=>> Building math/py-point-annotator build started at Tue Jun 2 08:24:24 JST 2026 port directory: /usr/ports/math/py-point-annotator package name: py311-point-annotator-2.0.0_3 building for: FreeBSD curamd64-setuptools-job-01 16.0-CURRENT FreeBSD 16.0-CURRENT 1600018 amd64 maintained by: yuri@FreeBSD.org Makefile datestamp: -rw-r--r-- 1 root wheel 722 May 2 10:21 /usr/ports/math/py-point-annotator/Makefile Ports top last git commit: a8b187544 Ports top unclean checkout: yes Port dir last git commit: a8b187544 Port dir unclean checkout: no Poudriere version: poudriere-git-3.4.4 Host OSVERSION: 1600018 Jail OSVERSION: 1600018 Job Id: 01 ---Begin Environment--- SHELL=/bin/sh OSVERSION=1600018 UNAME_v=FreeBSD 16.0-CURRENT 1600018 UNAME_r=16.0-CURRENT 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=3.4.4 MASTERMNT=/usr/local/poudriere/data/.m/curamd64-setuptools/ref LC_COLLATE=C POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM=tmux-256color GID=0 OUTPUT_REDIRECTED_STDERR=4 OUTPUT_REDIRECTED=1 UID=0 PWD=/usr/local/poudriere/data/.m/curamd64-setuptools/01/.p OUTPUT_REDIRECTED_STDOUT=3 P_PORTS_FEATURES=FLAVORS SUBPACKAGES SELECTED_OPTIONS MASTERNAME=curamd64-setuptools SCRIPTPREFIX=/usr/local/share/poudriere SCRIPTNAME=bulk.sh OLDPWD=/usr/local/poudriere/data/.m/curamd64-setuptools/ref/.p/pool POUDRIERE_PKGNAME=poudriere-git-3.4.4 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 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TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/math/py-point-annotator/work-py311/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/math/py-point-annotator/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=freebsd16 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=16.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/point-annotator" EXAMPLESDIR="share/examples/point-annotator" DATADIR="share/point-annotator" WWWDIR="www/point-annotator" ETCDIR="etc/point-annotator" --End PLIST_SUB-- --SUB_LIST-- PYTHON_INCLUDEDIR=/usr/local/include/python3.11 PYTHON_LIBDIR=/usr/local/lib/python3.11 PYTHON_PLATFORM=freebsd16 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/point-annotator DOCSDIR=/usr/local/share/doc/point-annotator EXAMPLESDIR=/usr/local/share/examples/point-annotator WWWDIR=/usr/local/www/point-annotator ETCDIR=/usr/local/etc/point-annotator --End SUB_LIST-- ---Begin make.conf--- DEFAULT_VERSIONS+= magick=7-x11 DEFAULT_VERSIONS+= pgsql=18 DEFAULT_VERSIONS+= ssl=openssl japanese_fcitx5_mozc_SET= EDICT2 PERSONALNAME PLACENAME SUDACHIDICT UTDIC japanese_mozc_server_SET= EDICT2 PERSONALNAME PLACENAME SUDACHIDICT UTDIC japanese_mozc_server_UNSET= JAWIKI x11_wm_hikari_SET= GAMMA INPUTMETHOD LAYERSHELL SCREENCOPY VIRTUALINPUT X11 .if $(.CURDIR:M*/x11-wm/hikari) WITH_DEBUG= YES .endif 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+= magick=7-x11 DEFAULT_VERSIONS+= pgsql=18 DEFAULT_VERSIONS+= ssl=openssl japanese_fcitx5_mozc_SET= EDICT2 PERSONALNAME PLACENAME SUDACHIDICT UTDIC japanese_mozc_server_SET= EDICT2 PERSONALNAME PLACENAME SUDACHIDICT UTDIC japanese_mozc_server_UNSET= JAWIKI x11_wm_hikari_SET= GAMMA INPUTMETHOD LAYERSHELL SCREENCOPY VIRTUALINPUT X11 .if $(.CURDIR:M*/x11-wm/hikari) WITH_DEBUG= YES .endif #### Misc Poudriere #### .include "/etc/make.conf.ports_env" DISABLE_MAKE_JOBS=poudriere ---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) 12099 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=nobody UID=65534 GID=65534 ===> License GPLv3 accepted by the user =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-point-annotator-2.0.0_3 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-2.7.5.pkg [curamd64-setuptools-job-01] Installing pkg-2.7.5... [curamd64-setuptools-job-01] Extracting pkg-2.7.5: .......... done ===> py311-point-annotator-2.0.0_3 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py311-point-annotator-2.0.0_3 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv3 accepted by the user => point-annotator-2.0.0.tar.gz doesn't seem to exist in /portdistfiles. => Attempting to fetch https://files.pythonhosted.org/packages/source/p/point-annotator/point-annotator-2.0.0.tar.gz point-annotator-2.0.0.tar.gz 891 kB 17 MBps 00s ===> Fetching all distfiles required by py311-point-annotator-2.0.0_3 for building =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=root UID=0 GID=0 ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by py311-point-annotator-2.0.0_3 for building => SHA256 Checksum OK for point-annotator-2.0.0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by py311-point-annotator-2.0.0_3 for building ===> Extracting for py311-point-annotator-2.0.0_3 => SHA256 Checksum OK for point-annotator-2.0.0.tar.gz. =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> Patching for py311-point-annotator-2.0.0_3 =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-point-annotator-2.0.0_3 depends on package: py311-setuptools-scm>0 - not found ===> Installing existing package /packages/All/py311-setuptools-scm-9.2.2.pkg [curamd64-setuptools-job-01] Installing py311-setuptools-scm-9.2.2... [curamd64-setuptools-job-01] `-- Installing py311-packaging-26.2... [curamd64-setuptools-job-01] | `-- Installing python311-3.11.15_2... [curamd64-setuptools-job-01] | | `-- Installing gettext-runtime-1.0... [curamd64-setuptools-job-01] | | `-- Installing indexinfo-0.3.1_1... [curamd64-setuptools-job-01] | | `-- Extracting indexinfo-0.3.1_1: .... done [curamd64-setuptools-job-01] | | `-- Extracting gettext-runtime-1.0: .......... done [curamd64-setuptools-job-01] | | `-- Installing libffi-3.5.1... [curamd64-setuptools-job-01] | | `-- Extracting libffi-3.5.1: .......... done [curamd64-setuptools-job-01] | | `-- Installing mpdecimal-4.0.1... [curamd64-setuptools-job-01] | | `-- Extracting mpdecimal-4.0.1: .......... done [curamd64-setuptools-job-01] | | `-- Installing openssl-3.0.20,1... [curamd64-setuptools-job-01] | | `-- Extracting openssl-3.0.20,1: .......... done [curamd64-setuptools-job-01] | | `-- Installing readline-8.3.3... [curamd64-setuptools-job-01] | | `-- Extracting readline-8.3.3: .......... done [curamd64-setuptools-job-01] | `-- Extracting python311-3.11.15_2: .......... done [curamd64-setuptools-job-01] `-- Extracting py311-packaging-26.2: .......... done [curamd64-setuptools-job-01] `-- Installing py311-setuptools-81.0.0... [curamd64-setuptools-job-01] | `-- Installing py311-more-itertools-10.6.0... [curamd64-setuptools-job-01] | `-- Extracting py311-more-itertools-10.6.0: .......... done [curamd64-setuptools-job-01] | `-- Installing py311-wheel-0.47.0... [curamd64-setuptools-job-01] | `-- Extracting py311-wheel-0.47.0: .......... done [curamd64-setuptools-job-01] `-- Extracting py311-setuptools-81.0.0: .......... done [curamd64-setuptools-job-01] Extracting py311-setuptools-scm-9.2.2: .......... done ===== Message from python311-3.11.15_2: -- 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-point-annotator-2.0.0_3 depends on package: py311-setuptools-scm>0 - found ===> Returning to build of py311-point-annotator-2.0.0_3 ===> py311-point-annotator-2.0.0_3 depends on package: py311-setuptools>=63.1.0 - found ===> py311-point-annotator-2.0.0_3 depends on file: /usr/local/bin/python3.11 - found =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> Configuring for py311-point-annotator-2.0.0_3 /usr/local/lib/python3.11/site-packages/setuptools/config/setupcfg.py:296: _DeprecatedConfig: Deprecated config in `setup.cfg` !! ******************************************************************************** The namespace_packages parameter is deprecated, consider using implicit namespaces instead (PEP 420). See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! parsed = self.parsers.get(option_name, lambda x: x)(value) /usr/local/lib/python3.11/site-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+) See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() /usr/local/lib/python3.11/site-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running config =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> Building for py311-point-annotator-2.0.0_3 /usr/local/lib/python3.11/site-packages/setuptools/config/setupcfg.py:296: _DeprecatedConfig: Deprecated config in `setup.cfg` !! ******************************************************************************** The namespace_packages parameter is deprecated, consider using implicit namespaces instead (PEP 420). See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! parsed = self.parsers.get(option_name, lambda x: x)(value) /usr/local/lib/python3.11/site-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+) See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() /usr/local/lib/python3.11/site-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running build running build_py creating build/lib/pointannotator copying pointannotator/__init__.py -> build/lib/pointannotator copying pointannotator/annotate_samples.py -> build/lib/pointannotator copying pointannotator/plotting.py -> build/lib/pointannotator copying pointannotator/utils.py -> build/lib/pointannotator creating build/lib/pointannotator/tests copying pointannotator/tests/__init__.py -> build/lib/pointannotator/tests copying pointannotator/tests/test_annotate_samples.py -> build/lib/pointannotator/tests running egg_info writing point_annotator.egg-info/PKG-INFO writing dependency_links to point_annotator.egg-info/dependency_links.txt writing namespace_packages to point_annotator.egg-info/namespace_packages.txt writing requirements to point_annotator.egg-info/requires.txt writing top-level names to point_annotator.egg-info/top_level.txt reading manifest file 'point_annotator.egg-info/SOURCES.txt' adding