2025-09-07T22:49:54,534 Created temporary directory: /tmp/pip-build-tracker-rj2egods 2025-09-07T22:49:54,535 Initialized build tracking at /tmp/pip-build-tracker-rj2egods 2025-09-07T22:49:54,535 Created build tracker: /tmp/pip-build-tracker-rj2egods 2025-09-07T22:49:54,535 Entered build tracker: /tmp/pip-build-tracker-rj2egods 2025-09-07T22:49:54,536 Created temporary directory: /tmp/pip-wheel-gz1oofin 2025-09-07T22:49:54,539 Created temporary directory: /tmp/pip-ephem-wheel-cache-8yhl976c 2025-09-07T22:49:54,598 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-07T22:49:54,600 2 location(s) to search for versions of biofrills: 2025-09-07T22:49:54,600 * https://pypi.org/simple/biofrills/ 2025-09-07T22:49:54,600 * https://www.piwheels.org/simple/biofrills/ 2025-09-07T22:49:54,600 Fetching project page and analyzing links: https://pypi.org/simple/biofrills/ 2025-09-07T22:49:54,601 Getting page https://pypi.org/simple/biofrills/ 2025-09-07T22:49:54,602 Found index url https://pypi.org/simple/ 2025-09-07T22:49:54,671 Fetched page https://pypi.org/simple/biofrills/ as application/vnd.pypi.simple.v1+json 2025-09-07T22:49:54,672 Found link https://files.pythonhosted.org/packages/f7/ff/87dde3f9615bbf18440577363ca8a55e256f33187ad7ae5c4b23bcfd9d51/biofrills-0.1.0.tar.gz (from https://pypi.org/simple/biofrills/), version: 0.1.0 2025-09-07T22:49:54,673 Found link https://files.pythonhosted.org/packages/a4/dd/c9a6a17f04c249a322263175900d42b515f7e0dc28e77c81f7a0ac268930/biofrills-0.2.0.linux-x86_64.tar.gz (from https://pypi.org/simple/biofrills/), version: 0.2.0.linux-x86_64 2025-09-07T22:49:54,673 Found link https://files.pythonhosted.org/packages/2d/66/9527df165e5c76b95d7e2713216b58e8252f0ab9fc4bd572049428dda474/biofrills-0.2.0.tar.gz (from https://pypi.org/simple/biofrills/), version: 0.2.0 2025-09-07T22:49:54,673 Found link https://files.pythonhosted.org/packages/3f/b0/287f3a27448730c69af668d455f91f3827c6d350706a478d0848e086af0e/biofrills-0.3.linux-x86_64.tar.gz (from https://pypi.org/simple/biofrills/), version: 0.3.linux-x86_64 2025-09-07T22:49:54,673 Found link https://files.pythonhosted.org/packages/eb/67/2ec579007e4b04367bb1bfa9c7495e0ff86d8ed3a0c4fbd7085ee1154320/biofrills-0.3.linux-x86_64.zip (from https://pypi.org/simple/biofrills/), version: 0.3.linux-x86_64 2025-09-07T22:49:54,673 Found link https://files.pythonhosted.org/packages/fa/f7/349c76268474dc83125a3ab2bff829545953c70fdca749770da6b043e098/biofrills-0.3.tar.gz (from https://pypi.org/simple/biofrills/), version: 0.3 2025-09-07T22:49:54,674 Found link https://files.pythonhosted.org/packages/4e/e5/9fb7492efd804dfdf696e4d3348bda749269ad6efed94bf738ca0d96d5fa/biofrills-0.3.zip (from https://pypi.org/simple/biofrills/), version: 0.3 2025-09-07T22:49:54,674 Found link https://files.pythonhosted.org/packages/6d/95/2d5942738693741cd4258ad965e0bc7b63a4f4f97b3a2af0ae67915d5de8/biofrills-0.3.1.tar.gz (from https://pypi.org/simple/biofrills/), version: 0.3.1 2025-09-07T22:49:54,674 Fetching project page and analyzing links: https://www.piwheels.org/simple/biofrills/ 2025-09-07T22:49:54,675 Getting page https://www.piwheels.org/simple/biofrills/ 2025-09-07T22:49:54,675 Found index url https://www.piwheels.org/simple/ 2025-09-07T22:49:54,764 Fetched page https://www.piwheels.org/simple/biofrills/ as