2025-09-08T09:28:17,425 Created temporary directory: /tmp/pip-build-tracker-plc8xsos 2025-09-08T09:28:17,425 Initialized build tracking at /tmp/pip-build-tracker-plc8xsos 2025-09-08T09:28:17,425 Created build tracker: /tmp/pip-build-tracker-plc8xsos 2025-09-08T09:28:17,426 Entered build tracker: /tmp/pip-build-tracker-plc8xsos 2025-09-08T09:28:17,426 Created temporary directory: /tmp/pip-wheel-y4ouwt30 2025-09-08T09:28:17,429 Created temporary directory: /tmp/pip-ephem-wheel-cache-0lhx_bzs 2025-09-08T09:28:17,484 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T09:28:17,486 2 location(s) to search for versions of yaff: 2025-09-08T09:28:17,486 * https://pypi.org/simple/yaff/ 2025-09-08T09:28:17,486 * https://www.piwheels.org/simple/yaff/ 2025-09-08T09:28:17,487 Fetching project page and analyzing links: https://pypi.org/simple/yaff/ 2025-09-08T09:28:17,487 Getting page https://pypi.org/simple/yaff/ 2025-09-08T09:28:17,488 Found index url https://pypi.org/simple/ 2025-09-08T09:28:17,558 Fetched page https://pypi.org/simple/yaff/ as application/vnd.pypi.simple.v1+json 2025-09-08T09:28:17,559 Found link https://files.pythonhosted.org/packages/c9/f2/047512dde0eb54740406d6a712e96dc03731293ea4cd729be862bf81b6e4/yaff-1.2.0.tar.gz (from https://pypi.org/simple/yaff/), version: 1.2.0 2025-09-08T09:28:17,559 Found link https://files.pythonhosted.org/packages/e5/55/ad679d745f316943d494e44073836d7788cc34877c5d9498b3fb9150c418/yaff-1.3.0.tar.gz (from https://pypi.org/simple/yaff/), version: 1.3.0 2025-09-08T09:28:17,560 Found link https://files.pythonhosted.org/packages/18/d1/80fd22fb23b0991a9f09a7efc0f163d764205bac1eaed4fa6b322a6f7482/yaff-1.4.0.tar.gz (from https://pypi.org/simple/yaff/), version: 1.4.0 2025-09-08T09:28:17,560 Found link https://files.pythonhosted.org/packages/10/fd/8c080b0443c8d200c4dd06378adc1a6877c31c2ecf6f4a41c9be8c73d8a0/yaff-1.4.1.tar.gz (from https://pypi.org/simple/yaff/), version: 1.4.1 2025-09-08T09:28:17,560 Found link https://files.pythonhosted.org/packages/3f/21/6269a78287d1b3efce078e0f81566a9e5d2106655a35b83cc2b35eab69e7/yaff-1.4.2.tar.gz (from https://pypi.org/simple/yaff/), version: 1.4.2 2025-09-08T09:28:17,561 Fetching project page and analyzing links: https://www.piwheels.org/simple/yaff/ 2025-09-08T09:28:17,561 Getting page https://www.piwheels.org/simple/yaff/ 2025-09-08T09:28:17,562 Found index url https://www.piwheels.org/simple/ 2025-09-08T09:28:17,655 Fetched page https://www.piwheels.org/simple/yaff/ as text/html 2025-09-08T09:28:17,661 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.2-cp35-cp35m-linux_armv7l.whl#sha256=05eeae8318b3bf4a5161fdecb47dc62633b3977a877445f48901fba4d349fa94 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,661 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.2-cp35-cp35m-linux_armv6l.whl#sha256=05eeae8318b3bf4a5161fdecb47dc62633b3977a877445f48901fba4d349fa94 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,661 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.2-cp37-cp37m-linux_armv6l.whl#sha256=34b102088d7f75b099d713c83f48230bad7356bda4047a4970465151b3d3045d (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,661 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.2-cp37-cp37m-linux_armv7l.whl#sha256=34b102088d7f75b099d713c83f48230bad7356bda4047a4970465151b3d3045d (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,661 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.2-cp39-cp39-linux_armv6l.whl#sha256=9b0058e42bbfc37e4e09b5e25437de94436624c799a0915e1c7fac3195c2ad09 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,662 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.2-cp39-cp39-linux_armv7l.whl#sha256=9b0058e42bbfc37e4e09b5e25437de94436624c799a0915e1c7fac3195c2ad09 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,662 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.1-cp37-cp37m-linux_armv7l.whl#sha256=ee39b976fef8e83eaebb43b270fcc7fe279dcae59a1afe3fb071231c58a3f73d (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,662 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.1-cp37-cp37m-linux_armv6l.whl#sha256=ee39b976fef8e83eaebb43b270fcc7fe279dcae59a1afe3fb071231c58a3f73d (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,662 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.1-cp35-cp35m-linux_armv7l.whl#sha256=2299cea4af208ca4f7fe708aedf1580770206c4ef50adddf03bc79243770b251 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,662 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.1-cp35-cp35m-linux_armv6l.whl#sha256=2299cea4af208ca4f7fe708aedf1580770206c4ef50adddf03bc79243770b251 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,662 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.1-cp39-cp39-linux_armv6l.whl#sha256=32dd02a0a69308ed168af1cefa72335d7eec599ada71910d97ea22b17dfd4703 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,662 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.1-cp39-cp39-linux_armv7l.whl#sha256=32dd02a0a69308ed168af1cefa72335d7eec599ada71910d97ea22b17dfd4703 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,663 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.0-cp37-cp37m-linux_armv7l.whl#sha256=2ea621f98879ef71738a38a79c95c9f10f4f49cf4e3d791c9f6dfe60ddaf1e02 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,663 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.0-cp37-cp37m-linux_armv6l.whl#sha256=2ea621f98879ef71738a38a79c95c9f10f4f49cf4e3d791c9f6dfe60ddaf1e02 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,663 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.0-cp39-cp39-linux_armv6l.whl#sha256=791724fa64558c54f8b3181c8b84bc2540c74f788528493ae829a996173c200c (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,663 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.4.0-cp39-cp39-linux_armv7l.whl#sha256=791724fa64558c54f8b3181c8b84bc2540c74f788528493ae829a996173c200c (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,663 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.3.0-cp37-cp37m-linux_armv6l.whl#sha256=321de664d883048ebdcc2058ac271776c195e16e3ccd52b5c99a3efb06ddfe36 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,663 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.3.0-cp37-cp37m-linux_armv7l.whl#sha256=321de664d883048ebdcc2058ac271776c195e16e3ccd52b5c99a3efb06ddfe36 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,663 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.3.0-cp35-cp35m-linux_armv7l.whl#sha256=fd1021a4087710d708884595b480e84cabb77750568fc9624d0967670c7c7cce (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,663 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.3.0-cp35-cp35m-linux_armv6l.whl#sha256=fd1021a4087710d708884595b480e84cabb77750568fc9624d0967670c7c7cce (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,664 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.3.0-cp39-cp39-linux_armv6l.whl#sha256=b7d58b67c3e944f93f1d908241a4438f074f69a0aecb3624519814faa0e9132c (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,664 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.3.0-cp39-cp39-linux_armv7l.whl#sha256=b7d58b67c3e944f93f1d908241a4438f074f69a0aecb3624519814faa0e9132c (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,664 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.2.0-cp37-cp37m-linux_armv6l.whl#sha256=7fd5902f3f017a76bce6f931cf1f474dc3220aa18e663b8060e578b7ef94907a (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,664 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.2.0-cp37-cp37m-linux_armv7l.whl#sha256=7fd5902f3f017a76bce6f931cf1f474dc3220aa18e663b8060e578b7ef94907a (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,664 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.2.0-cp35-cp35m-linux_armv6l.whl#sha256=0e866c86ae0c7d8de5f473f7d81042a6f686c00ccb586ff5349ecdd5eb147303 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,664 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.2.0-cp35-cp35m-linux_armv7l.whl#sha256=0e866c86ae0c7d8de5f473f7d81042a6f686c00ccb586ff5349ecdd5eb147303 