=> Building science/py-netCDF4 build started at Wed Oct 5 17:24:33 PDT 2016 port directory: /usr/ports/science/py-netCDF4 building for: DragonFly pkgbox64.dragonflybsd.org 4.7-DEVELOPMENT DragonFly v4.7.0.78.g7d868-DEVELOPMENT #7: Mon Aug 1 22:25:32 PDT 2016 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 maintained by: bofh@FreeBSD.org ident warning: no id keywords in /build/boomdata/data/.m/bleeding-edge-default/ref/../10//usr/ports/science/py-netCDF4/Makefile Makefile ident: Poudriere version: 3.1-pre Host OSVERSION: 400700 Jail OSVERSION: 400702 !!! Jail is newer than host. (Jail: 400702, Host: 400700) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- STATUS=1 SAVED_TERM=screen MASTERMNT=/build/boomdata/data/.m/bleeding-edge-default/ref PATH=/usr/local/libexec/poudriere:/sbin:/bin:/usr/sbin:/usr/bin:/usr/pkg/bin:/usr/pkg/sbin:/usr/games:/usr/local/sbin:/usr/local/bin:/usr/pkg/xorg/bin:/usr/X11R6/bin:/root/bin:/sbin:/usr/sbin POUDRIERE_BUILD_TYPE=bulk PKGNAME=py27-netCDF4-1.2.4_1 OLDPWD=/root/boom PWD=/build/boomdata/data/.m/bleeding-edge-default/ref/.p/pool MASTERNAME=bleeding-edge-default TERM=cons25 USER=root HOME=/root POUDRIERE_VERSION=3.1-pre LOCALBASE=/usr/local PACKAGE_BUILDING=yes ---End Environment--- ---Begin OPTIONS List--- ===> The following configuration options are available for py27-netCDF4-1.2.4_1: DOCS=on: Build and/or install documentation EXAMPLES=on: Build and/or install examples ===> Use 'make config' to modify these settings ---End OPTIONS List--- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python2.7" XDG_DATA_HOME=/wrkdirs/science/py-netCDF4 XDG_CONFIG_HOME=/wrkdirs/science/py-netCDF4 HOME=/wrkdirs/science/py-netCDF4 TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc50 --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/science/py-netCDF4 XDG_CONFIG_HOME=/wrkdirs/science/py-netCDF4 HOME=/wrkdirs/science/py-netCDF4 TMPDIR="/tmp" NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc50 LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing" CPP="cpp" CPPFLAGS="" LDFLAGS="" LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing" MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 444" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- PYTHON_INCLUDEDIR=include/python2.7 PYTHON_LIBDIR=lib/python2.7 PYTHON_PLATFORM=dragonfly4 PYTHON_SITELIBDIR=lib/python2.7/site-packages PYTHON_VER=2.7 PYTHON_VERSION=python2.7 OSREL=4.7 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/py-netCDF4" EXAMPLESDIR="share/examples/py-netCDF4" DATADIR="share/netCDF4" WWWDIR="www/netCDF4" ETCDIR="etc/netCDF4" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/netCDF4 DOCSDIR=/usr/local/share/doc/py-netCDF4 EXAMPLESDIR=/usr/local/share/examples/py-netCDF4 WWWDIR=/usr/local/www/netCDF4 ETCDIR=/usr/local/etc/netCDF4 --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs NO_BACKUP=yes USE_PACKAGE_DEPENDS=yes PKG_CREATE_VERBOSE=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORT_DBDIR=/options PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles MAKE_JOBS_NUMBER=5 ---End make.conf--- =================================================== ===> License MIT accepted by the user =========================================================================== =================================================== ===> py27-netCDF4-1.2.4_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.8.7_3.txz Installing pkg-1.8.7_3... Extracting pkg-1.8.7_3: .......... done ===> py27-netCDF4-1.2.4_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py27-netCDF4-1.2.4_1 =========================================================================== =================================================== =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py27-netCDF4-1.2.4_1 for building =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py27-netCDF4-1.2.4_1 for building => SHA256 Checksum OK for Unidata-netcdf4-python-v1.2.4rel_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License MIT accepted by the user ===> Fetching all distfiles required by py27-netCDF4-1.2.4_1 for building ===> Extracting for py27-netCDF4-1.2.4_1 => SHA256 Checksum OK for Unidata-netcdf4-python-v1.2.4rel_GH0.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for py27-netCDF4-1.2.4_1 =========================================================================== =================================================== ===> py27-netCDF4-1.2.4_1 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - not found ===> Installing existing package /packages/All/py27-numpy-1.11.1,1.txz Installing py27-numpy-1.11.1,1... `-- Installing python27-2.7.12... | `-- Installing expat-2.2.0... | `-- Extracting expat-2.2.0: .......... done | `-- Installing readline-6.3.8... | | `-- Installing indexinfo-0.2.5... | | `-- Extracting indexinfo-0.2.5: .... done | | `-- Installing ncurses-6.0_5... | | `-- Extracting ncurses-6.0_5: .......... done | `-- Extracting readline-6.3.8: .......... done | `-- Installing libffi-3.2.1... | `-- Extracting libffi-3.2.1: .......... done | `-- Installing libressl-2.4.3... | `-- Extracting libressl-2.4.3: .......... done | `-- Installing gettext-runtime-0.19.8.1... | `-- Extracting gettext-runtime-0.19.8.1: .......... done `-- Extracting python27-2.7.12: .......... done `-- Installing py27-setuptools27-23.1.0... `-- Extracting py27-setuptools27-23.1.0: .......... done `-- Installing lapack-3.5.0... | `-- Installing blas-3.5.0_3... | | `-- Installing gcc5-5.4.0... | | `-- Installing mpc-1.0.3... | | | `-- Installing