2025-09-08T09:19:21,829 Created temporary directory: /tmp/pip-build-tracker-bucj65tq 2025-09-08T09:19:21,830 Initialized build tracking at /tmp/pip-build-tracker-bucj65tq 2025-09-08T09:19:21,830 Created build tracker: /tmp/pip-build-tracker-bucj65tq 2025-09-08T09:19:21,830 Entered build tracker: /tmp/pip-build-tracker-bucj65tq 2025-09-08T09:19:21,830 Created temporary directory: /tmp/pip-wheel-_uj8y1gm 2025-09-08T09:19:21,833 Created temporary directory: /tmp/pip-ephem-wheel-cache-934i3kvq 2025-09-08T09:19:21,888 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T09:19:21,891 2 location(s) to search for versions of molmod: 2025-09-08T09:19:21,891 * https://pypi.org/simple/molmod/ 2025-09-08T09:19:21,891 * https://www.piwheels.org/simple/molmod/ 2025-09-08T09:19:21,891 Fetching project page and analyzing links: https://pypi.org/simple/molmod/ 2025-09-08T09:19:21,891 Getting page https://pypi.org/simple/molmod/ 2025-09-08T09:19:21,893 Found index url https://pypi.org/simple/ 2025-09-08T09:19:21,962 Fetched page https://pypi.org/simple/molmod/ as application/vnd.pypi.simple.v1+json 2025-09-08T09:19:21,965 Found link https://files.pythonhosted.org/packages/d8/b1/d7cf3645e70ddf22e3c93225a0f963debc4be6276148cbaed46e973d2064/molmod-1.2.1.tar.gz (from https://pypi.org/simple/molmod/), version: 1.2.1 2025-09-08T09:19:21,965 Found link https://files.pythonhosted.org/packages/03/2d/4457e38b0e8245af76b37000ccee228d12b029023b0711954bc495494fd0/molmod-1.3.0.tar.gz (from https://pypi.org/simple/molmod/), version: 1.3.0 2025-09-08T09:19:21,965 Found link https://files.pythonhosted.org/packages/2c/3d/dd9c32cebc2ee7f29a16a778d775ce074c7c1c7b083f83b0dd63e350927e/molmod-1.3.1.tar.gz (from https://pypi.org/simple/molmod/), version: 1.3.1 2025-09-08T09:19:21,965 Found link https://files.pythonhosted.org/packages/79/fd/9f4282bf37b3ee38242dc4c6883b0923d450331f491ab5942702b791e84a/molmod-1.3.2.tar.gz (from https://pypi.org/simple/molmod/), version: 1.3.2 2025-09-08T09:19:21,966 Found link https://files.pythonhosted.org/packages/8c/b1/a243fe8d060c2ccb643e70504b0a727fe4a3420b2c790e3718865b6ffc8c/molmod-1.3.3.tar.gz (from https://pypi.org/simple/molmod/), version: 1.3.3 2025-09-08T09:19:21,966 Found link https://files.pythonhosted.org/packages/0d/d2/5df39f43e2f91f5a13376ef2c34aa30de3fd9be11fb6e9e5c18a9e15c9f8/molmod-1.3.4.tar.gz (from https://pypi.org/simple/molmod/), version: 1.3.4 2025-09-08T09:19:21,966 Found link https://files.pythonhosted.org/packages/5f/dc/39d3239d5d8d54bfc49378235b7c20f010ba98f3c4552b841617884d3646/molmod-1.3.5.tar.gz (from https://pypi.org/simple/molmod/), version: 1.3.5 2025-09-08T09:19:21,966 Found link https://files.pythonhosted.org/packages/da/f3/41c1c6830eae57a2b96b0d0d9d1853de31119ab7db44136ef69d3690f21a/molmod-1.4.0.tar.gz (from https://pypi.org/simple/molmod/), version: 1.4.0 2025-09-08T09:19:21,967 Found link https://files.pythonhosted.org/packages/03/bc/ca927944923a5de71f19c2390ab0b5f99f5e4723a1661c5917ab2cfe9919/molmod-1.4.1.tar.gz (from https://pypi.org/simple/molmod/), version: 1.4.1 2025-09-08T09:19:21,967 Found link https://files.pythonhosted.org/packages/8a/b8/0edf642e6a0bcb411523f5a25f87f1db08b590a073cb3e21dc332407a663/molmod-1.4.2.tar.gz (from https://pypi.org/simple/molmod/), version: 1.4.2 2025-09-08T09:19:21,967 Found link https://files.pythonhosted.org/packages/0b/85/bb75ec4376a612f3e5300712c5e1abab63894ec1bbf7be249a42a90b2c66/molmod-1.4.3.tar.gz (from https://pypi.org/simple/molmod/), version: 1.4.3 2025-09-08T09:19:21,967 Found link https://files.pythonhosted.org/packages/89/80/6a23f730196ed3ffb478dc3f9ea047913c99091d301cc82f4820ecee095d/molmod-1.4.4.tar.gz (from https://pypi.org/simple/molmod/), version: 1.4.4 2025-09-08T09:19:21,967 Found link https://files.pythonhosted.org/packages/98/08/f84c490fe1a2d0e3ff55dddd1079eeb77b2742ed3c8ad49b392444031d2f/molmod-1.4.5.tar.gz (from https://pypi.org/simple/molmod/), version: 1.4.5 2025-09-08T09:19:21,968 Found link https://files.pythonhosted.org/packages/e0/ce/a5df4a468f492baf8cce68318fd74eac947ff7f0947afc5bb14ac85fdccb/molmod-1.4.6.tar.gz (from https://pypi.org/simple/molmod/), version: 1.4.6 2025-09-08T09:19:21,968 Found link https://files.pythonhosted.org/packages/31/e6/4d8fe5e1fdf2077fdcee631d56aaaf8efaa331d823c4edc870fb30d701d8/molmod-1.4.7.tar.gz (from https://pypi.org/simple/molmod/), version: 1.4.7 2025-09-08T09:19:21,968 Found link https://files.pythonhosted.org/packages/23/77/814f9302b6df72ef3aa6944edd8b9b0f5e983aed07027828a4e0666c4ef3/molmod-1.4.8.tar.gz (from https://pypi.org/simple/molmod/), version: 1.4.8 2025-09-08T09:19:21,968 Fetching project page and analyzing links: https://www.piwheels.org/simple/molmod/ 2025-09-08T09:19:21,969 Getting page https://www.piwheels.org/simple/molmod/ 2025-09-08T09:19:21,970 Found index url https://www.piwheels.org/simple/ 2025-09-08T09:19:22,065 Fetched page https://www.piwheels.org/simple/molmod/ as text/html 2025-09-08T09:19:22,080 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.8-cp35-cp35m-linux_armv7l.whl#sha256=0c62dd6215c7d1ab1b9e5cfec2a58a924cc730a1d5f7ebcbf691e38032f897d8 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,080 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.8-cp35-cp35m-linux_armv6l.whl#sha256=0c62dd6215c7d1ab1b9e5cfec2a58a924cc730a1d5f7ebcbf691e38032f897d8 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,080 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.8-cp37-cp37m-linux_armv6l.whl#sha256=e5afa2214c1c5dd242f09e6f27db350ec7c46402d7e70f2764fab8e313737c35 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,080 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.8-cp37-cp37m-linux_armv7l.whl#sha256=e5afa2214c1c5dd242f09e6f27db350ec7c46402d7e70f2764fab8e313737c35 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,080 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.8-cp39-cp39-linux_armv6l.whl#sha256=25dee3ba29f379934e072bb16b631c5058f90f9cd4a0fdc06423430487e49e27 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,080 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.8-cp39-cp39-linux_armv7l.whl#sha256=25dee3ba29f379934e072bb16b631c5058f90f9cd4a0fdc06423430487e49e27 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,081 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.7-cp37-cp37m-linux_armv7l.whl#sha256=506838770510a3222b384a95dd5e5c3de8ce97b8eaeaf2ffade5dd3793971181 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,081 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.7-cp37-cp37m-linux_armv6l.whl#sha256=506838770510a3222b384a95dd5e5c3de8ce97b8eaeaf2ffade5dd3793971181 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,081 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.7-cp39-cp39-linux_armv6l.whl#sha256=e0eb81d9d34852306f94917e7b0d7d3f58da56125bead7d4a84e300445b8cd60 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,081 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.7-cp39-cp39-linux_armv7l.whl#sha256=e0eb81d9d34852306f94917e7b0d7d3f58da56125bead7d4a84e300445b8cd60 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,081 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.6-cp35-cp35m-linux_armv6l.whl#sha256=387627f9b6f6cca80131ea1038496beae8237f67dc05e75ea10797e321635552 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,081 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.6-cp35-cp35m-linux_armv7l.whl#sha256=387627f9b6f6cca80131ea1038496beae8237f67dc05e75ea10797e321635552 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,081 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.6-cp37-cp37m-linux_armv7l.whl#sha256=8e883987d1801a995bb2ecdd6f0a5a26d0bd988967d4470ae9c9ce7d31f65f33 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,082 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.6-cp37-cp37m-linux_armv6l.whl#sha256=8e883987d1801a995bb2ecdd6f0a5a26d0bd988967d4470ae9c9ce7d31f65f33 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,082 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.6-cp39-cp39-linux_armv6l.whl#sha256=b0a7018d75d184d3e6dca5fe56f23e1762af1d574e72c9d2df83cae4fae3c642 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,082 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.6-cp39-cp39-linux_armv7l.whl#sha256=b0a7018d75d184d3e6dca5fe56f23e1762af1d574e72c9d2df83cae4fae3c642 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,082 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.5-cp39-cp39-linux_armv6l.whl#sha256=b3a04bb54a7150cf1bf2dd273e9b3a11d847dce18242622f153a9a2c3a1ad2b7 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,082 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.5-cp39-cp39-linux_armv7l.whl#sha256=b3a04bb54a7150cf1bf2dd273e9b3a11d847dce18242622f153a9a2c3a1ad2b7 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,083 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.5-cp35-cp35m-linux_armv6l.whl#sha256=d4aa099f64504cfa8200e2bceba123cf86846e6b6dc752fb24dcce3408f5615c (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,083 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.5-cp35-cp35m-linux_armv7l.whl#sha256=d4aa099f64504cfa8200e2bceba123cf86846e6b6dc752fb24dcce3408f5615c (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,083 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.5-cp37-cp37m-linux_armv7l.whl#sha256=a485f1850e1810aa894facb319620ef0d57dc97ae3a8f0b17c6d19662078957f (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,083 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.5-cp37-cp37m-linux_armv6l.whl#sha256=a485f1850e1810aa894facb319620ef0d57dc97ae3a8f0b17c6d19662078957f (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,083 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.4-cp37-cp37m-linux_armv7l.whl#sha256=4b54456a955724201aaedcd50958ad1240f14c1448d75cc979c486bfb2d94422 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,084 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.4-cp37-cp37m-linux_armv6l.whl#sha256=4b54456a955724201aaedcd50958ad1240f14c1448d75cc979c486bfb2d94422 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,084 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.4-cp35-cp35m-linux_armv6l.whl#sha256=16188eb17c722ec601a3b35975b7e6a0f15e571006bef25c5235ab315b30b648 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,084 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.4-cp35-cp35m-linux_armv7l.whl#sha256=16188eb17c722ec601a3b35975b7e6a0f15e571006bef25c5235ab315b30b648 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,084 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.4-cp39-cp39-linux_armv6l.whl#sha256=bd4b288baaa4928f4f237d0b50f638669e5104cd5646298600e6b626d420c0d0 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,084 