license file 'LICENSE' writing manifest file 'point_annotator.egg-info/SOURCES.txt' /usr/local/lib/python3.11/site-packages/setuptools/command/build_py.py:215: _Warning: Package 'pointannotator.examples' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pointannotator.examples' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pointannotator.examples' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pointannotator.examples' to be distributed and are already explicitly excluding 'pointannotator.examples' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) creating build/lib/pointannotator/examples copying pointannotator/examples/dendrtic_cells_annotation.ipynb -> build/lib/pointannotator/examples copying pointannotator/examples/human_pancreas_annotation.ipynb -> build/lib/pointannotator/examples copying pointannotator/examples/mouse_pancreas_annotation.ipynb -> build/lib/pointannotator/examples =========================================================================== =================================================== ===== env: USE_PACKAGE_DEPENDS_ONLY=1 USER=root UID=0 GID=0 ===> py311-point-annotator-2.0.0_3 depends on package: py311-numpy1>=1.16 - not found ===> Installing existing package /packages/All/py311-numpy1-1.26.4_3.pkg [curamd64-setuptools-job-01] Installing py311-numpy1-1.26.4_3... [curamd64-setuptools-job-01] `-- Installing gcc14-14.2.0_4... [curamd64-setuptools-job-01] | `-- Installing binutils-2.44,1... [curamd64-setuptools-job-01] | | `-- Installing zstd-1.5.7_1... [curamd64-setuptools-job-01] | | `-- Extracting zstd-1.5.7_1: .......... done [curamd64-setuptools-job-01] | `-- Extracting binutils-2.44,1: .......... done [curamd64-setuptools-job-01] | `-- Installing gmp-6.3.0... [curamd64-setuptools-job-01] | `-- Extracting gmp-6.3.0: .......... done [curamd64-setuptools-job-01] | `-- Installing mpc-1.4.1... [curamd64-setuptools-job-01] | | `-- Installing mpfr-4.2.2,1... [curamd64-setuptools-job-01] | | `-- Extracting mpfr-4.2.2,1: .......... done [curamd64-setuptools-job-01] | `-- Extracting mpc-1.4.1: .......... done [curamd64-setuptools-job-01] `-- Extracting gcc14-14.2.0_4: .......... done [curamd64-setuptools-job-01] `-- Installing openblas-0.3.30,2... [curamd64-setuptools-job-01] `-- Extracting openblas-0.3.30,2: .......... done [curamd64-setuptools-job-01] Extracting py311-numpy1-1.26.4_3: .......... 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-point-annotator-2.0.0_3 depends on package: py311-numpy1>=1.16 - found ===> Returning to build of py311-point-annotator-2.0.0_3 ===> py311-point-annotator-2.0.0_3 depends on package: py311-pandas>0 - not found ===> Installing existing package /packages/All/py311-pandas-2.3.3_1,1.pkg [curamd64-setuptools-job-01] Installing py311-pandas-2.3.3_1,1... [curamd64-setuptools-job-01] `-- Installing py311-bottleneck-1.6.0_1... 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[curamd64-setuptools-job-01] | | `-- Extracting libedit-3.1.20251016_1,1: .......... done [curamd64-setuptools-job-01] | `-- Extracting sqlite3-3.50.4_2,1: .......... done [curamd64-setuptools-job-01] `-- Extracting py311-sqlite3-3.11.15_10: ......... done [curamd64-setuptools-job-01] `-- Installing py311-tzdata-2026.2... [curamd64-setuptools-job-01] `-- Extracting py311-tzdata-2026.2: .......... done [curamd64-setuptools-job-01] Extracting py311-pandas-2.3.3_1,1: .......... done ===== Message from py311-pandas-2.3.3_1,1: -- Install math/py-statsmodels to enable parts of pandas.stats. Install devel/py-xarray to enable the to_xarray() function. ===> py311-point-annotator-2.0.0_3 depends on package: py311-pandas>0 - found ===> Returning to build of py311-point-annotator-2.0.0_3 ===> py311-point-annotator-2.0.0_3 depends on package: py311-scipy>0 - not found ===> Installing existing package /packages/All/py311-scipy-1.17.1_1,1.pkg [curamd64-setuptools-job-01] Installing py311-scipy-1.17.1_1,1... [curamd64-setuptools-job-01] `-- Installing qhull-8.0.2_3,1... [curamd64-setuptools-job-01] `-- Extracting qhull-8.0.2_3,1: .......... done [curamd64-setuptools-job-01] Extracting py311-scipy-1.17.1_1,1: .......... done ===> py311-point-annotator-2.0.0_3 depends on package: py311-scipy>0 - found ===> Returning to build of py311-point-annotator-2.0.0_3 ===> py311-point-annotator-2.0.0_3 depends on file: /usr/local/bin/python3.11 - found =========================================================================== =================================================== ===== env: NO_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> Staging for py311-point-annotator-2.0.0_3 ===> Generating temporary packing list /usr/local/lib/python3.11/site-packages/setuptools/config/setupcfg.py:296: _DeprecatedConfig: Deprecated config in `setup.cfg` !! ******************************************************************************** The