=>> Building science/py-pyteomics build started at Wed Nov 12 06:22:19 EST 2025 port directory: /usr/ports/science/py-pyteomics package name: py311-pyteomics-4.7.5_3 building for: FreeBSD pkg.DaveG.ca 15.0-ALPHA3 FreeBSD 15.0-ALPHA3 1500064 amd64 maintained by: sunpoet@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 1380 Sep 22 04:12 /usr/ports/science/py-pyteomics/Makefile Ports top last git commit: ec159283c191 Ports top unclean checkout: no Port dir last git commit: a6233e5a2fdf Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500068 Jail OSVERSION: 1500064 Job Id: 07 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1500064 UNAME_v=FreeBSD 15.0-ALPHA3 1500064 UNAME_r=15.0-ALPHA3 BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin MAKE_OBJDIR_CHECK_WRITABLE=0 LOCALBASE=/usr/local USER=root POUDRIERE_NAME=poudriere-git LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.4.2 MASTERMNT=/usr/local/poudriere/data/.m/freebsd_15_c_x64-HEAD-ALL/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM=tmux-256color OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 PWD=/usr/local/poudriere/data/.m/freebsd_15_c_x64-HEAD-ALL/07/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=freebsd_15_c_x64-HEAD-ALL SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/freebsd_15_c_x64-HEAD-ALL/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.2 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR=py311 MAKE_ARGS= FLAVOR=py311 ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ===> The following configuration options are available for py311-pyteomics-4.7.5_3: DF=on: DataFrame support GRAPHICS=on: Graphics support TDA=on: Target-decoy approach support UNIMOD=on: Unimod database support XML=on: XML support ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- sunpoet@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python3.11" XDG_DATA_HOME=/wrkdirs/usr/ports/science/py-pyteomics/work-py311 XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/py-pyteomics/work-py311 XDG_CACHE_HOME=/wrkdirs/usr/ports/science/py-pyteomics/work-py311/.cache HOME=/wrkdirs/usr/ports/science/py-pyteomics/work-py311 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/py-pyteomics/work-py311/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/py-pyteomics/work-py311/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/science/py-pyteomics/work-py311 XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/py-pyteomics/work-py311 XDG_CACHE_HOME=/wrkdirs/usr/ports/science/py-pyteomics/work-py311/.cache HOME=/wrkdirs/usr/ports/science/py-pyteomics/work-py311 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/py-pyteomics/work-py311/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/science/py-pyteomics/work-py311/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " 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" --End MAKE_ENV-- --PLIST_SUB-- PYTHON_INCLUDEDIR=include/python3.11 PYTHON_LIBDIR=lib/python3.11 PYTHON_PLATFORM=freebsd15 PYTHON_SITELIBDIR=lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_BASESUFFIX=311 PYTHON_TAG=.cpython-311 PYTHON_SOABI=.cpython-311 PYTHON_VER=3.11 PYTHON_BASEVER=3.11 PYTHON_VERSION=python3.11 PYTHON2="@comment " PYTHON3="" OSREL=15.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/py311-pyteomics" EXAMPLESDIR="share/examples/py311-pyteomics" DATADIR="share/py311-pyteomics" WWWDIR="www/py311-pyteomics" ETCDIR="etc/py311-pyteomics" --End PLIST_SUB-- --SUB_LIST-- PYTHON_INCLUDEDIR=/usr/local/include/python3.11 PYTHON_LIBDIR=/usr/local/lib/python3.11 PYTHON_PLATFORM=freebsd15 PYTHON_SITELIBDIR=/usr/local/lib/python3.11/site-packages PYTHON_SUFFIX=311 PYTHON_BASESUFFIX=311 PYTHON_TAG=.cpython-311 PYTHON_SOABI=.cpython-311 PYTHON_VER=3.11 PYTHON_BASEVER=3.11 PYTHON_VERSION=python3.11 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/py311-pyteomics DOCSDIR=/usr/local/share/doc/py311-pyteomics EXAMPLESDIR=/usr/local/share/examples/py311-pyteomics