=>> Building biology/py-loompy build started at Sat Jan 24 14:30:03 EST 2026 port directory: /usr/ports/biology/py-loompy package name: py311-loompy-3.0.7_2 building for: FreeBSD pkg.DaveG.ca 13.5-RELEASE-p7 FreeBSD 13.5-RELEASE-p7 1305000 amd64 maintained by: yuri@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 814 Mar 10 2025 /usr/ports/biology/py-loompy/Makefile Ports top last git commit: 076a295eb33c Ports top unclean checkout: no Port dir last git commit: 06a08e69f3ac Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.2 Host OSVERSION: 1500068 Jail OSVERSION: 1305000 Job Id: 01 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1305000 UNAME_v=FreeBSD 13.5-RELEASE-p7 1305000 UNAME_r=13.5-RELEASE-p7 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_13_5_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_13_5_x64-HEAD-ALL/01/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=freebsd_13_5_x64-HEAD-ALL SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/freebsd_13_5_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--- ---End OPTIONS List--- --MAINTAINER-- yuri@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- PYTHON="/usr/local/bin/python3.11" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/py-loompy/work-py311 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-loompy/work-py311 XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/py-loompy/work-py311/.cache HOME=/wrkdirs/usr/ports/biology/py-loompy/work-py311 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-loompy/work-py311/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/py-loompy/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/biology/py-loompy/work-py311 XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/py-loompy/work-py311 XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/py-loompy/work-py311/.cache HOME=/wrkdirs/usr/ports/biology/py-loompy/work-py311 TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/py-loompy/work-py311/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/py-loompy/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 LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= 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=freebsd13 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=13.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/loompy" EXAMPLESDIR="share/examples/loompy" DATADIR="share/loompy" WWWDIR="www/loompy" ETCDIR="etc/loompy" --End PLIST_SUB-- --SUB_LIST-- PYTHON_INCLUDEDIR=/usr/local/include/python3.11 PYTHON_LIBDIR=/usr/local/lib/python3.11 PYTHON_PLATFORM=freebsd13 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/loompy DOCSDIR=/usr/local/share/doc/loompy EXAMPLESDIR=/usr/local/share/examples/loompy WWWDIR=/usr/local/www/loompy ETCDIR=/usr/local/etc/loompy --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 --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-loompy-3.0.7_2 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.5.1.pkg [pkg.DaveG.ca] Installing pkg-2.5.1... [pkg.DaveG.ca] Extracting pkg-2.5.1: .......... done ===> py311-loompy-3.0.7_2 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py311-loompy-3.0.7_2 =========================================================================== =================================================== ===== 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-loompy-3.0.7_2 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Fetching all distfiles required by py311-loompy-3.0.7_2 for building => SHA256 Checksum OK for loompy-3.0.7.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-loompy-3.0.7_2 for building ===> Extracting for py311-loompy-3.0.7_2 => SHA256 Checksum OK for loompy-3.0.7.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-loompy-3.0.7_2 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-loompy-3.0.7_2 depends on package: py311-setuptools>=63.1.0 - 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-0.26... [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-0.26: .......... 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-8.3.3... [pkg.DaveG.ca] | `-- Extracting readline-8.3.3: .......... 