=> Building science/libccp4 Started : Sunday, 7 JUL 2019 at 08:51:34 UTC Platform: 5.7-DEVELOPMENT DragonFly v5.7.0.83.g49866-DEVELOPMENT #40: Sun Jun 30 03:00:04 PDT 2019 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.4-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.4-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="gfortran8" FC="gfortran8" FFLAGS="-O -fPIC -Wl,-rpath=/usr/local/lib/gcc8" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc8" MAKE=gmake XDG_DATA_HOME=/construction/science/libccp4 XDG_CONFIG_HOME=/construction/science/libccp4 HOME=/construction/science/libccp4 TMPDIR="/tmp" PATH=/construction/science/libccp4/.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" CONFIG_SITE=/xports/Templates/config.site lt_cv_sys_max_cmd_len=262144 -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- --enable-shared --disable-static --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- F77="gfortran8" FC="gfortran8" FFLAGS="-O -fPIC -Wl,-rpath=/usr/local/lib/gcc8" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc8" XDG_DATA_HOME=/construction/science/libccp4 XDG_CONFIG_HOME=/construction/science/libccp4 HOME=/construction/science/libccp4 TMPDIR="/tmp" PATH=/construction/science/libccp4/.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" PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -Wl,-rpath=/usr/local/lib/gcc8 -L/usr/local/lib/gcc8 -B/usr/local/bin -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS=" -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -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/libccp4/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- OSREL=5.4 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/libccp4" EXAMPLESDIR="share/examples/libccp4" DATADIR="share/libccp4" WWWDIR="www/libccp4" ETCDIR="etc/libccp4" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/libccp4 DOCSDIR=/usr/local/share/doc/libccp4 EXAMPLESDIR=/usr/local/share/examples/libccp4 WWWDIR=/usr/local/www/libccp4 ETCDIR=/usr/local/etc/libccp4 -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=Release-5.4 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 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=500400 OSVERSION=9999999 OSREL=5.4 _OSRELEASE=5.4-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- ===> License GPLv3 LGPL3 accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> libccp4-6.5.1_3 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.11.1.txz Installing pkg-1.11.1... Extracting pkg-1.11.1: .......... done ===> libccp4-6.5.1_3 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of libccp4-6.5.1_3 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License GPLv3 LGPL3 accepted by the user ===> Fetching all distfiles required by libccp4-6.5.1_3 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License GPLv3 LGPL3 accepted by the user ===> Fetching all distfiles required by libccp4-6.5.1_3 for building => SHA256 Checksum OK for libccp4-6.5.1.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License GPLv3 LGPL3 accepted by the user ===> Fetching all distfiles required by libccp4-6.5.1_3 for building ===> Extracting for libccp4-6.5.1_3 => SHA256 Checksum OK for libccp4-6.5.1.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for libccp4-6.5.1_3 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> libccp4-6.5.1_3 depends on executable: gfortran8 - not found ===> Installing existing package /packages/All/gcc8-8.3.0_2.txz Installing gcc8-8.3.0_2... `-- Installing binutils-2.32_1,1... | `-- Installing gettext-runtime-0.20.1... | | `-- Installing indexinfo-0.3.1... | | `-- Extracting indexinfo-0.3.1: .... done | `-- Extracting gettext-runtime-0.20.1: .......... done `-- Extracting binutils-2.32_1,1: .......... 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 gcc8-8.3.0_2: .......... done Message from gcc8-8.3.0_2: 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/gcc8 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. ===> libccp4-6.5.1_3 depends on executable: gfortran8 - found ===> Returning to build of libccp4-6.5.1_3 ===> libccp4-6.5.1_3 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 ===> libccp4-6.5.1_3 depends on executable: gmake - found ===> Returning to build of libccp4-6.5.1_3 ===> libccp4-6.5.1_3 depends on file: /usr/local/bin/as - found -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- ===> libccp4-6.5.1_3 depends on shared library: libmmdb2.so - not found ===> Installing existing package /packages/All/mmdb2-2.0.19.txz Installing mmdb2-2.0.19... Extracting mmdb2-2.0.19: .......... done ===> libccp4-6.5.1_3 depends on shared library: libmmdb2.so - found (/usr/local/lib/libmmdb2.so) ===> Returning to build of libccp4-6.5.1_3 -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for libccp4-6.5.1_3 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 whether gmake supports nested variables... yes checking for style of include used by gmake... GNU checking for gcc... cc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no 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 whether cc understands -c and -o together... yes checking dependency style of cc... gcc3 checking the archiver (/usr/local/bin/ar) interface... ar checking build system type... x86_64-portbld-dragonfly5.4 checking host system type... x86_64-portbld-dragonfly5.4 checking how to print strings... printf checking for a sed that does not truncate output... (cached) /usr/bin/sed checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for egrep... (cached) /usr/bin/egrep 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 how to convert x86_64-portbld-dragonfly5.4 file names to x86_64-portbld-dragonfly5.4 format... func_convert_file_noop checking how to convert x86_64-portbld-dragonfly5.4 file names to toolchain format... func_convert_file_noop 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 dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for archiver @FILE support... @ 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 sysroot... no checking for mt... mt checking if mt is a manifest tool... no checking how to run the C preprocessor... cpp checking for ANSI C header files... (cached) yes 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 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... dragonfly5.4 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 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 whether cc understands -c and -o together... (cached) yes checking dependency style of cc... (cached) gcc3 checking whether we are using the GNU C++ compiler... yes checking whether c++ accepts -g... yes checking dependency style of c++... gcc3 checking how to run the C++ preprocessor... c++ -E 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... dragonfly5.4 ld.so checking how to hardcode library paths into programs... immediate checking whether to enable maintainer-specific portions of Makefiles... no checking whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran8 accepts -g... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for gfortran8 option to produce PIC... -fPIC checking if gfortran8 PIC flag -fPIC works... yes checking if gfortran8 static flag -static works... yes checking if gfortran8 supports -c -o file.o... yes checking if gfortran8 supports -c -o file.o... (cached) yes checking whether the gfortran8 linker (/usr/local/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... dragonfly5.4 ld.so checking how to hardcode library paths into programs... immediate checking for m4... /usr/bin/m4 configure: fortran/unix.m4 will be processed with m4 checking for library containing cos... -lm checking for MMDB_CCIF_Init in -lmmdb2... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating libccp4c.pc config.status: creating libccp4f.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands /usr/bin/sed -i.bak -e 's| -Wl,--as-needed||; s| -Wl,--no-as-needed||' /construction/science/libccp4/libccp4-6.5.1/Makefile /usr/bin/sed -i.bak -e 's|^archive_cmds=|wl="-Wl,"; archive_cmds=|' /construction/science/libccp4/libccp4-6.5.1/libtool # wl is missing otherwise for some reason -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for libccp4-6.5.1_3 gmake[1]: Entering directory '/construction/science/libccp4/libccp4-6.5.1' m4 fortran/unix.m4 > fortran/unix.f gmake all-am gmake[2]: Entering directory '/construction/science/libccp4/libccp4-6.5.1' depbase=`echo ccp4/ccp4_array.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_array.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/ccp4_array.lo ccp4/ccp4_array.c &&\ mv -f $depbase.Tpo $depbase.Plo depbase=`echo ccp4/cmap_data.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_data.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmap_data.lo ccp4/cmap_data.c &&\ mv -f $depbase.Tpo $depbase.Plo depbase=`echo ccp4/cmtzlib.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmtzlib.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmtzlib.lo ccp4/cmtzlib.c &&\ mv -f $depbase.Tpo $depbase.Plo depbase=`echo ccp4/ccp4_general.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_general.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/ccp4_general.lo ccp4/ccp4_general.c &&\ mv -f $depbase.Tpo $depbase.Plo depbase=`echo ccp4/cmap_header.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_header.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmap_header.lo ccp4/cmap_header.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_array.lo -MD -MP -MF ccp4/.deps/ccp4_array.Tpo -c ccp4/ccp4_array.c -fPIC -DPIC -o ccp4/.libs/ccp4_array.o libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmtzlib.lo -MD -MP -MF ccp4/.deps/cmtzlib.Tpo -c ccp4/cmtzlib.c -fPIC -DPIC -o ccp4/.libs/cmtzlib.o libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_header.lo -MD -MP -MF ccp4/.deps/cmap_header.Tpo -c ccp4/cmap_header.c -fPIC -DPIC -o ccp4/.libs/cmap_header.o libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_general.lo -MD -MP -MF ccp4/.deps/ccp4_general.Tpo -c ccp4/ccp4_general.c -fPIC -DPIC -o ccp4/.libs/ccp4_general.o libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_data.lo -MD -MP -MF ccp4/.deps/cmap_data.Tpo -c ccp4/cmap_data.c -fPIC -DPIC -o ccp4/.libs/cmap_data.o ccp4/ccp4_general.c: In function 'ccp4setenv': ccp4/ccp4_general.c:1170:9: warning: 'strncat' specified bound 1 equals source length [-Wstringop-overflow=] strncat(tmpstr1,"_",1); ^~~~~~~~~~~~~~~~~~~~~~ depbase=`echo ccp4/csymlib.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/csymlib.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/csymlib.lo ccp4/csymlib.c &&\ mv -f $depbase.Tpo $depbase.Plo depbase=`echo ccp4/ccp4_parser.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_parser.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/ccp4_parser.lo ccp4/ccp4_parser.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_parser.lo -MD -MP -MF ccp4/.deps/ccp4_parser.Tpo -c ccp4/ccp4_parser.c -fPIC -DPIC -o ccp4/.libs/ccp4_parser.o libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/csymlib.lo -MD -MP -MF ccp4/.deps/csymlib.Tpo -c ccp4/csymlib.c -fPIC -DPIC -o ccp4/.libs/csymlib.o ccp4/ccp4_parser.c: In function 'ccp4_parse_delimiters': ccp4/ccp4_parser.c:315:2: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(delimPtr,defdelim,ldelim+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ccp4/ccp4_parser.c:307:16: note: length computed here ldelim = strlen(defdelim) + 1; ^~~~~~~~~~~~~~~~ ccp4/ccp4_parser.c:332:2: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(nulldelimPtr,defnulldelim,lnulldelim+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ccp4/ccp4_parser.c:324:20: note: length computed here lnulldelim = strlen(defnulldelim) + 1; ^~~~~~~~~~~~~~~~~~~~ ccp4/ccp4_parser.c: In function 'ccp4_parse_comments': ccp4/ccp4_parser.c:388:2: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(commentPtr,def_comment_chars,lcomment); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ccp4/ccp4_parser.c:381:18: note: length computed here lcomment = strlen(def_comment_chars) + 1; ^~~~~~~~~~~~~~~~~~~~~~~~~ depbase=`echo ccp4/cmap_labels.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_labels.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmap_labels.lo ccp4/cmap_labels.c &&\ mv -f $depbase.Tpo $depbase.Plo ccp4/ccp4_parser.c: In function 'ccp4_keymatch': ccp4/ccp4_parser.c:1086:3: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(key1,keyin1,len1); ^~~~~~~~~~~~~~~~~~~~~~~~~ ccp4/ccp4_parser.c:1075:10: note: length computed here len1 = strlen(keyin1); ^~~~~~~~~~~~~~ libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_labels.lo -MD -MP -MF ccp4/.deps/cmap_labels.Tpo -c ccp4/cmap_labels.c -fPIC -DPIC -o ccp4/.libs/cmap_labels.o ccp4/cmap_labels.c: In function 'write_maplabels': ccp4/cmap_labels.c:66:5: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(buffer,mfile->labels.labels[i],slen); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ccp4/cmap_labels.c:64:12: note: length computed here slen = strlen(mfile->labels.labels[i]); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ depbase=`echo ccp4/cvecmat.