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,664 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.2.0-cp39-cp39-linux_armv6l.whl#sha256=a0834da5b114cd8972c0201df0b08bd9b2b7c81fe36ccadd1e2427262b85f8c6 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,665 Skipping link: No binaries permitted for yaff: https://archive1.piwheels.org/simple/yaff/yaff-1.2.0-cp39-cp39-linux_armv7l.whl#sha256=a0834da5b114cd8972c0201df0b08bd9b2b7c81fe36ccadd1e2427262b85f8c6 (from https://www.piwheels.org/simple/yaff/) 2025-09-08T09:28:17,665 Skipping link: not a file: https://www.piwheels.org/simple/yaff/ 2025-09-08T09:28:17,665 Skipping link: not a file: https://pypi.org/simple/yaff/ 2025-09-08T09:28:17,690 Given no hashes to check 1 links for project 'yaff': discarding no candidates 2025-09-08T09:28:17,691 Collecting yaff==1.4.1 2025-09-08T09:28:17,692 Created temporary directory: /tmp/pip-unpack-cg50_x8z 2025-09-08T09:28:17,836 Downloading yaff-1.4.1.tar.gz (654 kB) 2025-09-08T09:28:18,100 Added yaff==1.4.1 from https://files.pythonhosted.org/packages/10/fd/8c080b0443c8d200c4dd06378adc1a6877c31c2ecf6f4a41c9be8c73d8a0/yaff-1.4.1.tar.gz to build tracker '/tmp/pip-build-tracker-plc8xsos' 2025-09-08T09:28:18,101 Running setup.py (path:/tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/setup.py) egg_info for package yaff 2025-09-08T09:28:18,101 Created temporary directory: /tmp/pip-pip-egg-info-l7oex6ip 2025-09-08T09:28:18,101 Preparing metadata (setup.py): started 2025-09-08T09:28:18,102 Running command python setup.py egg_info 2025-09-08T09:28:19,032 fatal: not a git repository (or any parent up to mount point /) 2025-09-08T09:28:19,032 Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). 2025-09-08T09:28:19,150 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-08T09:28:19,150 !! 2025-09-08T09:28:19,150 ******************************************************************************** 2025-09-08T09:28:19,151 Requirements should be satisfied by a PEP 517 installer. 2025-09-08T09:28:19,151 If you are using pip, you can try `pip install --use-pep517`. 2025-09-08T09:28:19,151 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-08T09:28:19,151 or your builds will no longer be supported. 2025-09-08T09:28:19,151 ******************************************************************************** 2025-09-08T09:28:19,151 !! 2025-09-08T09:28:19,151 dist.fetch_build_eggs(dist.setup_requires) 2025-09-08T09:28:19,568 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-08T09:28:19,568 !! 2025-09-08T09:28:19,568 ******************************************************************************** 2025-09-08T09:28:19,568 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-08T09:28:19,568 License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+) 2025-09-08T09:28:19,569 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-08T09:28:19,569 ******************************************************************************** 2025-09-08T09:28:19,569 !! 2025-09-08T09:28:19,569 self._finalize_license_expression() 2025-09-08T09:28:19,642 Trying to get the version from git describe 2025-09-08T09:28:19,642 Trying to get the version from {} /tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/yaff/version.py 2025-09-08T09:28:19,642 Version according to /tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/yaff/version.py: 1.4.1 2025-09-08T09:28:19,642 running egg_info 2025-09-08T09:28:19,717 creating /tmp/pip-pip-egg-info-l7oex6ip/yaff.egg-info 2025-09-08T09:28:19,717 writing /tmp/pip-pip-egg-info-l7oex6ip/yaff.egg-info/PKG-INFO 2025-09-08T09:28:19,719 writing dependency_links to /tmp/pip-pip-egg-info-l7oex6ip/yaff.egg-info/dependency_links.txt 2025-09-08T09:28:19,719 writing requirements to /tmp/pip-pip-egg-info-l7oex6ip/yaff.egg-info/requires.txt 2025-09-08T09:28:19,720 writing top-level names to /tmp/pip-pip-egg-info-l7oex6ip/yaff.egg-info/top_level.txt 2025-09-08T09:28:19,720 writing manifest file '/tmp/pip-pip-egg-info-l7oex6ip/yaff.egg-info/SOURCES.txt' 2025-09-08T09:28:20,031 reading manifest file '/tmp/pip-pip-egg-info-l7oex6ip/yaff.egg-info/SOURCES.txt' 2025-09-08T09:28:20,031 reading manifest template 'MANIFEST.in' 2025-09-08T09:28:20,032 warning: no files found matching 'README' 2025-09-08T09:28:20,032 warning: no files found matching 'LICENSE.txt' 2025-09-08T09:28:20,078 warning: no previously-included files matching 'ext.c' found under directory 'yaff' 2025-09-08T09:28:20,094 writing manifest file '/tmp/pip-pip-egg-info-l7oex6ip/yaff.egg-info/SOURCES.txt' 2025-09-08T09:28:20,236 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T09:28:20,241 Source in /tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909 has version 1.4.1, which satisfies requirement yaff==1.4.1 from https://files.pythonhosted.org/packages/10/fd/8c080b0443c8d200c4dd06378adc1a6877c31c2ecf6f4a41c9be8c73d8a0/yaff-1.4.1.tar.gz 2025-09-08T09:28:20,241 Removed yaff==1.4.1 from https://files.pythonhosted.org/packages/10/fd/8c080b0443c8d200c4dd06378adc1a6877c31c2ecf6f4a41c9be8c73d8a0/yaff-1.4.1.tar.gz from build tracker '/tmp/pip-build-tracker-plc8xsos' 2025-09-08T09:28:20,246 Created temporary directory: /tmp/pip-unpack-y6pd3t0j 2025-09-08T09:28:20,246 Created temporary directory: /tmp/pip-unpack-g4c8am3s 2025-09-08T09:28:20,246 Building wheels for collected packages: yaff 2025-09-08T09:28:20,248 Created temporary directory: /tmp/pip-wheel-jqyfpl29 2025-09-08T09:28:20,248 DEPRECATION: Building 'yaff' 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 'yaff'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-08T09:28:20,249 Building wheel for yaff (setup.py): started 2025-09-08T09:28:20,250 Destination directory: /tmp/pip-wheel-jqyfpl29 2025-09-08T09:28:20,250 Running command python setup.py bdist_wheel 2025-09-08T09:28:21,156 Trying to get the version from git describe 2025-09-08T09:28:21,162 fatal: not a git repository (or any parent up to mount point /) 2025-09-08T09:28:21,162 Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). 2025-09-08T09:28:21,163 Trying to get the version from {} /tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/yaff/version.py 2025-09-08T09:28:21,163 Version according to /tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/yaff/version.py: 1.4.1 2025-09-08T09:28:21,280 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-08T09:28:21,280 !! 2025-09-08T09:28:21,280 ******************************************************************************** 2025-09-08T09:28:21,280 Requirements should be satisfied by a PEP 517 installer. 2025-09-08T09:28:21,280 If you are using pip, you can try `pip install --use-pep517`. 2025-09-08T09:28:21,281 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-08T09:28:21,281 or your builds will no longer be supported. 2025-09-08T09:28:21,281 ******************************************************************************** 2025-09-08T09:28:21,281 !! 2025-09-08T09:28:21,281 dist.fetch_build_eggs(dist.setup_requires) 2025-09-08T09:28:21,704 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-08T09:28:21,704 !! 2025-09-08T09:28:21,704 ******************************************************************************** 2025-09-08T09:28:21,704 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-08T09:28:21,705 License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+) 2025-09-08T09:28:21,705 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-08T09:28:21,705 ******************************************************************************** 2025-09-08T09:28:21,705 !! 