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-loompy-3.0.7_2 depends on package: py311-setuptools>=63.1.0 - found ===> Returning to build of py311-loompy-3.0.7_2 ===> py311-loompy-3.0.7_2 depends on file: /usr/local/bin/python3.11 - found ===> py311-loompy-3.0.7_2 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-loompy-3.0.7_2 depends on file: /usr/local/bin/ccache - found ===> Returning to build of py311-loompy-3.0.7_2 =========================================================================== =================================================== ===== 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-loompy-3.0.7_2 running config =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Building for py311-loompy-3.0.7_2 running build running build_py creating build creating build/lib creating build/lib/loompy copying loompy/loom_layer.py -> build/lib/loompy copying loompy/to_html.py -> build/lib/loompy copying loompy/bus_file.py -> build/lib/loompy copying loompy/normalize.py -> build/lib/loompy copying loompy/graph_manager.py -> build/lib/loompy copying loompy/loom_validator.py -> build/lib/loompy copying loompy/__init__.py -> build/lib/loompy copying loompy/global_attribute_manager.py -> build/lib/loompy copying loompy/loompy.py -> build/lib/loompy copying loompy/commands.py -> build/lib/loompy copying loompy/loom_view.py -> build/lib/loompy copying loompy/layer_manager.py -> build/lib/loompy copying loompy/attribute_manager.py -> build/lib/loompy copying loompy/view_manager.py -> build/lib/loompy copying loompy/utils.py -> build/lib/loompy copying loompy/metadata_loaders.py -> build/lib/loompy copying loompy/cell_calling.py -> build/lib/loompy copying loompy/_version.py -> build/lib/loompy =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-loompy-3.0.7_2 depends on package: py311-numpy>=1.16,1<1.27,1 - not found ===> Installing existing package /packages/All/py311-numpy-1.26.4_12,1.pkg [pkg.DaveG.ca] Installing py311-numpy-1.26.4_12,1... [pkg.DaveG.ca] `-- Installing gcc14-14.2.0_4... [pkg.DaveG.ca] | `-- Installing binutils-2.44,1... [pkg.DaveG.ca] | | `-- Installing zstd-1.5.7_1... [pkg.DaveG.ca] | | `-- Extracting zstd-1.5.7_1: .......... done [pkg.DaveG.ca] | `-- Extracting binutils-2.44,1: .......... done [pkg.DaveG.ca] | `-- Installing gmp-6.3.0... [pkg.DaveG.ca] | `-- Extracting gmp-6.3.0: .......... done [pkg.DaveG.ca] | `-- Installing mpc-1.3.1_1... [pkg.DaveG.ca] | | `-- Installing mpfr-4.2.2,1... [pkg.DaveG.ca] | | `-- Extracting mpfr-4.2.2,1: .......... done [pkg.DaveG.ca] | `-- Extracting mpc-1.3.1_1: ...... done [pkg.DaveG.ca] `-- Extracting gcc14-14.2.0_4: .......... done create symlink for gcc14 create symlink for gcc14 (world) create symlink for g++14 create symlink for g++14 (world) create symlink for cpp14 create symlink for cpp14 (world) [pkg.DaveG.ca] `-- Installing openblas-0.3.30,2... [pkg.DaveG.ca] `-- Extracting openblas-0.3.30,2: .......... done [pkg.DaveG.ca] `-- Installing suitesparse-umfpack-6.3.7... [pkg.DaveG.ca] | `-- Installing suitesparse-amd-3.3.4... [pkg.DaveG.ca] | | `-- Installing suitesparse-config-7.12.1... [pkg.DaveG.ca] | | `-- Extracting suitesparse-config-7.12.1: .......... done [pkg.DaveG.ca] | `-- Extracting suitesparse-amd-3.3.4: .......... done [pkg.DaveG.ca] | `-- Installing suitesparse-camd-3.3.5... [pkg.DaveG.ca] | `-- Extracting suitesparse-camd-3.3.5: .......... done [pkg.DaveG.ca] | `-- Installing suitesparse-ccolamd-3.3.5... [pkg.DaveG.ca] | `-- Extracting suitesparse-ccolamd-3.3.5: .......... done [pkg.DaveG.ca] | `-- Installing suitesparse-cholmod-5.3.4... [pkg.DaveG.ca] | | `-- Installing suitesparse-colamd-3.3.5... [pkg.DaveG.ca] | | `-- Extracting suitesparse-colamd-3.3.5: .......... done [pkg.DaveG.ca] | `-- Extracting suitesparse-cholmod-5.3.4: .......... done [pkg.DaveG.ca] `-- Extracting suitesparse-umfpack-6.3.7: .......... done [pkg.DaveG.ca] Extracting py311-numpy-1.26.4_12,1: .......... done ===== Message from gcc14-14.2.0_4: -- 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/gcc14 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. ===> py311-loompy-3.0.7_2 depends on package: py311-numpy>=1.16,1<1.27,1 - found ===> Returning to build of py311-loompy-3.0.7_2 ===> py311-loompy-3.0.7_2 depends on package: py311-click>0 - not found ===> Installing existing package /packages/All/py311-click-8.1.7_1.pkg [pkg.DaveG.ca] Installing py311-click-8.1.7_1... [pkg.DaveG.ca] Extracting py311-click-8.1.7_1: .......... done ===> py311-loompy-3.0.7_2 depends on package: py311-click>0 - found ===> Returning to build of py311-loompy-3.0.7_2 ===> py311-loompy-3.0.7_2 depends on package: py311-h5py>0 - not found ===> Installing existing package /packages/All/py311-h5py-3.15.1.pkg [pkg.DaveG.ca] Installing py311-h5py-3.15.1... [pkg.DaveG.ca] `-- Installing hdf5-1.12.2_2,1... [pkg.DaveG.ca] | `-- Installing libaec-1.1.4... [pkg.DaveG.ca] | `-- Extracting libaec-1.1.4: .......... done [pkg.DaveG.ca] `-- Extracting hdf5-1.12.2_2,1: .......... done [pkg.DaveG.ca] Extracting py311-h5py-3.15.1: .......... done ===> py311-loompy-3.0.7_2 depends on package: py311-h5py>0 - found ===> Returning to build of py311-loompy-3.0.7_2 ===> py311-loompy-3.0.7_2 depends