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.4-cp39-cp39-linux_armv7l.whl#sha256=bd4b288baaa4928f4f237d0b50f638669e5104cd5646298600e6b626d420c0d0 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,084 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.3-cp37-cp37m-linux_armv6l.whl#sha256=68419daf0b5ebd5f63c69ee9995a10f7d4d438c032bee3d7803452d957194b96 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,084 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.3-cp37-cp37m-linux_armv7l.whl#sha256=68419daf0b5ebd5f63c69ee9995a10f7d4d438c032bee3d7803452d957194b96 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,085 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.3-cp35-cp35m-linux_armv7l.whl#sha256=0207b9e905054da5b5dbda3a76eb3f951cf2177d3ece6761bd688e0a6ed350d2 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,085 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.3-cp35-cp35m-linux_armv6l.whl#sha256=0207b9e905054da5b5dbda3a76eb3f951cf2177d3ece6761bd688e0a6ed350d2 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,085 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.3-cp39-cp39-linux_armv6l.whl#sha256=fde1a04e1e77a948033a9f04498060b8627402de97618110d0c40836d7e15bd8 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,085 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.3-cp39-cp39-linux_armv7l.whl#sha256=fde1a04e1e77a948033a9f04498060b8627402de97618110d0c40836d7e15bd8 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,085 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.2-cp37-cp37m-linux_armv6l.whl#sha256=26ae5048c9b8d810170b4687f20f0db3f9e73ac80ec25294ab9c06457df5693b (from 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https://archive1.piwheels.org/simple/molmod/molmod-1.4.2-cp39-cp39-linux_armv6l.whl#sha256=2a63c98cfa820171218e3e0fab5ce769a2bd26e3d4ddc9319878bd448e0f9d48 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,086 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.2-cp39-cp39-linux_armv7l.whl#sha256=2a63c98cfa820171218e3e0fab5ce769a2bd26e3d4ddc9319878bd448e0f9d48 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,086 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.1-cp37-cp37m-linux_armv6l.whl#sha256=7e09a91121f6fe4be52b080ba3957116797aaac57bc0662874b650ec2136349f (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,086 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.1-cp37-cp37m-linux_armv7l.whl#sha256=7e09a91121f6fe4be52b080ba3957116797aaac57bc0662874b650ec2136349f (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,086 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.1-cp35-cp35m-linux_armv6l.whl#sha256=0c239c573227a354b7c04a18a921402be117d3e4dc14c085133cf1294365c358 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,086 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.1-cp35-cp35m-linux_armv7l.whl#sha256=0c239c573227a354b7c04a18a921402be117d3e4dc14c085133cf1294365c358 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,086 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.1-cp39-cp39-linux_armv6l.whl#sha256=bbd8feed144952e1cd8b1b94792b77ad2b9811a4ea61531fb89024ef9f6c9516 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,087 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.1-cp39-cp39-linux_armv7l.whl#sha256=bbd8feed144952e1cd8b1b94792b77ad2b9811a4ea61531fb89024ef9f6c9516 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,087 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.0-cp37-cp37m-linux_armv7l.whl#sha256=e9f6cfb88e385e2140f4a3d51654247321cdbf0ee2e788c4f42c797bf97c129d (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,087 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.0-cp37-cp37m-linux_armv6l.whl#sha256=e9f6cfb88e385e2140f4a3d51654247321cdbf0ee2e788c4f42c797bf97c129d (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,087 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.0-cp35-cp35m-linux_armv7l.whl#sha256=832ba3f726aaa608301aed7171497cb95d67d9cdbb67b51c313c85a843e134ed (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,087 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.0-cp35-cp35m-linux_armv6l.whl#sha256=832ba3f726aaa608301aed7171497cb95d67d9cdbb67b51c313c85a843e134ed (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,087 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.0-cp39-cp39-linux_armv6l.whl#sha256=94d51724484330f780e66851f0b3d5a04a572d624186dd184e5df63f93055fde (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,087 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.4.0-cp39-cp39-linux_armv7l.whl#sha256=94d51724484330f780e66851f0b3d5a04a572d624186dd184e5df63f93055fde (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,088 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.5-cp35-cp35m-linux_armv6l.whl#sha256=1c9efe5602f12d1c3cd1fd51923b91b8ad9c1f60c6dbf2ce2946108a07b35136 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,088 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.5-cp35-cp35m-linux_armv7l.whl#sha256=1c9efe5602f12d1c3cd1fd51923b91b8ad9c1f60c6dbf2ce2946108a07b35136 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,088 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.5-cp37-cp37m-linux_armv6l.whl#sha256=f026b5a093b68e3c8a0587a892770f350cb1370a01da18f17a32b40abc8c51c1 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,088 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.5-cp37-cp37m-linux_armv7l.whl#sha256=f026b5a093b68e3c8a0587a892770f350cb1370a01da18f17a32b40abc8c51c1 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,088 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.5-cp39-cp39-linux_armv6l.whl#sha256=c64f8298ab6a4cb4e41bb0df0c25ff04aaea2e7372ede4d8861624abe42d79ee (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,088 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.5-cp39-cp39-linux_armv7l.whl#sha256=c64f8298ab6a4cb4e41bb0df0c25ff04aaea2e7372ede4d8861624abe42d79ee (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,088 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.4-cp35-cp35m-linux_armv7l.whl#sha256=a5bc6f980651b4e0fb99c6e3f0c34db6b3b6db670455588851299c43f35eae31 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,088 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.4-cp35-cp35m-linux_armv6l.whl#sha256=a5bc6f980651b4e0fb99c6e3f0c34db6b3b6db670455588851299c43f35eae31 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,089 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.4-cp37-cp37m-linux_armv7l.whl#sha256=a9abac891fcb73c81b73f4facfdee4dceaae8e2860204858861a64d3da5951e7 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,089 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.4-cp37-cp37m-linux_armv6l.whl#sha256=a9abac891fcb73c81b73f4facfdee4dceaae8e2860204858861a64d3da5951e7 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,089 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.4-cp39-cp39-linux_armv6l.whl#sha256=b8268442b07783fb4cd0165ef1c9f4acb29db4ac8515594777e839f630810453 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,089 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.4-cp39-cp39-linux_armv7l.whl#sha256=b8268442b07783fb4cd0165ef1c9f4acb29db4ac8515594777e839f630810453 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,089 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.3-cp35-cp35m-linux_armv7l.whl#sha256=e9614b32a08939d91e8445e0358f08b40479a3e4f2c82bf8d9ef17ec4e4a45c3 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,089 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.3-cp35-cp35m-linux_armv6l.whl#sha256=e9614b32a08939d91e8445e0358f08b40479a3e4f2c82bf8d9ef17ec4e4a45c3 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,089 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.3-cp37-cp37m-linux_armv7l.whl#sha256=b5d76906e2ab76734766a497f21e625c75094053d0746ced1e1b15c77442e087 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,090 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.3-cp37-cp37m-linux_armv6l.whl#sha256=b5d76906e2ab76734766a497f21e625c75094053d0746ced1e1b15c77442e087 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,090 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.3-cp39-cp39-linux_armv6l.whl#sha256=c955105191874f6641662739e86d8ce23f438ab2f28a36a36cb8943a4ce21ea0 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,090 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.3-cp39-cp39-linux_armv7l.whl#sha256=c955105191874f6641662739e86d8ce23f438ab2f28a36a36cb8943a4ce21ea0 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,090 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.2-cp35-cp35m-linux_armv6l.whl#sha256=326e064f7a42df9fe34bf61b2b8d250c2075fb13f8a83d3f731d04afa4458495 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,090 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.2-cp35-cp35m-linux_armv7l.whl#sha256=326e064f7a42df9fe34bf61b2b8d250c2075fb13f8a83d3f731d04afa4458495 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,090 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.2-cp37-cp37m-linux_armv7l.whl#sha256=58c6b548ea700185894e6696d7eace87b9570d3f080529e7e91614530de065f0 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,090 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.2-cp37-cp37m-linux_armv6l.whl#sha256=58c6b548ea700185894e6696d7eace87b9570d3f080529e7e91614530de065f0 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,090 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.2-cp39-cp39-linux_armv6l.whl#sha256=f37c6d241bdfee045f443a9d55f9509d86d894a0c11e09ad4c38c91d235649c7 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,091 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.2-cp39-cp39-linux_armv7l.whl#sha256=f37c6d241bdfee045f443a9d55f9509d86d894a0c11e09ad4c38c91d235649c7 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,091 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.1-cp35-cp35m-linux_armv6l.whl#sha256=910b16bfc8b57c90f49cadaf67dded89cbb8cc764fe5e7e3a42fd523ee6448db (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,091 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.1-cp35-cp35m-linux_armv7l.whl#sha256=910b16bfc8b57c90f49cadaf67dded89cbb8cc764fe5e7e3a42fd523ee6448db (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,091 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.1-cp37-cp37m-linux_armv6l.whl#sha256=f82cc58ce559d1ab63e07886aa4cdfb9b92dd6f543da3adb0e1a2951b4e79587 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,091 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.1-cp37-cp37m-linux_armv7l.whl#sha256=f82cc58ce559d1ab63e07886aa4cdfb9b92dd6f543da3adb0e1a2951b4e79587 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,091 