-to-atom.svg rtz.png rrz.png chiral.png go-to-ligand.svg rtz.svg rrz.svg chiral.svg gtk-connect-16.png scroll-wheel.svg connect-to-ccp4.svg gtk-font.png secondary-structure.svg connect-to-oca.svg gtk-open-16.png sequence-view.png connect-to-usf.svg gtk-open-24.png sequence-view.svg connect-to-world.svg gtk-open.png side-chain-180.png kevin.jpg side-chain-180.svg '/construction/science/coot/stage/usr/local/share/coot/pixmaps' install -m 0644 kevin-orig.jpg smiles.png kleywegt.svg smiles.svg map.svg spin-view.png coot-favicon.png merge-molecules.svg spin-view.svg coot-icon.png mutate-auto-fit.svg stereo-view.svg coot-save.png mutate.svg stop.svg coot-save-symm.png panel-screenshot.png temperature.png crosshairs.png peptide-omega.png temperature.svg crosshairs.svg peptide-omega.svg torsion-general.svg delete.png phenixed.svg undo-1.png delete.svg pink-pointer.png undo-1.svg density-fit.svg pink-pointer.svg unknown-blob.png diff-map.png plane-distances.png unknown-blob.svg diff-map.svg plane-distances.svg water-diff-map.svg display-manager.png '/construction/science/coot/stage/usr/local/share/coot/pixmaps' install -m 0644 pointer-distances.png water-drop.svg display-manager.svg pointer-distances.svg koppi-green-tick-64.png rygle-red-cross-64.png forest51690-dwcheckno-incomplete-64.png go-to-ligand.png go-to-atom.png azerbaijan.png add-water.png mutate.png mutate-auto-fit.png edit-backbone.png torsion-general.png anchor.png regularize-1.png refine-1.png stock-zoom-follow-window-12.svg stock-zoom-follow-window-12.png rama_all.png rama_gly.png rama_pro.png rama_non_gly_pro.png '/construction/science/coot/stage/usr/local/share/coot/pixmaps' gmake[5]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pixmaps' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pixmaps' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1/pixmaps' gmake[3]: Entering directory '/construction/science/coot/coot-0.8.9.1' gmake[4]: Entering directory '/construction/science/coot/coot-0.8.9.1' gmake[4]: Nothing to be done for 'install-exec-am'. test -z "/usr/local/share/appdata" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/appdata" install -m 0644 coot.appdata.xml '/construction/science/coot/stage/usr/local/share/appdata' test -z "/usr/local/share/applications" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/applications" install -m 0644 coot.desktop '/construction/science/coot/stage/usr/local/share/applications' test -z "/usr/local/share/coot" || /bin/mkdir -p "/construction/science/coot/stage/usr/local/share/coot" install -m 0644 cootrc standard-residues.pdb colours.def mtrix-to-ncs-matrix.awk syminfo.lib '/construction/science/coot/stage/usr/local/share/coot' gmake[4]: Leaving directory '/construction/science/coot/coot-0.8.9.1' gmake[3]: Leaving directory '/construction/science/coot/coot-0.8.9.1' gmake[2]: Leaving directory '/construction/science/coot/coot-0.8.9.1' gmake[1]: Leaving directory '/construction/science/coot/coot-0.8.9.1' ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for coot-0.8.9.1_2 file sizes/checksums [14469]: .......... done packing files [14469]: .......... done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Friday, 8 MAR 2019 at 06:43:13 UTC Duration: 00:37:59