2025-09-05T18:22:45,681 Created temporary directory: /tmp/pip-build-tracker-jtma1vfy 2025-09-05T18:22:45,682 Initialized build tracking at /tmp/pip-build-tracker-jtma1vfy 2025-09-05T18:22:45,682 Created build tracker: /tmp/pip-build-tracker-jtma1vfy 2025-09-05T18:22:45,682 Entered build tracker: /tmp/pip-build-tracker-jtma1vfy 2025-09-05T18:22:45,682 Created temporary directory: /tmp/pip-wheel-aax9yafu 2025-09-05T18:22:45,685 Created temporary directory: /tmp/pip-ephem-wheel-cache-kszngxa_ 2025-09-05T18:22:45,743 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-05T18:22:45,745 2 location(s) to search for versions of biopython: 2025-09-05T18:22:45,745 * https://pypi.org/simple/biopython/ 2025-09-05T18:22:45,745 * https://www.piwheels.org/simple/biopython/ 2025-09-05T18:22:45,745 Fetching project page and analyzing links: https://pypi.org/simple/biopython/ 2025-09-05T18:22:45,746 Getting page https://pypi.org/simple/biopython/ 2025-09-05T18:22:45,747 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2025-09-05T18:22:45,991 Found link https://files.pythonhosted.org/packages/55/43/475388b2c27d7b1ae56cf7c7ff14e987ef7b41c2ebf78842493aad6799ac/biopython-1.71.tar.gz (from https://pypi.org/simple/biopython/), version: 1.71 2025-09-05T18:22:45,991 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/b3/a2/db0c332584cee4ab3438e2316be6e8b65785e202b41e44fc9af2452d0965/biopython-1.72-cp27-cp27m-macosx_10_6_intel.macosx_10_9_intel.macosx_10_9_x86_64.macosx_10_10_intel.macosx_10_10_x86_64.whl (from https://pypi.org/simple/biopython/) 2025-09-05T18:22:45,992 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/d8/0b/9bdcc0b19b6933cab67b2c3ac618470b5b14f72f0c1c5c4f2f8b68512723/biopython-1.72-cp27-cp27m-manylinux1_i686.whl (from https://pypi.org/simple/biopython/) 2025-09-05T18:22:45,992 Skipping link: No binaries permitted for biopython: 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2025-09-05T18:22:45,998 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/f0/6f/388e730f61ca76dbc89885e102d6105124151c3291e8ac0a08be51410afd/biopython-1.73-cp37-cp37m-macosx_10_6_intel.macosx_10_9_intel.macosx_10_9_x86_64.macosx_10_10_intel.macosx_10_10_x86_64.whl (from https://pypi.org/simple/biopython/) 2025-09-05T18:22:45,998 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/d7/1f/9465253f01c77626a390814b239d1c4a8aed1c21f8cd5e6e5f439b6a92a4/biopython-1.73-cp37-cp37m-manylinux1_i686.whl (from https://pypi.org/simple/biopython/) 2025-09-05T18:22:45,998 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/d0/5d/8aedf28541f4936707d78997ebe6d9e25935ae6df6b8f7a045ce294df664/biopython-1.73-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/biopython/) 2025-09-05T18:22:45,998 Skipping link: No binaries permitted for biopython: 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https://files.pythonhosted.org/packages/93/a5/75876009dec8338a53f492a3ac501e94473ef579ffdf6694579469a93689/biopython-1.78-cp39-cp39-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,015 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/dc/fd/a5072d95fe4031e7c79a9bc91570670ae0991458b591bd66fc0bc23a2aeb/biopython-1.78-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,016 Found link https://files.pythonhosted.org/packages/89/c5/7fe326081276f74a4073f6d6b13cfa7a04ba322a3ff1d84027f4773980b8/biopython-1.78.tar.gz (from https://pypi.org/simple/biopython/) (requires-python:>=3.6), version: 1.78 2025-09-05T18:22:46,016 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/c9/e4/c16225bd0e97de886b4a8a5f1f032b1a8063cc83e151f9b2189f3c81ffa7/biopython-1.79-cp310-cp310-macosx_10_9_x86_64.whl (from 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binaries permitted for biopython: https://files.pythonhosted.org/packages/7a/4a/1c25dd77f9148a58243dfa7dcad92d6faa913d211e54df337394ffd4422f/biopython-1.79-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,017 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/b6/a6/6e73bfa0a297b9884a029d224a8841b44b8dec35f17ceb1ef279d2a7dc76/biopython-1.79-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,017 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/a2/46/b058c3372419edbea9ff0dad9a4ab7a359b360c8d356250326a9015b3c7d/biopython-1.79-cp311-cp311-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,017 Skipping link: No binaries permitted for biopython: 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https://files.pythonhosted.org/packages/9c/61/dd680f0bada56f1bd4e022e98be912629e66af8994d1874299cc76932ebf/biopython-1.79-cp38-cp38-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,020 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/3d/35/1584ea3e2067655d36f2e98b84704dcad2e91a52a7237fa2598c5cd8b485/biopython-1.79-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,020 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/32/d1/acb7461d41e404232c01ed8762c3807e195d7827787d854d750084dc095e/biopython-1.79-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,020 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/54/8c/275afd0b51d49ade65939de7b2ba40e8c4a37a63466bedf8d16aeb39ed4e/biopython-1.79-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,021 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/e6/e8/730466bd37501619ef0b55b10e98e007ce311e719dbe9c53fcf2b6f43579/biopython-1.79-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,021 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/22/cf/28a0e54dbef63ea356fbecc5c3256be3232fb4bb0a8575e0960aa56dfa09/biopython-1.79-cp39-cp39-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,021 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/c2/14/b1f15781c6ba3597fad6002c1a4999daea32c5fddc05a9ecb315e1fbb0d0/biopython-1.79-cp39-cp39-manylinux_2_5_i686.manylinux1_i686.