2025-09-08T13:58:19,026 Created temporary directory: /tmp/pip-build-tracker-d7uznwxm
2025-09-08T13:58:19,027 Initialized build tracking at /tmp/pip-build-tracker-d7uznwxm
2025-09-08T13:58:19,027 Created build tracker: /tmp/pip-build-tracker-d7uznwxm
2025-09-08T13:58:19,027 Entered build tracker: /tmp/pip-build-tracker-d7uznwxm
2025-09-08T13:58:19,027 Created temporary directory: /tmp/pip-wheel-6w_r_qg8
2025-09-08T13:58:19,031 Created temporary directory: /tmp/pip-ephem-wheel-cache-89magm1d
2025-09-08T13:58:19,090 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-09-08T13:58:19,092 2 location(s) to search for versions of pyxmolpp2:
2025-09-08T13:58:19,092 * https://pypi.org/simple/pyxmolpp2/
2025-09-08T13:58:19,092 * https://www.piwheels.org/simple/pyxmolpp2/
2025-09-08T13:58:19,092 Fetching project page and analyzing links: https://pypi.org/simple/pyxmolpp2/
2025-09-08T13:58:19,093 Getting page https://pypi.org/simple/pyxmolpp2/
2025-09-08T13:58:19,094 Found index url https://pypi.org/simple/
2025-09-08T13:58:19,164 Fetched page https://pypi.org/simple/pyxmolpp2/ as application/vnd.pypi.simple.v1+json
2025-09-08T13:58:19,168   Found link https://files.pythonhosted.org/packages/41/1d/65a5e96d7d0c86d687b4e7e8d10ac232f573e14b9d1884111ebd1a477502/pyxmolpp2-0.0.1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.0.1
2025-09-08T13:58:19,169   Found link https://files.pythonhosted.org/packages/e2/27/027a784be451eb7fe624a90523f4f289d6814db90adddbf09318ae136e4e/pyxmolpp2-0.1.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.1.0
2025-09-08T13:58:19,169   Found link https://files.pythonhosted.org/packages/49/94/6e7b42f4898aff76225a6e7ac3148dd53fd871a8cf1fa87876b5e5661fe4/pyxmolpp2-0.1.1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.1.1
2025-09-08T13:58:19,169   Found link https://files.pythonhosted.org/packages/d9/89/7e348a861f1cbf78307f4617881c0996e74b38ab6f1d5d927b5be3c8b934/pyxmolpp2-0.2.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.2.0
2025-09-08T13:58:19,169   Found link https://files.pythonhosted.org/packages/8c/89/16cf719b01cb66c3f62f5540abeca7bc26a1dbe7cd83c048d94dd4c60c37/pyxmolpp2-0.3.0.dev0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.3.0.dev0
2025-09-08T13:58:19,170   Found link https://files.pythonhosted.org/packages/32/94/5d324e82f3785ea81d6913a781e674f95995cbaa54ec32171d0da3056f1c/pyxmolpp2-0.3.0.dev1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.3.0.dev1
2025-09-08T13:58:19,170   Found link https://files.pythonhosted.org/packages/66/fa/f3e3cd5cdf297b37e10a8131075358a3e663831b965ce71900122e765d06/pyxmolpp2-0.3.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.3.0
2025-09-08T13:58:19,170   Found link https://files.pythonhosted.org/packages/db/70/90e7913b6629f135ab3f8dcfae9c428aaf311e981db0caada01f51c8751a/pyxmolpp2-0.4.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.4.0
2025-09-08T13:58:19,170   Found link https://files.pythonhosted.org/packages/ea/1d/22d1b9eff0ed0b73bb8ba213c459a8818103847199add714dec7c0862c9b/pyxmolpp2-0.6.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.6.0
2025-09-08T13:58:19,171   Found link https://files.pythonhosted.org/packages/fb/26/6420cdf2349c7bbdf98f58cdb260e1ed0dee55d290cdab6b79d99b457ef9/pyxmolpp2-0.6.1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.6.1
2025-09-08T13:58:19,171   Found link https://files.pythonhosted.org/packages/27/33/21c7acd6275667d94465436e150f6f3724935c4fd171dd51db516d5a3495/pyxmolpp2-0.7.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.7.0
2025-09-08T13:58:19,171   Found link https://files.pythonhosted.org/packages/7b/36/aac554b63b1e7fd94ead8a17af4a3d968b9ebab94c905369d5ec20a140f0/pyxmolpp2-0.7.1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.7.1
2025-09-08T13:58:19,171   Found link https://files.pythonhosted.org/packages/e0/ad/0e16148eed09fc4190458935fbbf948aaa2794d1620842f0e3fc3aaa7f14/pyxmolpp2-0.8.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.8.0
2025-09-08T13:58:19,171   Found link https://files.pythonhosted.org/packages/1a/97/f5a5894f690501edb1f32ce0373f364abd70a55293b4222a2e8fd2b62b08/pyxmolpp2-0.8.1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.8.1
2025-09-08T13:58:19,172   Found link https://files.pythonhosted.org/packages/c7/ed/0784103f8a79a3c24b71e560ef517c623b029a04c2c4f67820a70bc68f27/pyxmolpp2-0.8.2.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.8.2
2025-09-08T13:58:19,172   Found link https://files.pythonhosted.org/packages/85/17/8ab6537831012139ee04eaba92e3eb2b1724a81c3ed27f191b3d28f6789c/pyxmolpp2-0.9.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.9.0
2025-09-08T13:58:19,172   Found link https://files.pythonhosted.org/packages/55/4b/d6906a0c33681b8f03fa9497cd40a74b069c7393351927dd772503d0ecfb/pyxmolpp2-0.9.0.post1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.9.0.post1
2025-09-08T13:58:19,172   Found link https://files.pythonhosted.org/packages/b7/9b/fb4bb3e07ea292b34f258da0a9f08ae96f18a990477d2f7714319dc11bb1/pyxmolpp2-0.10.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.10.0
2025-09-08T13:58:19,172   Found link https://files.pythonhosted.org/packages/50/38/47ab868258a00a5d017424f8d5456a3718a475f1a854bdc999df7f116075/pyxmolpp2-0.10.1.post1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.10.1.post1
2025-09-08T13:58:19,173   Found link https://files.pythonhosted.org/packages/26/fc/9e70d088b5e6fd688e01c0f13ac748d813f813b8a358bacb8eb66d1971fb/pyxmolpp2-0.10.1.post2.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.10.1.post2
2025-09-08T13:58:19,173   Found link https://files.pythonhosted.org/packages/64/1e/ab2524f122b9966e8c51e2228fdde7f00d7475eec722a27b80aa3e26bfad/pyxmolpp2-0.10.2.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.10.2