gmp-5.1.3_3... | | | `-- Extracting gmp-5.1.3_3: .......... done | | | `-- Installing mpfr-3.1.5... | | | `-- Extracting mpfr-3.1.5: .......... done | | `-- Extracting mpc-1.0.3: ...... done | | `-- Installing binutils-2.27_4,1... | | `-- Extracting binutils-2.27_4,1: .......... done | | `-- Extracting gcc5-5.4.0: .......... done | `-- Extracting blas-3.5.0_3: ....... done `-- Extracting lapack-3.5.0: .......... done `-- Installing openblas-0.2.18_1,1... `-- Extracting openblas-0.2.18_1,1: ......... done `-- Installing suitesparse-4.0.2_4... `-- Extracting suitesparse-4.0.2_4: .......... done `-- Installing cblas-1.0_4... `-- Extracting cblas-1.0_4: ......... done Extracting py27-numpy-1.11.1,1: .......... done Message from ncurses-6.0_5: ===> NOTICE: The ncurses 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 Message from python27-2.7.12: =========================================================================== 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 =========================================================================== Message from gcc5-5.4.0: 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. Message from cblas-1.0_4: ===> NOTICE: The cblas 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 ===> py27-netCDF4-1.2.4_1 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> Returning to build of py27-netCDF4-1.2.4_1 ===> py27-netCDF4-1.2.4_1 depends on package: py27-setuptools27>0 - found ===> py27-netCDF4-1.2.4_1 depends on file: /usr/local/bin/python2.7 - found =========================================================================== =================================================== ===> py27-netCDF4-1.2.4_1 depends on shared library: libhdf5.so - not found ===> Installing existing package /packages/All/hdf5-1.10.0.txz Installing hdf5-1.10.0... `-- Installing hdf-szip-2.1_2... `-- Extracting hdf-szip-2.1_2: ........ done Extracting hdf5-1.10.0: .......... done ===> py27-netCDF4-1.2.4_1 depends on shared library: libhdf5.so - found (/usr/local/lib/libhdf5.so) ===> Returning to build of py27-netCDF4-1.2.4_1 ===> py27-netCDF4-1.2.4_1 depends on shared library: libnetcdf.so - not found ===> Installing existing package /packages/All/netcdf-4.4.0_2.txz Installing netcdf-4.4.0_2... `-- Installing pkgconf-1.0.1... `-- Extracting pkgconf-1.0.1: .......... done `-- Installing curl-7.50.3... | `-- Installing ca_root_nss-3.27... | `-- Extracting ca_root_nss-3.27: ....... done | `-- Installing krb5-1.14.4... | `-- Extracting krb5-1.14.4: .......... done `-- Extracting curl-7.50.3: .......... done Extracting netcdf-4.4.0_2: .......... done Message from ca_root_nss-3.27: ********************************* 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 *************************************************************************** ===> py27-netCDF4-1.2.4_1 depends on shared library: libnetcdf.so - found (/usr/local/lib/libnetcdf.so) ===> Returning to build of py27-netCDF4-1.2.4_1 =========================================================================== =================================================== ===> Configuring for py27-netCDF4-1.2.4_1 Package hdf5 was not found in the pkg-config search path. Perhaps you should add the directory containing `hdf5.pc' to the PKG_CONFIG_PATH environment variable Package 'hdf5', required by 'virtual:world', not found reading from setup.cfg... using nc-config ... using netcdf library version 4.4.0 running config =========================================================================== =================================================== ===> Building for py27-netCDF4-1.2.4_1 Package hdf5 was not found in the pkg-config search path. Perhaps you should add the directory containing `hdf5.pc' to the PKG_CONFIG_PATH environment variable Package 'hdf5', required by 'virtual:world', not found reading from setup.cfg... using nc-config ... using netcdf library version 4.4.0 running build running build_py creating build creating build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7 creating build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime copying netcdftime/__init__.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime copying netcdftime/netcdftime.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime creating build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4 copying netCDF4/utils.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4 copying netCDF4/__init__.py -> build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4 running build_ext building 'netCDF4._netCDF4' extension creating build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7 creating build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4 cc -DNDEBUG -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c netCDF4/_netCDF4.c -o build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4/_netCDF4.o In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1777:0, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from netCDF4/_netCDF4.c:267: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it by " \ ^ netCDF4/_netCDF4.c: In function '__pyx_f_7netCDF4_8_netCDF4__set_att': netCDF4/_netCDF4.c:6423:90: warning: passing argument 5 of 'nc_put_att_string' from incompatible pointer type [-Wincompatible-pointer-types] __pyx_v_ierr = nc_put_att_string(__pyx_t_6, __pyx_v_varid, __pyx_v_attname, 1, (&__pyx_v_datstring)); ^ In file included from netCDF4/_netCDF4.c:266:0: /usr/local/include/netcdf.h:1002:1: note: expected 'const char **' but argument is of type 