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,021 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/10/4f/1369f4a2840fdd37402935a59455f0c86a5abfcfdfae37365d8be925661c/biopython-1.79-cp39-cp39-manylinux_2_5_x86_64.manylinux1_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,021 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/0b/33/3a6ab331068d831efaafaf056a192268c4f9ee9805d10101bc4e9462a929/biopython-1.79-cp39-cp39-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,021 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/60/da/c67fef644a92c2e44743ad8c3f0321b140e226f2b55112f066a9415c9d91/biopython-1.79-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.6) 2025-09-05T18:22:46,022 Found link https://files.pythonhosted.org/packages/28/73/4d61169ce1f15c65ea49af89e534b2089375a44b608cb65062b58ff414de/biopython-1.79.tar.gz (from https://pypi.org/simple/biopython/) (requires-python:>=3.6), version: 1.79 2025-09-05T18:22:46,022 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/e4/f9/0a85df7917f6cd87d69983a10fc6dcdd090226ff71a15a7b086edea2acd7/biopython-1.80-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,022 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/66/ab/51ef468219008623e96202055949d0e8bb018bb12f5cbdc4f8da34d34765/biopython-1.80-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,022 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/6e/f2/ef58012529de1d3ea401bd3dfa87c5e5c9fb05aa611519ccc18ce6b17ce3/biopython-1.80-cp310-cp310-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,022 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/06/ed/6fbab8be0b4868f5105d76f3ab8b202c1bffd23d43cd422ba485af374b71/biopython-1.80-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,022 Skipping link: No binaries permitted for biopython: 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https://files.pythonhosted.org/packages/33/5b/051faf29644418361adb87a424a7bf1e41f0b69d01c27514bc470b87f006/biopython-1.80-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,024 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/3c/1b/28a4c28e9e8fdfa88c7d9feacef5f2af85fe6a2d5fc81fe30f7d227793b5/biopython-1.80-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,024 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/62/06/8236a2f5950fc4a9e74657011e618b50916e29a0645d99881511294497a8/biopython-1.80-cp38-cp38-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,024 Skipping link: No binaries permitted for biopython: 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https://files.pythonhosted.org/packages/e9/b3/d5703920ae7f9ff0458a3cf75cd5db271b9a8096fad492177621827f975b/biopython-1.80-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,025 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/56/38/b815307b7860c1020bd71745be6c5d975f389a5f81000c426c915a16b481/biopython-1.80-cp39-cp39-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,025 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/db/42/674f81acc0fee8cafd67a4692ffb04c341125b1a09537e0791e6a86efabd/biopython-1.80-cp39-cp39-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,025 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/2e/f4/c45a5a00036f7bd147270a8bda3925a30cf947b09f9598e44919e0b2b17c/biopython-1.80-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,025 Found link https://files.pythonhosted.org/packages/cb/8d/7cd217252797f7088847d667101b490df5644f0ff5202441e444b2b620ba/biopython-1.80.tar.gz (from https://pypi.org/simple/biopython/) (requires-python:>=3.7), version: 1.80 2025-09-05T18:22:46,026 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/e0/c6/bec6fbc01dfa4157b51c2e3a3c6f253caceac61054c282444106764e9595/biopython-1.81-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,026 Skipping link: No binaries permitted for biopython: 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https://files.pythonhosted.org/packages/23/df/eb9622a9bc3ef1af460e174af547dcf84200fc6a275e381ac274b57914e2/biopython-1.81-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,029 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/c7/f9/b617b085d3d54a44adebb611d54dad7a65ce9d215882f0a63d798cdf47a8/biopython-1.81-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,029 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/3d/99/be029ebd012340c32d16a2ebbadc6149c6192e5b359b0072a5f394e3a003/biopython-1.81-cp39-cp39-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,029 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/1c/db/10d3c1455692119c90999dab0fa63e234be314805cd61e4cd6efee933b98/biopython-1.81-cp39-cp39-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,029 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/b7/1e/5fcdf870beec4591d79c82d691de22a2ea742abf282390d4bb386e89dbdb/biopython-1.81-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.7) 2025-09-05T18:22:46,029 Found link https://files.pythonhosted.org/packages/ad/a4/237edd5f5e5b68d9543c79bcd695ef881e6317fbd0eae1b1e53e694f9d54/biopython-1.81.tar.gz (from https://pypi.org/simple/biopython/) (requires-python:>=3.7), version: 1.81 2025-09-05T18:22:46,030 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/e7/05/55501bf2052caf26039d50ad1678b82d7e08260925298f34f8c4cc24967a/biopython-1.82-cp310-cp310-macosx_10_9_x86_64.whl (from 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binaries permitted for biopython: https://files.pythonhosted.org/packages/a9/f9/83eb07c14e77d19a27def66f58a3d99b1b580814260b45107a81620876b1/biopython-1.82-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,030 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/f3/43/eb145b22b99ef2ed1cdf5a1a41423017962ff34adc74ec93fe4155272b7b/biopython-1.82-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,031 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/36/61/629f9cec5952bd10eae92fda4ffea6cf75a8ac078492b65027dc53602ce9/biopython-1.82-cp311-cp311-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,031 Skipping link: No binaries permitted for biopython: 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https://files.pythonhosted.org/packages/aa/2c/6a38636d8cf2514ad87d7a85e3d6839918e37c3f87071f2e87d95f9e15ab/biopython-1.82-cp312-cp312-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,031 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/b6/fa/178d8b7788cd3441edac708168fbf34308eeccd441599f11ae106cdf7aff/biopython-1.82-cp312-cp312-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,031 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/4b/7e/2655436cd99db0e7ae9c71bc38be46f3f8cb532c71c0b830484a2a827c44/biopython-1.82-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,032 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/01/72/06a3777cdd96ee53858aa63d4223f185af526e61fb917ba7beedf7896e0c/biopython-1.82-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,032 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/29/26/eb97963b1f80f1e6b1548d85e727f9a2ebb770bad4a890658aad702ae044/biopython-1.82-cp38-cp38-manylinux_2_5_i686.manylinux1_i686.manylinux_2_17_i686.manylinux2014_i686.