on package: py311-numba>0 - not found ===> Installing existing package /packages/All/py311-numba-0.63.1.pkg [pkg.DaveG.ca] Installing py311-numba-0.63.1... [pkg.DaveG.ca] `-- Installing onetbb-2022.3.0_1... [pkg.DaveG.ca] | `-- Installing hwloc2-2.12.1_1... [pkg.DaveG.ca] | | `-- Installing level-zero-1.26.3... [pkg.DaveG.ca] | | `-- Installing libfmt-12.1.0... [pkg.DaveG.ca] | | `-- Extracting libfmt-12.1.0: .......... done [pkg.DaveG.ca] | | `-- Installing spdlog-1.16.0_1... [pkg.DaveG.ca] | | `-- Extracting spdlog-1.16.0_1: .......... done [pkg.DaveG.ca] | | `-- Extracting level-zero-1.26.3: .......... done [pkg.DaveG.ca] | | `-- Installing libpciaccess-0.18.1_1... [pkg.DaveG.ca] | | `-- Installing hwdata-0.403,1... [pkg.DaveG.ca] | | `-- Extracting hwdata-0.403,1: ...... done [pkg.DaveG.ca] | | `-- Extracting libpciaccess-0.18.1_1: ..... done [pkg.DaveG.ca] | | `-- Installing libxml2-2.14.6... [pkg.DaveG.ca] | | `-- Extracting libxml2-2.14.6: .......... done [pkg.DaveG.ca] | `-- Extracting hwloc2-2.12.1_1: .......... done [pkg.DaveG.ca] `-- Extracting onetbb-2022.3.0_1: .......... done [pkg.DaveG.ca] `-- Installing py311-llvmlite-0.46.0... [pkg.DaveG.ca] | `-- Installing llvm20-20.1.8... [pkg.DaveG.ca] | | `-- Installing libedit-3.1.20251016_1,1... [pkg.DaveG.ca] | | `-- Extracting libedit-3.1.20251016_1,1: .......... done [pkg.DaveG.ca] | | `-- Installing lua54-5.4.8... [pkg.DaveG.ca] | | `-- Extracting lua54-5.4.8: .......... done [pkg.DaveG.ca] | | `-- Installing perl5-5.42.0_1... [pkg.DaveG.ca] | | `-- Extracting perl5-5.42.0_1: .......... done [pkg.DaveG.ca] | `-- Extracting llvm20-20.1.8: .......... done create symlink for clang20 create symlink for clang20 (world) create symlink for clang++20 create symlink for clang++20 (world) [pkg.DaveG.ca] `-- Extracting py311-llvmlite-0.46.0: .......... done [pkg.DaveG.ca] Extracting py311-numba-0.63.1: .......... done ===> py311-loompy-3.0.7_2 depends on package: py311-numba>0 - found ===> Returning to build of py311-loompy-3.0.7_2 ===> py311-loompy-3.0.7_2 depends on package: py311-numpy-groupies>0 - not found ===> Installing existing package /packages/All/py311-numpy-groupies-0.11.2.pkg [pkg.DaveG.ca] Installing py311-numpy-groupies-0.11.2... [pkg.DaveG.ca] Extracting py311-numpy-groupies-0.11.2: .......... done ===> py311-loompy-3.0.7_2 depends on package: py311-numpy-groupies>0 - found ===> Returning to build of py311-loompy-3.0.7_2 ===> py311-loompy-3.0.7_2 depends on package: py311-pandas>0 - not found ===> Installing existing package /packages/All/py311-pandas-2.3.3,1.pkg [pkg.DaveG.ca] Installing py311-pandas-2.3.3,1... [pkg.DaveG.ca] `-- Installing py311-bottleneck-1.3.8_1... [pkg.DaveG.ca] `-- Extracting py311-bottleneck-1.3.8_1: .......... done [pkg.DaveG.ca] `-- Installing py311-numexpr-2.14.1... [pkg.DaveG.ca] `-- Extracting py311-numexpr-2.14.1: .......... done [pkg.DaveG.ca] `-- Installing py311-python-dateutil-2.9.0... [pkg.DaveG.ca] | `-- Installing py311-six-1.17.0... [pkg.DaveG.ca] | `-- Extracting py311-six-1.17.0: ........ done [pkg.DaveG.ca] `-- Extracting py311-python-dateutil-2.9.0: .......... done [pkg.DaveG.ca] `-- Installing py311-pytz-2025.2_1,1... [pkg.DaveG.ca] `-- Extracting py311-pytz-2025.2_1,1: .......... done [pkg.DaveG.ca] `-- Installing py311-sqlite3-3.11.14_10... [pkg.DaveG.ca] | `-- Installing sqlite3-3.50.4_2,1... [pkg.DaveG.ca] | `-- Extracting sqlite3-3.50.4_2,1: .......... done [pkg.DaveG.ca] `-- Extracting py311-sqlite3-3.11.14_10: ...... done [pkg.DaveG.ca] `-- Installing py311-tzdata-2025.3... [pkg.DaveG.ca] `-- Extracting py311-tzdata-2025.3: .......... done [pkg.DaveG.ca] Extracting py311-pandas-2.3.3,1: .......... done ===== Message from py311-pandas-2.3.3,1: -- Install math/py-statsmodels to enable parts of pandas.stats. Install devel/py-xarray to enable the to_xarray() function. ===> py311-loompy-3.0.7_2 depends on package: py311-pandas>0 - found ===> Returning to build of py311-loompy-3.0.7_2 ===> py311-loompy-3.0.7_2 depends on package: py311-scipy>0 - not found ===> Installing existing package /packages/All/py311-scipy-1.11.1_4,1.pkg [pkg.DaveG.ca] Installing py311-scipy-1.11.1_4,1... [pkg.DaveG.ca] `-- Installing blas-3.12.1... [pkg.DaveG.ca] `-- Extracting blas-3.12.1: ..... done [pkg.DaveG.ca] Extracting py311-scipy-1.11.1_4,1: .......... done ===> py311-loompy-3.0.7_2 depends on package: py311-scipy>0 - found ===> Returning to build of py311-loompy-3.0.7_2 ===> py311-loompy-3.0.7_2 depends on file: /usr/local/bin/python3.11 - found =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> Staging for py311-loompy-3.0.7_2 ===> Generating temporary packing list running install /usr/local/lib/python3.11/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running install_lib creating /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11 creating /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages creating /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/loom_layer.