2025-09-08T13:58:19,173   Found link https://files.pythonhosted.org/packages/ac/ac/417e76e0eb127e941fb6599915dd543a50e115925180fe97c83a6947ef5d/pyxmolpp2-0.10.3.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.10.3
2025-09-08T13:58:19,173   Found link https://files.pythonhosted.org/packages/60/57/46db548b97f72c8ce5fbdc48392cf8870cff33afb5e95d24d78dec9c23c4/pyxmolpp2-0.10.4.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 0.10.4
2025-09-08T13:58:19,174   Found link https://files.pythonhosted.org/packages/3a/2c/8275c969590e230dd2c56daab6e40d236df9736f268aa121ea426c97f819/pyxmolpp2-1.0.0.dev1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.0.0.dev1
2025-09-08T13:58:19,174   Found link https://files.pythonhosted.org/packages/78/a7/ea6c951361316cf343a0f16da27f031ab2cfb16c90159ac52691540873fe/pyxmolpp2-1.0.0.dev3.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.0.0.dev3
2025-09-08T13:58:19,174   Found link https://files.pythonhosted.org/packages/dd/96/b6aa5603b5f40b892572e42338b23a75a78c162ec958f75f429cc4d05f34/pyxmolpp2-1.0.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.0.0
2025-09-08T13:58:19,174   Found link https://files.pythonhosted.org/packages/b6/4f/9e63388cb7670452069a038097371bd5c87ea665ea9f9cd2b3009498ab0f/pyxmolpp2-1.1.0.dev0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.1.0.dev0
2025-09-08T13:58:19,174   Found link https://files.pythonhosted.org/packages/07/ef/f93acfeedd3cfd180366afa66c555ef0ad5f59daa22a023f7d56a37b3774/pyxmolpp2-1.1.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.1.0
2025-09-08T13:58:19,175   Found link https://files.pythonhosted.org/packages/40/25/974e02ffd74a29b48d37f7ead5988c4fc31554ab2439361dbe6ade50df5c/pyxmolpp2-1.1.0.post1.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.1.0.post1
2025-09-08T13:58:19,175   Found link https://files.pythonhosted.org/packages/94/eb/8b82d34f5f0fff1ae0ee57db7bc01d5c582896a21aa6c23a0691f8dd2cef/pyxmolpp2-1.2.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.2.0
2025-09-08T13:58:19,175   Found link https://files.pythonhosted.org/packages/8e/37/8e017030208308e0c9b96ab4799e06229a1bc3e30eb5931aa65d7bd44fc6/pyxmolpp2-1.3.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.3.0
2025-09-08T13:58:19,175   Found link https://files.pythonhosted.org/packages/69/d9/818b1d2533d74bbc1b571061bc6eadb3e8179ad45f98b996e2e752bbb8d7/pyxmolpp2-1.4.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.4.0
2025-09-08T13:58:19,176   Found link https://files.pythonhosted.org/packages/4b/7d/3a0beee575fc48b90d6685200925e081c9f00a80785f6c3399460f7a3a36/pyxmolpp2-1.5.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.5.0
2025-09-08T13:58:19,176   Found link https://files.pythonhosted.org/packages/5b/2a/67fff35be6b97a56c5c21823a7e98765379b83dfc6f1875e5282cbd85267/pyxmolpp2-1.5.2.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.5.2
2025-09-08T13:58:19,176   Found link https://files.pythonhosted.org/packages/ea/be/6ff70c774714c681459f089f77e92bbc13fb9bd068727404f525e4a3dbbb/pyxmolpp2-1.5.3.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.5.3
2025-09-08T13:58:19,176   Found link https://files.pythonhosted.org/packages/13/09/0b0c1f7ed58aa7605854268f7eaeadafed70cded0855d450b93fbe278cc0/pyxmolpp2-1.6.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 1.6.0
2025-09-08T13:58:19,176   Found link https://files.pythonhosted.org/packages/43/af/adb175fd4c9a52ddfd9e943962e1da8810579bc4a0643db7bfff99b8f8cb/pyxmolpp2-2.0a0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 2.0a0
2025-09-08T13:58:19,177   Found link https://files.pythonhosted.org/packages/bd/65/7f96775c57a613b95a7abae1956572a570e9e488d9bb0b05241338a72774/pyxmolpp2-2.0.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 2.0
2025-09-08T13:58:19,177   Found link https://files.pythonhosted.org/packages/5a/bc/01f71b18a8713194f43920fb0d89e7ae3c219abeb0efc734f0bf3303c86f/pyxmolpp2-2.0.2.tar.gz (from https://pypi.org/simple/pyxmolpp2/), version: 2.0.2
2025-09-08T13:58:19,177 Fetching project page and analyzing links: https://www.piwheels.org/simple/pyxmolpp2/
2025-09-08T13:58:19,177 Getting page https://www.piwheels.org/simple/pyxmolpp2/
2025-09-08T13:58:19,178 Found index url https://www.piwheels.org/simple/
2025-09-08T13:58:19,266 Fetched page https://www.piwheels.org/simple/pyxmolpp2/ as text/html
2025-09-08T13:58:19,269   Skipping link: No binaries permitted for pyxmolpp2: https://archive1.piwheels.org/simple/pyxmolpp2/pyxmolpp2-0.0.1-cp34-cp34m-linux_armv7l.whl#sha256=176920d3ec472d788331912a641cf8eb70e3eb87aac83c1e527ef33cdc152da6 (from https://www.piwheels.org/simple/pyxmolpp2/)
2025-09-08T13:58:19,269   Skipping link: No binaries permitted for pyxmolpp2: https://archive1.piwheels.org/simple/pyxmolpp2/pyxmolpp2-0.0.1-cp34-cp34m-linux_armv6l.whl#sha256=176920d3ec472d788331912a641cf8eb70e3eb87aac83c1e527ef33cdc152da6 (from https://www.piwheels.org/simple/pyxmolpp2/)
2025-09-08T13:58:19,269   Skipping link: No binaries permitted for pyxmolpp2: https://archive1.piwheels.org/simple/pyxmolpp2/pyxmolpp2-0.0.1-cp35-cp35m-linux_armv7l.whl#sha256=7f7fc7bce046e180693cc029132c8ab2ee085fd82c822f949a0e7852b96e50e0 (from https://www.piwheels.org/simple/pyxmolpp2/)
2025-09-08T13:58:19,269   Skipping link: No binaries permitted for pyxmolpp2: https://archive1.piwheels.org/simple/pyxmolpp2/pyxmolpp2-0.0.1-cp35-cp35m-linux_armv6l.whl#sha256=7f7fc7bce046e180693cc029132c8ab2ee085fd82c822f949a0e7852b96e50e0 (from https://www.piwheels.org/simple/pyxmolpp2/)
2025-09-08T13:58:19,269 Skipping link: not a file: https://www.piwheels.org/simple/pyxmolpp2/