2025-09-08T09:28:21,705 self._finalize_license_expression() 2025-09-08T09:28:21,706 running bdist_wheel 2025-09-08T09:28:22,000 running build 2025-09-08T09:28:22,000 running build_py 2025-09-08T09:28:22,077 creating build/lib.linux-armv7l-cpython-313/yaff 2025-09-08T09:28:22,077 copying yaff/version.py -> build/lib.linux-armv7l-cpython-313/yaff 2025-09-08T09:28:22,078 copying yaff/system.py -> build/lib.linux-armv7l-cpython-313/yaff 2025-09-08T09:28:22,078 copying yaff/log.py -> build/lib.linux-armv7l-cpython-313/yaff 2025-09-08T09:28:22,079 copying yaff/atselect.py -> build/lib.linux-armv7l-cpython-313/yaff 2025-09-08T09:28:22,080 copying yaff/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff 2025-09-08T09:28:22,080 creating build/lib.linux-armv7l-cpython-313/yaff/test 2025-09-08T09:28:22,081 copying yaff/test/test_system.py -> build/lib.linux-armv7l-cpython-313/yaff/test 2025-09-08T09:28:22,081 copying yaff/test/test_examples.py -> build/lib.linux-armv7l-cpython-313/yaff/test 2025-09-08T09:28:22,082 copying yaff/test/test_atselect.py -> build/lib.linux-armv7l-cpython-313/yaff/test 2025-09-08T09:28:22,082 copying yaff/test/common.py -> build/lib.linux-armv7l-cpython-313/yaff/test 2025-09-08T09:28:22,083 copying yaff/test/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/test 2025-09-08T09:28:22,084 creating build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,084 copying yaff/pes/vlist.py -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,085 copying yaff/pes/scaling.py -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,085 copying yaff/pes/parameters.py -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,086 copying yaff/pes/nlist.py -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,086 copying yaff/pes/iclist.py -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,087 copying yaff/pes/generator.py -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,088 copying yaff/pes/ff.py -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,088 copying yaff/pes/dlist.py -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,089 copying yaff/pes/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,090 creating build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,090 copying yaff/pes/test/test_vlist.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,091 copying yaff/pes/test/test_truncation.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,091 copying yaff/pes/test/test_topology.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,092 copying yaff/pes/test/test_scaling.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,092 copying yaff/pes/test/test_pext.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,093 copying yaff/pes/test/test_parameters.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,093 copying yaff/pes/test/test_pair_pot.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,094 copying yaff/pes/test/test_nlist.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,095 copying yaff/pes/test/test_md.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,095 copying yaff/pes/test/test_iclist.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,096 copying yaff/pes/test/test_grid.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,096 copying yaff/pes/test/test_generator.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,097 copying yaff/pes/test/test_ewald.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,097 copying yaff/pes/test/test_dlist.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,098 copying yaff/pes/test/test_cell.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,099 copying yaff/pes/test/common.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,099 copying yaff/pes/test/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/pes/test 2025-09-08T09:28:22,100 creating build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,100 copying yaff/sampling/verlet.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,101 copying yaff/sampling/utils.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,101 copying yaff/sampling/trajectory.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,102 copying yaff/sampling/opt.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,102 copying yaff/sampling/nvt.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,103 copying yaff/sampling/npt.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,104 copying yaff/sampling/iterative.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,104 copying yaff/sampling/io.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,105 copying yaff/sampling/harmonic.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,105 copying yaff/sampling/dof.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,106 copying yaff/sampling/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling 2025-09-08T09:28:22,107 creating build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,107 copying yaff/sampling/test/test_verlet.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,108 copying yaff/sampling/test/test_utils.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,108 copying yaff/sampling/test/test_opt.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,109 copying yaff/sampling/test/test_nvt.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,109 copying yaff/sampling/test/test_npt.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,110 copying yaff/sampling/test/test_harmonic.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,110 copying yaff/sampling/test/test_dof.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,111 copying yaff/sampling/test/common.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,111 copying yaff/sampling/test/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/sampling/test 2025-09-08T09:28:22,112 creating build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,112 copying yaff/analysis/utils.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,113 copying yaff/analysis/spectrum.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,113 copying yaff/analysis/rdf.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,114 copying yaff/analysis/pca.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,114 copying yaff/analysis/hook.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,115 copying yaff/analysis/diffusion.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,116 copying yaff/analysis/blav.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,116 copying yaff/analysis/basic.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,117 copying yaff/analysis/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis 2025-09-08T09:28:22,117 creating build/lib.linux-armv7l-cpython-313/yaff/analysis/test 2025-09-08T09:28:22,118 copying yaff/analysis/test/test_spectrum.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis/test 2025-09-08T09:28:22,118 copying yaff/analysis/test/test_rdf.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis/test 2025-09-08T09:28:22,119 copying yaff/analysis/test/test_diffusion.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis/test 2025-09-08T09:28:22,119 copying yaff/analysis/test/test_blav.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis/test 2025-09-08T09:28:22,120 copying yaff/analysis/test/test_basic.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis/test 2025-09-08T09:28:22,120 copying yaff/analysis/test/common.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis/test 2025-09-08T09:28:22,121 copying yaff/analysis/test/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/analysis/test 2025-09-08T09:28:22,122 creating build/lib.linux-armv7l-cpython-313/yaff/tune 2025-09-08T09:28:22,122 copying yaff/tune/transform.py -> build/lib.linux-armv7l-cpython-313/yaff/tune 2025-09-08T09:28:22,122 copying yaff/tune/cost.py -> build/lib.linux-armv7l-cpython-313/yaff/tune 2025-09-08T09:28:22,123 copying yaff/tune/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/tune 2025-09-08T09:28:22,124 creating build/lib.linux-armv7l-cpython-313/yaff/tune/test 2025-09-08T09:28:22,124 copying yaff/tune/test/test_transform.py -> build/lib.linux-armv7l-cpython-313/yaff/tune/test 2025-09-08T09:28:22,124 copying yaff/tune/test/test_cost.py -> build/lib.linux-armv7l-cpython-313/yaff/tune/test 2025-09-08T09:28:22,125 copying yaff/tune/test/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/tune/test 2025-09-08T09:28:22,126 creating build/lib.linux-armv7l-cpython-313/yaff/conversion 2025-09-08T09:28:22,126 copying yaff/conversion/xyz.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion 2025-09-08T09:28:22,126 copying yaff/conversion/gaussian.