WWWDIR=/usr/local/www/py311-pyteomics ETCDIR=/usr/local/etc/py311-pyteomics --End SUB_LIST-- ---Begin make.conf--- DEFAULT_VERSIONS+=pgsql=15 DEFAULT_VERSIONS+=php=82 DISABLE_LICENSES=yes SELECTED_OPTIONS+=OPENBLAS ARCHDEF=AMD64K10h64SSE3 USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles FORCE_PACKAGE=yes PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### #### DEFAULT_VERSIONS+=pgsql=15 DEFAULT_VERSIONS+=php=82 DISABLE_LICENSES=yes SELECTED_OPTIONS+=OPENBLAS ARCHDEF=AMD64K10h64SSE3 WITH_CCACHE_BUILD=yes CCACHE_DIR=/root/.ccache #### Misc Poudriere #### .include "/etc/make.conf.ports_env" GID=0 UID=0 ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 33554432 stack size (kbytes, -s) 524288 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 8192 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited socket buffer size (bytes, -b) unlimited pseudo-terminals (-p) unlimited kqueues (-k) unlimited umtx shared locks (-o) unlimited pipebuf (-y) unlimited --End resource limits-- =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-pyteomics-4.7.5_3 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.4.2_1.pkg [pkg.DaveG.ca] Installing pkg-2.4.2_1... [pkg.DaveG.ca] Extracting pkg-2.4.2_1: .......... done ===> py311-pyteomics-4.7.5_3 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py311-pyteomics-4.7.5_3 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by py311-pyteomics-4.7.5_3 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by py311-pyteomics-4.7.5_3 for building => SHA256 Checksum OK for pyteomics-4.7.5.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by py311-pyteomics-4.7.5_3 for building ===> Extracting for py311-pyteomics-4.7.5_3 => SHA256 Checksum OK for pyteomics-4.7.5.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Patching for py311-pyteomics-4.7.5_3 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-pyteomics-4.7.5_3 depends on package: py311-setuptools>=0 - not found ===> Installing existing package /packages/All/py311-setuptools-63.1.0_3.pkg [pkg.DaveG.ca] Installing py311-setuptools-63.1.0_3... [pkg.DaveG.ca] `-- Installing python311-3.11.14... [pkg.DaveG.ca] | `-- Installing gettext-runtime-0.23.1... [pkg.DaveG.ca] | | `-- Installing indexinfo-0.3.1_1... [pkg.DaveG.ca] | | `-- Extracting indexinfo-0.3.1_1: . done [pkg.DaveG.ca] | `-- Extracting gettext-runtime-0.23.1: .......... done [pkg.DaveG.ca] | `-- Installing libffi-3.5.1... [pkg.DaveG.ca] | `-- Extracting libffi-3.5.1: .......... done [pkg.DaveG.ca] | `-- Installing mpdecimal-4.0.1... [pkg.DaveG.ca] | `-- Extracting mpdecimal-4.0.1: .......... done [pkg.DaveG.ca] | `-- Installing readline-8.3.1... [pkg.DaveG.ca] | `-- Extracting readline-8.3.1: .......... done [pkg.DaveG.ca] `-- Extracting python311-3.11.14: .......... done [pkg.DaveG.ca] Extracting py311-setuptools-63.1.0_3: .......... done ===== Message from python311-3.11.14: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py311-gdbm databases/py-gdbm@py311 py311-sqlite3 databases/py-sqlite3@py311 py311-tkinter x11-toolkits/py-tkinter@py311 ===> py311-pyteomics-4.7.5_3 depends on package: py311-setuptools>=0 - found ===> Returning to build of py311-pyteomics-4.7.5_3 ===> py311-pyteomics-4.7.5_3 depends on package: py311-wheel>=0 - not found ===> Installing existing package /packages/All/py311-wheel-0.45.1.pkg [pkg.DaveG.ca] Installing py311-wheel-0.45.1... [pkg.DaveG.ca] Extracting py311-wheel-0.45.1: .......... done ===> py311-pyteomics-4.7.5_3 depends on package: py311-wheel>=0 - found ===> Returning to build of py311-pyteomics-4.7.5_3 ===> py311-pyteomics-4.7.5_3 depends on file: /usr/local/bin/python3.11 - found ===> py311-pyteomics-4.7.5_3 depends on package: py311-build>=0 - not found ===> Installing existing package /packages/All/py311-build-1.2.2_2.pkg [pkg.DaveG.ca] Installing py311-build-1.2.2_2... [pkg.DaveG.ca] `-- Installing py311-packaging-25.0... [pkg.DaveG.ca] `-- Extracting py311-packaging-25.0: .......... done [pkg.DaveG.ca] `-- Installing py311-pyproject-hooks-1.2.0... [pkg.DaveG.ca] `-- Extracting py311-pyproject-hooks-1.2.0: .......... done [pkg.DaveG.ca] Extracting py311-build-1.2.2_2: .......... done ===> py311-pyteomics-4.7.5_3 depends on package: py311-build>=0 - found ===> Returning to build of py311-pyteomics-4.7.5_3 ===> py311-pyteomics-4.7.5_3 depends on package: py311-installer>=0 - not found ===> Installing existing package /packages/All/py311-installer-0.7.0.pkg [pkg.DaveG.ca] Installing py311-installer-0.7.0... [pkg.DaveG.ca] Extracting py311-installer-0.7.0: .......... done ===> py311-pyteomics-4.7.5_3 depends on package: py311-installer>=0 - found ===> Returning to build of py311-pyteomics-4.7.5_3 ===> py311-pyteomics-4.7.5_3 depends on file: /usr/local/bin/ccache - not found ===> Installing existing package /packages/All/ccache-3.7.12_8.pkg [pkg.DaveG.ca] Installing ccache-3.7.12_8... [pkg.DaveG.ca] Extracting ccache-3.7.12_8: ......... done Create compiler links... create symlink for cc create symlink for cc (world) create symlink for c++ create symlink for c++ (world) create symlink for CC create symlink for CC (world) create symlink for clang create symlink for clang (world) create symlink for clang++ create symlink for clang++ (world) ===== Message from ccache-3.7.12_8: -- NOTE: Please read /usr/local/share/doc/ccache/ccache-howto-freebsd.txt for information on using ccache with FreeBSD ports and src. ===> py311-pyteomics-4.7.5_3 depends on file: /usr/local/bin/ccache - found ===> Returning to build of py311-pyteomics-4.7.5_3 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Configuring for py311-pyteomics-4.7.5_3 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for py311-pyteomics-4.7.5_3 * Getting build dependencies for wheel... /usr/local/lib/python3.11/site-packages/setuptools/dist.py:286: SetuptoolsDeprecationWarning: The namespace_packages parameter is deprecated, consider using implicit namespaces instead (PEP 420). warnings.warn(msg, SetuptoolsDeprecationWarning) running egg_info writing pyteomics.egg-info/PKG-INFO writing dependency_links to pyteomics.egg-info/dependency_links.txt writing namespace_packages to pyteomics.egg-info/namespace_packages.txt writing requirements to pyteomics.egg-info/requires.txt writing top-level names to pyteomics.egg-info/top_level.txt reading manifest file 'pyteomics.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' adding license file 'NOTICE' adding license file 'AUTHORS' writing manifest file 'pyteomics.egg-info/SOURCES.txt' * Building wheel... /usr/local/lib/python3.11/site-packages/setuptools/dist.py:286: SetuptoolsDeprecationWarning: The namespace_packages parameter is deprecated, consider using implicit namespaces instead (PEP 420). warnings.warn(msg, SetuptoolsDeprecationWarning) running bdist_wheel running build running build_py creating build creating build/lib creating build/lib/pyteomics copying pyteomics/mzxml.py -> build/lib/pyteomics copying pyteomics/mztab.py -> build/lib/pyteomics copying pyteomics/ms1.py -> build/lib/pyteomics copying pyteomics/mgf.py -> build/lib/pyteomics copying pyteomics/xml.py -> build/lib/pyteomics copying pyteomics/peff.py -> build/lib/pyteomics copying pyteomics/__init__.py -> build/lib/pyteomics copying pyteomics/mzml.py -> build/lib/pyteomics copying pyteomics/version.py -> build/lib/pyteomics copying pyteomics/_schema_defaults.py -> build/lib/pyteomics copying pyteomics/mzmlb.py -> build/lib/pyteomics copying pyteomics/ms2.py -> build/lib/pyteomics copying pyteomics/protxml.py -> build/lib/pyteomics copying pyteomics/pepxml.py -> build/lib/pyteomics copying pyteomics/mzid.py -> build/lib/pyteomics copying pyteomics/electrochem.py -> build/lib/pyteomics copying pyteomics/pylab_aux.py -> build/lib/pyteomics copying pyteomics/parser.py -> build/lib/pyteomics copying pyteomics/achrom.py -> build/lib/pyteomics copying pyteomics/fasta.py -> build/lib/pyteomics copying