2025-09-08T13:58:19,270 Skipping link: not a file: https://pypi.org/simple/pyxmolpp2/
2025-09-08T13:58:19,297 Given no hashes to check 1 links for project 'pyxmolpp2': discarding no candidates
2025-09-08T13:58:19,298 Collecting pyxmolpp2==0.3.0.dev1
2025-09-08T13:58:19,299   Created temporary directory: /tmp/pip-unpack-5n6o64mu
2025-09-08T13:58:19,540   Downloading pyxmolpp2-0.3.0.dev1.tar.gz (8.4 MB)
2025-09-08T13:58:26,094   Added pyxmolpp2==0.3.0.dev1 from https://files.pythonhosted.org/packages/32/94/5d324e82f3785ea81d6913a781e674f95995cbaa54ec32171d0da3056f1c/pyxmolpp2-0.3.0.dev1.tar.gz to build tracker '/tmp/pip-build-tracker-d7uznwxm'
2025-09-08T13:58:26,095   Running setup.py (path:/tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/setup.py) egg_info for package pyxmolpp2
2025-09-08T13:58:26,096   Created temporary directory: /tmp/pip-pip-egg-info-patw11sh
2025-09-08T13:58:26,096   Preparing metadata (setup.py): started
2025-09-08T13:58:26,097   Running command python setup.py egg_info
2025-09-08T13:58:26,804   fatal: not a git repository (or any parent up to mount point /)
2025-09-08T13:58:26,804   Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set).
2025-09-08T13:58:27,174   /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:332: InformationOnly: Normalizing '0.3.0.dev.1' to '0.3.0.dev1'
2025-09-08T13:58:27,174     self.metadata.version = self._normalize_version(self.metadata.version)
2025-09-08T13:58:27,249   running egg_info
2025-09-08T13:58:27,325   creating /tmp/pip-pip-egg-info-patw11sh/pyxmolpp2.egg-info
2025-09-08T13:58:27,325   writing /tmp/pip-pip-egg-info-patw11sh/pyxmolpp2.egg-info/PKG-INFO
2025-09-08T13:58:27,326   writing dependency_links to /tmp/pip-pip-egg-info-patw11sh/pyxmolpp2.egg-info/dependency_links.txt
2025-09-08T13:58:27,327   writing top-level names to /tmp/pip-pip-egg-info-patw11sh/pyxmolpp2.egg-info/top_level.txt
2025-09-08T13:58:27,328   writing manifest file '/tmp/pip-pip-egg-info-patw11sh/pyxmolpp2.egg-info/SOURCES.txt'
2025-09-08T13:58:27,474   reading manifest file '/tmp/pip-pip-egg-info-patw11sh/pyxmolpp2.egg-info/SOURCES.txt'
2025-09-08T13:58:27,475   reading manifest template 'MANIFEST.in'
2025-09-08T13:58:28,473   warning: no files found matching '.'
2025-09-08T13:58:28,474   warning: no files found matching '.'
2025-09-08T13:58:28,474   warning: no files found matching '.'
2025-09-08T13:58:28,491   warning: no previously-included files matching '.git' found anywhere in distribution
2025-09-08T13:58:28,508   warning: no previously-included files matching '.js' found anywhere in distribution
2025-09-08T13:58:28,524   warning: no previously-included files matching '.html' found anywhere in distribution
2025-09-08T13:58:28,541   warning: no previously-included files matching '.png' found anywhere in distribution
2025-09-08T13:58:28,558   warning: no previously-included files matching '.dox' found anywhere in distribution
2025-09-08T13:58:28,814   writing manifest file '/tmp/pip-pip-egg-info-patw11sh/pyxmolpp2.egg-info/SOURCES.txt'
2025-09-08T13:58:28,936   Preparing metadata (setup.py): finished with status 'done'
2025-09-08T13:58:28,941   Source in /tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf has version 0.3.0.dev1, which satisfies requirement pyxmolpp2==0.3.0.dev1 from https://files.pythonhosted.org/packages/32/94/5d324e82f3785ea81d6913a781e674f95995cbaa54ec32171d0da3056f1c/pyxmolpp2-0.3.0.dev1.tar.gz
2025-09-08T13:58:28,941   Removed pyxmolpp2==0.3.0.dev1 from https://files.pythonhosted.org/packages/32/94/5d324e82f3785ea81d6913a781e674f95995cbaa54ec32171d0da3056f1c/pyxmolpp2-0.3.0.dev1.tar.gz from build tracker '/tmp/pip-build-tracker-d7uznwxm'
2025-09-08T13:58:28,944 Created temporary directory: /tmp/pip-unpack-6oyzosht
2025-09-08T13:58:28,945 Created temporary directory: /tmp/pip-unpack-b9389x97
2025-09-08T13:58:28,945 Building wheels for collected packages: pyxmolpp2
2025-09-08T13:58:28,946   Created temporary directory: /tmp/pip-wheel-cn4pag8q
2025-09-08T13:58:28,946   DEPRECATION: Building 'pyxmolpp2' 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 'pyxmolpp2'. Discussion can be found at https://github.com/pypa/pip/issues/6334
2025-09-08T13:58:28,948   Building wheel for pyxmolpp2 (setup.py): started
2025-09-08T13:58:28,948   Destination directory: /tmp/pip-wheel-cn4pag8q
2025-09-08T13:58:28,948   Running command python setup.py bdist_wheel
2025-09-08T13:58:29,667   fatal: not a git repository (or any parent up to mount point /)
2025-09-08T13:58:29,667   Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set).
2025-09-08T13:58:30,044   /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:332: InformationOnly: Normalizing '0.3.0.dev.1' to '0.3.0.dev1'
2025-09-08T13:58:30,044     self.metadata.version = self._normalize_version(self.metadata.version)
2025-09-08T13:58:30,047   running bdist_wheel
2025-09-08T13:58:30,344   running build
2025-09-08T13:58:30,344   running build_ext
2025-09-08T13:58:30,396   /tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/setup.py:27: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead.
2025-09-08T13:58:30,396     cmake_version = LooseVersion(re.search(r'version\s*([\d.]+)', out.decode()).group(1))
2025-09-08T13:58:30,396   /tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/setup.py:28: DeprecationWarning: distutils Version classes are deprecated. Use packaging.version instead.
2025-09-08T13:58:30,396     if cmake_version < LooseVersion('3.5.0'):
2025-09-08T13:58:30,442   CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required):
2025-09-08T13:58:30,442     Compatibility with CMake < 3.10 will be removed from a future version of
2025-09-08T13:58:30,442     CMake.