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion 2025-09-08T09:28:22,127 copying yaff/conversion/dlpoly.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion 2025-09-08T09:28:22,127 copying yaff/conversion/cp2k.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion 2025-09-08T09:28:22,128 copying yaff/conversion/common.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion 2025-09-08T09:28:22,128 copying yaff/conversion/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion 2025-09-08T09:28:22,129 creating build/lib.linux-armv7l-cpython-313/yaff/conversion/test 2025-09-08T09:28:22,129 copying yaff/conversion/test/test_xyz.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion/test 2025-09-08T09:28:22,130 copying yaff/conversion/test/test_gaussian.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion/test 2025-09-08T09:28:22,131 copying yaff/conversion/test/test_dlpoly.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion/test 2025-09-08T09:28:22,131 copying yaff/conversion/test/test_cp2k.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion/test 2025-09-08T09:28:22,132 copying yaff/conversion/test/__init__.py -> build/lib.linux-armv7l-cpython-313/yaff/conversion/test 2025-09-08T09:28:22,132 running egg_info 2025-09-08T09:28:22,204 writing yaff.egg-info/PKG-INFO 2025-09-08T09:28:22,205 writing dependency_links to yaff.egg-info/dependency_links.txt 2025-09-08T09:28:22,206 writing requirements to yaff.egg-info/requires.txt 2025-09-08T09:28:22,206 writing top-level names to yaff.egg-info/top_level.txt 2025-09-08T09:28:22,288 reading manifest file 'yaff.egg-info/SOURCES.txt' 2025-09-08T09:28:22,302 reading manifest template 'MANIFEST.in' 2025-09-08T09:28:22,302 warning: no files found matching 'README' 2025-09-08T09:28:22,303 warning: no files found matching 'LICENSE.txt' 2025-09-08T09:28:22,351 warning: no previously-included files matching 'ext.c' found under directory 'yaff' 2025-09-08T09:28:22,371 writing manifest file 'yaff.egg-info/SOURCES.txt' 2025-09-08T09:28:22,373 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'yaff.data.opttest' is absent from the `packages` configuration. 2025-09-08T09:28:22,373 !! 2025-09-08T09:28:22,373 ******************************************************************************** 2025-09-08T09:28:22,373 ############################ 2025-09-08T09:28:22,373 # Package would be ignored # 2025-09-08T09:28:22,373 ############################ 2025-09-08T09:28:22,374 Python recognizes 'yaff.data.opttest' as an importable package[^1], 2025-09-08T09:28:22,374 but it is absent from setuptools' `packages` configuration. 2025-09-08T09:28:22,374 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-08T09:28:22,374 package, please make sure that 'yaff.data.opttest' is explicitly added 2025-09-08T09:28:22,374 to the `packages` configuration field. 2025-09-08T09:28:22,374 Alternatively, you can also rely on setuptools' discovery methods 2025-09-08T09:28:22,374 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-08T09:28:22,374 instead of `find_packages(...)`/`find:`). 2025-09-08T09:28:22,375 You can read more about "package discovery" on setuptools documentation page: 2025-09-08T09:28:22,375 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-08T09:28:22,375 If you don't want 'yaff.data.opttest' to be distributed and are 2025-09-08T09:28:22,375 already explicitly excluding 'yaff.data.opttest' via 2025-09-08T09:28:22,375 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-08T09:28:22,375 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-08T09:28:22,375 combination with a more fine grained `package-data` configuration. 2025-09-08T09:28:22,375 You can read more about "package data files" on setuptools documentation page: 2025-09-08T09:28:22,376 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-08T09:28:22,376 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-08T09:28:22,376 even if it does not contain any `.py` files. 2025-09-08T09:28:22,376 On the other hand, currently there is no concept of package data 2025-09-08T09:28:22,376 directory, all directories are treated like packages. 2025-09-08T09:28:22,376 ******************************************************************************** 2025-09-08T09:28:22,376 !! 2025-09-08T09:28:22,376 check.warn(importable) 2025-09-08T09:28:22,377 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'yaff.data.test' is absent from the `packages` configuration. 2025-09-08T09:28:22,377 !! 2025-09-08T09:28:22,377 ******************************************************************************** 2025-09-08T09:28:22,377 ############################ 2025-09-08T09:28:22,377 # Package would be ignored # 2025-09-08T09:28:22,377 ############################ 2025-09-08T09:28:22,377 Python recognizes 'yaff.data.test' as an importable package[^1], 2025-09-08T09:28:22,377 but it is absent from setuptools' `packages` configuration. 2025-09-08T09:28:22,377 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-08T09:28:22,377 package, please make sure that 'yaff.data.test' is explicitly added 2025-09-08T09:28:22,378 to the `packages` configuration field. 2025-09-08T09:28:22,378 Alternatively, you can also rely on setuptools' discovery methods 2025-09-08T09:28:22,378 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-08T09:28:22,378 instead of `find_packages(...)`/`find:`). 2025-09-08T09:28:22,378 You can read more about "package discovery" on setuptools documentation page: 2025-09-08T09:28:22,378 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-08T09:28:22,378 If you don't want 'yaff.data.test' to be distributed and are 2025-09-08T09:28:22,379 already explicitly excluding 'yaff.data.test' via 2025-09-08T09:28:22,379 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-08T09:28:22,379 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-08T09:28:22,379 combination with a more fine grained `package-data` configuration. 2025-09-08T09:28:22,379 You can read more about "package data files" on setuptools documentation page: 2025-09-08T09:28:22,379 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-08T09:28:22,379 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-08T09:28:22,379 even if it does not contain any `.py` files. 2025-09-08T09:28:22,380 On the other hand, currently there is no concept of package data 2025-09-08T09:28:22,380 directory, all directories are treated like packages. 2025-09-08T09:28:22,380 ******************************************************************************** 2025-09-08T09:28:22,380 !! 2025-09-08T09:28:22,380 check.warn(importable) 2025-09-08T09:28:22,380 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'yaff.examples' is absent from the `packages` configuration. 2025-09-08T09:28:22,380 !! 2025-09-08T09:28:22,380 ******************************************************************************** 2025-09-08T09:28:22,380 ############################ 2025-09-08T09:28:22,381 # Package would be ignored # 2025-09-08T09:28:22,381 ############################ 2025-09-08T09:28:22,381 Python recognizes 'yaff.examples' as an importable package[^1], 2025-09-08T09:28:22,381 but it is absent from setuptools' `packages` configuration. 2025-09-08T09:28:22,381 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-08T09:28:22,381 package, please make sure that 'yaff.examples' is explicitly added 2025-09-08T09:28:22,381 to the `packages` configuration field. 2025-09-08T09:28:22,381 Alternatively, you can also rely on setuptools' discovery methods 2025-09-08T09:28:22,381 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-08T09:28:22,382 instead of `find_packages(...)`/`find:`). 2025-09-08T09:28:22,382 You can read more about "package discovery" on setuptools documentation page: 2025-09-08T09:28:22,382 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-08T09:28:22,382 If you don't want 'yaff.examples' to be distributed and are 2025-09-08T09:28:22,382 already explicitly excluding 'yaff.examples' via 2025-09-08T09:28:22,382 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-08T09:28:22,382 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-08T09:28:22,382 combination with a more fine grained `package-data` configuration. 