=> Building math/py-GridDataFormats@py36 Started : Friday, 6 DEC 2019 at 05:42:49 UTC Platform: 5.7-DEVELOPMENT DragonFly v5.7.0.1123.g96cc8-DEVELOPMENT #17: Thu Dec 5 01:08:49 PST 2019 root@sting.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.7-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.7-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 -------------------------------------------------- PYTHON="/usr/local/bin/python3.6" XDG_DATA_HOME=/construction/math/py-GridDataFormats XDG_CONFIG_HOME=/construction/math/py-GridDataFormats HOME=/construction/math/py-GridDataFormats TMPDIR="/tmp" PATH=/construction/math/py-GridDataFormats/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- XDG_DATA_HOME=/construction/math/py-GridDataFormats XDG_CONFIG_HOME=/construction/math/py-GridDataFormats HOME=/construction/math/py-GridDataFormats TMPDIR="/tmp" PATH=/construction/math/py-GridDataFormats/.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 LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= PREFIX=/usr/local LOCALBASE=/usr/local 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 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" -------------------------------------------------- -- MAKE_ARGS -------------------------------------------------- DESTDIR=/construction/math/py-GridDataFormats/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- PYTHON_INCLUDEDIR=include/python3.6m PYTHON_LIBDIR=lib/python3.6 PYTHON_PLATFORM=dragonfly5 PYTHON_SITELIBDIR=lib/python3.6/site-packages PYTHON_SUFFIX=36 PYTHON_VER=3.6 PYTHON_VERSION=python3.6 PYTHON2="@comment " PYTHON3="" OSREL=5.7 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/py36-GridDataFormats" EXAMPLESDIR="share/examples/py36-GridDataFormats" DATADIR="share/py36-GridDataFormats" WWWDIR="www/py36-GridDataFormats" ETCDIR="etc/py36-GridDataFormats" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/py36-GridDataFormats DOCSDIR=/usr/local/share/doc/py36-GridDataFormats EXAMPLESDIR=/usr/local/share/examples/py36-GridDataFormats WWWDIR=/usr/local/www/py36-GridDataFormats ETCDIR=/usr/local/etc/py36-GridDataFormats -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=LiveSystem 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=15 DPORTS_BUILDER= yes DISABLE_LICENSES= yes DEFAULT_VERSIONS= ssl=openssl FORCE_PACKAGE= yes DEVELOPER= yes HAVE_COMPAT_IA32_KERN= CONFIGURE_MAX_CMD_LEN=262144 _PERL5_FROM_BIN=5.30.0 _ALTCCVERSION_921dbbb2=none _OBJC_ALTCCVERSION_921dbbb2=none _SMP_CPUS=32 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500709 OSVERSION=9999999 OSREL=5.7 _OSRELEASE=5.7-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> py36-GridDataFormats-0.5.0_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.12.0.txz Installing pkg-1.12.0... Extracting pkg-1.12.0: .......... done ===> py36-GridDataFormats-0.5.0_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py36-GridDataFormats-0.5.0_1 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- => MDAnalysis-GridDataFormats-0.5.0_GH0.tar.gz doesn't seem to exist in /distfiles/. => Attempting to fetch https://codeload.github.com/MDAnalysis/GridDataFormats/tar.gz/0.5.0?dummy=/MDAnalysis-GridDataFormats-0.5.0_GH0.tar.gz fetch: https://codeload.github.com/MDAnalysis/GridDataFormats/tar.gz/0.5.0?dummy=/MDAnalysis-GridDataFormats-0.5.0_GH0.tar.gz: size unknown fetch: https://codeload.github.com/MDAnalysis/GridDataFormats/tar.gz/0.5.0?dummy=/MDAnalysis-GridDataFormats-0.5.0_GH0.tar.gz: size of remote file is not known MDAnalysis-GridDataFormats-0.5.0_GH0.tar.gz 2161 kB 1495 kBps 02s => Fetched file size mismatch (expected 2213531, actual 2213526) => Trying next site => Attempting to fetch http://distcache.FreeBSD.org/ports-distfiles/MDAnalysis-GridDataFormats-0.5.0_GH0.tar.gz MDAnalysis-GridDataFormats-0.5.0_GH0.tar.gz 2161 kB 1983 kBps 01s ===> Fetching all distfiles required by py36-GridDataFormats-0.5.0_1 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> Fetching all distfiles required by py36-GridDataFormats-0.5.0_1 for building => SHA256 Checksum OK for MDAnalysis-GridDataFormats-0.5.0_GH0.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> Fetching all distfiles required by py36-GridDataFormats-0.5.0_1 for building ===> Extracting for py36-GridDataFormats-0.5.0_1 => SHA256 Checksum OK for MDAnalysis-GridDataFormats-0.5.0_GH0.