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.1-cp39-cp39-linux_armv6l.whl#sha256=babaff03785142a5537ba54c3eaf8ed85f176f9b3fa8d91003fc4020eb8dd525 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,091 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.1-cp39-cp39-linux_armv7l.whl#sha256=babaff03785142a5537ba54c3eaf8ed85f176f9b3fa8d91003fc4020eb8dd525 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,092 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.0-cp35-cp35m-linux_armv6l.whl#sha256=e07bb2f2c7d2cb940aedb4a5878680e828ef4f6e7b7093313c17831627695463 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,092 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.0-cp35-cp35m-linux_armv7l.whl#sha256=e07bb2f2c7d2cb940aedb4a5878680e828ef4f6e7b7093313c17831627695463 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,092 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.0-cp37-cp37m-linux_armv6l.whl#sha256=352896bf80d98d2d145c64078962110d5c4102d64ceb95eafaec29cf2f78fdfe (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,092 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.0-cp37-cp37m-linux_armv7l.whl#sha256=352896bf80d98d2d145c64078962110d5c4102d64ceb95eafaec29cf2f78fdfe (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,092 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.0-cp39-cp39-linux_armv6l.whl#sha256=78777d19e953e61a2176ccc556fc4ab996e0397c3ffed562c95ff7069b3e3baf (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,092 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.3.0-cp39-cp39-linux_armv7l.whl#sha256=78777d19e953e61a2176ccc556fc4ab996e0397c3ffed562c95ff7069b3e3baf (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,092 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.2.1-cp37-cp37m-linux_armv7l.whl#sha256=eefc96a8d630109adedcfcc5ea45151afae595ca5ca6c31e409e18eb0064e886 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,093 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.2.1-cp37-cp37m-linux_armv6l.whl#sha256=eefc96a8d630109adedcfcc5ea45151afae595ca5ca6c31e409e18eb0064e886 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,093 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.2.1-cp35-cp35m-linux_armv7l.whl#sha256=a525d0fa321dd8c725819b40a6ee7a1f188aa804c94ad0372a345bd101e9e559 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,093 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.2.1-cp35-cp35m-linux_armv6l.whl#sha256=a525d0fa321dd8c725819b40a6ee7a1f188aa804c94ad0372a345bd101e9e559 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,093 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.2.1-cp39-cp39-linux_armv6l.whl#sha256=ac836463734c5c9f0baad9f4cd509b9bfec96fa475087a4449ae69c9d553e8c0 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,093 Skipping link: No binaries permitted for molmod: https://archive1.piwheels.org/simple/molmod/molmod-1.2.1-cp39-cp39-linux_armv7l.whl#sha256=ac836463734c5c9f0baad9f4cd509b9bfec96fa475087a4449ae69c9d553e8c0 (from https://www.piwheels.org/simple/molmod/) 2025-09-08T09:19:22,093 Skipping link: not a file: https://www.piwheels.org/simple/molmod/ 2025-09-08T09:19:22,093 Skipping link: not a file: https://pypi.org/simple/molmod/ 2025-09-08T09:19:22,117 Given no hashes to check 1 links for project 'molmod': discarding no candidates 2025-09-08T09:19:22,118 Collecting molmod==1.4.2 2025-09-08T09:19:22,119 Created temporary directory: /tmp/pip-unpack-rde_bkgj 2025-09-08T09:19:22,262 Downloading molmod-1.4.2.tar.gz (1.7 MB) 2025-09-08T09:19:22,715 Added molmod==1.4.2 from https://files.pythonhosted.org/packages/8a/b8/0edf642e6a0bcb411523f5a25f87f1db08b590a073cb3e21dc332407a663/molmod-1.4.2.tar.gz to build tracker '/tmp/pip-build-tracker-bucj65tq' 2025-09-08T09:19:22,716 Running setup.py (path:/tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/setup.py) egg_info for package molmod 2025-09-08T09:19:22,716 Created temporary directory: /tmp/pip-pip-egg-info-mi492ge9 2025-09-08T09:19:22,717 Preparing metadata (setup.py): started 2025-09-08T09:19:22,717 Running command python setup.py egg_info 2025-09-08T09:19:23,621 fatal: not a git repository (or any parent up to mount point /) 2025-09-08T09:19:23,621 Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). 2025-09-08T09:19:23,745 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-08T09:19:23,745 !! 2025-09-08T09:19:23,745 ******************************************************************************** 2025-09-08T09:19:23,745 Requirements should be satisfied by a PEP 517 installer. 2025-09-08T09:19:23,745 If you are using pip, you can try `pip install --use-pep517`. 2025-09-08T09:19:23,745 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-08T09:19:23,746 or your builds will no longer be supported. 2025-09-08T09:19:23,746 ******************************************************************************** 2025-09-08T09:19:23,746 !! 2025-09-08T09:19:23,746 dist.fetch_build_eggs(dist.setup_requires) 2025-09-08T09:19:24,085 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-08T09:19:24,085 !! 2025-09-08T09:19:24,085 ******************************************************************************** 2025-09-08T09:19:24,085 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-08T09:19:24,085 License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+) 2025-09-08T09:19:24,085 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-08T09:19:24,086 ******************************************************************************** 2025-09-08T09:19:24,086 !! 2025-09-08T09:19:24,086 self._finalize_license_expression() 2025-09-08T09:19:24,158 Trying to get the version from git describe 2025-09-08T09:19:24,159 Trying to get the version from {} /tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/molmod/version.py 2025-09-08T09:19:24,159 Version according to /tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/molmod/version.py: 1.4.2 2025-09-08T09:19:24,159 running egg_info 2025-09-08T09:19:24,233 creating /tmp/pip-pip-egg-info-mi492ge9/molmod.egg-info 2025-09-08T09:19:24,233 writing /tmp/pip-pip-egg-info-mi492ge9/molmod.egg-info/PKG-INFO 2025-09-08T09:19:24,234 writing dependency_links to /tmp/pip-pip-egg-info-mi492ge9/molmod.egg-info/dependency_links.txt 2025-09-08T09:19:24,235 writing requirements to /tmp/pip-pip-egg-info-mi492ge9/molmod.egg-info/requires.txt 2025-09-08T09:19:24,235 writing top-level names to /tmp/pip-pip-egg-info-mi492ge9/molmod.egg-info/top_level.txt 2025-09-08T09:19:24,235 writing manifest file '/tmp/pip-pip-egg-info-mi492ge9/molmod.egg-info/SOURCES.txt' 2025-09-08T09:19:24,461 reading manifest file '/tmp/pip-pip-egg-info-mi492ge9/molmod.egg-info/SOURCES.txt' 2025-09-08T09:19:24,462 reading manifest template 'MANIFEST.in' 2025-09-08T09:19:24,498 warning: no previously-included files matching 'ext.c' found under directory 'molmod' 2025-09-08T09:19:24,508 adding license file 'LICENSE.txt' 2025-09-08T09:19:24,516 writing manifest file '/tmp/pip-pip-egg-info-mi492ge9/molmod.egg-info/SOURCES.txt' 2025-09-08T09:19:24,658 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T09:19:24,662 Source in /tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671 has version 1.4.2, which satisfies requirement molmod==1.4.2 from https://files.pythonhosted.org/packages/8a/b8/0edf642e6a0bcb411523f5a25f87f1db08b590a073cb3e21dc332407a663/molmod-1.4.2.tar.gz 2025-09-08T09:19:24,663 Removed molmod==1.4.2 from https://files.pythonhosted.org/packages/8a/b8/0edf642e6a0bcb411523f5a25f87f1db08b590a073cb3e21dc332407a663/molmod-1.4.2.tar.gz from build tracker '/tmp/pip-build-tracker-bucj65tq' 2025-09-08T09:19:24,667 Created temporary directory: /tmp/pip-unpack-7_v2you4 2025-09-08T09:19:24,667 Created temporary directory: /tmp/pip-unpack-bhvqdzaj 2025-09-08T09:19:24,667 Building wheels for collected packages: molmod 2025-09-08T09:19:24,669 Created temporary directory: /tmp/pip-wheel-gg2xesbs 2025-09-08T09:19:24,669 DEPRECATION: Building 'molmod' 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 'molmod'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-08T09:19:24,670 Building wheel for molmod (setup.py): started 2025-09-08T09:19:24,671 Destination directory: /tmp/pip-wheel-gg2xesbs 2025-09-08T09:19:24,671 Running command python setup.py bdist_wheel 2025-09-08T09:19:25,588 Trying to get the version from git describe 2025-09-08T09:19:25,593 fatal: not a git repository (or any parent up to mount point /) 2025-09-08T09:19:25,594 Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). 2025-09-08T09:19:25,595 Trying to get the version from {} /tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/molmod/version.py 2025-09-08T09:19:25,595 Version according to /tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/molmod/version.py: 1.4.2 2025-09-08T09:19:25,718 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-08T09:19:25,718 !! 2025-09-08T09:19:25,718 ******************************************************************************** 2025-09-08T09:19:25,718 Requirements should be satisfied by a PEP 517 installer. 2025-09-08T09:19:25,718 If you are using pip, you can try `pip install --use-pep517`. 2025-09-08T09:19:25,718 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-08T09:19:25,718 or your builds will no longer be supported. 2025-09-08T09:19:25,719 ******************************************************************************** 2025-09-08T09:19:25,719 !! 2025-09-08T09:19:25,719 dist.fetch_build_eggs(dist.setup_requires) 2025-09-08T09:19:26,056 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-08T09:19:26,057 !! 2025-09-08T09:19:26,057 ******************************************************************************** 2025-09-08T09:19:26,057 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-08T09:19:26,057 License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+) 2025-09-08T09:19:26,057 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-08T09:19:26,057 ******************************************************************************** 2025-09-08T09:19:26,057 !! 2025-09-08T09:19:26,058 self._finalize_license_expression() 2025-09-08T09:19:26,058 running bdist_wheel 2025-09-08T09:19:26,363 running build 2025-09-08T09:19:26,363 running build_py 2025-09-08T09:19:26,440 creating build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,441 copying molmod/zmatrix.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,442 copying molmod/version.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,442 copying molmod/vectors.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,443 copying molmod/utils.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,443 copying molmod/units.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,444 copying molmod/unit_cells.