2025-09-08T09:28:22,383 You can read more about "package data files" on setuptools documentation page: 2025-09-08T09:28:22,383 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-08T09:28:22,383 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-08T09:28:22,383 even if it does not contain any `.py` files. 2025-09-08T09:28:22,383 On the other hand, currently there is no concept of package data 2025-09-08T09:28:22,383 directory, all directories are treated like packages. 2025-09-08T09:28:22,383 ******************************************************************************** 2025-09-08T09:28:22,383 !! 2025-09-08T09:28:22,384 check.warn(importable) 2025-09-08T09:28:22,387 creating build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,388 copying yaff/data/opttest/DUBXXKHIPWMCDR-UHFFFAOYSA-N-pars-quickff.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,388 copying yaff/data/opttest/DUBXXKHIPWMCDR-UHFFFAOYSA-N.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,389 copying yaff/data/opttest/GZLNXARBGMAZKZ-KVFPUHGPSA-N-pars-quickff.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,390 copying yaff/data/opttest/GZLNXARBGMAZKZ-KVFPUHGPSA-N.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,390 copying yaff/data/opttest/JQWBTFGGAKGQPA-UHFFFAOYSA-N-pars-quickff.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,391 copying yaff/data/opttest/JQWBTFGGAKGQPA-UHFFFAOYSA-N.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,392 copying yaff/data/opttest/QRMPKOFEUHIBNM-ZKCHVHJHSA-N-pars-quickff.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,392 copying yaff/data/opttest/QRMPKOFEUHIBNM-ZKCHVHJHSA-N.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,393 copying yaff/data/opttest/WFZUBZAEFXETBF-UHFFFAOYSA-N-pars-quickff.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,394 copying yaff/data/opttest/WFZUBZAEFXETBF-UHFFFAOYSA-N.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,395 copying yaff/data/opttest/ZPJJOVNASWLIRQ-UHFFFAOYSA-N-pars-quickff.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,395 copying yaff/data/opttest/ZPJJOVNASWLIRQ-UHFFFAOYSA-N.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,396 copying yaff/data/opttest/alpha_quartz.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,396 copying yaff/data/opttest/alpha_quartz_distorted.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,397 copying yaff/data/opttest/cases.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,398 copying yaff/data/opttest/merlonite_debug.pot -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,398 copying yaff/data/opttest/merlonite_fragment.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,399 copying yaff/data/opttest/merlonite_fragment_overbonded.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,399 copying yaff/data/opttest/water_dimer.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/opttest 2025-09-08T09:28:22,400 creating build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,400 copying yaff/data/test/chloro_pos.xyz -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,402 copying yaff/data/test/chloro_vol.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,403 copying yaff/data/test/cp2k-1.ener -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,403 copying yaff/data/test/dlpoly_HISTORY_an1 -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,404 copying yaff/data/test/dlpoly_HISTORY_an2 -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,404 copying yaff/data/test/dlpoly_HISTORY_sam -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,405 copying yaff/data/test/dlpoly_HISTORY_uo -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,406 copying yaff/data/test/gaussian_sioh4_md.log -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,407 copying yaff/data/test/gaussian_sioh4_md.xyz -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,407 copying yaff/data/test/guaianolide.xyz -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,408 copying yaff/data/test/guaianolide_framework_ordered.xyz -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,408 copying yaff/data/test/nobornane.xyz -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,409 copying yaff/data/test/parameters_alkane.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,410 copying yaff/data/test/parameters_bks.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,410 copying yaff/data/test/parameters_fake_d3bj.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,412 copying yaff/data/test/parameters_fake_dampdisp1.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,412 copying yaff/data/test/parameters_fake_exprep1.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,413 copying yaff/data/test/parameters_fake_lj.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,413 copying yaff/data/test/parameters_fake_mm3.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,414 copying yaff/data/test/parameters_fake_qmdffrep.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,414 copying yaff/data/test/parameters_fake_torsion1.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,415 copying yaff/data/test/parameters_fake_torsion2.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,415 copying yaff/data/test/parameters_formaldehyde_cross.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,416 copying yaff/data/test/parameters_formaldehyde_cross_alt.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,416 copying yaff/data/test/parameters_formaldehyde_inversion.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,417 copying yaff/data/test/parameters_formaldehyde_wrong_cross.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,417 copying yaff/data/test/parameters_glycine_fixq.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,418 copying yaff/data/test/parameters_glycine_torsion.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,418 copying yaff/data/test/parameters_nacl.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,419 copying yaff/data/test/parameters_polyene.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,419 copying yaff/data/test/parameters_water.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,420 copying yaff/data/test/parameters_water_bendaharm.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,420 copying yaff/data/test/parameters_water_bendcharm.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,421 copying yaff/data/test/parameters_water_bondcross.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,421 copying yaff/data/test/parameters_water_bondfues.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,422 copying yaff/data/test/parameters_water_bondharm.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,422 copying yaff/data/test/parameters_water_cross.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,423 copying yaff/data/test/parameters_water_dampdisp1.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,423 copying yaff/data/test/parameters_water_dampdisp2.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,424 copying yaff/data/test/parameters_water_exprep1.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,424 copying yaff/data/test/parameters_water_exprep2.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,425 copying yaff/data/test/parameters_water_exprep3.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,425 copying yaff/data/test/parameters_water_fixq.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,426 copying yaff/data/test/parameters_water_fixq_dielectric.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,426 copying yaff/data/test/parameters_water_lj.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,427 copying yaff/data/test/parameters_water_mm3.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,427 copying yaff/data/test/parameters_water_ubharm.