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cvecmat.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cvecmat.lo ccp4/cvecmat.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cvecmat.lo -MD -MP -MF ccp4/.deps/cvecmat.Tpo -c ccp4/cvecmat.c -fPIC -DPIC -o ccp4/.libs/cvecmat.o depbase=`echo ccp4/ccp4_program.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_program.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/ccp4_program.lo ccp4/ccp4_program.c &&\ mv -f $depbase.Tpo $depbase.Plo depbase=`echo ccp4/cmap_open.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_open.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmap_open.lo ccp4/cmap_open.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_program.lo -MD -MP -MF ccp4/.deps/ccp4_program.Tpo -c ccp4/ccp4_program.c -fPIC -DPIC -o ccp4/.libs/ccp4_program.o libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_open.lo -MD -MP -MF ccp4/.deps/cmap_open.Tpo -c ccp4/cmap_open.c -fPIC -DPIC -o ccp4/.libs/cmap_open.o ccp4/ccp4_program.c: In function 'ccp4RCSDate': ccp4/ccp4_program.c:161:7: warning: 'strncat' specified bound 1 equals source length [-Wstringop-overflow=] strncat(RCSDate,"/",1); ^~~~~~~~~~~~~~~~~~~~~~ ccp4/ccp4_program.c:163:7: warning: 'strncat' specified bound 1 equals source length [-Wstringop-overflow=] strncat(RCSDate,"/",1); ^~~~~~~~~~~~~~~~~~~~~~ ccp4/ccp4_program.c:171:7: warning: 'strncat' specified bound 1 equals source length [-Wstringop-overflow=] strncat(RCSDate,"/",1); ^~~~~~~~~~~~~~~~~~~~~~ ccp4/ccp4_program.c:173:7: warning: 'strncat' specified bound 1 equals source length [-Wstringop-overflow=] strncat(RCSDate,"/",1); ^~~~~~~~~~~~~~~~~~~~~~ depbase=`echo ccp4/library_err.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/library_err.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/library_err.lo ccp4/library_err.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/library_err.lo -MD -MP -MF ccp4/.deps/library_err.Tpo -c ccp4/library_err.c -fPIC -DPIC -o ccp4/.libs/library_err.o ccp4/library_err.c: In function 'CFile_Perror': ccp4/library_err.c:247:26: warning: comparison between pointer and zero character constant [-Wpointer-compare] if (msg == NULL || msg == '\0') colon = ""; ^~ ccp4/library_err.c:247:22: note: did you mean to dereference the pointer? if (msg == NULL || msg == '\0') colon = ""; ^ depbase=`echo ccp4/ccp4_unitcell.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_unitcell.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/ccp4_unitcell.lo ccp4/ccp4_unitcell.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/ccp4_unitcell.lo -MD -MP -MF ccp4/.deps/ccp4_unitcell.Tpo -c ccp4/ccp4_unitcell.c -fPIC -DPIC -o ccp4/.libs/ccp4_unitcell.o depbase=`echo ccp4/cmap_skew.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_skew.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmap_skew.lo ccp4/cmap_skew.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_skew.lo -MD -MP -MF ccp4/.deps/cmap_skew.Tpo -c ccp4/cmap_skew.c -fPIC -DPIC -o ccp4/.libs/cmap_skew.o depbase=`echo ccp4/library_file.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/library_file.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/library_file.lo ccp4/library_file.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/library_file.lo -MD -MP -MF ccp4/.deps/library_file.Tpo -c ccp4/library_file.c -fPIC -DPIC -o ccp4/.libs/library_file.o depbase=`echo ccp4/cmap_accessor.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_accessor.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmap_accessor.lo ccp4/cmap_accessor.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_accessor.lo -MD -MP -MF ccp4/.deps/cmap_accessor.Tpo -c ccp4/cmap_accessor.c -fPIC -DPIC -o ccp4/.libs/cmap_accessor.o depbase=`echo ccp4/cmap_stats.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_stats.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmap_stats.lo ccp4/cmap_stats.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_stats.lo -MD -MP -MF ccp4/.deps/cmap_stats.Tpo -c ccp4/cmap_stats.c -fPIC -DPIC -o ccp4/.libs/cmap_stats.o depbase=`echo ccp4/library_utils.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/library_utils.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/library_utils.lo ccp4/library_utils.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/library_utils.lo -MD -MP -MF ccp4/.deps/library_utils.Tpo -c ccp4/library_utils.c -fPIC -DPIC -o ccp4/.libs/library_utils.o depbase=`echo ccp4/cmap_close.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_close.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmap_close.lo ccp4/cmap_close.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_close.lo -MD -MP -MF ccp4/.deps/cmap_close.Tpo -c ccp4/cmap_close.c -fPIC -DPIC -o ccp4/.libs/cmap_close.o depbase=`echo ccp4/cmap_symop.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_symop.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/cmap_symop.lo ccp4/cmap_symop.c &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/cmap_symop.lo -MD -MP -MF ccp4/.deps/cmap_symop.Tpo -c ccp4/cmap_symop.c -fPIC -DPIC -o ccp4/.libs/cmap_symop.o depbase=`echo ccp4/pack_c.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/pack_c.lo -MD -MP -MF $depbase.Tpo -c -o ccp4/pack_c.lo ccp4/pack_c.c &&\ mv -f $depbase.Tpo $depbase.Plo /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-ccp4_diskio_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-ccp4_diskio_f.Tpo -c -o fortran/fortran_libccp4f_la-ccp4_diskio_f.lo `test -f 'fortran/ccp4_diskio_f.c' || echo './'`fortran/ccp4_diskio_f.c libtool: compile: cc -DHAVE_CONFIG_H -I. -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT ccp4/pack_c.lo -MD -MP -MF ccp4/.deps/pack_c.Tpo -c ccp4/pack_c.c -fPIC -DPIC -o ccp4/.libs/pack_c.o libtool: compile: cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-ccp4_diskio_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-ccp4_diskio_f.Tpo -c fortran/ccp4_diskio_f.c -fPIC -DPIC -o fortran/.libs/fortran_libccp4f_la-ccp4_diskio_f.o fortran/ccp4_diskio_f.c: In function 'qqinq_': fortran/ccp4_diskio_f.c:718:5: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(FTN_STR(filename), _ioChannels[*istrm]->iobj->name, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ MIN(strlen(_ioChannels[*istrm]->iobj->name), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ FTN_LEN(filename))); } ~~~~~~~~~~~~~~~~~~~ In file included from ./ccp4/ccp4_utils.h:29, from fortran/ccp4_diskio_f.c:60: fortran/ccp4_diskio_f.c:719:25: note: length computed here MIN(strlen(_ioChannels[*istrm]->iobj->name), ./ccp4/ccp4_types.h:69:22: note: in definition of macro 'MIN' #define MIN(x, y) (((x)<(y))?