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,444 copying molmod/transformations.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,445 copying molmod/toyff.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,445 copying molmod/symmetry.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,446 copying molmod/similarity.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,446 copying molmod/randomize.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,447 copying molmod/quaternions.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,447 copying molmod/periodic.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,448 copying molmod/pairff.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,448 copying molmod/molecules.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,449 copying molmod/molecular_graphs.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,450 copying molmod/minimizer.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,450 copying molmod/log.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,451 copying molmod/isotopes.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,452 copying molmod/ic.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,452 copying molmod/graphs.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,453 copying molmod/constants.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,453 copying molmod/clusters.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,454 copying molmod/bonds.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,454 copying molmod/binning.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,455 copying molmod/__init__.py -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,456 creating build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,456 copying molmod/test/test_zmatrix.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,457 copying molmod/test/test_vectors.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,457 copying molmod/test/test_utils.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,458 copying molmod/test/test_units.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,458 copying molmod/test/test_unit_cells.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,459 copying molmod/test/test_transformations.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,460 copying molmod/test/test_toyff.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,460 copying molmod/test/test_symmetry.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,461 copying molmod/test/test_similarity.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,461 copying molmod/test/test_randomize.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,462 copying molmod/test/test_quaternions.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,462 copying molmod/test/test_pairff.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,463 copying molmod/test/test_molecules.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,463 copying molmod/test/test_molecular_graphs.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,464 copying molmod/test/test_minimizer.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,464 copying molmod/test/test_log.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,465 copying molmod/test/test_ic.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,465 copying molmod/test/test_graphs.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,466 copying molmod/test/test_examples.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,466 copying molmod/test/test_data.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,467 copying molmod/test/test_clusters.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,467 copying molmod/test/test_binning.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,468 copying molmod/test/common.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,468 copying molmod/test/__init__.py -> build/lib.linux-armv7l-cpython-313/molmod/test 2025-09-08T09:19:26,469 creating build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,470 copying molmod/io/xyz.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,470 copying molmod/io/sdf.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,471 copying molmod/io/psf.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,471 copying molmod/io/pdb.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,472 copying molmod/io/number_state.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,472 copying molmod/io/lammps.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,473 copying molmod/io/gromacs.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,473 copying molmod/io/gamess.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,474 copying molmod/io/fchk.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,475 copying molmod/io/dlpoly.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,475 copying molmod/io/cube.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,476 copying molmod/io/crystal.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,476 copying molmod/io/cpmd.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,477 copying molmod/io/cp2k.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,477 copying molmod/io/common.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,478 copying molmod/io/cml.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,478 copying molmod/io/chk.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,479 copying molmod/io/atrj.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,479 copying molmod/io/__init__.py -> build/lib.linux-armv7l-cpython-313/molmod/io 2025-09-08T09:19:26,480 creating build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,480 copying molmod/io/test/test_xyz.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,481 copying molmod/io/test/test_sdf.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,482 copying molmod/io/test/test_psf.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,482 copying molmod/io/test/test_pdb.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,483 copying molmod/io/test/test_number_state.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,483 copying molmod/io/test/test_lammps.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,484 copying molmod/io/test/test_gromacs.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,484 copying molmod/io/test/test_gamess.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,485 copying molmod/io/test/test_fchk.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,485 copying molmod/io/test/test_dlpoly.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,486 copying molmod/io/test/test_cube.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,486 copying molmod/io/test/test_crystal.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,487 copying molmod/io/test/test_cpmd.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,487 copying molmod/io/test/test_cp2k.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,488 copying molmod/io/test/test_cml.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,488 copying molmod/io/test/test_chk.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,489 copying molmod/io/test/test_atrj.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,489 copying molmod/io/test/__init__.py -> build/lib.linux-armv7l-cpython-313/molmod/io/test 2025-09-08T09:19:26,489 running egg_info 2025-09-08T09:19:26,563 writing molmod.egg-info/PKG-INFO 2025-09-08T09:19:26,564 writing dependency_links to molmod.egg-info/dependency_links.txt 2025-09-08T09:19:26,564 writing requirements to molmod.egg-info/requires.txt 2025-09-08T09:19:26,565 writing top-level names to molmod.egg-info/top_level.txt 2025-09-08T09:19:26,643 reading manifest file 'molmod.egg-info/SOURCES.txt' 2025-09-08T09:19:26,656 reading manifest template 'MANIFEST.in' 2025-09-08T09:19:26,692 warning: no previously-included files matching 'ext.c' found under directory 'molmod' 2025-09-08T09:19:26,703 adding license file 'LICENSE.txt' 2025-09-08T09:19:26,714 writing manifest file 'molmod.egg-info/SOURCES.txt' 2025-09-08T09:19:26,716 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'molmod.data' is absent from the `packages` configuration. 2025-09-08T09:19:26,717 !! 2025-09-08T09:19:26,717 ******************************************************************************** 2025-09-08T09:19:26,717 ############################ 2025-09-08T09:19:26,717 # Package would be ignored # 2025-09-08T09:19:26,717 ############################ 2025-09-08T09:19:26,717 Python recognizes 'molmod.data' as an importable package[^1], 2025-09-08T09:19:26,717 but it is absent from setuptools' `packages` configuration. 2025-09-08T09:19:26,717 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-08T09:19:26,717 package, please make sure that 'molmod.data' is explicitly added 2025-09-08T09:19:26,718 to the `packages` configuration field. 2025-09-08T09:19:26,718 Alternatively, you can also rely on setuptools' discovery methods 2025-09-08T09:19:26,718 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-08T09:19:26,718 instead of `find_packages(...)`/`find:`). 2025-09-08T09:19:26,718 You can read more about "package discovery" on setuptools documentation page: 2025-09-08T09:19:26,718 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-08T09:19:26,718 If you don't want 'molmod.data' to be distributed and are 2025-09-08T09:19:26,718 already explicitly excluding 'molmod.data' via 2025-09-08T09:19:26,719 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-08T09:19:26,719 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-08T09:19:26,719 combination with a more fine grained `package-data` configuration. 2025-09-08T09:19:26,719 You can read more about "package data files" on setuptools documentation page: 2025-09-08T09:19:26,719 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-08T09:19:26,719 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-08T09:19:26,719 even if it does not contain any `.py` files. 2025-09-08T09:19:26,719 On the other hand, currently there is no concept of package data 2025-09-08T09:19:26,720 directory, all directories are treated like packages. 2025-09-08T09:19:26,720 ******************************************************************************** 2025-09-08T09:19:26,720 !! 2025-09-08T09:19:26,720 check.warn(importable) 2025-09-08T09:19:26,720 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'molmod.data.test' is absent from the `packages` configuration. 2025-09-08T09:19:26,720 !! 2025-09-08T09:19:26,720 ******************************************************************************** 2025-09-08T09:19:26,720 ############################ 2025-09-08T09:19:26,720 # Package would be ignored # 2025-09-08T09:19:26,721 ############################ 2025-09-08T09:19:26,721 Python recognizes 'molmod.data.test' as an importable package[^1], 2025-09-08T09:19:26,721 but it is absent from setuptools' `packages` configuration. 