2025-09-08T13:58:30,442     Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
2025-09-08T13:58:30,442     to tell CMake that the project requires at least <min> but has been updated
2025-09-08T13:58:30,443     to work with policies introduced by <max> or earlier.


2025-09-08T13:58:30,717   -- The C compiler identification is GNU 14.2.0
2025-09-08T13:58:31,024   -- The CXX compiler identification is GNU 14.2.0
2025-09-08T13:58:31,068   -- Detecting C compiler ABI info
2025-09-08T13:58:31,495   -- Detecting C compiler ABI info - done
2025-09-08T13:58:31,573   -- Check for working C compiler: /usr/bin/cc - skipped
2025-09-08T13:58:31,574   -- Detecting C compile features
2025-09-08T13:58:31,577   -- Detecting C compile features - done
2025-09-08T13:58:31,648   -- Detecting CXX compiler ABI info
2025-09-08T13:58:32,132   -- Detecting CXX compiler ABI info - done
2025-09-08T13:58:32,206   -- Check for working CXX compiler: /usr/bin/c++ - skipped
2025-09-08T13:58:32,207   -- Detecting CXX compile features
2025-09-08T13:58:32,210   -- Detecting CXX compile features - done
2025-09-08T13:58:32,244   CMake Warning (dev) at CMakeLists.txt:8 (find_package):
2025-09-08T13:58:32,244     Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules
2025-09-08T13:58:32,244     are removed.  Run "cmake --help-policy CMP0148" for policy details.  Use
2025-09-08T13:58:32,244     the cmake_policy command to set the policy and suppress this warning.