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,032 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/9f/44/73fa9d1fa22711944ecd489f111f534ec52998ed7537ca022e0ff35e7c40/biopython-1.82-cp38-cp38-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,032 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/fb/ae/26ecc9eb04de7231891e81c08fc1111fac4cd305f34d9162b71e5f4bdde4/biopython-1.82-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,032 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/eb/bf/9dd7753fb10197eb524ec13977c97889edc96c91d6814486d1156b242542/biopython-1.82-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,032 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/fb/6b/4f3c5e877e5ac4b4c4cf409e3afd47c4a1533e8807299b6a240ba8baea4d/biopython-1.82-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,032 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/41/36/c9820ca03e9a4aaa05caefa5f92162ff733b8a918ed03649fe7c6d8c54dd/biopython-1.82-cp39-cp39-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,033 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/22/7f/461f14cb0a66b272b82a8683b4448161832323133186384b69644cd418fa/biopython-1.82-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,033 Found link https://files.pythonhosted.org/packages/23/7d/55b8dc4a01bc951b3f6d60acd4eb4617aa22cc5a0d27037972f02e5d3844/biopython-1.82.tar.gz (from https://pypi.org/simple/biopython/) (requires-python:>=3.8), version: 1.82 2025-09-05T18:22:46,033 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/f3/72/121580953f63a20870d7e6ce1bd0bb86fb916b034870189b61cbc8f6e096/biopython-1.83-cp310-cp310-macosx_10_9_x86_64.whl (from 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link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/0c/09/4b5ad1d3f08c040ad4809e937d4d469eebb05f93a4fb7a85a9e7e40ccde8/biopython-1.83-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,034 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/44/a1/53fdaf58f677a54dca2cf23d4a6dafc3c55478416f602738308fda2a107f/biopython-1.83-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,034 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/7e/40/0543d137e4a45b0e5d3a7c5ce9b607e687d9e5b715eadfdae34de8d6906a/biopython-1.83-cp311-cp311-macosx_11_0_arm64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,034 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/2a/38/3b971995c8bb2fad0b9809a61c8099fb1b2e579236e4c94fb0797825e171/biopython-1.83-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,034 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/f1/91/0759c7476a157887d68a1b286de4f1a7ec387cabdbf022e78d6c9a1010a9/biopython-1.83-cp311-cp311-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,035 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/b8/c8/18570a63e8b6fe99a856698d500fb326f0ce247d2b70d8d631d4abcb5c9c/biopython-1.83-cp311-cp311-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,035 Skipping link: No binaries permitted for biopython: 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https://files.pythonhosted.org/packages/61/55/4e60b4b75520761ce78fe685a0a4fd18488e8fdaf5230328339176ac98ed/biopython-1.83-cp39-cp39-macosx_11_0_arm64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,036 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/30/b0/73fc250af13256c1c1db1edd17f2786fb02dda4c141d809b0d4159c6bbf1/biopython-1.83-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,037 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/98/ed/5a342a9a3fe84a2b7699881331bb6e7296fb6332ec4c0a705ff82c9b8dde/biopython-1.83-cp39-cp39-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,037 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/f1/27/be0ea2b3b5a03976e122376954c3b0f761a5ba55f107ee3b050725bf1c1e/biopython-1.83-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.8) 2025-09-05T18:22:46,037 Found link https://files.pythonhosted.org/packages/cc/d4/3d8848191a7a37187704c382e6dfda4d6a47d05a14cd64f004c55a3cd5a1/biopython-1.83.tar.gz (from https://pypi.org/simple/biopython/) (requires-python:>=3.8), version: 1.83 2025-09-05T18:22:46,037 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/3c/41/9ae8eedc878d0d605e0a0c125f802662ceb9e8d241560b6b719246abab63/biopython-1.84-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,037 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/fb/da/90c7fa24b0369633fff3f17ff42630a7c5afb719262478ccdd8dc028914b/biopython-1.84-cp310-cp310-macosx_11_0_arm64.whl (from 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2025-09-05T18:22:46,038 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/09/4b/ec7b34b767fc77e86d6857152faafca0d395a454ce60baad36f0f95a782b/biopython-1.84-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,038 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/c5/7b/c1e9f66e23b01958ae0284a437a0e586ce20387fc6ea0382c21230ac59bc/biopython-1.84-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,038 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/5f/49/c9ffacca2e26259e28215e0ac599db21adf4070359d2aa9d006f3ecf1051/biopython-1.84-cp311-cp311-macosx_11_0_arm64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,038 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/b4/d6/5aae16c1dd91284a40b769926cd69214ddbb986e710f6d44dbe1f6f20c34/biopython-1.84-cp311-cp311-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,038 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/4c/3c/cecf231afa65e7194ac06ba981631a9870515bb7a37a15cad1ab414325c4/biopython-1.84-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,039 