2025-09-08T09:19:26,721 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-08T09:19:26,721 package, please make sure that 'molmod.data.test' is explicitly added 2025-09-08T09:19:26,721 to the `packages` configuration field. 2025-09-08T09:19:26,721 Alternatively, you can also rely on setuptools' discovery methods 2025-09-08T09:19:26,721 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-08T09:19:26,721 instead of `find_packages(...)`/`find:`). 2025-09-08T09:19:26,722 You can read more about "package discovery" on setuptools documentation page: 2025-09-08T09:19:26,722 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-08T09:19:26,722 If you don't want 'molmod.data.test' to be distributed and are 2025-09-08T09:19:26,722 already explicitly excluding 'molmod.data.test' via 2025-09-08T09:19:26,722 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-08T09:19:26,722 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-08T09:19:26,722 combination with a more fine grained `package-data` configuration. 2025-09-08T09:19:26,722 You can read more about "package data files" on setuptools documentation page: 2025-09-08T09:19:26,723 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-08T09:19:26,723 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-08T09:19:26,723 even if it does not contain any `.py` files. 2025-09-08T09:19:26,723 On the other hand, currently there is no concept of package data 2025-09-08T09:19:26,723 directory, all directories are treated like packages. 2025-09-08T09:19:26,723 ******************************************************************************** 2025-09-08T09:19:26,723 !! 2025-09-08T09:19:26,723 check.warn(importable) 2025-09-08T09:19:26,724 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'molmod.examples' is absent from the `packages` configuration. 2025-09-08T09:19:26,724 !! 2025-09-08T09:19:26,724 ******************************************************************************** 2025-09-08T09:19:26,724 ############################ 2025-09-08T09:19:26,724 # Package would be ignored # 2025-09-08T09:19:26,724 ############################ 2025-09-08T09:19:26,724 Python recognizes 'molmod.examples' as an importable package[^1], 2025-09-08T09:19:26,724 but it is absent from setuptools' `packages` configuration. 2025-09-08T09:19:26,724 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-08T09:19:26,724 package, please make sure that 'molmod.examples' is explicitly added 2025-09-08T09:19:26,725 to the `packages` configuration field. 2025-09-08T09:19:26,725 Alternatively, you can also rely on setuptools' discovery methods 2025-09-08T09:19:26,725 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-08T09:19:26,725 instead of `find_packages(...)`/`find:`). 2025-09-08T09:19:26,725 You can read more about "package discovery" on setuptools documentation page: 2025-09-08T09:19:26,725 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-08T09:19:26,725 If you don't want 'molmod.examples' to be distributed and are 2025-09-08T09:19:26,725 already explicitly excluding 'molmod.examples' via 2025-09-08T09:19:26,726 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-08T09:19:26,726 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-08T09:19:26,726 combination with a more fine grained `package-data` configuration. 2025-09-08T09:19:26,726 You can read more about "package data files" on setuptools documentation page: 2025-09-08T09:19:26,726 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-08T09:19:26,726 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-08T09:19:26,726 even if it does not contain any `.py` files. 2025-09-08T09:19:26,726 On the other hand, currently there is no concept of package data 2025-09-08T09:19:26,727 directory, all directories are treated like packages. 2025-09-08T09:19:26,727 ******************************************************************************** 2025-09-08T09:19:26,727 !! 2025-09-08T09:19:26,727 check.warn(importable) 2025-09-08T09:19:26,729 copying molmod/common.c -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,730 copying molmod/common.h -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,730 copying molmod/ext.pyx -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,731 copying molmod/ff.c -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,731 copying molmod/ff.h -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,732 copying molmod/ff.pxd -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,732 copying molmod/graphs.c -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,733 copying molmod/graphs.h -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,733 copying molmod/graphs.pxd -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,734 copying molmod/molecules.c -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,734 copying molmod/molecules.h -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,735 copying molmod/molecules.pxd -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,735 copying molmod/similarity.c -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,736 copying molmod/similarity.h -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,736 copying molmod/similarity.pxd -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,737 copying molmod/unit_cells.c -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,737 copying molmod/unit_cells.h -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,738 copying molmod/unit_cells.pxd -> build/lib.linux-armv7l-cpython-313/molmod 2025-09-08T09:19:26,738 creating build/lib.linux-armv7l-cpython-313/molmod/data 2025-09-08T09:19:26,739 copying molmod/data/bonds.csv -> build/lib.linux-armv7l-cpython-313/molmod/data 2025-09-08T09:19:26,739 copying molmod/data/bonds.ods -> build/lib.linux-armv7l-cpython-313/molmod/data 2025-09-08T09:19:26,740 copying molmod/data/mass.mas03 -> build/lib.linux-armv7l-cpython-313/molmod/data 2025-09-08T09:19:26,742 copying molmod/data/nubtab03.asc -> build/lib.linux-armv7l-cpython-313/molmod/data 2025-09-08T09:19:26,744 copying molmod/data/periodic.csv -> build/lib.linux-armv7l-cpython-313/molmod/data 2025-09-08T09:19:26,745 copying molmod/data/periodic.ods -> build/lib.linux-armv7l-cpython-313/molmod/data 2025-09-08T09:19:26,745 copying molmod/data/toyff_angles.txt -> build/lib.linux-armv7l-cpython-313/molmod/data 2025-09-08T09:19:26,746 creating build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,746 copying molmod/data/test/1LJL_Cys10.cml -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,747 copying molmod/data/test/1TOH.b3lyp.fchk -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,750 copying molmod/data/test/1TOH.b3lyp.trim.fchk -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,750 copying molmod/data/test/5ringOH.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,751 copying molmod/data/test/CID_22898828.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,752 copying molmod/data/test/PCGamess_PUNCH -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,755 copying molmod/data/test/SID_31646545.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,756 copying molmod/data/test/SID_31646548.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,756 copying molmod/data/test/SID_40363570.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,757 copying molmod/data/test/SID_40363571.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,758 copying molmod/data/test/SID_41893278.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,758 copying molmod/data/test/SID_41893280.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,759 copying molmod/data/test/SID_54258192.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,759 copying molmod/data/test/SID_55127927.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,760 copying molmod/data/test/SID_55488598.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,760 copying molmod/data/test/SID_56274343.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,761 copying molmod/data/test/TRAJECTORY_H2_CPMD -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,761 copying molmod/data/test/alanine.cube -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,762 copying molmod/data/test/argon.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,762 copying molmod/data/test/bartek.atrj -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,764 copying molmod/data/test/benzene.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,765 copying molmod/data/test/butane.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,765 copying molmod/data/test/caplayer.cml -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,766 copying molmod/data/test/crystal_api.out -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,768 copying molmod/data/test/cyclopentane.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,768 copying molmod/data/test/dinitrogen.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,769 copying molmod/data/test/dlpoly_HISTORY -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,769 copying molmod/data/test/dlpoly_HISTORY_an2 -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,770 copying molmod/data/test/dlpoly_OUTPUT -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,771 copying molmod/data/test/dopamine.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,772 copying molmod/data/test/ethane.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,772 copying molmod/data/test/ethene.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,773 copying molmod/data/test/ethene_ethyl_trans.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,773 copying molmod/data/test/example.sdf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,774 copying molmod/data/test/formol.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,774 copying molmod/data/test/funny.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,775 copying molmod/data/test/h3zrosihohosioh3.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,775 copying molmod/data/test/il2.pdb -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,776 copying molmod/data/test/lammps_dump.txt -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,777 copying molmod/data/test/lau.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,777 copying molmod/data/test/octane.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,778 copying molmod/data/test/oh3siozroh3.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,778 copying molmod/data/test/opt_5ring10T.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,779 copying molmod/data/test/opt_5ring12T.