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,428 copying yaff/data/test/parameters_water_wrong_cross.txt -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,428 copying yaff/data/test/rhodium_complex_nobornane.xyz -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,429 copying yaff/data/test/water_hessian.chk -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,429 copying yaff/data/test/water_trajectory.xyz -> build/lib.linux-armv7l-cpython-313/yaff/data/test 2025-09-08T09:28:22,430 creating build/lib.linux-armv7l-cpython-313/yaff/examples 2025-09-08T09:28:22,431 copying yaff/examples/.gitignore -> build/lib.linux-armv7l-cpython-313/yaff/examples 2025-09-08T09:28:22,431 creating build/lib.linux-armv7l-cpython-313/yaff/examples/000_overview 2025-09-08T09:28:22,431 copying yaff/examples/000_overview/parameters.txt -> build/lib.linux-armv7l-cpython-313/yaff/examples/000_overview 2025-09-08T09:28:22,432 copying yaff/examples/000_overview/simulation.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/000_overview 2025-09-08T09:28:22,433 copying yaff/examples/000_overview/system.chk -> build/lib.linux-armv7l-cpython-313/yaff/examples/000_overview 2025-09-08T09:28:22,433 creating build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks 2025-09-08T09:28:22,433 copying yaff/examples/001_tutorial_bks/bks.pot -> build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks 2025-09-08T09:28:22,434 copying yaff/examples/001_tutorial_bks/runall.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks 2025-09-08T09:28:22,434 creating build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/init 2025-09-08T09:28:22,435 copying yaff/examples/001_tutorial_bks/init/mksystem.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/init 2025-09-08T09:28:22,435 copying yaff/examples/001_tutorial_bks/init/rvecs.txt -> build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/init 2025-09-08T09:28:22,436 copying yaff/examples/001_tutorial_bks/init/struct.xyz -> build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/init 2025-09-08T09:28:22,436 creating build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/nvt 2025-09-08T09:28:22,436 copying yaff/examples/001_tutorial_bks/nvt/analysis.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/nvt 2025-09-08T09:28:22,437 copying yaff/examples/001_tutorial_bks/nvt/simulation.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/nvt 2025-09-08T09:28:22,437 creating build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/opt 2025-09-08T09:28:22,438 copying yaff/examples/001_tutorial_bks/opt/analysis.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/opt 2025-09-08T09:28:22,438 copying yaff/examples/001_tutorial_bks/opt/simulation.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/001_tutorial_bks/opt 2025-09-08T09:28:22,439 creating build/lib.linux-armv7l-cpython-313/yaff/examples/002_external_trajectory 2025-09-08T09:28:22,439 copying yaff/examples/002_external_trajectory/rdf.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/002_external_trajectory 2025-09-08T09:28:22,439 copying yaff/examples/002_external_trajectory/trajectory.xyz -> build/lib.linux-armv7l-cpython-313/yaff/examples/002_external_trajectory 2025-09-08T09:28:22,440 creating build/lib.linux-armv7l-cpython-313/yaff/examples/003_water_thermostat 2025-09-08T09:28:22,440 copying yaff/examples/003_water_thermostat/md.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/003_water_thermostat 2025-09-08T09:28:22,441 copying yaff/examples/003_water_thermostat/parameters.txt -> build/lib.linux-armv7l-cpython-313/yaff/examples/003_water_thermostat 2025-09-08T09:28:22,441 copying yaff/examples/003_water_thermostat/system.chk -> build/lib.linux-armv7l-cpython-313/yaff/examples/003_water_thermostat 2025-09-08T09:28:22,442 creating build/lib.linux-armv7l-cpython-313/yaff/examples/999_back_propagation 2025-09-08T09:28:22,442 copying yaff/examples/999_back_propagation/bp.py -> build/lib.linux-armv7l-cpython-313/yaff/examples/999_back_propagation 2025-09-08T09:28:22,443 copying yaff/pes/cell.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,443 copying yaff/pes/cell.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,444 copying yaff/pes/cell.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,444 copying yaff/pes/constants.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,445 copying yaff/pes/dlist.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,445 copying yaff/pes/dlist.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,446 copying yaff/pes/dlist.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,446 copying yaff/pes/ewald.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,447 copying yaff/pes/ewald.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,447 copying yaff/pes/ewald.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,448 copying yaff/pes/ext.pyx -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,449 copying yaff/pes/grid.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,449 copying yaff/pes/grid.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,450 copying yaff/pes/grid.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,450 copying yaff/pes/iclist.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,451 copying yaff/pes/iclist.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,451 copying yaff/pes/iclist.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,452 copying yaff/pes/nlist.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,452 copying yaff/pes/nlist.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,453 copying yaff/pes/nlist.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,453 copying yaff/pes/pair_pot.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,454 copying yaff/pes/pair_pot.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,455 copying yaff/pes/pair_pot.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,455 copying yaff/pes/slater.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,456 copying yaff/pes/slater.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,456 copying yaff/pes/slater.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,457 copying yaff/pes/truncation.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,457 copying yaff/pes/truncation.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,458 copying yaff/pes/truncation.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,458 copying yaff/pes/vlist.c -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,459 copying yaff/pes/vlist.h -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,459 copying yaff/pes/vlist.pxd -> build/lib.linux-armv7l-cpython-313/yaff/pes 2025-09-08T09:28:22,463 running build_ext 2025-09-08T09:28:22,936 Compiling yaff/pes/ext.pyx because it changed. 2025-09-08T09:28:22,936 [1/1] Cythonizing yaff/pes/ext.pyx 2025-09-08T09:28:24,791 Error compiling Cython file: 2025-09-08T09:28:24,791 ------------------------------------------------------------ 2025-09-08T09:28:24,791 ... 2025-09-08T09:28:24,791 from __future__ import division 2025-09-08T09:28:24,791 import numpy as np 2025-09-08T09:28:24,792 cimport numpy as np 2025-09-08T09:28:24,792 cimport cell 2025-09-08T09:28:24,792 ^ 2025-09-08T09:28:24,792 ------------------------------------------------------------ 2025-09-08T09:28:24,792 yaff/pes/ext.pyx:37:8: 'cell.pxd' not found 2025-09-08T09:28:24,817 Error compiling Cython file: 2025-09-08T09:28:24,817 ------------------------------------------------------------ 2025-09-08T09:28:24,817 ... 2025-09-08T09:28:24,817 import numpy as np 2025-09-08T09:28:24,818 cimport numpy as np 2025-09-08T09:28:24,818 cimport cell 2025-09-08T09:28:24,818 cimport nlist 2025-09-08T09:28:24,818 ^ 2025-09-08T09:28:24,818 ------------------------------------------------------------ 2025-09-08T09:28:24,818 yaff/pes/ext.pyx:38:8: 'nlist.pxd' not found 2025-09-08T09:28:24,840 Error compiling Cython file: 2025-09-08T09:28:24,840 ------------------------------------------------------------ 2025-09-08T09:28:24,840 ... 