pyteomics/traml.py -> build/lib/pyteomics copying pyteomics/tandem.py -> build/lib/pyteomics copying pyteomics/proforma.py -> build/lib/pyteomics copying pyteomics/usi.py -> build/lib/pyteomics creating build/lib/pyteomics/mass copying pyteomics/mass/mass.py -> build/lib/pyteomics/mass copying pyteomics/mass/__init__.py -> build/lib/pyteomics/mass copying pyteomics/mass/unimod.py -> build/lib/pyteomics/mass creating build/lib/pyteomics/openms copying pyteomics/openms/trafoxml.py -> build/lib/pyteomics/openms copying pyteomics/openms/__init__.py -> build/lib/pyteomics/openms copying pyteomics/openms/featurexml.py -> build/lib/pyteomics/openms copying pyteomics/openms/idxml.py -> build/lib/pyteomics/openms creating build/lib/pyteomics/auxiliary copying pyteomics/auxiliary/file_helpers.py -> build/lib/pyteomics/auxiliary copying pyteomics/auxiliary/__init__.py -> build/lib/pyteomics/auxiliary copying pyteomics/auxiliary/math.py -> build/lib/pyteomics/auxiliary copying pyteomics/auxiliary/structures.py -> build/lib/pyteomics/auxiliary copying pyteomics/auxiliary/patch.py -> build/lib/pyteomics/auxiliary copying pyteomics/auxiliary/target_decoy.py -> build/lib/pyteomics/auxiliary copying pyteomics/auxiliary/constants.py -> build/lib/pyteomics/auxiliary copying pyteomics/auxiliary/utils.py -> build/lib/pyteomics/auxiliary installing to build/bdist.freebsd-15.0-ALPHA3-amd64/wheel running install running install_lib copying pyteomics/mzxml.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/mztab.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/ms1.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/mgf.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/xml.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/peff.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics Skipping installation of build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/__init__.py (namespace package) copying pyteomics/mzml.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/version.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/_schema_defaults.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/mzmlb.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/ms2.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/protxml.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/pepxml.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/mzid.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/electrochem.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/pylab_aux.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/parser.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/achrom.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/fasta.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/traml.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/tandem.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/proforma.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/usi.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics copying pyteomics/openms/trafoxml.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/openms copying pyteomics/openms/__init__.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/openms copying pyteomics/openms/featurexml.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/openms copying pyteomics/openms/idxml.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/openms copying pyteomics/mass/mass.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/mass copying pyteomics/mass/__init__.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/mass copying pyteomics/mass/unimod.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/mass copying pyteomics/auxiliary/file_helpers.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/auxiliary copying pyteomics/auxiliary/__init__.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/auxiliary copying pyteomics/auxiliary/math.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/auxiliary copying pyteomics/auxiliary/structures.