2025-09-08T13:58:32,244   This warning is for project developers.  Use -Wno-dev to suppress it.

2025-09-08T13:58:32,315   -- Found PythonInterp: /usr/bin/python3 (found version "3.13.5")
2025-09-08T13:58:32,316   CMake Warning (dev) at CMakeLists.txt:9 (find_package):
2025-09-08T13:58:32,316     Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules
2025-09-08T13:58:32,316     are removed.  Run "cmake --help-policy CMP0148" for policy details.  Use
2025-09-08T13:58:32,317     the cmake_policy command to set the policy and suppress this warning.

2025-09-08T13:58:32,317   This warning is for project developers.  Use -Wno-dev to suppress it.

2025-09-08T13:58:32,345   -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.13.so (found suitable version "3.13.5", minimum required is "3.13")
2025-09-08T13:58:32,346   Using default python version: 3.13.5
2025-09-08T13:58:32,346   DONT USE COVERAGE PROFILE
2025-09-08T13:58:32,348   CMake Deprecation Warning at external/googletest/CMakeLists.txt:1 (cmake_minimum_required):
2025-09-08T13:58:32,349     Compatibility with CMake < 3.10 will be removed from a future version of
2025-09-08T13:58:32,349     CMake.

2025-09-08T13:58:32,349     Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
2025-09-08T13:58:32,349     to tell CMake that the project requires at least <min> but has been updated
2025-09-08T13:58:32,349     to work with policies introduced by <max> or earlier.


2025-09-08T13:58:32,364   CMake Deprecation Warning at external/googletest/googlemock/CMakeLists.txt:42 (cmake_minimum_required):
2025-09-08T13:58:32,365     Compatibility with CMake < 3.10 will be removed from a future version of
2025-09-08T13:58:32,365     CMake.

2025-09-08T13:58:32,365     Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
2025-09-08T13:58:32,365     to tell CMake that the project requires at least <min> but has been updated
2025-09-08T13:58:32,365     to work with policies introduced by <max> or earlier.


2025-09-08T13:58:32,368   CMake Deprecation Warning at external/googletest/googletest/CMakeLists.txt:49 (cmake_minimum_required):
2025-09-08T13:58:32,369     Compatibility with CMake < 3.10 will be removed from a future version of
2025-09-08T13:58:32,369     CMake.

2025-09-08T13:58:32,369     Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
2025-09-08T13:58:32,369     to tell CMake that the project requires at least <min> but has been updated
2025-09-08T13:58:32,369     to work with policies introduced by <max> or earlier.


2025-09-08T13:58:32,370   CMake Warning (dev) at external/googletest/googletest/cmake/internal_utils.cmake:239 (find_package):
2025-09-08T13:58:32,370     Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules
2025-09-08T13:58:32,370     are removed.  Run "cmake --help-policy CMP0148" for policy details.  Use
2025-09-08T13:58:32,371     the cmake_policy command to set the policy and suppress this warning.