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/0f/6c/3e8f01ddea31eeba4cddaa6dbb37b7978ea0164bd35b783fda9f5be59cc4/biopython-1.84-cp311-cp311-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,039 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/89/38/e45df36e10de29141ba0e5d94bfb942925e62cb6ad182e58b74fa5edcfcc/biopython-1.84-cp311-cp311-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,039 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/f7/f6/a61af0d2c8c04e446bce4727e8124797132858f518b6d6543d0e7213abed/biopython-1.84-cp312-cp312-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,039 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/e9/1a/25c7df41987383070987f7b9842f48d3a33b0a78a85c2ca9d93ed810fa2a/biopython-1.84-cp312-cp312-macosx_11_0_arm64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,039 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/a2/b2/c7f2a0a151208c634ac1eaa5d6345899659b1d5a700a84ef2e4f2b0e80a9/biopython-1.84-cp312-cp312-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,039 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/46/37/7db2bcbb396edba3f767dd89ac23ef5adc35c7a92ef3912c06d1e71469e1/biopython-1.84-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,039 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/b2/12/6c9d73cbb8c9d19ab4187aaf187f967de6e83738947b7180fdd8bc9211a2/biopython-1.84-cp312-cp312-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,039 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/d1/53/91d12cc254a804c797afaefec91ede04bc1f7cbd788a04ebbea9e31ee0cf/biopython-1.84-cp312-cp312-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,040 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/32/ec/9ded80f10708aea56f3d71bed665d2018df4ec829fe4e876196dbb96ae09/biopython-1.84-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,040 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/d6/05/30d008e35c6809b293f5147006647efd322e99f66f4190d87fb3a5e73975/biopython-1.84-cp39-cp39-macosx_11_0_arm64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,040 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/1e/35/6726725c8f4eeb0c1570a9721b1a9aea9e4d839cc3725bfabdee891a0955/biopython-1.84-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,040 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/56/e1/088b5d945df96904c4ef70f46f185fde475724d1de3b73645bc1527ca04e/biopython-1.84-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,040 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/e7/94/bfda8684db1d1db1c918ae3a16649b18e2718d30ff48413d4315cd50c0b9/biopython-1.84-cp39-cp39-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,040 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/85/f3/b5d76b06b869bc047cdfa2db958578e24ccc841efc5797fe2daf302e907f/biopython-1.84-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,041 Found link https://files.pythonhosted.org/packages/9e/7f/eaca4de03f0ee06c9d578d2730fd55858a57cee3620c62d3bc17b5da5447/biopython-1.84.tar.gz (from https://pypi.org/simple/biopython/) (requires-python:>=3.9), version: 1.84 2025-09-05T18:22:46,041 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/79/de/79824470fdc5c2aedeb1bab637d24eab654a7e9fbb7070f779fd944fd1ca/biopython-1.85-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,041 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/4b/d6/3c90df2ebc4f2a522235f4391392253e528f19f5fb6a52396a2316e17064/biopython-1.85-cp310-cp310-macosx_11_0_arm64.whl (from 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2025-09-05T18:22:46,042 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/32/a4/f20d5830dbd8654c13e763daef429fa32ef0b2b09749ac427d045cc81976/biopython-1.85-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,042 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/c3/73/c3a1323a3fe0d07212b09c04fb903e2cbb98aebfbb58e55e8717473e1bc0/biopython-1.85-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,042 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/ff/cf/299524e896fa49beb7588143e1509cce4848572215ebafb8eea83a861820/biopython-1.85-cp311-cp311-macosx_11_0_arm64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,042 Skipping link: No binaries permitted for biopython: 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biopython: https://files.pythonhosted.org/packages/9d/8c/73da6588fab3a7d734118f21ac619c0a949f51d3cf7b1b8343d175c33460/biopython-1.85-cp313-cp313-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,044 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/60/ff/fe8f03ac0ccc7219e0959010750c6ac1a5b1411c91c7f4ec3a37d8313673/biopython-1.85-cp313-cp313-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,045 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/b3/04/9bdf0003913803d3d2239785f0f53875694dd441bd5e1a8c1581cab37747/biopython-1.85-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,045 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/a4/9b/bef7dd17980eb4625c3c69411d3273e9b45d83dc7e2f1c63719607fa1026/biopython-1.85-cp39-cp39-macosx_11_0_arm64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,045 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/94/49/20f55dcfcc5487d84a6a4c84b59bcfb7ae2610f7370847b07e63e0f79cc6/biopython-1.85-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,045 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/80/5a/6ba0066b7f38b9e7a085f2fc4c171a25ebfa64202aab0965961621f561e1/biopython-1.85-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,045 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/90/1d/a38a9a61abd4a917fb9b95698971914d722e75027885bdb957b0fe757cd5/biopython-1.85-cp39-cp39-win32.