(x):(y)) ^ mv -f fortran/.deps/fortran_libccp4f_la-ccp4_diskio_f.Tpo fortran/.deps/fortran_libccp4f_la-ccp4_diskio_f.Plo /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-ccp4_parser_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-ccp4_parser_f.Tpo -c -o fortran/fortran_libccp4f_la-ccp4_parser_f.lo `test -f 'fortran/ccp4_parser_f.c' || echo './'`fortran/ccp4_parser_f.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-ccp4_parser_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-ccp4_parser_f.Tpo -c fortran/ccp4_parser_f.c -fPIC -DPIC -o fortran/.libs/fortran_libccp4f_la-ccp4_parser_f.o mv -f fortran/.deps/fortran_libccp4f_la-ccp4_parser_f.Tpo fortran/.deps/fortran_libccp4f_la-ccp4_parser_f.Plo /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-cmaplib_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-cmaplib_f.Tpo -c -o fortran/fortran_libccp4f_la-cmaplib_f.lo `test -f 'fortran/cmaplib_f.c' || echo './'`fortran/cmaplib_f.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-cmaplib_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-cmaplib_f.Tpo -c fortran/cmaplib_f.c -fPIC -DPIC -o fortran/.libs/fortran_libccp4f_la-cmaplib_f.o /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-csymlib_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-csymlib_f.Tpo -c -o fortran/fortran_libccp4f_la-csymlib_f.lo `test -f 'fortran/csymlib_f.c' || echo './'`fortran/csymlib_f.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-csymlib_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-csymlib_f.Tpo -c fortran/csymlib_f.c -fPIC -DPIC -o fortran/.libs/fortran_libccp4f_la-csymlib_f.o /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-ccp4_general_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-ccp4_general_f.Tpo -c -o fortran/fortran_libccp4f_la-ccp4_general_f.lo `test -f 'fortran/ccp4_general_f.c' || echo './'`fortran/ccp4_general_f.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-ccp4_general_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-ccp4_general_f.Tpo -c fortran/ccp4_general_f.c -fPIC -DPIC -o fortran/.libs/fortran_libccp4f_la-ccp4_general_f.o In file included from fortran/ccp4_general_f.c:34: fortran/ccp4_general_f.c: In function 'ccpfyp_': fortran/ccp4_general_f.c:88:23: warning: implicit declaration of function 'outbuf_'; did you mean 'setbuf'? [-Wimplicit-function-declaration] FORTRAN_CALL(OUTBUF,outbuf,(),(),()); ^~~~~~ ./ccp4/ccp4_fortran.h:187:5: note: in definition of macro 'FORTRAN_CALL' name##_ p_sun ^~~~ fortran/ccp4_general_f.c:106:31: warning: implicit declaration of function 'iargc_' [-Wimplicit-function-declaration] argc = FORTRAN_CALL (IARGC, iargc, (), (), ()) + 1; ^~~~~ ./ccp4/ccp4_fortran.h:187:5: note: in definition of macro 'FORTRAN_CALL' name##_ p_sun ^~~~ fortran/ccp4_general_f.c:116:27: warning: implicit declaration of function 'getarg_' [-Wimplicit-function-declaration] FORTRAN_CALL (GETARG, getarg, (&i,arg,arg_len), (&i,arg), (&i,arg,arg_len)); ^~~~~~ ./ccp4/ccp4_fortran.h:187:5: note: in definition of macro 'FORTRAN_CALL' name##_ p_sun ^~~~ fortran/ccp4_general_f.c:145:29: warning: implicit declaration of function 'ccp4h_init_'; did you mean 'ccp4printf'? [-Wimplicit-function-declaration] FORTRAN_CALL (CCP4H_INIT, ccp4h_init, (), (), ()); ^~~~~~~~~~ ./ccp4/ccp4_fortran.h:187:5: note: in definition of macro 'FORTRAN_CALL' name##_ p_sun ^~~~ fortran/ccp4_general_f.c: In function 'ccperr_': fortran/ccp4_general_f.c:222:38: warning: implicit declaration of function 'ccp4h_summary_beg_' [-Wimplicit-function-declaration] FORTRAN_CALL (CCP4H_SUMMARY_BEG, ccp4h_summary_beg, (), (), ()); ^~~~~~~~~~~~~~~~~ ./ccp4/ccp4_fortran.h:187:5: note: in definition of macro 'FORTRAN_CALL' name##_ p_sun ^~~~ fortran/ccp4_general_f.c:230:38: warning: implicit declaration of function 'ccp4h_summary_end_'; did you mean 'ccp4_parse_end'? [-Wimplicit-function-declaration] FORTRAN_CALL (CCP4H_SUMMARY_END, ccp4h_summary_end, (), (), ()); ^~~~~~~~~~~~~~~~~ ./ccp4/ccp4_fortran.h:187:5: note: in definition of macro 'FORTRAN_CALL' name##_ p_sun ^~~~ fortran/ccp4_general_f.c: In function 'ccpvrs_': fortran/ccp4_general_f.c:376:32: warning: implicit declaration of function 'ccp4h_pre_beg_'; did you mean 'ccp4_prog_vers'? [-Wimplicit-function-declaration] FORTRAN_CALL (CCP4H_PRE_BEG, ccp4h_pre_beg, (), (), ()); ^~~~~~~~~~~~~ ./ccp4/ccp4_fortran.h:187:5: note: in definition of macro 'FORTRAN_CALL' name##_ p_sun ^~~~ fortran/cmaplib_f.c: In function 'mrdhds_': fortran/cmaplib_f.c:713:3: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(title,temp_title,MIN(strlen(temp_title),FTN_LEN(title))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ./ccp4/ccp4_utils.h:29, from ./ccp4/cmaplib.h:58, from ./ccp4/cmaplib_f.h:22, from fortran/cmaplib_f.c:49: fortran/cmaplib_f.c:713:32: note: length computed here strncpy(title,temp_title,MIN(strlen(temp_title),FTN_LEN(title))); ./ccp4/ccp4_types.h:69:22: note: in definition of macro 'MIN' #define MIN(x, y) (((x)<(y))?(x):(y)) ^ mv -f fortran/.deps/fortran_libccp4f_la-ccp4_general_f.Tpo fortran/.deps/fortran_libccp4f_la-ccp4_general_f.Plo /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-ccp4_unitcell_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-ccp4_unitcell_f.Tpo -c -o fortran/fortran_libccp4f_la-ccp4_unitcell_f.lo `test -f 'fortran/ccp4_unitcell_f.c' || echo './'`fortran/ccp4_unitcell_f.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-ccp4_unitcell_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-ccp4_unitcell_f.Tpo -c fortran/ccp4_unitcell_f.c -fPIC -DPIC -o fortran/.libs/fortran_libccp4f_la-ccp4_unitcell_f.o fortran/cmaplib_f.c: In function 'ccp4_map_read_open_header_': fortran/cmaplib_f.c:917:3: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(title,temp_title,MIN(strlen(temp_title),FTN_LEN(title))); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ./ccp4/ccp4_utils.h:29, from ./ccp4/cmaplib.h:58, from ./ccp4/cmaplib_f.h:22, from fortran/cmaplib_f.c:49: fortran/cmaplib_f.c:917:32: note: length computed here strncpy(title,temp_title,MIN(strlen(temp_title),FTN_LEN(title))); ./ccp4/ccp4_types.h:69:22: note: in definition of macro 'MIN' #define MIN(x, y) (((x)<(y))?(x):(y)) ^ mv -f fortran/.deps/fortran_libccp4f_la-ccp4_unitcell_f.Tpo fortran/.deps/fortran_libccp4f_la-ccp4_unitcell_f.Plo /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-cmtzlib_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-cmtzlib_f.Tpo -c -o fortran/fortran_libccp4f_la-cmtzlib_f.lo `test -f 'fortran/cmtzlib_f.c' || echo './'`fortran/cmtzlib_f.