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/auxiliary copying pyteomics/auxiliary/patch.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/auxiliary copying pyteomics/auxiliary/target_decoy.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/auxiliary copying pyteomics/auxiliary/constants.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/auxiliary copying pyteomics/auxiliary/utils.py -> build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics/auxiliary running install_egg_info running egg_info writing pyteomics.egg-info/PKG-INFO writing dependency_links to pyteomics.egg-info/dependency_links.txt writing namespace_packages to pyteomics.egg-info/namespace_packages.txt writing requirements to pyteomics.egg-info/requires.txt writing top-level names to pyteomics.egg-info/top_level.txt reading manifest file 'pyteomics.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' adding license file 'NOTICE' adding license file 'AUTHORS' writing manifest file 'pyteomics.egg-info/SOURCES.txt' Copying pyteomics.egg-info to build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics-4.7.5-py3.11.egg-info Installing build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics-4.7.5-py3.11-nspkg.pth running install_scripts creating build/bdist.freebsd-15.0-ALPHA3-amd64/wheel/pyteomics-4.7.5.dist-info/WHEEL creating '/wrkdirs/usr/ports/science/py-pyteomics/work-py311/pyteomics-4.7.5/dist/tmpr5wl54c9/pyteomics-4.7.5-py3-none-any.whl' and adding 'build/bdist.freebsd-15.0-ALPHA3-amd64/wheel' to it adding 'pyteomics-4.7.5-py3.11-nspkg.pth' adding 'pyteomics/_schema_defaults.py' adding 'pyteomics/achrom.py' adding 'pyteomics/electrochem.py' adding 'pyteomics/fasta.py' adding 'pyteomics/mgf.py' adding 'pyteomics/ms1.py' adding 'pyteomics/ms2.py' adding 'pyteomics/mzid.py' adding 'pyteomics/mzml.py' adding 'pyteomics/mzmlb.py' adding 'pyteomics/mztab.py' adding 'pyteomics/mzxml.py' adding 'pyteomics/parser.py' adding 'pyteomics/peff.py' adding 'pyteomics/pepxml.py' adding 'pyteomics/proforma.py' adding 'pyteomics/protxml.py' adding 'pyteomics/pylab_aux.py' adding 'pyteomics/tandem.py' adding 'pyteomics/traml.py' adding 'pyteomics/usi.py' adding 'pyteomics/version.py' adding 'pyteomics/xml.py' adding 'pyteomics/auxiliary/__init__.py' adding 'pyteomics/auxiliary/constants.py' adding 'pyteomics/auxiliary/file_helpers.py' adding 'pyteomics/auxiliary/math.py' adding 'pyteomics/auxiliary/patch.py' adding 'pyteomics/auxiliary/structures.py' adding 'pyteomics/auxiliary/target_decoy.py' adding 'pyteomics/auxiliary/utils.py' adding 'pyteomics/mass/__init__.py' adding 'pyteomics/mass/mass.py' adding 'pyteomics/mass/unimod.py' adding 'pyteomics/openms/__init__.py' adding 'pyteomics/openms/featurexml.py' adding 'pyteomics/openms/idxml.py' adding 'pyteomics/openms/trafoxml.py' adding 'pyteomics-4.7.5.dist-info/AUTHORS' adding 'pyteomics-4.7.5.dist-info/LICENSE' adding 'pyteomics-4.7.5.dist-info/METADATA' adding 'pyteomics-4.7.5.dist-info/NOTICE' adding 'pyteomics-4.7.5.dist-info/WHEEL' adding 'pyteomics-4.7.5.dist-info/namespace_packages.txt' adding 'pyteomics-4.7.5.dist-info/top_level.txt' adding 'pyteomics-4.7.5.dist-info/RECORD' removing build/bdist.freebsd-15.0-ALPHA3-amd64/wheel Successfully built pyteomics-4.7.5-py3-none-any.whl =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-pyteomics-4.7.5_3 depends on package: py311-pandas>=0.17,1 - not found ===> Installing existing package /packages/All/py311-pandas-2.2.3_3,1.pkg [pkg.DaveG.ca] Installing py311-pandas-2.2.3_3,1... 