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,045 Skipping link: No binaries permitted for biopython: https://files.pythonhosted.org/packages/4a/46/9cb732167a3ce4fd40920d1bec444d1739aaf18b58190f2fab8692fcaba5/biopython-1.85-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/biopython/) (requires-python:>=3.9) 2025-09-05T18:22:46,045 Found link https://files.pythonhosted.org/packages/db/ca/1d5fab0fedaf5c2f376d9746d447cdce04241c433602c3861693361ce54c/biopython-1.85.tar.gz (from https://pypi.org/simple/biopython/) (requires-python:>=3.9), version: 1.85 2025-09-05T18:22:46,046 Fetching project page and analyzing links: https://www.piwheels.org/simple/biopython/ 2025-09-05T18:22:46,046 Getting page https://www.piwheels.org/simple/biopython/ 2025-09-05T18:22:46,047 Found index url 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https://archive1.piwheels.org/simple/biopython/biopython-1.59-cp35-cp35m-linux_armv7l.whl#sha256=374351adb4f000e660e7015a6818a58151f716deb195f15914df0652f502e454 (from https://www.piwheels.org/simple/biopython/) 2025-09-05T18:22:46,321 Skipping link: No binaries permitted for biopython: https://archive1.piwheels.org/simple/biopython/biopython-1.59-cp37-cp37m-linux_armv6l.whl#sha256=9c7544fe242e0bb0a08f3deecf2601b1d5f1f5beda01b37ab2f2865f3511fe4c (from https://www.piwheels.org/simple/biopython/) 2025-09-05T18:22:46,321 Skipping link: No binaries permitted for biopython: https://archive1.piwheels.org/simple/biopython/biopython-1.59-cp37-cp37m-linux_armv7l.whl#sha256=9c7544fe242e0bb0a08f3deecf2601b1d5f1f5beda01b37ab2f2865f3511fe4c (from https://www.piwheels.org/simple/biopython/) 2025-09-05T18:22:46,321 Skipping link: No binaries permitted for biopython: 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https://archive1.piwheels.org/simple/biopython/biopython-1.58-cp39-cp39-linux_armv7l.whl#sha256=5dda7d88264a364a76b4e2d5ba4d9e11bdaa48eb771d468954720e522b24f7ae (from https://www.piwheels.org/simple/biopython/) 2025-09-05T18:22:46,322 Skipping link: not a file: https://www.piwheels.org/simple/biopython/ 2025-09-05T18:22:46,322 Skipping link: not a file: https://pypi.org/simple/biopython/ 2025-09-05T18:22:46,349 Given no hashes to check 1 links for project 'biopython': discarding no candidates 2025-09-05T18:22:46,350 Collecting biopython==1.83 2025-09-05T18:22:46,351 Created temporary directory: /tmp/pip-unpack-sus2ln4h 2025-09-05T18:22:46,508 Downloading biopython-1.83.tar.gz (19.4 MB) 2025-09-05T18:22:52,257 Added biopython==1.83 from https://files.pythonhosted.org/packages/cc/d4/3d8848191a7a37187704c382e6dfda4d6a47d05a14cd64f004c55a3cd5a1/biopython-1.83.tar.gz to build tracker '/tmp/pip-build-tracker-jtma1vfy' 2025-09-05T18:22:52,258 Running setup.py (path:/tmp/pip-wheel-aax9yafu/biopython_31fb258823d04220b4285b4dc5cb72f4/setup.py) egg_info for package biopython 2025-09-05T18:22:52,259 Created temporary directory: /tmp/pip-pip-egg-info-z0vk3c8x 2025-09-05T18:22:52,259 Preparing metadata (setup.py): started 2025-09-05T18:22:52,260 Running command python setup.py egg_info 2025-09-05T18:22:53,323 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-05T18:22:53,323 !! 2025-09-05T18:22:53,323 ******************************************************************************** 2025-09-05T18:22:53,323 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-05T18:22:53,324 License :: Freely Distributable 2025-09-05T18:22:53,324 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-05T18:22:53,324 ******************************************************************************** 2025-09-05T18:22:53,324 !! 2025-09-05T18:22:53,324 self._finalize_license_expression() 2025-09-05T18:22:53,395 running egg_info 2025-09-05T18:22:53,467 creating /tmp/pip-pip-egg-info-z0vk3c8x/biopython.egg-info 2025-09-05T18:22:53,467 writing /tmp/pip-pip-egg-info-z0vk3c8x/biopython.egg-info/PKG-INFO 2025-09-05T18:22:53,469 writing dependency_links to /tmp/pip-pip-egg-info-z0vk3c8x/biopython.egg-info/dependency_links.txt 2025-09-05T18:22:53,469 writing requirements to /tmp/pip-pip-egg-info-z0vk3c8x/biopython.egg-info/requires.txt 2025-09-05T18:22:53,469 writing top-level names to /tmp/pip-pip-egg-info-z0vk3c8x/biopython.egg-info/top_level.txt 2025-09-05T18:22:53,470 writing manifest file '/tmp/pip-pip-egg-info-z0vk3c8x/biopython.egg-info/SOURCES.txt' 2025-09-05T18:22:53,794 reading manifest file '/tmp/pip-pip-egg-info-z0vk3c8x/biopython.egg-info/SOURCES.txt' 2025-09-05T18:22:53,795 reading manifest template 'MANIFEST.in' 2025-09-05T18:22:54,021 warning: no previously-included files found matching 'Tests/Gck/DGVC_GCK.zip' 2025-09-05T18:22:54,026 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2025-09-05T18:22:54,030 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2025-09-05T18:22:54,034 warning: no previously-included files matching '*.py{}' found anywhere in distribution 2025-09-05T18:22:54,037 warning: no previously-included files matching '*.py-e' found anywhere in distribution 2025-09-05T18:22:54,051 warning: no previously-included files found matching 'Bio/Align/substitution_matrices/data/README.txt' 2025-09-05T18:22:54,052 adding license file 'LICENSE' 2025-09-05T18:22:54,052 adding license file 'LICENSE.rst' 2025-09-05T18:22:54,111 writing manifest file '/tmp/pip-pip-egg-info-z0vk3c8x/biopython.egg-info/SOURCES.txt' 2025-09-05T18:22:54,226 Preparing metadata (setup.py): finished with status 'done' 2025-09-05T18:22:54,231 Source in /tmp/pip-wheel-aax9yafu/biopython_31fb258823d04220b4285b4dc5cb72f4 has version 1.83, which satisfies requirement biopython==1.83 from https://files.pythonhosted.org/packages/cc/d4/3d8848191a7a37187704c382e6dfda4d6a47d05a14cd64f004c55a3cd5a1/biopython-1.83.tar.gz 2025-09-05T18:22:54,231 Removed biopython==1.83 from https://files.pythonhosted.org/packages/cc/d4/3d8848191a7a37187704c382e6dfda4d6a47d05a14cd64f004c55a3cd5a1/biopython-1.83.tar.gz from build tracker '/tmp/pip-build-tracker-jtma1vfy' 2025-09-05T18:22:54,237 Created temporary directory: /tmp/pip-unpack-yf9jsvpc 2025-09-05T18:22:54,237 Created temporary directory: /tmp/pip-unpack-j3d87xef 2025-09-05T18:22:54,238 Building wheels for collected packages: biopython 2025-09-05T18:22:54,239 Created temporary directory: /tmp/pip-wheel-o5x7ugnx 2025-09-05T18:22:54,239 DEPRECATION: Building 'biopython' 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 'biopython'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-05T18:22:54,240 Building wheel for biopython (setup.py): started 2025-09-05T18:22:54,241 Destination directory: /tmp/pip-wheel-o5x7ugnx 2025-09-05T18:22:54,241 Running command python setup.py bdist_wheel 2025-09-05T18:22:55,333 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-05T18:22:55,333 !! 