2025-09-08T09:28:24,840 import numpy as np 2025-09-08T09:28:24,841 cimport numpy as np 2025-09-08T09:28:24,841 cimport cell 2025-09-08T09:28:24,841 cimport nlist 2025-09-08T09:28:24,841 cimport pair_pot 2025-09-08T09:28:24,841 ^ 2025-09-08T09:28:24,841 ------------------------------------------------------------ 2025-09-08T09:28:24,841 yaff/pes/ext.pyx:39:8: 'pair_pot.pxd' not found 2025-09-08T09:28:24,864 Error compiling Cython file: 2025-09-08T09:28:24,864 ------------------------------------------------------------ 2025-09-08T09:28:24,864 ... 2025-09-08T09:28:24,864 import numpy as np 2025-09-08T09:28:24,864 cimport numpy as np 2025-09-08T09:28:24,864 cimport cell 2025-09-08T09:28:24,864 cimport nlist 2025-09-08T09:28:24,865 cimport pair_pot 2025-09-08T09:28:24,865 cimport ewald 2025-09-08T09:28:24,865 ^ 2025-09-08T09:28:24,865 ------------------------------------------------------------ 2025-09-08T09:28:24,865 yaff/pes/ext.pyx:40:8: 'ewald.pxd' not found 2025-09-08T09:28:24,888 Error compiling Cython file: 2025-09-08T09:28:24,888 ------------------------------------------------------------ 2025-09-08T09:28:24,888 ... 2025-09-08T09:28:24,888 cimport numpy as np 2025-09-08T09:28:24,888 cimport cell 2025-09-08T09:28:24,888 cimport nlist 2025-09-08T09:28:24,888 cimport pair_pot 2025-09-08T09:28:24,888 cimport ewald 2025-09-08T09:28:24,888 cimport dlist 2025-09-08T09:28:24,888 ^ 2025-09-08T09:28:24,889 ------------------------------------------------------------ 2025-09-08T09:28:24,889 yaff/pes/ext.pyx:41:8: 'dlist.pxd' not found 2025-09-08T09:28:24,911 Error compiling Cython file: 2025-09-08T09:28:24,911 ------------------------------------------------------------ 2025-09-08T09:28:24,911 ... 2025-09-08T09:28:24,912 cimport cell 2025-09-08T09:28:24,912 cimport nlist 2025-09-08T09:28:24,912 cimport pair_pot 2025-09-08T09:28:24,912 cimport ewald 2025-09-08T09:28:24,912 cimport dlist 2025-09-08T09:28:24,912 cimport iclist 2025-09-08T09:28:24,912 ^ 2025-09-08T09:28:24,912 ------------------------------------------------------------ 2025-09-08T09:28:24,912 yaff/pes/ext.pyx:42:8: 'iclist.pxd' not found 2025-09-08T09:28:24,935 Error compiling Cython file: 2025-09-08T09:28:24,935 ------------------------------------------------------------ 2025-09-08T09:28:24,935 ... 2025-09-08T09:28:24,936 cimport nlist 2025-09-08T09:28:24,936 cimport pair_pot 2025-09-08T09:28:24,936 cimport ewald 2025-09-08T09:28:24,936 cimport dlist 2025-09-08T09:28:24,936 cimport iclist 2025-09-08T09:28:24,936 cimport vlist 2025-09-08T09:28:24,936 ^ 2025-09-08T09:28:24,936 ------------------------------------------------------------ 2025-09-08T09:28:24,936 yaff/pes/ext.pyx:43:8: 'vlist.pxd' not found 2025-09-08T09:28:24,959 Error compiling Cython file: 2025-09-08T09:28:24,959 ------------------------------------------------------------ 2025-09-08T09:28:24,959 ... 2025-09-08T09:28:24,959 cimport pair_pot 2025-09-08T09:28:24,959 cimport ewald 2025-09-08T09:28:24,960 cimport dlist 2025-09-08T09:28:24,960 cimport iclist 2025-09-08T09:28:24,960 cimport vlist 2025-09-08T09:28:24,960 cimport truncation 2025-09-08T09:28:24,960 ^ 2025-09-08T09:28:24,960 ------------------------------------------------------------ 2025-09-08T09:28:24,960 yaff/pes/ext.pyx:44:8: 'truncation.pxd' not found 2025-09-08T09:28:24,983 Error compiling Cython file: 2025-09-08T09:28:24,983 ------------------------------------------------------------ 2025-09-08T09:28:24,983 ... 2025-09-08T09:28:24,983 cimport ewald 2025-09-08T09:28:24,983 cimport dlist 2025-09-08T09:28:24,984 cimport iclist 2025-09-08T09:28:24,984 cimport vlist 2025-09-08T09:28:24,984 cimport truncation 2025-09-08T09:28:24,984 cimport grid 2025-09-08T09:28:24,984 ^ 2025-09-08T09:28:24,984 ------------------------------------------------------------ 2025-09-08T09:28:24,984 yaff/pes/ext.pyx:45:8: 'grid.pxd' not found 2025-09-08T09:28:24,984 Error compiling Cython file: 2025-09-08T09:28:24,985 ------------------------------------------------------------ 2025-09-08T09:28:24,985 ... 2025-09-08T09:28:24,985 '''Representation of periodic boundary conditions. 2025-09-08T09:28:24,985 0, 1, 2 and 3 dimensional systems are supported. The cell vectors need 2025-09-08T09:28:24,985 not to be orthogonal. 2025-09-08T09:28:24,985 ''' 2025-09-08T09:28:24,985 cdef cell.cell_type* _c_cell 2025-09-08T09:28:24,985 ^ 2025-09-08T09:28:24,985 ------------------------------------------------------------ 2025-09-08T09:28:24,986 yaff/pes/ext.pyx:78:9: 'cell_type' is not a type identifier 2025-09-08T09:28:24,989 Error compiling Cython file: 2025-09-08T09:28:24,989 ------------------------------------------------------------ 2025-09-08T09:28:24,989 ... 2025-09-08T09:28:24,989 # 2025-09-08T09:28:24,989 # Neighbor lists 2025-09-08T09:28:24,989 # 2025-09-08T09:28:24,989 cdef nlist.neigh_row_type _neigh_row_tmp 2025-09-08T09:28:24,989 ^ 2025-09-08T09:28:24,990 ------------------------------------------------------------ 2025-09-08T09:28:24,990 yaff/pes/ext.pyx:352:5: 'neigh_row_type' is not a type identifier 2025-09-08T09:28:24,990 Error compiling Cython file: 2025-09-08T09:28:24,990 ------------------------------------------------------------ 2025-09-08T09:28:24,990 ... 2025-09-08T09:28:24,991 def nlist_build(np.ndarray[double, ndim=2] pos, double rcut, 2025-09-08T09:28:24,991 np.ndarray[long, ndim=1] rmax, 2025-09-08T09:28:24,991 Cell unitcell, np.ndarray[long, ndim=1] status, 2025-09-08T09:28:24,991 np.ndarray[nlist.neigh_row_type, ndim=1] neighs): 2025-09-08T09:28:24,991 ^ 2025-09-08T09:28:24,991 ------------------------------------------------------------ 2025-09-08T09:28:24,991 yaff/pes/ext.pyx:378:33: Invalid type. 2025-09-08T09:28:25,001 Traceback (most recent call last): 2025-09-08T09:28:25,010 File "", line 2, in 2025-09-08T09:28:25,010 exec(compile(''' 2025-09-08T09:28:25,010 ~~~~^^^^^^^^^^^^ 2025-09-08T09:28:25,010 # This is -- a caller that pip uses to run setup.py 2025-09-08T09:28:25,010 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T09:28:25,011 ...<32 lines>... 2025-09-08T09:28:25,011 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T09:28:25,011 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T09:28:25,011 ''' % ('/tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/setup.py',), "", "exec")) 2025-09-08T09:28:25,011 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T09:28:25,011 File "", line 35, in 2025-09-08T09:28:25,011 File "/tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/setup.py", line 76, in 2025-09-08T09:28:25,011 setup( 2025-09-08T09:28:25,012 ~~~~~^ 2025-09-08T09:28:25,012 name='yaff', 2025-09-08T09:28:25,012 ^^^^^^^^^^^^ 2025-09-08T09:28:25,012 ...<47 lines>... 2025-09-08T09:28:25,012 ], 2025-09-08T09:28:25,012 ^^ 2025-09-08T09:28:25,012 ) 2025-09-08T09:28:25,012 ^ 2025-09-08T09:28:25,012 File "/usr/local/lib/python3.13/dist-packages/setuptools/__init__.py", line 115, in setup 2025-09-08T09:28:25,013 return distutils.core.setup(**attrs) 2025-09-08T09:28:25,013 ~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:28:25,013 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 186, in setup 2025-09-08T09:28:25,013 return run_commands(dist) 2025-09-08T09:28:25,013 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 202, in run_commands 2025-09-08T09:28:25,013 dist.run_commands() 2025-09-08T09:28:25,013 ~~~~~~~~~~~~~~~~~^^ 2025-09-08T09:28:25,013 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1002, in run_commands 2025-09-08T09:28:25,014 self.run_command(cmd) 2025-09-08T09:28:25,014 ~~~~~~~~~~~~~~~~^^^^^ 2025-09-08T09:28:25,014 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-08T09:28:25,014 super().run_command(command) 2025-09-08T09:28:25,014 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:28:25,014 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-08T09:28:25,014 cmd_obj.run() 2025-09-08T09:28:25,014 ~~~~~~~~~~~^^ 2025-09-08T09:28:25,014 File "/usr/local/lib/python3.13/dist-packages/setuptools/command/bdist_wheel.py", line 370, in run 2025-09-08T09:28:25,014 self.run_command("build") 2025-09-08T09:28:25,015 ~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:28:25,015 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command 2025-09-08T09:28:25,015 