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-cmtzlib_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-cmtzlib_f.Tpo -c fortran/cmtzlib_f.c -fPIC -DPIC -o fortran/.libs/fortran_libccp4f_la-cmtzlib_f.o In file included from fortran/cmtzlib_f.c:70: fortran/cmtzlib_f.c: In function 'mtzini_': fortran/cmtzlib_f.c:152:33: warning: implicit declaration of function 'ccp4h_init_lib_' [-Wimplicit-function-declaration] FORTRAN_CALL (CCP4H_INIT_LIB, ccp4h_init_lib, (&ihtml,&isumm), (&ihtml,&isumm), (&ihtml,&isumm)); ^~~~~~~~~~~~~~ ./ccp4/ccp4_fortran.h:187:5: note: in definition of macro 'FORTRAN_CALL' name##_ p_sun ^~~~ fortran/cmtzlib_f.c: In function 'lrhist_': fortran/cmtzlib_f.c:277:43: warning: passing argument 2 of 'ccp4_lrhist' from incompatible pointer type [-Wincompatible-pointer-types] *nlines = ccp4_lrhist(mtzdata[*mindx-1], hstrng, *nlines); ^~~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:668:38: note: expected 'char (*)[80]' but argument is of type 'fpstr' {aka 'char *'} int ccp4_lrhist(const MTZ *mtz, char history[][MTZRECORDLENGTH], int nlines); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ fortran/cmtzlib_f.c: In function 'lkyin_': fortran/cmtzlib_f.c:632:31: warning: passing argument 2 of 'MtzParseLabin' from incompatible pointer type [-Wincompatible-pointer-types] if (MtzParseLabin(temp_name,label,*nlprgi,user_label_in[*mindx-1]) == -1) ^~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:738:48: note: expected 'const char (*)[31]' but argument is of type 'char *' int MtzParseLabin(char *labin_line, const char prog_labels[][31], ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ fortran/cmtzlib_f.c: In function 'lkyout_': fortran/cmtzlib_f.c:686:31: warning: passing argument 2 of 'MtzParseLabin' from incompatible pointer type [-Wincompatible-pointer-types] if (MtzParseLabin(temp_name,label,*nlprgo,user_label_out[*mindx-1]) == -1) ^~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:738:48: note: expected 'const char (*)[31]' but argument is of type 'char *' int MtzParseLabin(char *labin_line, const char prog_labels[][31], ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ fortran/cmtzlib_f.c: In function 'lkyset_': fortran/cmtzlib_f.c:731:31: warning: passing argument 2 of 'MtzParseLabin' from incompatible pointer type [-Wincompatible-pointer-types] if (MtzParseLabin(temp_name,label,*nlprgi,user_lab) == -1) ^~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:738:48: note: expected 'const char (*)[31]' but argument is of type 'char *' int MtzParseLabin(char *labin_line, const char prog_labels[][31], ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ fortran/cmtzlib_f.c:731:45: warning: passing argument 4 of 'MtzParseLabin' from incompatible pointer type [-Wincompatible-pointer-types] if (MtzParseLabin(temp_name,label,*nlprgi,user_lab) == -1) ^~~~~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:739:28: note: expected 'char (*)[2][31]' but argument is of type 'char *' const int nlprgi, char user_labels[][2][31]); ~~~~~^~~~~~~~~~~~~~~~~~~~ fortran/cmtzlib_f.c: In function 'lrassn_': fortran/cmtzlib_f.c:830:44: warning: passing argument 2 of 'ccp4_lrassn' from incompatible pointer type [-Wincompatible-pointer-types] colarray = ccp4_lrassn(mtzdata[*mindx-1],label,*nlprgi,type); ^~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:754:10: note: expected 'const char (*)[31]' but argument is of type 'char *' MTZCOL **ccp4_lrassn(const MTZ *mtz, const char labels[][31], const int nlabels, ^~~~~~~~~~~ fortran/cmtzlib_f.c:830:58: warning: passing argument 4 of 'ccp4_lrassn' from incompatible pointer type [-Wincompatible-pointer-types] colarray = ccp4_lrassn(mtzdata[*mindx-1],label,*nlprgi,type); ^~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:754:10: note: expected 'char (*)[3]' but argument is of type 'char *' MTZCOL **ccp4_lrassn(const MTZ *mtz, const char labels[][31], const int nlabels, ^~~~~~~~~~~ fortran/cmtzlib_f.c: In function 'lrreff_': fortran/cmtzlib_f.c:1210:23: warning: passing argument 5 of 'ccp4_lrreff' from incompatible pointer type [-Wincompatible-pointer-types] collookup[mindex-1], ndatmss[mindex-1], irref[mindex-1]); ~~~~~~~~~^~~~~~~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:808:17: note: expected 'const MTZCOL **' {aka 'const struct **'} but argument is of type 'MTZCOL **' {aka 'struct **'} const MTZCOL *lookup[], const int ncols, const int iref); ~~~~~~~~~~~~~~^~~~~~~~ fortran/cmtzlib_f.c: In function 'lwhist_': fortran/cmtzlib_f.c:1807:35: warning: passing argument 2 of 'MtzAddHistory' from incompatible pointer type [-Wincompatible-pointer-types] MtzAddHistory(mtzdata[*mindx-1], hstrng, *nlines); ^~~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:875:40: note: expected 'const char (*)[80]' but argument is of type 'fpstr' {aka 'char *'} int MtzAddHistory(MTZ *mtz, const char history[][MTZRECORDLENGTH], const int nlines); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ fortran/cmtzlib_f.c: In function 'lwhstl_': fortran/cmtzlib_f.c:1859:35: warning: passing argument 2 of 'MtzAddHistory' from incompatible pointer type [-Wincompatible-pointer-types] MtzAddHistory(mtzdata[*mindx-1], hline, 1); ^~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:875:40: note: expected 'const char (*)[80]' but argument is of type 'char *' int MtzAddHistory(MTZ *mtz, const char history[][MTZRECORDLENGTH], const int nlines); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ fortran/cmtzlib_f.c: In function 'lwassn_': fortran/cmtzlib_f.c:2432:46: warning: passing argument 2 of 'ccp4_lwassn' from incompatible pointer type [-Wincompatible-pointer-types] colarray = ccp4_lwassn(mtzdata[*mindx-1],label,*nlprgo,type,*iappnd); ^~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:935:10: note: expected 'const char (*)[31]' but argument is of type 'char *' MTZCOL **ccp4_lwassn(MTZ *mtz, const char labels[][31], const int nlabels, ^~~~~~~~~~~ fortran/cmtzlib_f.c:2432:60: warning: passing argument 4 of 'ccp4_lwassn' from incompatible pointer type [-Wincompatible-pointer-types] colarray = ccp4_lwassn(mtzdata[*mindx-1],label,*nlprgo,type,*iappnd); ^~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:935:10: note: expected 'const char (*)[3]' but argument is of type 'char *' MTZCOL **ccp4_lwassn(MTZ *mtz, const char labels[][31], const int nlabels, ^~~~~~~~~~~ fortran/cmtzlib_f.c: In function 'lwclab_': fortran/cmtzlib_f.c:2510:44: warning: passing argument 2 of 'ccp4_lwassn' from incompatible pointer type [-Wincompatible-pointer-types] colarray = ccp4_lwassn(mtzdata[*mindx-1],label,*nlprgo,type,*iappnd); ^~~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:935:10: note: expected 'const char (*)[31]' but argument is of type 'char *' MTZCOL **ccp4_lwassn(MTZ *mtz, const char labels[][31], const int nlabels, ^~~~~~~~~~~ fortran/cmtzlib_f.c:2510:58: warning: passing argument 4 of 'ccp4_lwassn' from incompatible pointer type [-Wincompatible-pointer-types] colarray = ccp4_lwassn(mtzdata[*mindx-1],label,*nlprgo,type,*iappnd); ^~~~ In file included from fortran/cmtzlib_f.c:72: ./ccp4/cmtzlib.h:935:10: note: expected 'const char (*)[3]' but argument is of type 'char *' MTZCOL **ccp4_lwassn(MTZ *mtz, const char labels[][31], const int nlabels, ^~~~~~~~~~~ /bin/sh ./libtool --tag=CC --mode=compile cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-library_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-library_f.Tpo -c -o fortran/fortran_libccp4f_la-library_f.lo `test -f 'fortran/library_f.c' || echo './'`fortran/library_f.c libtool: compile: cc -DHAVE_CONFIG_H -I. -I./ccp4 -isystem /usr/local/include -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -MT fortran/fortran_libccp4f_la-library_f.lo -MD -MP -MF fortran/.deps/fortran_libccp4f_la-library_f.Tpo -c fortran/library_f.c -fPIC -DPIC -o fortran/.libs/fortran_libccp4f_la-library_f.o mv -f fortran/.deps/fortran_libccp4f_la-csymlib_f.Tpo fortran/.deps/fortran_libccp4f_la-csymlib_f.Plo /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/ccplib.lo fortran/ccplib.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/ccplib.f -fPIC -o fortran/.libs/ccplib.o mv -f fortran/.deps/fortran_libccp4f_la-library_f.Tpo fortran/.deps/fortran_libccp4f_la-library_f.Plo /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/fftlib.lo fortran/fftlib.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/fftlib.f -fPIC -o fortran/.libs/fftlib.o fortran/cmaplib_f.c: In function 'mwfnam_': fortran/cmaplib_f.c:2110:3: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(FTN_STR(logname), ioArray[last_Write]->logname, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ MIN(strlen(ioArray[last_Write]->logname), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ FTN_LEN(logname))); ~~~~~~~~~~~~~~~~~~ In file included from ./ccp4/ccp4_utils.h:29, from ./ccp4/cmaplib.h:58, from ./ccp4/cmaplib_f.h:22, from fortran/cmaplib_f.c:49: fortran/cmaplib_f.c:2111:8: note: length computed here MIN(strlen(ioArray[last_Write]->logname), ./ccp4/ccp4_types.h:69:22: note: in definition of macro 'MIN' #define MIN(x, y) (((x)<(y))?(x):(y)) ^ fortran/cmaplib_f.c: In function 'mrfnam_': fortran/cmaplib_f.c:2138:3: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(FTN_STR(logname), ioArray[last_Read]->logname, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ MIN(strlen(ioArray[last_Read]->logname), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ FTN_LEN(logname))); ~~~~~~~~~~~~~~~~~~ In file included from ./ccp4/ccp4_utils.h:29, from ./ccp4/cmaplib.h:58, from ./ccp4/cmaplib_f.h:22, from fortran/cmaplib_f.c:49: fortran/cmaplib_f.c:2139:8: note: length computed here MIN(strlen(ioArray[last_Read]->logname), ./ccp4/ccp4_types.h:69:22: note: in definition of macro 'MIN' #define MIN(x, y) (((x)<(y))?(x):(y)) ^ mv -f fortran/.deps/fortran_libccp4f_la-cmaplib_f.Tpo fortran/.deps/fortran_libccp4f_la-cmaplib_f.Plo /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/modlib.lo fortran/modlib.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/modlib.f -fPIC -o fortran/.libs/modlib.o fortran/modlib.f:1386:18: fortran/modlib.f:1383:72: DO 20 J = 2,M 2 fortran/modlib.f:1386:18: A(I,J) = A(J,I) 1 Warning: Array reference at (1) out of bounds (2 > 1) in loop beginning at (2) fortran/modlib.f:1388:16: fortran/modlib.f:1383:72: DO 20 J = 2,M 2 fortran/modlib.f:1388:16: ALPHA(J) = A(J,J) 1 Warning: Array reference at (1) out of bounds (2 > 1) in loop beginning at (2) fortran/modlib.f:1388:25: fortran/modlib.f:1383:72: DO 20 J = 2,M 2 fortran/modlib.f:1388:25: ALPHA(J) = A(J,J) 1 Warning: Array reference at (1) out of bounds (2 > 1) in loop beginning at (2) fortran/modlib.f:1441:20: DO 120 I = 2,M 2 H = ALPHA(I) 1 Warning: Array reference at (1) out of bounds (2 > 1) in loop beginning at (2) fortran/modlib.f:1442:16: fortran/modlib.f:1440:72: DO 120 I = 2,M 2 fortran/modlib.f:1442:16: ALPHA(I) = A(I,I) 1 Warning: Array reference at (1) out of bounds (2 > 1) in loop beginning at (2) fortran/modlib.f:1442:25: fortran/modlib.f:1440:72: DO 120 I = 2,M 2 fortran/modlib.f:1442:25: ALPHA(I) = A(I,I) 1 Warning: Array reference at (1) out of bounds (2 > 1) in loop beginning at (2) fortran/modlib.f:1443:14: fortran/modlib.f:1440:72: DO 120 I = 2,M 2 fortran/modlib.f:1443:14: A(I,I) = H 1 Warning: Array reference at (1) out of bounds (2 > 1) in loop beginning at (2) /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/parser.lo fortran/parser.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/parser.f -fPIC -o fortran/.libs/parser.o /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/rwbrook.lo fortran/rwbrook.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/rwbrook.f -fPIC -o fortran/.libs/rwbrook.o /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/libhtml.lo fortran/libhtml.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/libhtml.f -fPIC -o fortran/.libs/libhtml.o /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/keyparse.lo fortran/keyparse.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/keyparse.f -fPIC -o fortran/.libs/keyparse.o /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/dna_output.lo fortran/dna_output.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/dna_output.f -fPIC -o fortran/.libs/dna_output.o /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/pack_f.lo fortran/pack_f.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/pack_f.f -fPIC -o fortran/.libs/pack_f.o mv -f fortran/.deps/fortran_libccp4f_la-cmtzlib_f.Tpo fortran/.deps/fortran_libccp4f_la-cmtzlib_f.Plo /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/pxxml.lo fortran/pxxml.f /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/lgglib.lo fortran/lgglib.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/pxxml.f -fPIC -o fortran/.libs/pxxml.o libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/lgglib.f -fPIC -o fortran/.libs/lgglib.o /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/plot84lib.lo fortran/plot84lib.