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,779 copying molmod/data/test/opt_6_6ring.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,780 copying molmod/data/test/opt_6ring.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,780 copying molmod/data/test/osih2osihosih2osih2ozrh2oh.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,781 copying molmod/data/test/pentapeptide.psf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,782 copying molmod/data/test/precursor.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,782 copying molmod/data/test/probes.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,783 copying molmod/data/test/tea.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,783 copying molmod/data/test/tetra.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,784 copying molmod/data/test/thf.psf -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,785 copying molmod/data/test/thf.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,785 copying molmod/data/test/thf_64.cell -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,786 copying molmod/data/test/thf_single.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,786 copying molmod/data/test/tpa.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,787 copying molmod/data/test/water.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,787 copying molmod/data/test/water2.gro -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,788 copying molmod/data/test/water_md.inp -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,788 copying molmod/data/test/zr4o8-3.xyz -> build/lib.linux-armv7l-cpython-313/molmod/data/test 2025-09-08T09:19:26,789 creating build/lib.linux-armv7l-cpython-313/molmod/examples/000_units 2025-09-08T09:19:26,789 copying molmod/examples/000_units/a_reaction.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/000_units 2025-09-08T09:19:26,790 copying molmod/examples/000_units/b_chbond.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/000_units 2025-09-08T09:19:26,790 copying molmod/examples/000_units/c_h2rot.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/000_units 2025-09-08T09:19:26,791 creating build/lib.linux-armv7l-cpython-313/molmod/examples/001_molecules 2025-09-08T09:19:26,791 copying molmod/examples/001_molecules/a_convert.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/001_molecules 2025-09-08T09:19:26,792 copying molmod/examples/001_molecules/b_com.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/001_molecules 2025-09-08T09:19:26,792 copying molmod/examples/001_molecules/c_carbon.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/001_molecules 2025-09-08T09:19:26,793 copying molmod/examples/001_molecules/d_size.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/001_molecules 2025-09-08T09:19:26,793 copying molmod/examples/001_molecules/e_shape.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/001_molecules 2025-09-08T09:19:26,794 copying molmod/examples/001_molecules/ibuprofen.sdf -> build/lib.linux-armv7l-cpython-313/molmod/examples/001_molecules 2025-09-08T09:19:26,794 creating build/lib.linux-armv7l-cpython-313/molmod/examples/002_graphs 2025-09-08T09:19:26,794 copying molmod/examples/002_graphs/a_graphs.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/002_graphs 2025-09-08T09:19:26,795 copying molmod/examples/002_graphs/b_neighbors.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/002_graphs 2025-09-08T09:19:26,795 copying molmod/examples/002_graphs/c_distances.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/002_graphs 2025-09-08T09:19:26,796 copying molmod/examples/002_graphs/caffeine.xyz -> build/lib.linux-armv7l-cpython-313/molmod/examples/002_graphs 2025-09-08T09:19:26,796 copying molmod/examples/002_graphs/d_symmetries.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/002_graphs 2025-09-08T09:19:26,797 copying molmod/examples/002_graphs/ethanol.xyz -> build/lib.linux-armv7l-cpython-313/molmod/examples/002_graphs 2025-09-08T09:19:26,797 creating build/lib.linux-armv7l-cpython-313/molmod/examples/003_internal_coordinates 2025-09-08T09:19:26,798 copying molmod/examples/003_internal_coordinates/a_bond_length.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/003_internal_coordinates 2025-09-08T09:19:26,798 copying molmod/examples/003_internal_coordinates/b_bending_angles.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/003_internal_coordinates 2025-09-08T09:19:26,799 copying molmod/examples/003_internal_coordinates/c_ff_hessian.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/003_internal_coordinates 2025-09-08T09:19:26,799 copying molmod/examples/003_internal_coordinates/d_dft_hessian.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/003_internal_coordinates 2025-09-08T09:19:26,800 copying molmod/examples/003_internal_coordinates/dopamine.fchk -> build/lib.linux-armv7l-cpython-313/molmod/examples/003_internal_coordinates 2025-09-08T09:19:26,800 copying molmod/examples/003_internal_coordinates/dopamine.xyz -> build/lib.linux-armv7l-cpython-313/molmod/examples/003_internal_coordinates 2025-09-08T09:19:26,801 copying molmod/examples/003_internal_coordinates/propane.xyz -> build/lib.linux-armv7l-cpython-313/molmod/examples/003_internal_coordinates 2025-09-08T09:19:26,801 creating build/lib.linux-armv7l-cpython-313/molmod/examples/004_patterns 2025-09-08T09:19:26,802 copying molmod/examples/004_patterns/a_propane_types.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/004_patterns 2025-09-08T09:19:26,802 copying molmod/examples/004_patterns/b_dopamine_types.py -> build/lib.linux-armv7l-cpython-313/molmod/examples/004_patterns 2025-09-08T09:19:26,803 copying molmod/examples/004_patterns/dopamine.xyz -> build/lib.linux-armv7l-cpython-313/molmod/examples/004_patterns 2025-09-08T09:19:26,803 copying molmod/examples/004_patterns/mfi_fragment.xyz -> build/lib.linux-armv7l-cpython-313/molmod/examples/004_patterns 2025-09-08T09:19:26,804 copying molmod/examples/004_patterns/propane.xyz -> build/lib.linux-armv7l-cpython-313/molmod/examples/004_patterns 2025-09-08T09:19:26,807 running build_ext 2025-09-08T09:19:27,260 Compiling molmod/ext.pyx because it changed. 2025-09-08T09:19:27,260 [1/1] Cythonizing molmod/ext.pyx 2025-09-08T09:19:28,765 Error compiling Cython file: 2025-09-08T09:19:28,765 ------------------------------------------------------------ 2025-09-08T09:19:28,765 ... 2025-09-08T09:19:28,766 import numpy as np 2025-09-08T09:19:28,766 cimport numpy as np 2025-09-08T09:19:28,766 cimport ff 2025-09-08T09:19:28,766 ^ 2025-09-08T09:19:28,766 ------------------------------------------------------------ 2025-09-08T09:19:28,766 molmod/ext.pyx:32:8: 'ff.pxd' not found 2025-09-08T09:19:28,796 Error compiling Cython file: 2025-09-08T09:19:28,796 ------------------------------------------------------------ 2025-09-08T09:19:28,796 ... 2025-09-08T09:19:28,796 import numpy as np 2025-09-08T09:19:28,796 cimport numpy as np 2025-09-08T09:19:28,797 cimport ff 2025-09-08T09:19:28,797 cimport graphs 2025-09-08T09:19:28,797 ^ 2025-09-08T09:19:28,797 ------------------------------------------------------------ 2025-09-08T09:19:28,797 molmod/ext.pyx:33:8: 'graphs.pxd' not found 2025-09-08T09:19:28,826 Error compiling Cython file: 2025-09-08T09:19:28,826 ------------------------------------------------------------ 2025-09-08T09:19:28,826 ... 2025-09-08T09:19:28,826 import numpy as np 2025-09-08T09:19:28,826 cimport numpy as np 2025-09-08T09:19:28,827 cimport ff 2025-09-08T09:19:28,827 cimport graphs 2025-09-08T09:19:28,827 cimport molecules 2025-09-08T09:19:28,827 ^ 2025-09-08T09:19:28,827 ------------------------------------------------------------ 2025-09-08T09:19:28,827 molmod/ext.pyx:34:8: 'molecules.pxd' not found 2025-09-08T09:19:28,856 Error compiling Cython file: 2025-09-08T09:19:28,856 ------------------------------------------------------------ 2025-09-08T09:19:28,856 ... 2025-09-08T09:19:28,857 cimport numpy as np 2025-09-08T09:19:28,857 cimport ff 2025-09-08T09:19:28,857 cimport graphs 2025-09-08T09:19:28,857 cimport molecules 2025-09-08T09:19:28,857 cimport similarity 2025-09-08T09:19:28,857 ^ 2025-09-08T09:19:28,857 ------------------------------------------------------------ 2025-09-08T09:19:28,857 molmod/ext.pyx:35:8: 'similarity.pxd' not found 2025-09-08T09:19:28,886 Error compiling Cython file: 2025-09-08T09:19:28,886 ------------------------------------------------------------ 2025-09-08T09:19:28,886 ... 2025-09-08T09:19:28,887 cimport ff 2025-09-08T09:19:28,887 cimport graphs 2025-09-08T09:19:28,887 cimport molecules 2025-09-08T09:19:28,887 cimport similarity 2025-09-08T09:19:28,887 cimport unit_cells 2025-09-08T09:19:28,887 ^ 2025-09-08T09:19:28,887 ------------------------------------------------------------ 2025-09-08T09:19:28,887 molmod/ext.pyx:36:8: 'unit_cells.pxd' not found 2025-09-08T09:19:29,395 Error compiling Cython file: 2025-09-08T09:19:29,395 ------------------------------------------------------------ 2025-09-08T09:19:29,395 ... 2025-09-08T09:19:29,395 if matrix is not None and matrix.shape[0] != 3 and matrix.shape[1] != 3: 2025-09-08T09:19:29,395 raise TypeError('matrix must be an array with shape (3, 3)') 2025-09-08T09:19:29,395 if reciprocal is not None and reciprocal.shape[0] != 3 and reciprocal.shape[1] != 3: 2025-09-08T09:19:29,396 raise TypeError('reciprocal must be an array with shape (3, 3)') 2025-09-08T09:19:29,396 if matrix is None: 2025-09-08T09:19:29,396 return ff.ff_dm_quad( 2025-09-08T09:19:29,396 ^ 2025-09-08T09:19:29,396 ------------------------------------------------------------ 2025-09-08T09:19:29,396 molmod/ext.pyx:62:17: cimported module has no attribute 'ff_dm_quad' 2025-09-08T09:19:29,396 Error compiling Cython file: 2025-09-08T09:19:29,396 ------------------------------------------------------------ 2025-09-08T09:19:29,396 ... 2025-09-08T09:19:29,397 raise TypeError('matrix must be an array with shape (3, 3)') 2025-09-08T09:19:29,397 if reciprocal is not None and reciprocal.shape[0] != 3 and reciprocal.shape[1] != 3: 2025-09-08T09:19:29,397 raise TypeError('reciprocal must be an array with shape (3, 3)') 2025-09-08T09:19:29,397 if matrix is None: 2025-09-08T09:19:29,397 return ff.ff_dm_quad( 2025-09-08T09:19:29,397 natom, long(matrix is not None), &cor[0, 0], &dm0[0, 0], &dmk[0, 0], amp, 2025-09-08T09:19:29,397 ^ 2025-09-08T09:19:29,397 ------------------------------------------------------------ 2025-09-08T09:19:29,397 molmod/ext.pyx:63:19: undeclared name not builtin: long 2025-09-08T09:19:29,398 Error compiling Cython file: 2025-09-08T09:19:29,398 ------------------------------------------------------------ 2025-09-08T09:19:29,398 ... 