'char **' nc_put_att_string(int ncid, int varid, const char *name, ^ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4/_netCDF4.o -L/usr/local/lib -L/usr/local/lib -R/usr/local/lib -lnetcdf -lpython2.7 -o build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4/_netCDF4.so building 'netcdftime._datetime' extension creating build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime cc -DNDEBUG -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/include/python2.7 -c netcdftime/_datetime.c -o build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime/_datetime.o cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime/_datetime.o -L/usr/local/lib -lpython2.7 -o build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime/_datetime.so =========================================================================== =================================================== ===> py27-netCDF4-1.2.4_1 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> py27-netCDF4-1.2.4_1 depends on package: py27-setuptools27>0 - found ===> py27-netCDF4-1.2.4_1 depends on file: /usr/local/bin/python2.7 - found =========================================================================== =================================================== ===> Staging for py27-netCDF4-1.2.4_1 ===> Generating temporary packing list Package hdf5 was not found in the pkg-config search path. Perhaps you should add the directory containing `hdf5.pc' to the PKG_CONFIG_PATH environment variable Package 'hdf5', required by 'virtual:world', not found reading from setup.cfg... using nc-config ... using netcdf library version 4.4.0 running install running build running build_py running build_ext running install_lib creating /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7 creating /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages creating /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netCDF4 copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4/_netCDF4.so -> /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netCDF4 copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4/__init__.py -> /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netCDF4 copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netCDF4/utils.py -> /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netCDF4 creating /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netcdftime copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime/_datetime.so -> /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netcdftime copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime/__init__.py -> /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netcdftime copying build/lib.dragonfly-4.7-DEVELOPMENT-x86_64-2.7/netcdftime/netcdftime.py -> /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netcdftime byte-compiling /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netCDF4/__init__.py to __init__.pyc byte-compiling /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netCDF4/utils.py to utils.pyc byte-compiling /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netcdftime/__init__.py to __init__.pyc byte-compiling /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netcdftime/netcdftime.py to netcdftime.pyc writing byte-compilation script '/tmp/tmp4lEh1O.py' /usr/local/bin/python2.7 -O /tmp/tmp4lEh1O.py removing /tmp/tmp4lEh1O.py running install_egg_info running egg_info creating netCDF4.egg-info writing requirements to netCDF4.egg-info/requires.txt writing netCDF4.egg-info/PKG-INFO writing top-level names to netCDF4.egg-info/top_level.txt writing dependency_links to netCDF4.egg-info/dependency_links.txt writing entry points to netCDF4.egg-info/entry_points.txt writing manifest file 'netCDF4.egg-info/SOURCES.txt' reading manifest file 'netCDF4.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: manifest_maker: MANIFEST.in, line 4: 'recursive-include' expects ... writing manifest file 'netCDF4.egg-info/SOURCES.txt' Copying netCDF4.egg-info to /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netCDF4-1.2.4-py2.7.egg-info running install_scripts Installing ncinfo script to /wrkdirs/science/py-netCDF4/stage/usr/local/bin Installing nc4tonc3 script to /wrkdirs/science/py-netCDF4/stage/usr/local/bin Installing nc3tonc4 script to /wrkdirs/science/py-netCDF4/stage/usr/local/bin writing list of installed files to '/wrkdirs/science/py-netCDF4/.PLIST.pymodtmp' /usr/bin/strip /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netCDF4/_netCDF4.so /usr/bin/strip /wrkdirs/science/py-netCDF4/stage/usr/local/lib/python2.7/site-packages/netcdftime/_datetime.so (cd /wrkdirs/science/py-netCDF4/netcdf4-python-1.2.4rel/docs && /bin/sh -c '(/usr/bin/find -d $0 $2 | /usr/bin/cpio -dumpl $1 >/dev/null 2>&1) && /usr/bin/find -d $0 $2 -type d -exec chmod 755 $1/{} \; && /usr/bin/find -d $0 $2 -type f -exec chmod 444 $1/{} \;' -- . /wrkdirs/science/py-netCDF4/stage/usr/local/share/doc/py-netCDF4) (cd /wrkdirs/science/py-netCDF4/netcdf4-python-1.2.4rel/examples && install -m 0644 * /wrkdirs/science/py-netCDF4/stage/usr/local/share/examples/py-netCDF4) ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===> Building package for py27-netCDF4-1.2.4_1 file sizes/checksums [40]: . done packing files [40]: . done packing directories [0]: . done =========================================================================== => Cleaning up wrkdir ===> Cleaning for py27-netCDF4-1.2.4_1 build of science/py-netCDF4 ended at Wed Oct 5 17:27:34 PDT 2016 build time: 00:03:01