2025-09-05T18:22:55,334 ******************************************************************************** 2025-09-05T18:22:55,334 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-05T18:22:55,334 License :: Freely Distributable 2025-09-05T18:22:55,334 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-05T18:22:55,334 ******************************************************************************** 2025-09-05T18:22:55,334 !! 2025-09-05T18:22:55,334 self._finalize_license_expression() 2025-09-05T18:22:55,335 running bdist_wheel 2025-09-05T18:22:55,709 running build 2025-09-05T18:22:55,709 running build_py 2025-09-05T18:22:55,788 creating build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,788 copying Bio/pairwise2.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,789 copying Bio/kNN.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,790 copying Bio/bgzf.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,791 copying Bio/_utils.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,791 copying Bio/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,792 copying Bio/SeqRecord.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,792 copying Bio/SeqFeature.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,793 copying Bio/Seq.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,794 copying Bio/NaiveBayes.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,795 copying Bio/MaxEntropy.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,795 copying Bio/MarkovModel.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,796 copying Bio/LogisticRegression.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,797 copying Bio/File.py -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:55,797 creating build/lib.linux-armv7l-cpython-313/Bio/Affy 2025-09-05T18:22:55,798 copying Bio/Affy/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Affy 2025-09-05T18:22:55,798 copying Bio/Affy/CelFile.py -> build/lib.linux-armv7l-cpython-313/Bio/Affy 2025-09-05T18:22:55,799 creating build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,800 copying Bio/Align/tabular.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,800 copying Bio/Align/stockholm.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,801 copying Bio/Align/sam.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,802 copying Bio/Align/psl.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,802 copying Bio/Align/phylip.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,803 copying Bio/Align/nexus.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,803 copying Bio/Align/msf.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,804 copying Bio/Align/mauve.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,804 copying Bio/Align/maf.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,805 copying Bio/Align/interfaces.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,805 copying Bio/Align/hhr.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,806 copying Bio/Align/fasta.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,807 copying Bio/Align/exonerate.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,807 copying Bio/Align/emboss.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,808 copying Bio/Align/clustal.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,808 copying Bio/Align/chain.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,809 copying Bio/Align/bigpsl.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,809 copying Bio/Align/bigmaf.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,810 copying Bio/Align/bigbed.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,811 copying Bio/Align/bed.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,811 copying Bio/Align/analysis.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,812 copying Bio/Align/a2m.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,813 copying Bio/Align/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,814 copying Bio/Align/AlignInfo.py -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:55,815 creating build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,815 copying Bio/Align/Applications/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,816 copying Bio/Align/Applications/_TCoffee.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,816 copying Bio/Align/Applications/_Probcons.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,817 copying Bio/Align/Applications/_Prank.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,817 copying Bio/Align/Applications/_Muscle.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,818 copying Bio/Align/Applications/_Mafft.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,818 copying Bio/Align/Applications/_MSAProbs.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,819 copying Bio/Align/Applications/_Dialign.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,819 copying Bio/Align/Applications/_Clustalw.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,820 copying Bio/Align/Applications/_ClustalOmega.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/Applications 2025-09-05T18:22:55,821 creating build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices 2025-09-05T18:22:55,821 copying Bio/Align/substitution_matrices/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices 2025-09-05T18:22:55,822 creating build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,822 copying Bio/AlignIO/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,823 copying Bio/AlignIO/StockholmIO.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,824 copying Bio/AlignIO/PhylipIO.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,824 copying Bio/AlignIO/NexusIO.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,825 copying Bio/AlignIO/MsfIO.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,825 copying Bio/AlignIO/MauveIO.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,826 copying Bio/AlignIO/MafIO.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,826 copying Bio/AlignIO/Interfaces.