2025-09-08T09:19:29,398 if matrix is None: 2025-09-08T09:19:29,398 return ff.ff_dm_quad( 2025-09-08T09:19:29,398 natom, long(matrix is not None), &cor[0, 0], &dm0[0, 0], &dmk[0, 0], amp, 2025-09-08T09:19:29,398 &gradient[0, 0], NULL, NULL) 2025-09-08T09:19:29,398 else: 2025-09-08T09:19:29,398 return ff.ff_dm_quad( 2025-09-08T09:19:29,398 ^ 2025-09-08T09:19:29,398 ------------------------------------------------------------ 2025-09-08T09:19:29,399 molmod/ext.pyx:66:17: cimported module has no attribute 'ff_dm_quad' 2025-09-08T09:19:29,405 Error compiling Cython file: 2025-09-08T09:19:29,405 ------------------------------------------------------------ 2025-09-08T09:19:29,405 ... 2025-09-08T09:19:29,405 if matrix is not None and matrix.shape[0] != 3 and matrix.shape[1] != 3: 2025-09-08T09:19:29,405 raise TypeError('matrix must be an array with shape (3, 3)') 2025-09-08T09:19:29,405 if reciprocal is not None and reciprocal.shape[0] != 3 and reciprocal.shape[1] != 3: 2025-09-08T09:19:29,405 raise TypeError('reciprocal must be an array with shape (3, 3)') 2025-09-08T09:19:29,406 if matrix is None: 2025-09-08T09:19:29,406 return ff.ff_dm_reci( 2025-09-08T09:19:29,406 ^ 2025-09-08T09:19:29,406 ------------------------------------------------------------ 2025-09-08T09:19:29,406 molmod/ext.pyx:90:17: cimported module has no attribute 'ff_dm_reci' 2025-09-08T09:19:29,406 Error compiling Cython file: 2025-09-08T09:19:29,406 ------------------------------------------------------------ 2025-09-08T09:19:29,406 ... 2025-09-08T09:19:29,406 if matrix is None: 2025-09-08T09:19:29,407 return ff.ff_dm_reci( 2025-09-08T09:19:29,407 natom, long(matrix is not None), &cor[0, 0], &radii[0], &dm0[0, 0], amp, 2025-09-08T09:19:29,407 &gradient[0, 0], NULL, NULL) 2025-09-08T09:19:29,407 else: 2025-09-08T09:19:29,407 return ff.ff_dm_reci( 2025-09-08T09:19:29,407 ^ 2025-09-08T09:19:29,407 ------------------------------------------------------------ 2025-09-08T09:19:29,407 molmod/ext.pyx:94:17: cimported module has no attribute 'ff_dm_reci' 2025-09-08T09:19:29,425 Error compiling Cython file: 2025-09-08T09:19:29,425 ------------------------------------------------------------ 2025-09-08T09:19:29,425 ... 2025-09-08T09:19:29,425 if matrix is not None and matrix.shape[0] != 3 and matrix.shape[1] != 3: 2025-09-08T09:19:29,425 raise TypeError('matrix must be an array with shape (3, 3)') 2025-09-08T09:19:29,426 if reciprocal is not None and reciprocal.shape[0] != 3 and reciprocal.shape[1] != 3: 2025-09-08T09:19:29,426 raise TypeError('reciprocal must be an array with shape (3, 3)') 2025-09-08T09:19:29,426 if matrix is None: 2025-09-08T09:19:29,426 return ff.ff_bond_quad( 2025-09-08T09:19:29,426 ^ 2025-09-08T09:19:29,426 ------------------------------------------------------------ 2025-09-08T09:19:29,426 molmod/ext.pyx:121:17: cimported module has no attribute 'ff_bond_quad' 2025-09-08T09:19:29,426 Error compiling Cython file: 2025-09-08T09:19:29,426 ------------------------------------------------------------ 2025-09-08T09:19:29,427 ... 2025-09-08T09:19:29,427 if matrix is None: 2025-09-08T09:19:29,427 return ff.ff_bond_quad( 2025-09-08T09:19:29,427 npair, long(matrix is not None), &cor[0, 0], &pairs[0, 0], &lengths[0], amp, 2025-09-08T09:19:29,427 &gradient[0, 0], NULL, NULL) 2025-09-08T09:19:29,427 else: 2025-09-08T09:19:29,427 return ff.ff_bond_quad( 2025-09-08T09:19:29,427 ^ 2025-09-08T09:19:29,427 ------------------------------------------------------------ 2025-09-08T09:19:29,427 molmod/ext.pyx:125:17: cimported module has no attribute 'ff_bond_quad' 2025-09-08T09:19:29,434 Error compiling Cython file: 2025-09-08T09:19:29,434 ------------------------------------------------------------ 2025-09-08T09:19:29,434 ... 2025-09-08T09:19:29,434 if matrix is not None and matrix.shape[0] != 3 and matrix.shape[1] != 3: 2025-09-08T09:19:29,435 raise TypeError('matrix must be an array with shape (3, 3)') 2025-09-08T09:19:29,435 if reciprocal is not None and reciprocal.shape[0] != 3 and reciprocal.shape[1] != 3: 2025-09-08T09:19:29,435 raise TypeError('reciprocal must be an array with shape (3, 3)') 2025-09-08T09:19:29,435 if matrix is None: 2025-09-08T09:19:29,435 return ff.ff_bond_hyper( 2025-09-08T09:19:29,435 ^ 2025-09-08T09:19:29,435 ------------------------------------------------------------ 2025-09-08T09:19:29,435 molmod/ext.pyx:152:17: cimported module has no attribute 'ff_bond_hyper' 2025-09-08T09:19:29,435 Error compiling Cython file: 2025-09-08T09:19:29,436 ------------------------------------------------------------ 2025-09-08T09:19:29,436 ... 2025-09-08T09:19:29,436 if matrix is None: 2025-09-08T09:19:29,436 return ff.ff_bond_hyper( 2025-09-08T09:19:29,436 npair, long(matrix is not None), &cor[0, 0], &pairs[0, 0], &lengths[0], scale, 2025-09-08T09:19:29,436 amp, &gradient[0, 0], NULL, NULL) 2025-09-08T09:19:29,436 else: 2025-09-08T09:19:29,436 return ff.ff_bond_hyper( 2025-09-08T09:19:29,436 ^ 2025-09-08T09:19:29,436 ------------------------------------------------------------ 2025-09-08T09:19:29,436 molmod/ext.pyx:156:17: cimported module has no attribute 'ff_bond_hyper' 2025-09-08T09:19:29,438 Error compiling Cython file: 2025-09-08T09:19:29,438 ------------------------------------------------------------ 2025-09-08T09:19:29,439 ... 2025-09-08T09:19:29,439 def graphs_floyd_warshall(long[:, ::1] dm): 2025-09-08T09:19:29,439 cdef size_t nvertex = dm.shape[0] 2025-09-08T09:19:29,439 if dm.shape[1] != nvertex: 2025-09-08T09:19:29,439 raise TypeError('dm must be a square matrix.') 2025-09-08T09:19:29,439 graphs.graphs_floyd_warshall(nvertex, &dm[0, 0]) 2025-09-08T09:19:29,439 ^ 2025-09-08T09:19:29,439 ------------------------------------------------------------ 2025-09-08T09:19:29,439 molmod/ext.pyx:170:10: cimported module has no attribute 'graphs_floyd_warshall' 2025-09-08T09:19:29,443 Error compiling Cython file: 2025-09-08T09:19:29,443 ------------------------------------------------------------ 2025-09-08T09:19:29,443 ... 2025-09-08T09:19:29,443 raise TypeError('matrix must be an array with shape (3, 3)') 2025-09-08T09:19:29,443 if reciprocal is not None and reciprocal.shape[0] != 3 and reciprocal.shape[1] != 3: 2025-09-08T09:19:29,443 raise TypeError('reciprocal must be an array with shape (3, 3)') 2025-09-08T09:19:29,443 cdef np.ndarray[double, ndim=2] dm = np.zeros((natom, natom), float) 2025-09-08T09:19:29,443 if matrix is None: 2025-09-08T09:19:29,443 molecules.molecules_distance_matrix( 2025-09-08T09:19:29,443 ^ 2025-09-08T09:19:29,444 ------------------------------------------------------------ 2025-09-08T09:19:29,444 molmod/ext.pyx:190:17: cimported module has no attribute 'molecules_distance_matrix' 2025-09-08T09:19:29,444 Error compiling Cython file: 2025-09-08T09:19:29,444 ------------------------------------------------------------ 2025-09-08T09:19:29,444 ... 2025-09-08T09:19:29,444 cdef np.ndarray[double, ndim=2] dm = np.zeros((natom, natom), float) 2025-09-08T09:19:29,444 if matrix is None: 2025-09-08T09:19:29,444 molecules.molecules_distance_matrix( 2025-09-08T09:19:29,444 natom, &cor[0, 0], long(matrix is not None), NULL, NULL, &dm[0, 0]) 2025-09-08T09:19:29,444 else: 2025-09-08T09:19:29,445 molecules.molecules_distance_matrix( 2025-09-08T09:19:29,445 ^ 2025-09-08T09:19:29,445 ------------------------------------------------------------ 2025-09-08T09:19:29,445 molmod/ext.pyx:193:17: cimported module has no attribute 'molecules_distance_matrix' 2025-09-08T09:19:29,447 Error compiling Cython file: 2025-09-08T09:19:29,447 ------------------------------------------------------------ 2025-09-08T09:19:29,447 ... 2025-09-08T09:19:29,447 def similarity_table_labels(const long[::1] labels not None): 2025-09-08T09:19:29,447 cdef size_t n = labels.shape[0] 2025-09-08T09:19:29,448 cdef np.ndarray[long, ndim=2] labels_table = np.zeros(((n*(n-1))//2, 2), dtype=int) 2025-09-08T09:19:29,448 similarity.similarity_table_labels(n, &labels[0], &labels_table[0, 0]) 2025-09-08T09:19:29,448 ^ 2025-09-08T09:19:29,448 ------------------------------------------------------------ 2025-09-08T09:19:29,448 molmod/ext.pyx:207:14: cimported module has no attribute 'similarity_table_labels' 2025-09-08T09:19:29,449 Error compiling Cython file: 2025-09-08T09:19:29,450 ------------------------------------------------------------ 2025-09-08T09:19:29,450 ... 2025-09-08T09:19:29,450 def similarity_table_distances(const double[:, ::1] distance_matrix not None): 2025-09-08T09:19:29,450 cdef size_t n = distance_matrix.shape[0] 2025-09-08T09:19:29,450 if distance_matrix.shape[1] != n: 2025-09-08T09:19:29,450 raise TypeError('distance_matrix must be sqaure') 2025-09-08T09:19:29,450 cdef np.ndarray[double] distances_table = np.zeros(((n*(n-1))//2), dtype=float) 2025-09-08T09:19:29,450 similarity.similarity_table_distances(n, &distance_matrix[0, 0], &distances_table[0]) 2025-09-08T09:19:29,450 ^ 2025-09-08T09:19:29,450 ------------------------------------------------------------ 2025-09-08T09:19:29,451 molmod/ext.pyx:216:14: cimported module has no attribute 'similarity_table_distances' 2025-09-08T09:19:29,453 Error compiling Cython file: 2025-09-08T09:19:29,453 ------------------------------------------------------------ 2025-09-08T09:19:29,453 ... 2025-09-08T09:19:29,453 raise TypeError('labels1 and distances1 must have the same numbers of rows.') 2025-09-08T09:19:29,453 if labels2.shape[1] != 2: 2025-09-08T09:19:29,453 raise TypeError('labels1 must have two columns.') 2025-09-08T09:19:29,453 if distances2.shape[0] != n2: 2025-09-08T09:19:29,453 raise TypeError('labels2 and distances2 must have the same numbers of rows.') 2025-09-08T09:19:29,454 return similarity.similarity_measure(n1, &labels1[0, 0], &distances1[0], 2025-09-08T09:19:29,454 ^ 2025-09-08T09:19:29,454 ------------------------------------------------------------ 2025-09-08T09:19:29,454 molmod/ext.pyx:233:21: cimported module has no attribute 'similarity_measure' 2025-09-08T09:19:29,458 Error compiling Cython file: 2025-09-08T09:19:29,458 ------------------------------------------------------------ 2025-09-08T09:19:29,458 ... 2025-09-08T09:19:29,458 raise ValueError('Radius must be positive.') 2025-09-08T09:19:29,458 if max_ranges.shape[0] != 3: 2025-09-08T09:19:29,458 raise TypeError('max_ranges must have shape (3, ).') 2025-09-08T09:19:29,458 if indexes.shape[1] != 3: 2025-09-08T09:19:29,459 raise TypeError('indexes must have three columns.') 