self.distribution.run_command(command) 2025-09-08T09:28:25,015 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:28:25,015 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-08T09:28:25,015 super().run_command(command) 2025-09-08T09:28:25,015 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:28:25,015 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-08T09:28:25,016 cmd_obj.run() 2025-09-08T09:28:25,016 ~~~~~~~~~~~^^ 2025-09-08T09:28:25,016 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build.py", line 135, in run 2025-09-08T09:28:25,016 self.run_command(cmd_name) 2025-09-08T09:28:25,016 ~~~~~~~~~~~~~~~~^^^^^^^^^^ 2025-09-08T09:28:25,016 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command 2025-09-08T09:28:25,016 self.distribution.run_command(command) 2025-09-08T09:28:25,016 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:28:25,016 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-08T09:28:25,017 super().run_command(command) 2025-09-08T09:28:25,017 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:28:25,017 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-08T09:28:25,017 cmd_obj.run() 2025-09-08T09:28:25,017 ~~~~~~~~~~~^^ 2025-09-08T09:28:25,017 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build_ext.py", line 368, in run 2025-09-08T09:28:25,017 self.build_extensions() 2025-09-08T09:28:25,017 ~~~~~~~~~~~~~~~~~~~~~^^ 2025-09-08T09:28:25,017 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build_ext.py", line 484, in build_extensions 2025-09-08T09:28:25,018 self._build_extensions_serial() 2025-09-08T09:28:25,018 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^ 2025-09-08T09:28:25,018 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build_ext.py", line 510, in _build_extensions_serial 2025-09-08T09:28:25,018 self.build_extension(ext) 2025-09-08T09:28:25,018 ~~~~~~~~~~~~~~~~~~~~^^^^^ 2025-09-08T09:28:25,018 File "/usr/local/lib/python3.13/dist-packages/Cython/Distutils/build_ext.py", line 131, in build_extension 2025-09-08T09:28:25,018 new_ext = cythonize( 2025-09-08T09:28:25,018 ~~~~~~~~~^ 2025-09-08T09:28:25,018 ext,force=self.force, quiet=self.verbose == 0, **options 2025-09-08T09:28:25,019 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T09:28:25,019 )[0] 2025-09-08T09:28:25,019 ^ 2025-09-08T09:28:25,019 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1154, in cythonize 2025-09-08T09:28:25,019 cythonize_one(*args) 2025-09-08T09:28:25,019 ~~~~~~~~~~~~~^^^^^^^ 2025-09-08T09:28:25,019 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1298, in cythonize_one 2025-09-08T09:28:25,019 raise CompileError(None, pyx_file) 2025-09-08T09:28:25,019 Cython.Compiler.Errors.CompileError: yaff/pes/ext.pyx 2025-09-08T09:28:25,387 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T09:28:25,398 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T09:28:25,398 exec(compile('"'"''"'"''"'"' 2025-09-08T09:28:25,398 # This is -- a caller that pip uses to run setup.py 2025-09-08T09:28:25,398 # 2025-09-08T09:28:25,398 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T09:28:25,398 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T09:28:25,398 # - It provides a clear error message when setuptools is not installed. 2025-09-08T09:28:25,398 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T09:28:25,398 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T09:28:25,398 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T09:28:25,398 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T09:28:25,398 import os, sys, tokenize, traceback 2025-09-08T09:28:25,398 2025-09-08T09:28:25,398 try: 2025-09-08T09:28:25,398 import setuptools 2025-09-08T09:28:25,398 except ImportError: 2025-09-08T09:28:25,398 print( 2025-09-08T09:28:25,398 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T09:28:25,398 "the build environment with exception:", 2025-09-08T09:28:25,398 file=sys.stderr, 2025-09-08T09:28:25,398 ) 2025-09-08T09:28:25,398 traceback.print_exc() 2025-09-08T09:28:25,398 sys.exit(1) 2025-09-08T09:28:25,398 2025-09-08T09:28:25,398 __file__ = %r 2025-09-08T09:28:25,398 sys.argv[0] = __file__ 2025-09-08T09:28:25,398 2025-09-08T09:28:25,398 if os.path.exists(__file__): 2025-09-08T09:28:25,398 filename = __file__ 2025-09-08T09:28:25,398 with tokenize.open(__file__) as f: 2025-09-08T09:28:25,398 setup_py_code = f.read() 2025-09-08T09:28:25,398 else: 2025-09-08T09:28:25,398 filename = "" 2025-09-08T09:28:25,398 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T09:28:25,398 2025-09-08T09:28:25,398 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T09:28:25,398 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-jqyfpl29[/] 2025-09-08T09:28:25,399 [bold magenta]cwd[/]: /tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/ 2025-09-08T09:28:25,399 Building wheel for yaff (setup.py): finished with status 'error' 2025-09-08T09:28:25,399 ERROR: Failed building wheel for yaff 2025-09-08T09:28:25,400 Running setup.py clean for yaff 2025-09-08T09:28:25,401 Running command python setup.py clean 2025-09-08T09:28:26,295 Trying to get the version from git describe 2025-09-08T09:28:26,300 fatal: not a git repository (or any parent up to mount point /) 2025-09-08T09:28:26,300 Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). 2025-09-08T09:28:26,301 Trying to get the version from {} /tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/yaff/version.py 2025-09-08T09:28:26,301 Version according to /tmp/pip-wheel-y4ouwt30/yaff_86026a6c9f2b409da62c95373494c909/yaff/version.py: 1.4.1 2025-09-08T09:28:26,420 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-08T09:28:26,420 !! 2025-09-08T09:28:26,421 ******************************************************************************** 2025-09-08T09:28:26,421 Requirements should be satisfied by a PEP 517 installer. 2025-09-08T09:28:26,421 If you are using pip, you can try `pip install --use-pep517`. 2025-09-08T09:28:26,421 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-08T09:28:26,421 or your builds will no longer be supported. 2025-09-08T09:28:26,421 ******************************************************************************** 2025-09-08T09:28:26,421 !! 2025-09-08T09:28:26,421 dist.fetch_build_eggs(dist.setup_requires) 2025-09-08T09:28:26,844 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-08T09:28:26,844 !! 2025-09-08T09:28:26,844 ******************************************************************************** 2025-09-08T09:28:26,844 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-08T09:28:26,844 License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+) 2025-09-08T09:28:26,844 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-08T09:28:26,845 ******************************************************************************** 2025-09-08T09:28:26,845 !! 2025-09-08T09:28:26,845 self._finalize_license_expression() 2025-09-08T09:28:26,917 running clean 2025-09-08T09:28:27,063 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T09:28:27,071 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T09:28:27,071 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T09:28:27,071 removing 'build' 2025-09-08T09:28:27,215 Failed to build yaff 2025-09-08T09:28:27,216 ERROR: Failed to build one or more wheels 2025-09-08T09:28:27,217 Exception information: 2025-09-08T09:28:27,217 Traceback (most recent call last): 2025-09-08T09:28:27,217 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T09:28:27,217 status = _inner_run() 2025-09-08T09:28:27,217 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T09:28:27,217 return self.run(options, args) 2025-09-08T09:28:27,217 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T09:28:27,217 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T09:28:27,217 return func(self, options, args) 2025-09-08T09:28:27,217 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T09:28:27,217 raise CommandError("Failed to build one or more wheels") 2025-09-08T09:28:27,217 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T09:28:27,221 Removed build tracker: '/tmp/pip-build-tracker-plc8xsos'