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/to_html.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/bus_file.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/normalize.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/graph_manager.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/loom_validator.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/__init__.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/global_attribute_manager.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/loompy.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/commands.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/loom_view.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/layer_manager.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/attribute_manager.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/view_manager.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/utils.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/metadata_loaders.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/cell_calling.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy copying build/lib/loompy/_version.py -> /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/loom_layer.py to loom_layer.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/to_html.py to to_html.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/bus_file.py to bus_file.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/normalize.py to normalize.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/graph_manager.py to graph_manager.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/loom_validator.py to loom_validator.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/__init__.py to __init__.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/global_attribute_manager.py to global_attribute_manager.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/loompy.py to loompy.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/commands.py to commands.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/loom_view.py to loom_view.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/layer_manager.py to layer_manager.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/attribute_manager.py to attribute_manager.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/view_manager.py to view_manager.cpython-311.pyc /usr/local/lib/python3.11/site-packages/loompy/view_manager.py:23: SyntaxWarning: "is not" with a literal. Did you mean "!="? byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/utils.py to utils.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/metadata_loaders.py to metadata_loaders.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/cell_calling.py to cell_calling.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy/_version.py to _version.cpython-311.pyc writing byte-compilation script '/tmp/tmpn0_zm8rb.py' /usr/local/bin/python3.11 /tmp/tmpn0_zm8rb.py /usr/local/lib/python3.11/site-packages/loompy/view_manager.py:23: SyntaxWarning: "is not" with a literal. Did you mean "!="? removing /tmp/tmpn0_zm8rb.py running install_egg_info running egg_info writing loompy.egg-info/PKG-INFO writing dependency_links to loompy.egg-info/dependency_links.txt writing entry points to loompy.egg-info/entry_points.txt writing requirements to loompy.egg-info/requires.txt writing top-level names to loompy.egg-info/top_level.txt reading manifest file 'loompy.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'loompy.egg-info/SOURCES.txt' Copying loompy.egg-info to /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/lib/python3.11/site-packages/loompy-3.0.7-py3.11.egg-info running install_scripts Installing loompy script to /wrkdirs/usr/ports/biology/py-loompy/work-py311/stage/usr/local/bin writing list of installed files to '/wrkdirs/usr/ports/biology/py-loompy/work-py311/.PLIST.pymodtmp' ====> 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=2026-01-24T19:30:03+0000' 'PKG_NOTE_ports_top_git_hash=076a295eb33c' 'PKG_NOTE_ports_top_checkout_unclean=no' 'PKG_NOTE_port_git_hash=06a08e69f3ac' '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-loompy-3.0.7_2 ===> Building py311-loompy-3.0.7_2 =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for py311-loompy-3.0.7_2 build of biology/py-loompy@py311 | py311-loompy-3.0.7_2 ended at Sat Jan 24 14:30:42 EST 2026 build time: 00:00:39