2025-09-08T09:19:29,459 return unit_cells.unit_cell_get_radius_indexes(&matrix[0, 0], &reciprocal[0, 0], radius, 2025-09-08T09:19:29,459 ^ 2025-09-08T09:19:29,459 ------------------------------------------------------------ 2025-09-08T09:19:29,459 molmod/ext.pyx:257:21: cimported module has no attribute 'unit_cell_get_radius_indexes' 2025-09-08T09:19:30,306 Traceback (most recent call last): 2025-09-08T09:19:30,314 File "", line 2, in 2025-09-08T09:19:30,314 exec(compile(''' 2025-09-08T09:19:30,314 ~~~~^^^^^^^^^^^^ 2025-09-08T09:19:30,314 # This is -- a caller that pip uses to run setup.py 2025-09-08T09:19:30,314 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T09:19:30,315 ...<32 lines>... 2025-09-08T09:19:30,315 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T09:19:30,315 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T09:19:30,315 ''' % ('/tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/setup.py',), "", "exec")) 2025-09-08T09:19:30,315 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T09:19:30,315 File "", line 35, in 2025-09-08T09:19:30,315 File "/tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/setup.py", line 73, in 2025-09-08T09:19:30,315 setup( 2025-09-08T09:19:30,316 ~~~~~^ 2025-09-08T09:19:30,316 name='molmod', 2025-09-08T09:19:30,316 ^^^^^^^^^^^^^^ 2025-09-08T09:19:30,316 ...<32 lines>... 2025-09-08T09:19:30,316 ], 2025-09-08T09:19:30,316 ^^ 2025-09-08T09:19:30,316 ) 2025-09-08T09:19:30,316 ^ 2025-09-08T09:19:30,316 File "/usr/local/lib/python3.13/dist-packages/setuptools/__init__.py", line 115, in setup 2025-09-08T09:19:30,316 return distutils.core.setup(**attrs) 2025-09-08T09:19:30,317 ~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:19:30,317 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 186, in setup 2025-09-08T09:19:30,317 return run_commands(dist) 2025-09-08T09:19:30,317 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 202, in run_commands 2025-09-08T09:19:30,317 dist.run_commands() 2025-09-08T09:19:30,317 ~~~~~~~~~~~~~~~~~^^ 2025-09-08T09:19:30,317 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1002, in run_commands 2025-09-08T09:19:30,317 self.run_command(cmd) 2025-09-08T09:19:30,317 ~~~~~~~~~~~~~~~~^^^^^ 2025-09-08T09:19:30,318 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-08T09:19:30,318 super().run_command(command) 2025-09-08T09:19:30,318 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:19:30,318 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-08T09:19:30,318 cmd_obj.run() 2025-09-08T09:19:30,318 ~~~~~~~~~~~^^ 2025-09-08T09:19:30,318 File "/usr/local/lib/python3.13/dist-packages/setuptools/command/bdist_wheel.py", line 370, in run 2025-09-08T09:19:30,318 self.run_command("build") 2025-09-08T09:19:30,318 ~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:19:30,318 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command 2025-09-08T09:19:30,319 self.distribution.run_command(command) 2025-09-08T09:19:30,319 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:19:30,319 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-08T09:19:30,319 super().run_command(command) 2025-09-08T09:19:30,319 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:19:30,319 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-08T09:19:30,319 cmd_obj.run() 2025-09-08T09:19:30,319 ~~~~~~~~~~~^^ 2025-09-08T09:19:30,319 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build.py", line 135, in run 2025-09-08T09:19:30,320 self.run_command(cmd_name) 2025-09-08T09:19:30,320 ~~~~~~~~~~~~~~~~^^^^^^^^^^ 2025-09-08T09:19:30,320 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command 2025-09-08T09:19:30,320 self.distribution.run_command(command) 2025-09-08T09:19:30,320 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:19:30,320 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-08T09:19:30,320 super().run_command(command) 2025-09-08T09:19:30,320 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-08T09:19:30,320 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-08T09:19:30,321 cmd_obj.run() 2025-09-08T09:19:30,321 ~~~~~~~~~~~^^ 2025-09-08T09:19:30,321 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build_ext.py", line 368, in run 2025-09-08T09:19:30,321 self.build_extensions() 2025-09-08T09:19:30,321 ~~~~~~~~~~~~~~~~~~~~~^^ 2025-09-08T09:19:30,321 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build_ext.py", line 484, in build_extensions 2025-09-08T09:19:30,321 self._build_extensions_serial() 2025-09-08T09:19:30,321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^ 2025-09-08T09:19:30,322 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build_ext.py", line 510, in _build_extensions_serial 2025-09-08T09:19:30,322 self.build_extension(ext) 2025-09-08T09:19:30,322 ~~~~~~~~~~~~~~~~~~~~^^^^^ 2025-09-08T09:19:30,322 File "/usr/local/lib/python3.13/dist-packages/Cython/Distutils/build_ext.py", line 131, in build_extension 2025-09-08T09:19:30,322 new_ext = cythonize( 2025-09-08T09:19:30,322 ~~~~~~~~~^ 2025-09-08T09:19:30,322 ext,force=self.force, quiet=self.verbose == 0, **options 2025-09-08T09:19:30,322 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-08T09:19:30,322 )[0] 2025-09-08T09:19:30,322 ^ 2025-09-08T09:19:30,323 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1154, in cythonize 2025-09-08T09:19:30,323 cythonize_one(*args) 2025-09-08T09:19:30,323 ~~~~~~~~~~~~~^^^^^^^ 2025-09-08T09:19:30,323 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1298, in cythonize_one 2025-09-08T09:19:30,323 raise CompileError(None, pyx_file) 2025-09-08T09:19:30,323 Cython.Compiler.Errors.CompileError: molmod/ext.pyx 2025-09-08T09:19:30,841 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T09:19:30,853 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T09:19:30,853 exec(compile('"'"''"'"''"'"' 2025-09-08T09:19:30,853 # This is -- a caller that pip uses to run setup.py 2025-09-08T09:19:30,853 # 2025-09-08T09:19:30,853 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T09:19:30,853 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T09:19:30,853 # - It provides a clear error message when setuptools is not installed. 2025-09-08T09:19:30,853 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T09:19:30,853 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T09:19:30,853 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T09:19:30,853 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T09:19:30,853 import os, sys, tokenize, traceback 2025-09-08T09:19:30,853 2025-09-08T09:19:30,853 try: 2025-09-08T09:19:30,853 import setuptools 2025-09-08T09:19:30,853 except ImportError: 2025-09-08T09:19:30,853 print( 2025-09-08T09:19:30,853 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T09:19:30,853 "the build environment with exception:", 2025-09-08T09:19:30,853 file=sys.stderr, 2025-09-08T09:19:30,853 ) 2025-09-08T09:19:30,853 traceback.print_exc() 2025-09-08T09:19:30,853 sys.exit(1) 2025-09-08T09:19:30,853 2025-09-08T09:19:30,853 __file__ = %r 2025-09-08T09:19:30,853 sys.argv[0] = __file__ 2025-09-08T09:19:30,853 2025-09-08T09:19:30,853 if os.path.exists(__file__): 2025-09-08T09:19:30,853 filename = __file__ 2025-09-08T09:19:30,853 with tokenize.open(__file__) as f: 2025-09-08T09:19:30,853 setup_py_code = f.read() 2025-09-08T09:19:30,853 else: 2025-09-08T09:19:30,853 filename = "" 2025-09-08T09:19:30,853 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T09:19:30,853 2025-09-08T09:19:30,853 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T09:19:30,853 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-gg2xesbs[/] 2025-09-08T09:19:30,854 [bold magenta]cwd[/]: /tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/ 2025-09-08T09:19:30,854 Building wheel for molmod (setup.py): finished with status 'error' 2025-09-08T09:19:30,855 ERROR: Failed building wheel for molmod 2025-09-08T09:19:30,855 Running setup.py clean for molmod 2025-09-08T09:19:30,856 Running command python setup.py clean 2025-09-08T09:19:31,773 Trying to get the version from git describe 2025-09-08T09:19:31,778 fatal: not a git repository (or any parent up to mount point /) 2025-09-08T09:19:31,778 Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). 2025-09-08T09:19:31,779 Trying to get the version from {} /tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/molmod/version.py 2025-09-08T09:19:31,779 Version according to /tmp/pip-wheel-_uj8y1gm/molmod_df66cb9021f140ee9e9191bc251f4671/molmod/version.py: 1.4.2 2025-09-08T09:19:31,900 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-08T09:19:31,900 !! 2025-09-08T09:19:31,900 ******************************************************************************** 2025-09-08T09:19:31,901 Requirements should be satisfied by a PEP 517 installer. 2025-09-08T09:19:31,901 If you are using pip, you can try `pip install --use-pep517`. 2025-09-08T09:19:31,901 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-08T09:19:31,901 or your builds will no longer be supported. 2025-09-08T09:19:31,901 ******************************************************************************** 2025-09-08T09:19:31,901 !! 2025-09-08T09:19:31,901 dist.fetch_build_eggs(dist.setup_requires) 2025-09-08T09:19:32,226 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-08T09:19:32,227 !! 2025-09-08T09:19:32,227 ******************************************************************************** 2025-09-08T09:19:32,227 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-08T09:19:32,227 License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+) 2025-09-08T09:19:32,227 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-08T09:19:32,227 ******************************************************************************** 2025-09-08T09:19:32,227 !! 2025-09-08T09:19:32,228 self._finalize_license_expression() 2025-09-08T09:19:32,301 running clean 2025-09-08T09:19:32,510 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-08T09:19:32,519 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T09:19:32,519 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T09:19:32,519 removing 'build' 2025-09-08T09:19:32,659 Failed to build molmod 2025-09-08T09:19:32,660 ERROR: Failed to build one or more wheels 2025-09-08T09:19:32,660 Exception information: 2025-09-08T09:19:32,660 Traceback (most recent call last): 2025-09-08T09:19:32,660 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T09:19:32,660 status = _inner_run() 2025-09-08T09:19:32,660 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T09:19:32,660 return self.run(options, args) 2025-09-08T09:19:32,660 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T09:19:32,660 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T09:19:32,660 return func(self, options, args) 2025-09-08T09:19:32,660 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T09:19:32,660 raise CommandError("Failed to build one or more wheels") 2025-09-08T09:19:32,660 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T09:19:32,665 Removed build tracker: '/tmp/pip-build-tracker-bucj65tq'