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/plot84lib.f -fPIC -o fortran/.libs/plot84lib.o /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/plotsubs.lo fortran/plotsubs.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/plotsubs.f -fPIC -o fortran/.libs/plotsubs.o /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/sorting_main.lo fortran/sorting_main.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/sorting_main.f -fPIC -o fortran/.libs/sorting_main.o /bin/sh ./libtool --tag=F77 --mode=compile gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c -o fortran/unix.lo fortran/unix.f libtool: compile: gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -c fortran/unix.f -fPIC -o fortran/.libs/unix.o /bin/sh ./libtool --tag=CC --mode=link cc -pipe -fPIC -O2 -isystem /usr/local/include -fno-strict-aliasing -no-undefined -Wl,-rpath=/usr/local/lib/gcc8 -L/usr/local/lib/gcc8 -B/usr/local/bin -L/usr/local/lib -o ccp4/libccp4c.la -rpath /usr/local/lib ccp4/ccp4_array.lo ccp4/cmap_data.lo ccp4/cmtzlib.lo ccp4/ccp4_general.lo ccp4/cmap_header.lo ccp4/csymlib.lo ccp4/ccp4_parser.lo ccp4/cmap_labels.lo ccp4/cvecmat.lo ccp4/ccp4_program.lo ccp4/cmap_open.lo ccp4/library_err.lo ccp4/ccp4_unitcell.lo ccp4/cmap_skew.lo ccp4/library_file.lo ccp4/cmap_accessor.lo ccp4/cmap_stats.lo ccp4/library_utils.lo ccp4/cmap_close.lo ccp4/cmap_symop.lo ccp4/pack_c.lo -lm libtool: link: cc -shared -fPIC -DPIC ccp4/.libs/ccp4_array.o ccp4/.libs/cmap_data.o ccp4/.libs/cmtzlib.o ccp4/.libs/ccp4_general.o ccp4/.libs/cmap_header.o ccp4/.libs/csymlib.o ccp4/.libs/ccp4_parser.o ccp4/.libs/cmap_labels.o ccp4/.libs/cvecmat.o ccp4/.libs/ccp4_program.o ccp4/.libs/cmap_open.o ccp4/.libs/library_err.o ccp4/.libs/ccp4_unitcell.o ccp4/.libs/cmap_skew.o ccp4/.libs/library_file.o ccp4/.libs/cmap_accessor.o ccp4/.libs/cmap_stats.o ccp4/.libs/library_utils.o ccp4/.libs/cmap_close.o ccp4/.libs/cmap_symop.o ccp4/.libs/pack_c.o -L/usr/local/lib/gcc8 -L/usr/local/lib -lm -O2 -Wl,-rpath=/usr/local/lib/gcc8 -B/usr/local/bin -Wl,-soname -Wl,libccp4c.so.0 -o ccp4/.libs/libccp4c.so.0.0.0 libtool: link: (cd "ccp4/.libs" && rm -f "libccp4c.so.0" && ln -s "libccp4c.so.0.0.0" "libccp4c.so.0") libtool: link: (cd "ccp4/.libs" && rm -f "libccp4c.so" && ln -s "libccp4c.so.0.0.0" "libccp4c.so") libtool: link: ( cd "ccp4/.libs" && rm -f "libccp4c.la" && ln -s "../libccp4c.la" "libccp4c.la" ) fortran/lgglib.f:1239:72: CALL matmult(3,3,3,1,ORTH,B3,XYZ,B1) 1 Warning: More actual than formal arguments in procedure call at (1) fortran/lgglib.f:1277:72: CALL matmult(3,3,3,1,ORTH,B3,XYZ,B1) 1 Warning: More actual than formal arguments in procedure call at (1) fortran/lgglib.f:1315:72: 1 , (X(I,NATM),I=1,3) 1 Warning: Branch at (1) may result in an infinite loop fortran/lgglib.f:1369:72: 1 , (X(I,NATM),I=1,3),occ(natm),bfac(natm) 1 Warning: Branch at (1) may result in an infinite loop fortran/lgglib.f:1429:72: 1 , (X(I,NATM),I=1,3),occ(natm),bfac(natm) 1 Warning: Branch at (1) may result in an infinite loop fortran/lgglib.f:1489:72: 1 res(natm), (X(I,NATM),I=1,3),occ(natm),bfac(natm) 1 Warning: Branch at (1) may result in an infinite loop fortran/lgglib.f:1546:72: 1 , (X(I,NATM),I=1,3) 1 Warning: Branch at (1) may result in an infinite loop fortran/lgglib.f:1598:72: 1 SEQ(NATM), RES(NATM), ATOM(NATM) 1 Warning: Branch at (1) may result in an infinite loop fortran/lgglib.f:2424:10: do j = 1, 4 2 rt(j,4) = gt(4,j) 1 Warning: Array reference at (1) out of bounds (4 > 3) in loop beginning at (2) fortran/plot84lib.f:8301:22: CALL AXIS(X,Y,HTEXT,NCHAR,AXLEN,ANGLE,FVAL,DV) 1 Warning: Rank mismatch in argument 'label' at (1) (scalar and rank-1) [-Wargument-mismatch] fortran/plot84lib.f:10427:19: CALL TRIPLOT(ICLEAR,1) 1 Warning: Rank mismatch in argument 'line' at (1) (rank-1 and scalar) [-Wargument-mismatch] /bin/sh ./libtool --tag=F77 --mode=link gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -no-undefined -Wl,-rpath=/usr/local/lib/gcc8 -L/usr/local/lib/gcc8 -B/usr/local/bin -L/usr/local/lib -o fortran/libccp4f.la -rpath /usr/local/lib fortran/fortran_libccp4f_la-ccp4_diskio_f.lo fortran/fortran_libccp4f_la-ccp4_parser_f.lo fortran/fortran_libccp4f_la-cmaplib_f.lo fortran/fortran_libccp4f_la-csymlib_f.lo fortran/fortran_libccp4f_la-ccp4_general_f.lo fortran/fortran_libccp4f_la-ccp4_unitcell_f.lo fortran/fortran_libccp4f_la-cmtzlib_f.lo fortran/fortran_libccp4f_la-library_f.lo fortran/ccplib.lo fortran/fftlib.lo fortran/modlib.lo fortran/parser.lo fortran/rwbrook.lo fortran/libhtml.lo fortran/keyparse.lo fortran/dna_output.lo fortran/pack_f.lo fortran/pxxml.lo fortran/lgglib.lo fortran/plot84lib.lo fortran/plotsubs.lo fortran/sorting_main.lo fortran/unix.lo ccp4/libccp4c.la -lmmdb2 -lm libtool: link: gfortran8 -shared -fPIC fortran/.libs/fortran_libccp4f_la-ccp4_diskio_f.o fortran/.libs/fortran_libccp4f_la-ccp4_parser_f.o fortran/.libs/fortran_libccp4f_la-cmaplib_f.o fortran/.libs/fortran_libccp4f_la-csymlib_f.o fortran/.libs/fortran_libccp4f_la-ccp4_general_f.o fortran/.libs/fortran_libccp4f_la-ccp4_unitcell_f.o fortran/.libs/fortran_libccp4f_la-cmtzlib_f.o fortran/.libs/fortran_libccp4f_la-library_f.o fortran/.libs/ccplib.o fortran/.libs/fftlib.o fortran/.libs/modlib.o fortran/.libs/parser.o fortran/.libs/rwbrook.o fortran/.libs/libhtml.o fortran/.libs/keyparse.o fortran/.libs/dna_output.o fortran/.libs/pack_f.o fortran/.libs/pxxml.o fortran/.libs/lgglib.o fortran/.libs/plot84lib.o fortran/.libs/plotsubs.o fortran/.libs/sorting_main.o fortran/.libs/unix.o -Wl,-rpath -Wl,/construction/science/libccp4/libccp4-6.5.1/ccp4/.libs -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc8 -L/usr/local/lib ccp4/.libs/libccp4c.so -lmmdb2 -lm -O -Wl,-rpath=/usr/local/lib/gcc8 -Wl,-rpath=/usr/local/lib/gcc8 -B/usr/local/bin -Wl,-soname -Wl,libccp4f.so.0 -o fortran/.libs/libccp4f.so.0.0.0 libtool: link: (cd "fortran/.libs" && rm -f "libccp4f.so.0" && ln -s "libccp4f.so.0.0.0" "libccp4f.so.0") libtool: link: (cd "fortran/.libs" && rm -f "libccp4f.so" && ln -s "libccp4f.so.0.0.0" "libccp4f.so") libtool: link: ( cd "fortran/.libs" && rm -f "libccp4f.la" && ln -s "../libccp4f.la" "libccp4f.la" ) gmake[2]: Leaving directory '/construction/science/libccp4/libccp4-6.5.1' gmake[1]: Leaving directory '/construction/science/libccp4/libccp4-6.5.1' -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- ===> libccp4-6.5.1_3 depends on executable: gfortran8 - found -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for libccp4-6.5.1_3 ===> Generating temporary packing list gmake[1]: Entering directory '/construction/science/libccp4/libccp4-6.5.1' if test -z 'strip'; then \ gmake INSTALL_PROGRAM="/bin/sh /construction/science/libccp4/libccp4-6.5.1/build-aux/install-sh -c -s" \ install_sh_PROGRAM="/bin/sh /construction/science/libccp4/libccp4-6.5.1/build-aux/install-sh -c -s" INSTALL_STRIP_FLAG=-s \ install; \ else \ gmake INSTALL_PROGRAM="/bin/sh /construction/science/libccp4/libccp4-6.5.1/build-aux/install-sh -c -s" \ install_sh_PROGRAM="/bin/sh /construction/science/libccp4/libccp4-6.5.1/build-aux/install-sh -c -s" INSTALL_STRIP_FLAG=-s \ "INSTALL_PROGRAM_ENV=STRIPPROG='strip'" install; \ fi gmake[2]: Entering directory '/construction/science/libccp4/libccp4-6.5.1' gmake install-am gmake[3]: Entering directory '/construction/science/libccp4/libccp4-6.5.1' gmake[4]: Entering directory '/construction/science/libccp4/libccp4-6.5.1' /bin/mkdir -p '/construction/science/libccp4/stage/usr/local/lib' /bin/sh ./libtool --mode=install /usr/bin/install -c -s ccp4/libccp4c.la fortran/libccp4f.la '/construction/science/libccp4/stage/usr/local/lib' libtool: install: /usr/bin/install -c ccp4/.libs/libccp4c.so.0.0.0 /construction/science/libccp4/stage/usr/local/lib/libccp4c.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/libccp4/stage/usr/local/lib/libccp4c.so.0.0.0 libtool: install: (cd /construction/science/libccp4/stage/usr/local/lib && { ln -s -f libccp4c.so.0.0.0 libccp4c.so.0 || { rm -f libccp4c.so.0 && ln -s libccp4c.so.0.0.0 libccp4c.so.0; }; }) libtool: install: (cd /construction/science/libccp4/stage/usr/local/lib && { ln -s -f libccp4c.so.0.0.0 libccp4c.so || { rm -f libccp4c.so && ln -s libccp4c.so.0.0.0 libccp4c.so; }; }) libtool: install: /usr/bin/install -c ccp4/.libs/libccp4c.lai /construction/science/libccp4/stage/usr/local/lib/libccp4c.la libtool: install: warning: relinking `fortran/libccp4f.la' libtool: install: (cd /construction/science/libccp4/libccp4-6.5.1; /bin/sh /construction/science/libccp4/libccp4-6.5.1/libtool --tag F77 --mode=relink gfortran8 -fno-second-underscore -O -fPIC -Wl,-rpath=/usr/local/lib/gcc8 -no-undefined -Wl,-rpath=/usr/local/lib/gcc8 -L/usr/local/lib/gcc8 -B/usr/local/bin -L/usr/local/lib -o fortran/libccp4f.la -rpath /usr/local/lib fortran/fortran_libccp4f_la-ccp4_diskio_f.lo fortran/fortran_libccp4f_la-ccp4_parser_f.lo fortran/fortran_libccp4f_la-cmaplib_f.lo fortran/fortran_libccp4f_la-csymlib_f.lo fortran/fortran_libccp4f_la-ccp4_general_f.lo fortran/fortran_libccp4f_la-ccp4_unitcell_f.lo fortran/fortran_libccp4f_la-cmtzlib_f.lo fortran/fortran_libccp4f_la-library_f.lo fortran/ccplib.lo fortran/fftlib.lo fortran/modlib.lo fortran/parser.lo fortran/rwbrook.lo fortran/libhtml.lo fortran/keyparse.lo fortran/dna_output.lo fortran/pack_f.lo fortran/pxxml.lo fortran/lgglib.lo fortran/plot84lib.lo fortran/plotsubs.lo fortran/sorting_main.lo fortran/unix.lo ccp4/libccp4c.la -lmmdb2 -lm -inst-prefix-dir /construction/science/libccp4/stage) libtool: relink: gfortran8 -shared -fPIC fortran/.libs/fortran_libccp4f_la-ccp4_diskio_f.o fortran/.libs/fortran_libccp4f_la-ccp4_parser_f.o fortran/.libs/fortran_libccp4f_la-cmaplib_f.o fortran/.libs/fortran_libccp4f_la-csymlib_f.o fortran/.libs/fortran_libccp4f_la-ccp4_general_f.o fortran/.libs/fortran_libccp4f_la-ccp4_unitcell_f.o fortran/.libs/fortran_libccp4f_la-cmtzlib_f.o fortran/.libs/fortran_libccp4f_la-library_f.o fortran/.libs/ccplib.o fortran/.libs/fftlib.o fortran/.libs/modlib.o fortran/.libs/parser.o fortran/.libs/rwbrook.o fortran/.libs/libhtml.o fortran/.libs/keyparse.o fortran/.libs/dna_output.o fortran/.libs/pack_f.o fortran/.libs/pxxml.o fortran/.libs/lgglib.o fortran/.libs/plot84lib.o fortran/.libs/plotsubs.o fortran/.libs/sorting_main.o fortran/.libs/unix.o -Wl,-rpath -Wl,/usr/local/lib -L/usr/local/lib/gcc8 -L/usr/local/lib ccp4/.libs/libccp4c.so -lmmdb2 -lm -O -Wl,-rpath=/usr/local/lib/gcc8 -Wl,-rpath=/usr/local/lib/gcc8 -B/usr/local/bin -Wl,-soname -Wl,libccp4f.so.0 -o fortran/.libs/libccp4f.so.0.0.0 libtool: install: /usr/bin/install -c fortran/.libs/libccp4f.so.0.0.0T /construction/science/libccp4/stage/usr/local/lib/libccp4f.so.0.0.0 libtool: install: strip --strip-unneeded /construction/science/libccp4/stage/usr/local/lib/libccp4f.so.0.0.0 libtool: install: (cd /construction/science/libccp4/stage/usr/local/lib && { ln -s -f libccp4f.so.0.0.0 libccp4f.so.0 || { rm -f libccp4f.so.0 && ln -s libccp4f.so.0.0.0 libccp4f.so.0; }; }) libtool: install: (cd /construction/science/libccp4/stage/usr/local/lib && { ln -s -f libccp4f.so.0.0.0 libccp4f.so || { rm -f libccp4f.so && ln -s libccp4f.so.0.0.0 libccp4f.so; }; }) libtool: install: /usr/bin/install -c fortran/.libs/libccp4f.lai /construction/science/libccp4/stage/usr/local/lib/libccp4f.la libtool: install: warning: remember to run `libtool --finish /usr/local/lib' /bin/mkdir -p '/construction/science/libccp4/stage/usr/local/include/ccp4' install -m 0644 ccp4/ccp4_file_err.h ccp4/ccp4_program.h ccp4/ccp4_unitcell.h ccp4/cmap_errno.h ccp4/cmap_stats.h ccp4/csymlib.h ccp4/library_file.h ccp4/w32mvs.h ccp4/ccp4_fortran.h ccp4/ccp4_spg.h ccp4/ccp4_utils.h ccp4/cmap_header.h ccp4/cmaplib.h ccp4/cvecmat.h ccp4/mtzdata.h ccp4/ccp4_array.h ccp4/ccp4_general.h ccp4/ccp4_sysdep.h ccp4/ccp4_vars.h ccp4/cmap_labels.h ccp4/cmaplib_f.h ccp4/overview.h ccp4/ccp4_errno.h ccp4/ccp4_parser.h ccp4/ccp4_types.h ccp4/cmap_data.h ccp4/cmap_skew.h ccp4/cmtzlib.h ccp4/pack_c.h '/construction/science/libccp4/stage/usr/local/include/ccp4' /bin/mkdir -p '/construction/science/libccp4/stage/usr/local/share/ccp4' install -m 0644 ccp4-config.cmake '/construction/science/libccp4/stage/usr/local/share/ccp4' /bin/mkdir -p '/construction/science/libccp4/stage/usr/local/share' install -m 0644 data/atomsf_neutron.lib data/atomsf_electron.lib data/atomsf.lib data/syminfo.lib data/symop.lib data/font84.ascii '/construction/science/libccp4/stage/usr/local/share' /bin/mkdir -p '/construction/science/libccp4/stage/usr/local/lib/pkgconfig' install -m 0644 libccp4c.pc libccp4f.pc '/construction/science/libccp4/stage/usr/local/lib/pkgconfig' gmake[4]: Leaving directory '/construction/science/libccp4/libccp4-6.5.1' gmake[3]: Leaving directory '/construction/science/libccp4/libccp4-6.5.1' gmake[2]: Leaving directory '/construction/science/libccp4/libccp4-6.5.1' gmake[1]: Leaving directory '/construction/science/libccp4/libccp4-6.5.1' ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for libccp4-6.5.1_3 file sizes/checksums [48]: . done packing files [48]: . done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Sunday, 7 JUL 2019 at 08:52:22 UTC Duration: 00:00:47