2025-09-08T13:58:32,371   Call Stack (most recent call first):
2025-09-08T13:58:32,371     external/googletest/googletest/CMakeLists.txt:84 (include)
2025-09-08T13:58:32,371   This warning is for project developers.  Use -Wno-dev to suppress it.

2025-09-08T13:58:32,446   -- Performing Test CMAKE_HAVE_LIBC_PTHREAD
2025-09-08T13:58:32,938   -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
2025-09-08T13:58:32,943   -- Found Threads: TRUE
2025-09-08T13:58:32,969   CMake Deprecation Warning at external/pybind11/CMakeLists.txt:8 (cmake_minimum_required):
2025-09-08T13:58:32,969     Compatibility with CMake < 3.10 will be removed from a future version of
2025-09-08T13:58:32,969     CMake.

2025-09-08T13:58:32,969     Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
2025-09-08T13:58:32,969     to tell CMake that the project requires at least <min> but has been updated
2025-09-08T13:58:32,970     to work with policies introduced by <max> or earlier.


2025-09-08T13:58:32,971   CMake Deprecation Warning at external/pybind11/tools/pybind11Tools.cmake:8 (cmake_minimum_required):
2025-09-08T13:58:32,971     Compatibility with CMake < 3.10 will be removed from a future version of
2025-09-08T13:58:32,971     CMake.

2025-09-08T13:58:32,971     Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
2025-09-08T13:58:32,971     to tell CMake that the project requires at least <min> but has been updated
2025-09-08T13:58:32,971     to work with policies introduced by <max> or earlier.
2025-09-08T13:58:32,971   Call Stack (most recent call first):
2025-09-08T13:58:32,971     external/pybind11/CMakeLists.txt:33 (include)


2025-09-08T13:58:32,972   CMake Warning (dev) at external/pybind11/tools/FindPythonLibsNew.cmake:60 (find_package):
2025-09-08T13:58:32,972     Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules
2025-09-08T13:58:32,972     are removed.  Run "cmake --help-policy CMP0148" for policy details.  Use
2025-09-08T13:58:32,972     the cmake_policy command to set the policy and suppress this warning.

2025-09-08T13:58:32,972   Call Stack (most recent call first):
2025-09-08T13:58:32,972     external/pybind11/tools/pybind11Tools.cmake:16 (find_package)
2025-09-08T13:58:32,973     external/pybind11/CMakeLists.txt:33 (include)
2025-09-08T13:58:32,973   This warning is for project developers.  Use -Wno-dev to suppress it.

2025-09-08T13:58:33,645   -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.13.so
2025-09-08T13:58:33,669   -- pybind11 v2.3.dev0
2025-09-08T13:58:33,672   selectionTestsSources
2025-09-08T13:58:33,673   polymerTestsSources
2025-09-08T13:58:33,674   pdbTestsSources
2025-09-08T13:58:33,674   trjtoolTestsSources
2025-09-08T13:58:33,675   geometryTestsSources
2025-09-08T13:58:33,676   crystalTestsSources
2025-09-08T13:58:33,681   CMake Error at WriteVersionInfo.cmake:15 (message):
2025-09-08T13:58:33,681     message called with incorrect number of arguments
2025-09-08T13:58:33,681   Call Stack (most recent call first):
2025-09-08T13:58:33,681     CMakeLists.txt:53 (include)