namespace_packages parameter is deprecated, consider using implicit namespaces instead (PEP 420). See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. ******************************************************************************** !! parsed = self.parsers.get(option_name, lambda x: x)(value) /usr/local/lib/python3.11/site-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+) See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() /usr/local/lib/python3.11/site-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. !! ******************************************************************************** Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. ******************************************************************************** !! dist.fetch_build_eggs(dist.setup_requires) running install /usr/local/lib/python3.11/site-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. This deprecation is overdue, please update your project and remove deprecated calls to avoid build errors in the future. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running egg_info writing point_annotator.egg-info/PKG-INFO writing dependency_links to point_annotator.egg-info/dependency_links.txt writing namespace_packages to point_annotator.egg-info/namespace_packages.txt writing requirements to point_annotator.egg-info/requires.txt writing top-level names to point_annotator.egg-info/top_level.txt reading manifest file 'point_annotator.egg-info/SOURCES.txt' adding license file 'LICENSE' writing manifest file 'point_annotator.egg-info/SOURCES.txt' /usr/local/lib/python3.11/site-packages/setuptools/command/build_py.py:215: _Warning: Package 'pointannotator.examples' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'pointannotator.examples' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'pointannotator.examples' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'pointannotator.examples' to be distributed and are already explicitly excluding 'pointannotator.examples' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) running install_lib Skipping installation of /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/__init__.py (namespace package) copying pointannotator/annotate_samples.py -> /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator copying pointannotator/plotting.py -> /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator copying pointannotator/utils.py -> /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator copying pointannotator/tests/__init__.py -> /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/tests copying pointannotator/tests/test_annotate_samples.py -> /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/tests copying pointannotator/examples/dendrtic_cells_annotation.ipynb -> /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/examples copying pointannotator/examples/human_pancreas_annotation.ipynb -> /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/examples copying pointannotator/examples/mouse_pancreas_annotation.ipynb -> /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/examples byte-compiling /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/annotate_samples.py to annotate_samples.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/plotting.py to plotting.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/utils.py to utils.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/tests/__init__.py to __init__.cpython-311.pyc byte-compiling /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/pointannotator/tests/test_annotate_samples.py to test_annotate_samples.cpython-311.pyc writing byte-compilation script '/tmp/tmp23qp47hs.py' /usr/local/bin/python3.11 /tmp/tmp23qp47hs.py removing /tmp/tmp23qp47hs.py running install_egg_info Copying point_annotator.egg-info to /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/point_annotator-2.0.0-py3.11.egg-info Installing /wrkdirs/usr/ports/math/py-point-annotator/work-py311/stage/usr/local/lib/python3.11/site-packages/point_annotator-2.0.0-py3.11-nspkg.pth running install_scripts writing list of installed files to '/wrkdirs/usr/ports/math/py-point-annotator/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=2026-06-01T23:24:24+0000' 'PKG_NOTE_ports_top_git_hash=a8b187544' 'PKG_NOTE_ports_top_checkout_unclean=yes' 'PKG_NOTE_port_git_hash=a8b187544' 'PKG_NOTE_port_checkout_unclean=no' 'PKG_NOTE_built_by=poudriere-git-3.4.4' NO_DEPENDS=yes USER=nobody UID=65534 GID=65534 ===> Building packages for py311-point-annotator-2.0.0_3 ===> Building py311-point-annotator-2.0.0_3 =========================================================================== =>> Cleaning up wrkdir ===> Cleaning for py311-point-annotator-2.0.0_3 build of math/py-point-annotator@py311 | py311-point-annotator-2.0.0_3 ended at Tue Jun 2 08:35:07 JST 2026 build time: 00:12:36