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[pkg.DaveG.ca] `-- Extracting qhull-8.0.2_3,1: .......... done [pkg.DaveG.ca] Extracting py311-matplotlib-3.8.0_2: .......... done ==> Running trigger: fontconfig.ucl Running fc-cache to build fontconfig cache... ==> Running trigger: gdk-pixbuf-query-loaders.ucl Generating gdk-pixbuf modules cache ==> Running trigger: gio-modules.ucl Generating GIO modules cache ==> Running trigger: glib-schemas.ucl Compiling glib schemas No schema files found: doing nothing. ==> Running trigger: shared-mime-info.ucl Building the Shared MIME-Info database cache ===== Message from freetype2-2.14.1: -- The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as the default, emulating a modern version of ClearType. This change inevitably leads to different rendering results, and you might change port's options to adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment variable). The environment variable "FREETYPE_PROPERTIES" can be used to control the driver properties. Example: FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ cff:no-stem-darkening=1 \ autofitter:warping=1 This allows to select, say, the subpixel hinting mode at runtime for a given application. If LONG_PCF_NAMES port's option was enabled, the PCF family names may include the foundry and information whether they contain wide characters. For example, "Sony Fixed" or "Misc Fixed Wide", instead of "Fixed". This can be disabled at run time with using pcf:no-long-family-names property, if needed. Example: FREETYPE_PROPERTIES=pcf:no-long-family-names=1 How to recreate fontconfig cache with using such environment variable, if needed: # env FREETYPE_PROPERTIES=pcf:no-long-family-names=1 fc-cache -fsv The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/index.html, if documentation was installed). ===== Message from libinotify-20240724_3: -- You might want to consider increasing the kern.maxfiles tunable if you plan to use this library for applications that need to monitor activity of a lot of files. ===== Message from libraqm-0.10.3: -- ===> NOTICE: The libraqm 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://docs.freebsd.org/en/articles/contributing/#ports-contributing ===> py311-pyteomics-4.7.5_3 depends on package: py311-matplotlib>=0 - found ===> Returning to build of py311-pyteomics-4.7.5_3 ===> py311-pyteomics-4.7.5_3 depends on package: py311-numpy>=0,1 - found ===> py311-pyteomics-4.7.5_3 depends on package: py311-lxml>=0 - found ===> py311-pyteomics-4.7.5_3 depends on package: py311-sqlalchemy14>=0 - not found ===> Installing existing package /packages/All/py311-sqlalchemy14-1.4.54.pkg [pkg.DaveG.ca] Installing py311-sqlalchemy14-1.4.54... [pkg.DaveG.ca] `-- Installing py311-greenlet-3.2.4... [pkg.DaveG.ca] `-- Extracting py311-greenlet-3.2.4: .......... done [pkg.DaveG.ca] Extracting py311-sqlalchemy14-1.4.54: .......... done ===> py311-pyteomics-4.7.5_3 depends on package: py311-sqlalchemy14>=0 - found ===> Returning to build of py311-pyteomics-4.7.5_3 ===> py311-pyteomics-4.7.5_3 depends on package: py311-lxml>=0 - found ===> py311-pyteomics-4.7.5_3 depends on package: py311-numpy>=0,1 - found ===> py311-pyteomics-4.7.5_3 depends on file: /usr/local/bin/python3.11 - found =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for py311-pyteomics-4.7.5_3 ===> Generating temporary packing list ===> Creating unique files: Move MAN files needing SUFFIX ===> Creating unique files: Move files needing SUFFIX ====> Compressing man pages (compress-man) =========================================================================== =================================================== ===== env: 'PKG_NOTES=build_timestamp ports_top_git_hash ports_top_checkout_unclean port_git_hash port_checkout_unclean built_by' 'PKG_NOTE_build_timestamp=2025-11-12T11:22:19+0000' 'PKG_NOTE_ports_top_git_hash=ec159283c191' 'PKG_NOTE_ports_top_checkout_unclean=no' 'PKG_NOTE_port_git_hash=a6233e5a2fdf' 'PKG_NOTE_port_checkout_unclean=no' 'PKG_NOTE_built_by=poudriere-git-3.4.2' NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building packages for py311-pyteomics-4.7.5_3 ===> Building py311-pyteomics-4.7.5_3 =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for py311-pyteomics-4.7.5_3 build of science/py-pyteomics@py311 | py311-pyteomics-4.7.5_3 ended at Wed Nov 12 06:22:55 EST 2025 build time: 00:00:38