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,827 copying Bio/AlignIO/FastaIO.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,827 copying Bio/AlignIO/EmbossIO.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,828 copying Bio/AlignIO/ClustalIO.py -> build/lib.linux-armv7l-cpython-313/Bio/AlignIO 2025-09-05T18:22:55,829 creating build/lib.linux-armv7l-cpython-313/Bio/Alphabet 2025-09-05T18:22:55,829 copying Bio/Alphabet/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Alphabet 2025-09-05T18:22:55,830 creating build/lib.linux-armv7l-cpython-313/Bio/Application 2025-09-05T18:22:55,830 copying Bio/Application/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Application 2025-09-05T18:22:55,831 creating build/lib.linux-armv7l-cpython-313/Bio/Blast 2025-09-05T18:22:55,831 copying Bio/Blast/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Blast 2025-09-05T18:22:55,832 copying Bio/Blast/Record.py -> build/lib.linux-armv7l-cpython-313/Bio/Blast 2025-09-05T18:22:55,832 copying Bio/Blast/NCBIXML.py -> build/lib.linux-armv7l-cpython-313/Bio/Blast 2025-09-05T18:22:55,833 copying Bio/Blast/NCBIWWW.py -> build/lib.linux-armv7l-cpython-313/Bio/Blast 2025-09-05T18:22:55,834 copying Bio/Blast/Applications.py -> build/lib.linux-armv7l-cpython-313/Bio/Blast 2025-09-05T18:22:55,835 creating build/lib.linux-armv7l-cpython-313/Bio/CAPS 2025-09-05T18:22:55,835 copying Bio/CAPS/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/CAPS 2025-09-05T18:22:55,836 creating build/lib.linux-armv7l-cpython-313/Bio/Cluster 2025-09-05T18:22:55,836 copying Bio/Cluster/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Cluster 2025-09-05T18:22:55,837 creating build/lib.linux-armv7l-cpython-313/Bio/codonalign 2025-09-05T18:22:55,837 copying Bio/codonalign/codonseq.py -> build/lib.linux-armv7l-cpython-313/Bio/codonalign 2025-09-05T18:22:55,838 copying Bio/codonalign/codonalignment.py -> build/lib.linux-armv7l-cpython-313/Bio/codonalign 2025-09-05T18:22:55,838 copying Bio/codonalign/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/codonalign 2025-09-05T18:22:55,839 creating build/lib.linux-armv7l-cpython-313/Bio/Compass 2025-09-05T18:22:55,839 copying Bio/Compass/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Compass 2025-09-05T18:22:55,840 creating build/lib.linux-armv7l-cpython-313/Bio/Data 2025-09-05T18:22:55,840 copying Bio/Data/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Data 2025-09-05T18:22:55,841 copying Bio/Data/PDBData.py -> build/lib.linux-armv7l-cpython-313/Bio/Data 2025-09-05T18:22:55,842 copying Bio/Data/IUPACData.py -> build/lib.linux-armv7l-cpython-313/Bio/Data 2025-09-05T18:22:55,842 copying Bio/Data/CodonTable.py -> build/lib.linux-armv7l-cpython-313/Bio/Data 2025-09-05T18:22:55,843 creating build/lib.linux-armv7l-cpython-313/Bio/Emboss 2025-09-05T18:22:55,844 copying Bio/Emboss/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Emboss 2025-09-05T18:22:55,844 copying Bio/Emboss/PrimerSearch.py -> build/lib.linux-armv7l-cpython-313/Bio/Emboss 2025-09-05T18:22:55,845 copying Bio/Emboss/Primer3.py -> build/lib.linux-armv7l-cpython-313/Bio/Emboss 2025-09-05T18:22:55,845 copying Bio/Emboss/Applications.py -> build/lib.linux-armv7l-cpython-313/Bio/Emboss 2025-09-05T18:22:55,846 creating build/lib.linux-armv7l-cpython-313/Bio/Entrez 2025-09-05T18:22:55,846 copying Bio/Entrez/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Entrez 2025-09-05T18:22:55,847 copying Bio/Entrez/Parser.py -> build/lib.linux-armv7l-cpython-313/Bio/Entrez 2025-09-05T18:22:55,848 creating build/lib.linux-armv7l-cpython-313/Bio/ExPASy 2025-09-05T18:22:55,848 copying Bio/ExPASy/cellosaurus.py -> build/lib.linux-armv7l-cpython-313/Bio/ExPASy 2025-09-05T18:22:55,849 copying Bio/ExPASy/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/ExPASy 2025-09-05T18:22:55,849 copying Bio/ExPASy/ScanProsite.py -> build/lib.linux-armv7l-cpython-313/Bio/ExPASy 2025-09-05T18:22:55,850 copying Bio/ExPASy/Prosite.py -> build/lib.linux-armv7l-cpython-313/Bio/ExPASy 2025-09-05T18:22:55,850 copying Bio/ExPASy/Prodoc.py -> build/lib.linux-armv7l-cpython-313/Bio/ExPASy 2025-09-05T18:22:55,851 copying Bio/ExPASy/Enzyme.py -> build/lib.linux-armv7l-cpython-313/Bio/ExPASy 2025-09-05T18:22:55,852 creating build/lib.linux-armv7l-cpython-313/Bio/GenBank 2025-09-05T18:22:55,852 copying Bio/GenBank/utils.py -> build/lib.linux-armv7l-cpython-313/Bio/GenBank 2025-09-05T18:22:55,852 copying Bio/GenBank/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/GenBank 2025-09-05T18:22:55,853 copying Bio/GenBank/Scanner.py -> build/lib.linux-armv7l-cpython-313/Bio/GenBank 2025-09-05T18:22:55,854 copying Bio/GenBank/Record.py -> build/lib.linux-armv7l-cpython-313/Bio/GenBank 2025-09-05T18:22:55,855 creating build/lib.linux-armv7l-cpython-313/Bio/Geo 2025-09-05T18:22:55,855 copying Bio/Geo/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Geo 2025-09-05T18:22:55,856 copying Bio/Geo/Record.py -> build/lib.linux-armv7l-cpython-313/Bio/Geo 2025-09-05T18:22:55,856 creating build/lib.linux-armv7l-cpython-313/Bio/Graphics 2025-09-05T18:22:55,857 copying Bio/Graphics/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics 2025-09-05T18:22:55,857 copying Bio/Graphics/KGML_vis.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics 2025-09-05T18:22:55,858 copying Bio/Graphics/Distribution.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics 2025-09-05T18:22:55,858 copying Bio/Graphics/DisplayRepresentation.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics 2025-09-05T18:22:55,859 copying Bio/Graphics/Comparative.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics 2025-09-05T18:22:55,859 copying Bio/Graphics/ColorSpiral.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics 2025-09-05T18:22:55,860 copying Bio/Graphics/BasicChromosome.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics 2025-09-05T18:22:55,861 creating build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,861 copying Bio/Graphics/GenomeDiagram/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,862 copying Bio/Graphics/GenomeDiagram/_Track.