text/html 2025-09-07T22:49:54,773 Skipping link: No binaries permitted for biofrills: https://archive1.piwheels.org/simple/biofrills/biofrills-0.3.1-cp37-cp37m-linux_armv7l.whl#sha256=22ebb4abff26c8b4c775cc79f9556bca1882082ea4f91f963e6e16914c3e7a9a (from https://www.piwheels.org/simple/biofrills/) 2025-09-07T22:49:54,773 Skipping link: No binaries permitted for biofrills: https://archive1.piwheels.org/simple/biofrills/biofrills-0.3.1-cp37-cp37m-linux_armv6l.whl#sha256=22ebb4abff26c8b4c775cc79f9556bca1882082ea4f91f963e6e16914c3e7a9a (from https://www.piwheels.org/simple/biofrills/) 2025-09-07T22:49:54,773 Skipping link: No binaries permitted for biofrills: https://archive1.piwheels.org/simple/biofrills/biofrills-0.3.1-cp34-cp34m-linux_armv6l.whl#sha256=3eaa02992153b9d8a6434938c607c78d796d460963353dc3ad44b6176d28905d (from https://www.piwheels.org/simple/biofrills/) 2025-09-07T22:49:54,774 Skipping link: No binaries permitted for biofrills: https://archive1.piwheels.org/simple/biofrills/biofrills-0.3.1-cp34-cp34m-linux_armv7l.whl#sha256=3eaa02992153b9d8a6434938c607c78d796d460963353dc3ad44b6176d28905d (from https://www.piwheels.org/simple/biofrills/) 2025-09-07T22:49:54,774 Skipping link: No binaries permitted for biofrills: 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https://archive1.piwheels.org/simple/biofrills/biofrills-0.1.0-cp39-cp39-linux_armv7l.whl#sha256=0213729dea54640b0ba1e393e7121ef763e6808d99ae74a1c8f2d3e47a5d54de (from https://www.piwheels.org/simple/biofrills/) 2025-09-07T22:49:54,779 Skipping link: No binaries permitted for biofrills: https://www.piwheels.org/simple/biofrills/biofrills-0.1.0-cp313-cp313-linux_armv6l.whl#sha256=4211cb4bfe95030e462d8c7b5a57fb2adf50fc0b8164fa0e19f121a09ffb1965 (from https://www.piwheels.org/simple/biofrills/) 2025-09-07T22:49:54,779 Skipping link: No binaries permitted for biofrills: https://www.piwheels.org/simple/biofrills/biofrills-0.1.0-cp313-cp313-linux_armv7l.whl#sha256=4211cb4bfe95030e462d8c7b5a57fb2adf50fc0b8164fa0e19f121a09ffb1965 (from https://www.piwheels.org/simple/biofrills/) 2025-09-07T22:49:54,779 Skipping link: not a file: https://www.piwheels.org/simple/biofrills/ 2025-09-07T22:49:54,779 Skipping link: not a file: https://pypi.org/simple/biofrills/ 2025-09-07T22:49:54,802 Given no hashes to check 1 links for project 'biofrills': discarding no candidates 2025-09-07T22:49:54,803 Collecting biofrills==0.3.1 2025-09-07T22:49:54,804 Created temporary directory: /tmp/pip-unpack-7xsak3uk 2025-09-07T22:49:54,944 Downloading biofrills-0.3.1.tar.gz (49 kB) 2025-09-07T22:49:54,986 Added biofrills==0.3.1 from https://files.pythonhosted.org/packages/6d/95/2d5942738693741cd4258ad965e0bc7b63a4f4f97b3a2af0ae67915d5de8/biofrills-0.3.1.tar.gz to build tracker '/tmp/pip-build-tracker-rj2egods' 2025-09-07T22:49:54,987 Running setup.py (path:/tmp/pip-wheel-gz1oofin/biofrills_0e42a5debae44dc0b7bb16d23ab63919/setup.py) egg_info for package biofrills 2025-09-07T22:49:54,987 Created temporary directory: /tmp/pip-pip-egg-info-o25m5rql 2025-09-07T22:49:54,988 Preparing metadata (setup.py): started 2025-09-07T22:49:54,988 Running command python setup.py egg_info 2025-09-07T22:49:56,138 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-07T22:49:56,139 !! 