2025-09-08T13:58:33,693   -- Performing Test HAS_FLTO
2025-09-08T13:58:34,351   -- Performing Test HAS_FLTO - Success
2025-09-08T13:58:34,351   -- LTO enabled
2025-09-08T13:58:34,354   -- Configuring incomplete, errors occurred!
2025-09-08T13:58:34,376   Traceback (most recent call last):
2025-09-08T13:58:34,384     File "<string>", line 2, in <module>
2025-09-08T13:58:34,384       exec(compile('''
2025-09-08T13:58:34,385       ~~~~^^^^^^^^^^^^
2025-09-08T13:58:34,385       # This is <pip-setuptools-caller> -- a caller that pip uses to run setup.py
2025-09-08T13:58:34,385       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-08T13:58:34,385       ...<32 lines>...
2025-09-08T13:58:34,385       exec(compile(setup_py_code, filename, "exec"))
2025-09-08T13:58:34,385       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-08T13:58:34,385       ''' % ('/tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/setup.py',), "<pip-setuptools-caller>", "exec"))
2025-09-08T13:58:34,386       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-08T13:58:34,386     File "<pip-setuptools-caller>", line 35, in <module>
2025-09-08T13:58:34,386     File "/tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/setup.py", line 67, in <module>
2025-09-08T13:58:34,386       setup(
2025-09-08T13:58:34,386       ~~~~~^
2025-09-08T13:58:34,387           name='pyxmolpp2',
2025-09-08T13:58:34,387           ^^^^^^^^^^^^^^^^^
2025-09-08T13:58:34,387       ...<9 lines>...
2025-09-08T13:58:34,387           zip_safe=False,
2025-09-08T13:58:34,387           ^^^^^^^^^^^^^^^
2025-09-08T13:58:34,387       )
2025-09-08T13:58:34,388       ^
2025-09-08T13:58:34,388     File "/usr/local/lib/python3.13/dist-packages/setuptools/__init__.py", line 115, in setup
2025-09-08T13:58:34,388       return distutils.core.setup(**attrs)
2025-09-08T13:58:34,388              ~~~~~~~~~~~~~~~~~~~~^^^^^^^^^
2025-09-08T13:58:34,388     File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 186, in setup
2025-09-08T13:58:34,388       return run_commands(dist)
2025-09-08T13:58:34,389     File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 202, in run_commands
2025-09-08T13:58:34,389       dist.run_commands()
2025-09-08T13:58:34,389       ~~~~~~~~~~~~~~~~~^^
2025-09-08T13:58:34,389     File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1002, in run_commands
2025-09-08T13:58:34,389       self.run_command(cmd)
2025-09-08T13:58:34,389       ~~~~~~~~~~~~~~~~^^^^^
2025-09-08T13:58:34,389     File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command
2025-09-08T13:58:34,390       super().run_command(command)
2025-09-08T13:58:34,390       ~~~~~~~~~~~~~~~~~~~^^^^^^^^^
2025-09-08T13:58:34,390     File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command
2025-09-08T13:58:34,390       cmd_obj.run()
2025-09-08T13:58:34,390       ~~~~~~~~~~~^^
2025-09-08T13:58:34,390     File "/usr/local/lib/python3.13/dist-packages/setuptools/command/bdist_wheel.py", line 370, in run
2025-09-08T13:58:34,391       self.run_command("build")
2025-09-08T13:58:34,391       ~~~~~~~~~~~~~~~~^^^^^^^^^
2025-09-08T13:58:34,391     File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command
2025-09-08T13:58:34,391       self.distribution.run_command(command)
2025-09-08T13:58:34,391       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^
2025-09-08T13:58:34,391     File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command
2025-09-08T13:58:34,392       super().run_command(command)
2025-09-08T13:58:34,392       ~~~~~~~~~~~~~~~~~~~^^^^^^^^^
2025-09-08T13:58:34,392     File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command
2025-09-08T13:58:34,392       cmd_obj.run()
2025-09-08T13:58:34,392       ~~~~~~~~~~~^^
2025-09-08T13:58:34,392     File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build.py", line 135, in run
2025-09-08T13:58:34,392       self.run_command(cmd_name)
2025-09-08T13:58:34,393       ~~~~~~~~~~~~~~~~^^^^^^^^^^
2025-09-08T13:58:34,393     File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command
2025-09-08T13:58:34,393       self.distribution.run_command(command)
2025-09-08T13:58:34,393       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^
2025-09-08T13:58:34,393     File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command
2025-09-08T13:58:34,393       super().run_command(command)
2025-09-08T13:58:34,394       ~~~~~~~~~~~~~~~~~~~^^^^^^^^^
2025-09-08T13:58:34,394     File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command
2025-09-08T13:58:34,394       cmd_obj.run()
2025-09-08T13:58:34,394       ~~~~~~~~~~~^^
2025-09-08T13:58:34,394     File "/tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/setup.py", line 32, in run
2025-09-08T13:58:34,394       self.build_extension(ext)
2025-09-08T13:58:34,395       ~~~~~~~~~~~~~~~~~~~~^^^^^
2025-09-08T13:58:34,395     File "/tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/setup.py", line 60, in build_extension
2025-09-08T13:58:34,395       subprocess.check_call(['cmake', ext.sourcedir] + cmake_args, cwd=self.build_temp, env=env)
2025-09-08T13:58:34,395       ~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
2025-09-08T13:58:34,395     File "/usr/lib/python3.13/subprocess.py", line 419, in check_call