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for py36-GridDataFormats-0.5.0_1 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> py36-GridDataFormats-0.5.0_1 depends on package: py36-setuptools>0 - not found ===> Installing existing package /packages/All/py36-setuptools-41.4.0.txz Installing py36-setuptools-41.4.0... `-- Installing python36-3.6.9_1... | `-- Installing expat-2.2.8... | `-- Extracting expat-2.2.8: .......... done | `-- Installing gettext-runtime-0.20.1... | | `-- Installing indexinfo-0.3.1... | | `-- Extracting indexinfo-0.3.1: . done | `-- Extracting gettext-runtime-0.20.1: .......... done | `-- Installing libffi-3.2.1_3... | `-- Extracting libffi-3.2.1_3: .......... done | `-- Installing ncurses-6.1.20190525... | `-- Extracting ncurses-6.1.20190525: .......... done | `-- Installing openssl-1.0.2t,1... | `-- Extracting openssl-1.0.2t,1: .......... done | `-- Installing readline-8.0.0... | `-- Extracting readline-8.0.0: .......... done `-- Extracting python36-3.6.9_1: .......... done Extracting py36-setuptools-41.4.0: .......... done ===== Message from openssl-1.0.2t,1: -- Edit /usr/local/openssl/openssl.cnf to fit your needs. -- ===> NOTICE: This port is deprecated; you may wish to reconsider installing it: OpenSSL 1.0.2 is End-of-Life 2019-12-31 at which time this port will update to 1.1.1 branch. It is scheduled to be removed on or after 2019-12-31. ===== Message from python36-3.6.9_1: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py36-gdbm databases/py-gdbm@py36 py36-sqlite3 databases/py-sqlite3@py36 py36-tkinter x11-toolkits/py-tkinter@py36 ===> py36-GridDataFormats-0.5.0_1 depends on package: py36-setuptools>0 - found ===> Returning to build of py36-GridDataFormats-0.5.0_1 ===> py36-GridDataFormats-0.5.0_1 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for py36-GridDataFormats-0.5.0_1 running config -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for py36-GridDataFormats-0.5.0_1 running build running build_py creating build creating build/lib creating build/lib/gridData copying gridData/CCP4.py -> build/lib/gridData copying gridData/__init__.py -> build/lib/gridData copying gridData/_version.py -> build/lib/gridData copying gridData/gOpenMol.py -> build/lib/gridData copying gridData/OpenDX.py -> build/lib/gridData copying gridData/core.py -> build/lib/gridData creating build/lib/gridData/tests copying gridData/tests/test_gOpenMol.py -> build/lib/gridData/tests copying gridData/tests/test_ccp4.py -> build/lib/gridData/tests copying gridData/tests/test_dx.py -> build/lib/gridData/tests copying gridData/tests/__init__.py -> build/lib/gridData/tests copying gridData/tests/test_grid.py -> build/lib/gridData/tests creating build/lib/gridData/tests/datafiles copying gridData/tests/datafiles/__init__.py -> build/lib/gridData/tests/datafiles copying gridData/tests/datafiles/test.dx -> build/lib/gridData/tests/datafiles copying gridData/tests/datafiles/test.ccp4 -> build/lib/gridData/tests/datafiles copying gridData/tests/datafiles/1jzv.ccp4 -> build/lib/gridData/tests/datafiles copying gridData/tests/datafiles/nAChR_M2_water.plt -> build/lib/gridData/tests/datafiles UPDATING build/lib/gridData/_version.py set build/lib/gridData/_version.py to '0.5.0' -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- ===> py36-GridDataFormats-0.5.0_1 depends on package: py36-numpy>0 - not found ===> Installing existing package /packages/All/py36-numpy-1.16.5_1,1.txz Installing py36-numpy-1.16.5_1,1... `-- Installing gcc8-8.3.0_3... | `-- Installing binutils-2.33.1,1... | `-- Extracting binutils-2.33.1,1: .......... 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_3: .......... done `-- Installing openblas-0.2.20_11,1... `-- Extracting openblas-0.2.20_11,1: .......... done `-- Installing suitesparse-5.4.0_3... | `-- Installing metis-5.1.0_8... | `-- Extracting metis-5.1.0_8: .......... done | `-- Installing tbb-2019.8... | `-- Extracting tbb-2019.8: .......... done `-- Extracting suitesparse-5.4.0_3: .......... done Extracting py36-numpy-1.16.5_1,1: .......... done ===== Message from gcc8-8.3.0_3: -- 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. ===> py36-GridDataFormats-0.5.0_1 depends on package: py36-numpy>0 - found ===> Returning to build of py36-GridDataFormats-0.5.0_1 ===> py36-GridDataFormats-0.5.0_1 depends on package: py36-six>0 - not found ===> Installing existing package /packages/All/py36-six-1.12.0.txz Installing py36-six-1.12.0... Extracting py36-six-1.12.0: ....... done ===> py36-GridDataFormats-0.5.0_1 depends on package: py36-six>0 - found ===> Returning to build of py36-GridDataFormats-0.5.0_1 ===> py36-GridDataFormats-0.5.0_1 depends on package: py36-setuptools>0 - found ===> py36-GridDataFormats-0.5.0_1 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for py36-GridDataFormats-0.5.0_1 ===> Generating temporary packing list running install running build running build_py UPDATING build/lib/gridData/_version.py set build/lib/gridData/_version.py to '0.5.0' running install_lib creating /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6 creating /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages creating /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData copying build/lib/gridData/CCP4.