2025-09-07T22:49:56,139 ******************************************************************************** 2025-09-07T22:49:56,139 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-07T22:49:56,139 License :: OSI Approved :: BSD License 2025-09-07T22:49:56,139 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-07T22:49:56,139 ******************************************************************************** 2025-09-07T22:49:56,140 !! 2025-09-07T22:49:56,140 self._finalize_license_expression() 2025-09-07T22:49:56,212 running egg_info 2025-09-07T22:49:56,287 creating /tmp/pip-pip-egg-info-o25m5rql/biofrills.egg-info 2025-09-07T22:49:56,287 writing /tmp/pip-pip-egg-info-o25m5rql/biofrills.egg-info/PKG-INFO 2025-09-07T22:49:56,289 writing dependency_links to /tmp/pip-pip-egg-info-o25m5rql/biofrills.egg-info/dependency_links.txt 2025-09-07T22:49:56,289 writing requirements to /tmp/pip-pip-egg-info-o25m5rql/biofrills.egg-info/requires.txt 2025-09-07T22:49:56,289 writing top-level names to /tmp/pip-pip-egg-info-o25m5rql/biofrills.egg-info/top_level.txt 2025-09-07T22:49:56,290 writing manifest file '/tmp/pip-pip-egg-info-o25m5rql/biofrills.egg-info/SOURCES.txt' 2025-09-07T22:49:56,513 reading manifest file '/tmp/pip-pip-egg-info-o25m5rql/biofrills.egg-info/SOURCES.txt' 2025-09-07T22:49:56,516 writing manifest file '/tmp/pip-pip-egg-info-o25m5rql/biofrills.egg-info/SOURCES.txt' 2025-09-07T22:49:56,628 Preparing metadata (setup.py): finished with status 'done' 2025-09-07T22:49:56,633 Source in /tmp/pip-wheel-gz1oofin/biofrills_0e42a5debae44dc0b7bb16d23ab63919 has version 0.3.1, which satisfies requirement biofrills==0.3.1 from https://files.pythonhosted.org/packages/6d/95/2d5942738693741cd4258ad965e0bc7b63a4f4f97b3a2af0ae67915d5de8/biofrills-0.3.1.tar.gz 2025-09-07T22:49:56,633 Removed biofrills==0.3.1 from https://files.pythonhosted.org/packages/6d/95/2d5942738693741cd4258ad965e0bc7b63a4f4f97b3a2af0ae67915d5de8/biofrills-0.3.1.tar.gz from build tracker '/tmp/pip-build-tracker-rj2egods' 2025-09-07T22:49:56,637 Created temporary directory: /tmp/pip-unpack-2rgv3mcx 2025-09-07T22:49:56,637 Created temporary directory: /tmp/pip-unpack-g0zqcfc0 2025-09-07T22:49:56,637 Building wheels for collected packages: biofrills 2025-09-07T22:49:56,639 Created temporary directory: /tmp/pip-wheel-zhfi2t53 2025-09-07T22:49:56,639 DEPRECATION: Building 'biofrills' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'biofrills'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-07T22:49:56,640 Building wheel for biofrills (setup.py): started 2025-09-07T22:49:56,641 Destination directory: /tmp/pip-wheel-zhfi2t53 2025-09-07T22:49:56,641 Running command python setup.py bdist_wheel 2025-09-07T22:49:57,729 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-07T22:49:57,729 !! 2025-09-07T22:49:57,729 ******************************************************************************** 2025-09-07T22:49:57,729 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-07T22:49:57,729 License :: OSI Approved :: BSD License 2025-09-07T22:49:57,729 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-07T22:49:57,729 ******************************************************************************** 2025-09-07T22:49:57,730 !! 