2025-09-08T13:58:34,395       raise CalledProcessError(retcode, cmd)
2025-09-08T13:58:34,395   subprocess.CalledProcessError: Command '['cmake', '/tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf', '-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/build/lib.linux-armv7l-cpython-313', '-DPYTHON_EXECUTABLE=/usr/bin/python3', '-DCMAKE_BUILD_WITH_INSTALL_RPATH=TRUE', '-DCMAKE_INSTALL_RPATH=$ORIGIN', '-DCMAKE_BUILD_TYPE=Release']' returned non-zero exit status 1.
2025-09-08T13:58:34,502   ERROR: python setup.py bdist_wheel exited with 1
2025-09-08T13:58:34,515   [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c '
2025-09-08T13:58:34,515   exec(compile('"'"''"'"''"'"'
2025-09-08T13:58:34,515   # This is <pip-setuptools-caller> -- a caller that pip uses to run setup.py
2025-09-08T13:58:34,515   #
2025-09-08T13:58:34,515   # - It imports setuptools before invoking setup.py, to enable projects that directly
2025-09-08T13:58:34,515   #   import from `distutils.core` to work with newer packaging standards.
2025-09-08T13:58:34,515   # - It provides a clear error message when setuptools is not installed.
2025-09-08T13:58:34,515   # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so
2025-09-08T13:58:34,515   #   setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning:
2025-09-08T13:58:34,515   #     manifest_maker: standard file '"'"'-c'"'"' not found".
2025-09-08T13:58:34,515   # - It generates a shim setup.py, for handling setup.cfg-only projects.
2025-09-08T13:58:34,515   import os, sys, tokenize, traceback
2025-09-08T13:58:34,515   
2025-09-08T13:58:34,515   try:
2025-09-08T13:58:34,515       import setuptools
2025-09-08T13:58:34,515   except ImportError:
2025-09-08T13:58:34,515       print(
2025-09-08T13:58:34,515           "ERROR: Can not execute `setup.py` since setuptools failed to import in "
2025-09-08T13:58:34,515           "the build environment with exception:",
2025-09-08T13:58:34,515           file=sys.stderr,
2025-09-08T13:58:34,515       )
2025-09-08T13:58:34,515       traceback.print_exc()
2025-09-08T13:58:34,515       sys.exit(1)
2025-09-08T13:58:34,515   
2025-09-08T13:58:34,515   __file__ = %r
2025-09-08T13:58:34,515   sys.argv[0] = __file__
2025-09-08T13:58:34,515   
2025-09-08T13:58:34,515   if os.path.exists(__file__):
2025-09-08T13:58:34,515       filename = __file__
2025-09-08T13:58:34,515       with tokenize.open(__file__) as f:
2025-09-08T13:58:34,515           setup_py_code = f.read()
2025-09-08T13:58:34,515   else:
2025-09-08T13:58:34,515       filename = "<auto-generated setuptools caller>"
2025-09-08T13:58:34,515       setup_py_code = "from setuptools import setup; setup()"
2025-09-08T13:58:34,515   
2025-09-08T13:58:34,515   exec(compile(setup_py_code, filename, "exec"))
2025-09-08T13:58:34,515   '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/setup.py'"'"',), "<pip-setuptools-caller>", "exec"))' bdist_wheel -d /tmp/pip-wheel-cn4pag8q[/]
2025-09-08T13:58:34,515   [bold magenta]cwd[/]: /tmp/pip-wheel-6w_r_qg8/pyxmolpp2_da69ae0b3e8c43f7899382dca83601bf/
2025-09-08T13:58:34,515   Building wheel for pyxmolpp2 (setup.py): finished with status 'error'
2025-09-08T13:58:34,516   ERROR: Failed building wheel for pyxmolpp2
2025-09-08T13:58:34,517   Running setup.py clean for pyxmolpp2
2025-09-08T13:58:34,518   Running command python setup.py clean
2025-09-08T13:58:35,222   fatal: not a git repository (or any parent up to mount point /)
2025-09-08T13:58:35,223   Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set).
2025-09-08T13:58:35,591   /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:332: InformationOnly: Normalizing '0.3.0.dev.1' to '0.3.0.dev1'
2025-09-08T13:58:35,592     self.metadata.version = self._normalize_version(self.metadata.version)
2025-09-08T13:58:35,668   running clean
2025-09-08T13:58:35,815   removing 'build/temp.linux-armv7l-cpython-313' (and everything under it)
2025-09-08T13:58:35,817   'build/lib.linux-armv7l-cpython-313' does not exist -- can't clean it
2025-09-08T13:58:35,817   'build/bdist.linux-armv7l' does not exist -- can't clean it
2025-09-08T13:58:35,817   'build/scripts-3.13' does not exist -- can't clean it
2025-09-08T13:58:35,817   removing 'build'
2025-09-08T13:58:35,929 Failed to build pyxmolpp2
2025-09-08T13:58:35,930 ERROR: Failed to build one or more wheels
2025-09-08T13:58:35,931 Exception information:
2025-09-08T13:58:35,931 Traceback (most recent call last):
2025-09-08T13:58:35,931   File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper
2025-09-08T13:58:35,931     status = _inner_run()
2025-09-08T13:58:35,931   File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run
2025-09-08T13:58:35,931     return self.run(options, args)
2025-09-08T13:58:35,931            ~~~~~~~~^^^^^^^^^^^^^^^
2025-09-08T13:58:35,931   File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper
2025-09-08T13:58:35,931     return func(self, options, args)
2025-09-08T13:58:35,931   File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run
2025-09-08T13:58:35,931     raise CommandError("Failed to build one or more wheels")
2025-09-08T13:58:35,931 pip._internal.exceptions.CommandError: Failed to build one or more wheels
2025-09-08T13:58:35,935 Removed build tracker: '/tmp/pip-build-tracker-d7uznwxm'