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData creating /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests creating /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/datafiles copying build/lib/gridData/tests/datafiles/test.dx -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/datafiles copying build/lib/gridData/tests/datafiles/nAChR_M2_water.plt -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/datafiles copying build/lib/gridData/tests/datafiles/__init__.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/datafiles copying build/lib/gridData/tests/datafiles/test.ccp4 -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/datafiles copying build/lib/gridData/tests/datafiles/1jzv.ccp4 -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/datafiles copying build/lib/gridData/tests/test_grid.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests copying build/lib/gridData/tests/__init__.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests copying build/lib/gridData/tests/test_ccp4.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests copying build/lib/gridData/tests/test_gOpenMol.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests copying build/lib/gridData/tests/test_dx.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests copying build/lib/gridData/__init__.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData copying build/lib/gridData/gOpenMol.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData copying build/lib/gridData/core.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData copying build/lib/gridData/OpenDX.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData copying build/lib/gridData/_version.py -> /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/CCP4.py to CCP4.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/datafiles/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/test_grid.py to test_grid.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/test_ccp4.py to test_ccp4.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/test_gOpenMol.py to test_gOpenMol.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/tests/test_dx.py to test_dx.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/gOpenMol.py to gOpenMol.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/core.py to core.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/OpenDX.py to OpenDX.cpython-36.pyc byte-compiling /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/gridData/_version.py to _version.cpython-36.pyc writing byte-compilation script '/tmp/tmpaml1fnub.py' /usr/local/bin/python3.6 /tmp/tmpaml1fnub.py removing /tmp/tmpaml1fnub.py running install_egg_info running egg_info creating GridDataFormats.egg-info writing GridDataFormats.egg-info/PKG-INFO writing dependency_links to GridDataFormats.egg-info/dependency_links.txt writing requirements to GridDataFormats.egg-info/requires.txt writing top-level names to GridDataFormats.egg-info/top_level.txt writing manifest file 'GridDataFormats.egg-info/SOURCES.txt' reading manifest file 'GridDataFormats.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'README' writing manifest file 'GridDataFormats.egg-info/SOURCES.txt' Copying GridDataFormats.egg-info to /construction/math/py-GridDataFormats/stage/usr/local/lib/python3.6/site-packages/GridDataFormats-0.5.0-py3.6.egg-info running install_scripts writing list of installed files to '/construction/math/py-GridDataFormats/.PLIST.pymodtmp' ===> Creating unique files: Move MAN files needing SUFFIX ===> Creating unique files: Move files needing SUFFIX ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for py36-GridDataFormats-0.5.0_1 file sizes/checksums [46]: . done packing files [46]: . done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Friday, 6 DEC 2019 at 05:44:28 UTC Duration: 00:01:39