2025-09-07T22:49:57,730 self._finalize_license_expression() 2025-09-07T22:49:57,730 running bdist_wheel 2025-09-07T22:49:58,029 running build 2025-09-07T22:49:58,029 running build_py 2025-09-07T22:49:58,106 creating build/lib.linux-armv7l-cpython-313/biofrills 2025-09-07T22:49:58,106 copying biofrills/alnutils.py -> build/lib.linux-armv7l-cpython-313/biofrills 2025-09-07T22:49:58,107 copying biofrills/pairutils.py -> build/lib.linux-armv7l-cpython-313/biofrills 2025-09-07T22:49:58,107 copying biofrills/logoutils.py -> build/lib.linux-armv7l-cpython-313/biofrills 2025-09-07T22:49:58,108 copying biofrills/consensus.py -> build/lib.linux-armv7l-cpython-313/biofrills 2025-09-07T22:49:58,108 copying biofrills/sequtils.py -> build/lib.linux-armv7l-cpython-313/biofrills 2025-09-07T22:49:58,109 copying biofrills/__init__.py -> build/lib.linux-armv7l-cpython-313/biofrills 2025-09-07T22:49:58,110 creating build/lib.linux-armv7l-cpython-313/biofrills/stats 2025-09-07T22:49:58,110 copying biofrills/stats/chisq.py -> build/lib.linux-armv7l-cpython-313/biofrills/stats 2025-09-07T22:49:58,110 copying biofrills/stats/__init__.py -> build/lib.linux-armv7l-cpython-313/biofrills/stats 2025-09-07T22:49:58,112 running build_ext 2025-09-07T22:49:58,684 Compiling biofrills/cpairutils.pyx because it changed. 2025-09-07T22:49:58,684 [1/1] Cythonizing biofrills/cpairutils.pyx 2025-09-07T22:50:00,760 building 'biofrills.cpairutils' extension 2025-09-07T22:50:00,761 creating build/temp.linux-armv7l-cpython-313/biofrills 2025-09-07T22:50:00,762 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/include/python3.13 -c biofrills/cpairutils.c -o build/temp.linux-armv7l-cpython-313/biofrills/cpairutils.o 2025-09-07T22:50:08,931 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-313/biofrills/cpairutils.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-313/biofrills/cpairutils.cpython-313-arm-linux-gnueabihf.so 2025-09-07T22:50:09,131 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-09-07T22:50:09,132 !! 2025-09-07T22:50:09,132 ******************************************************************************** 2025-09-07T22:50:09,132 Please avoid running ``setup.py`` directly. 2025-09-07T22:50:09,132 Instead, use pypa/build, pypa/installer or other 2025-09-07T22:50:09,132 standards-based tools. 2025-09-07T22:50:09,132 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-07T22:50:09,133 or your builds will no longer be supported. 2025-09-07T22:50:09,133 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-09-07T22:50:09,133 ******************************************************************************** 2025-09-07T22:50:09,133 !! 2025-09-07T22:50:09,133 self.initialize_options() 2025-09-07T22:50:09,206 installing to build/bdist.linux-armv7l/wheel 2025-09-07T22:50:09,206 running install 2025-09-07T22:50:09,228 running install_lib 2025-09-07T22:50:09,302 creating build/bdist.linux-armv7l/wheel 2025-09-07T22:50:09,303 creating build/bdist.linux-armv7l/wheel/biofrills 2025-09-07T22:50:09,303 copying build/lib.linux-armv7l-cpython-313/biofrills/cpairutils.cpython-313-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/./biofrills 2025-09-07T22:50:09,305 creating build/bdist.linux-armv7l/wheel/biofrills/stats 2025-09-07T22:50:09,305 copying build/lib.linux-armv7l-cpython-313/biofrills/stats/__init__.py -> build/bdist.linux-armv7l/wheel/./biofrills/stats 2025-09-07T22:50:09,305 copying build/lib.linux-armv7l-cpython-313/biofrills/stats/chisq.py -> build/bdist.linux-armv7l/wheel/./biofrills/stats 2025-09-07T22:50:09,306 copying build/lib.linux-armv7l-cpython-313/biofrills/__init__.py -> build/bdist.linux-armv7l/wheel/./biofrills 2025-09-07T22:50:09,306 copying build/lib.linux-armv7l-cpython-313/biofrills/sequtils.py -> build/bdist.linux-armv7l/wheel/./biofrills 2025-09-07T22:50:09,307 copying build/lib.linux-armv7l-cpython-313/biofrills/consensus.py -> build/bdist.linux-armv7l/wheel/./biofrills 2025-09-07T22:50:09,307 copying build/lib.linux-armv7l-cpython-313/biofrills/logoutils.py -> build/bdist.linux-armv7l/wheel/./biofrills 2025-09-07T22:50:09,307 copying build/lib.linux-armv7l-cpython-313/biofrills/pairutils.py -> build/bdist.linux-armv7l/wheel/./biofrills 2025-09-07T22:50:09,308 copying build/lib.linux-armv7l-cpython-313/biofrills/alnutils.py -> build/bdist.linux-armv7l/wheel/./biofrills 2025-09-07T22:50:09,308 running install_egg_info 2025-09-07T22:50:09,387 running egg_info 2025-09-07T22:50:09,461 writing biofrills.egg-info/PKG-INFO 2025-09-07T22:50:09,462 writing dependency_links to biofrills.egg-info/dependency_links.txt 2025-09-07T22:50:09,463 writing requirements to biofrills.egg-info/requires.txt 2025-09-07T22:50:09,463 writing top-level names to biofrills.egg-info/top_level.txt 2025-09-07T22:50:09,538 reading manifest file 'biofrills.egg-info/SOURCES.txt' 2025-09-07T22:50:09,543 writing manifest file 'biofrills.egg-info/SOURCES.txt' 2025-09-07T22:50:09,543 Copying biofrills.egg-info to build/bdist.linux-armv7l/wheel/./biofrills-0.3.1-py3.13.egg-info 2025-09-07T22:50:09,545 running install_scripts 2025-09-07T22:50:09,594 creating build/bdist.linux-armv7l/wheel/biofrills-0.3.1.dist-info/WHEEL 2025-09-07T22:50:09,595 creating '/tmp/pip-wheel-zhfi2t53/biofrills-0.3.1-cp313-cp313-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-09-07T22:50:09,596 adding 'biofrills/__init__.py' 2025-09-07T22:50:09,598 adding 'biofrills/alnutils.py' 2025-09-07T22:50:09,599 adding 'biofrills/consensus.py' 2025-09-07T22:50:09,669 adding 'biofrills/cpairutils.cpython-313-arm-linux-gnueabihf.so' 2025-09-07T22:50:09,672 adding 'biofrills/logoutils.py' 2025-09-07T22:50:09,674 adding 'biofrills/pairutils.py' 2025-09-07T22:50:09,675 adding 'biofrills/sequtils.py' 2025-09-07T22:50:09,675 adding 'biofrills/stats/__init__.py' 2025-09-07T22:50:09,676 adding 'biofrills/stats/chisq.py' 2025-09-07T22:50:09,677 adding 'biofrills-0.3.1.dist-info/METADATA' 2025-09-07T22:50:09,677 adding 'biofrills-0.3.1.dist-info/WHEEL' 2025-09-07T22:50:09,678 adding 'biofrills-0.3.1.dist-info/top_level.txt' 2025-09-07T22:50:09,678 adding 'biofrills-0.3.1.dist-info/RECORD' 2025-09-07T22:50:09,679 removing build/bdist.linux-armv7l/wheel 2025-09-07T22:50:10,012 Building wheel for biofrills (setup.py): finished with status 'done' 2025-09-07T22:50:10,015 Created wheel for biofrills: filename=biofrills-0.3.1-cp313-cp313-linux_armv7l.whl size=157423 sha256=1f596c581eb79a445ed7d6559b36cfd873f913e436a2728cc19ee2f196c10457 2025-09-07T22:50:10,016 Stored in directory: /tmp/pip-ephem-wheel-cache-8yhl976c/wheels/3a/4f/eb/50909f90795587d326671fd208339dc1c9bf66b867d33aea64 2025-09-07T22:50:10,023 Successfully built biofrills 2025-09-07T22:50:10,024 Removed build tracker: '/tmp/pip-build-tracker-rj2egods'