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,862 copying Bio/Graphics/GenomeDiagram/_LinearDrawer.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,863 copying Bio/Graphics/GenomeDiagram/_GraphSet.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,863 copying Bio/Graphics/GenomeDiagram/_Graph.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,864 copying Bio/Graphics/GenomeDiagram/_FeatureSet.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,864 copying Bio/Graphics/GenomeDiagram/_Feature.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,865 copying Bio/Graphics/GenomeDiagram/_Diagram.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,866 copying Bio/Graphics/GenomeDiagram/_CrossLink.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,866 copying Bio/Graphics/GenomeDiagram/_Colors.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,867 copying Bio/Graphics/GenomeDiagram/_CircularDrawer.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,867 copying Bio/Graphics/GenomeDiagram/_AbstractDrawer.py -> build/lib.linux-armv7l-cpython-313/Bio/Graphics/GenomeDiagram 2025-09-05T18:22:55,868 creating build/lib.linux-armv7l-cpython-313/Bio/HMM 2025-09-05T18:22:55,869 copying Bio/HMM/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/HMM 2025-09-05T18:22:55,869 copying Bio/HMM/Utilities.py -> build/lib.linux-armv7l-cpython-313/Bio/HMM 2025-09-05T18:22:55,870 copying Bio/HMM/Trainer.py -> build/lib.linux-armv7l-cpython-313/Bio/HMM 2025-09-05T18:22:55,870 copying Bio/HMM/MarkovModel.py -> build/lib.linux-armv7l-cpython-313/Bio/HMM 2025-09-05T18:22:55,871 copying Bio/HMM/DynamicProgramming.py -> build/lib.linux-armv7l-cpython-313/Bio/HMM 2025-09-05T18:22:55,872 creating build/lib.linux-armv7l-cpython-313/Bio/KEGG 2025-09-05T18:22:55,872 copying Bio/KEGG/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/KEGG 2025-09-05T18:22:55,873 copying Bio/KEGG/REST.py -> build/lib.linux-armv7l-cpython-313/Bio/KEGG 2025-09-05T18:22:55,873 creating build/lib.linux-armv7l-cpython-313/Bio/KEGG/Compound 2025-09-05T18:22:55,874 copying Bio/KEGG/Compound/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/KEGG/Compound 2025-09-05T18:22:55,874 creating build/lib.linux-armv7l-cpython-313/Bio/KEGG/Enzyme 2025-09-05T18:22:55,875 copying Bio/KEGG/Enzyme/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/KEGG/Enzyme 2025-09-05T18:22:55,875 creating build/lib.linux-armv7l-cpython-313/Bio/KEGG/Gene 2025-09-05T18:22:55,876 copying Bio/KEGG/Gene/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/KEGG/Gene 2025-09-05T18:22:55,876 creating build/lib.linux-armv7l-cpython-313/Bio/KEGG/Map 2025-09-05T18:22:55,877 copying Bio/KEGG/Map/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/KEGG/Map 2025-09-05T18:22:55,877 creating build/lib.linux-armv7l-cpython-313/Bio/PDB/mmtf 2025-09-05T18:22:55,878 copying Bio/PDB/mmtf/mmtfio.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB/mmtf 2025-09-05T18:22:55,878 copying Bio/PDB/mmtf/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB/mmtf 2025-09-05T18:22:55,879 copying Bio/PDB/mmtf/DefaultParser.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB/mmtf 2025-09-05T18:22:55,879 creating build/lib.linux-armv7l-cpython-313/Bio/KEGG/KGML 2025-09-05T18:22:55,880 copying Bio/KEGG/KGML/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/KEGG/KGML 2025-09-05T18:22:55,880 copying Bio/KEGG/KGML/KGML_pathway.py -> build/lib.linux-armv7l-cpython-313/Bio/KEGG/KGML 2025-09-05T18:22:55,881 copying Bio/KEGG/KGML/KGML_parser.py -> build/lib.linux-armv7l-cpython-313/Bio/KEGG/KGML 2025-09-05T18:22:55,882 creating build/lib.linux-armv7l-cpython-313/Bio/Medline 2025-09-05T18:22:55,882 copying Bio/Medline/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Medline 2025-09-05T18:22:55,883 creating build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,883 copying Bio/motifs/xms.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,884 copying Bio/motifs/transfac.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,884 copying Bio/motifs/thresholds.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,885 copying Bio/motifs/pfm.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,885 copying Bio/motifs/minimal.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,886 copying Bio/motifs/meme.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,886 copying Bio/motifs/matrix.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,887 copying Bio/motifs/mast.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,887 copying Bio/motifs/clusterbuster.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,888 copying Bio/motifs/alignace.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,888 copying Bio/motifs/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:55,889 creating build/lib.linux-armv7l-cpython-313/Bio/motifs/applications 2025-09-05T18:22:55,890 copying Bio/motifs/applications/_xxmotif.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs/applications 2025-09-05T18:22:55,890 copying Bio/motifs/applications/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs/applications 2025-09-05T18:22:55,891 creating build/lib.linux-armv7l-cpython-313/Bio/motifs/jaspar 2025-09-05T18:22:55,891 copying Bio/motifs/jaspar/db.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs/jaspar 2025-09-05T18:22:55,892 copying Bio/motifs/jaspar/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/motifs/jaspar 2025-09-05T18:22:55,893 creating build/lib.linux-armv7l-cpython-313/Bio/Nexus 2025-09-05T18:22:55,893 copying Bio/Nexus/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Nexus 2025-09-05T18:22:55,893 copying Bio/Nexus/Trees.py -> build/lib.linux-armv7l-cpython-313/Bio/Nexus 2025-09-05T18:22:55,894 copying Bio/Nexus/StandardData.py -> build/lib.linux-armv7l-cpython-313/Bio/Nexus 2025-09-05T18:22:55,895 copying Bio/Nexus/Nodes.py -> build/lib.linux-armv7l-cpython-313/Bio/Nexus 2025-09-05T18:22:55,895 copying Bio/Nexus/Nexus.py -> build/lib.linux-armv7l-cpython-313/Bio/Nexus 2025-09-05T18:22:55,896 creating build/lib.linux-armv7l-cpython-313/Bio/NMR 2025-09-05T18:22:55,896 copying Bio/NMR/xpktools.py -> build/lib.linux-armv7l-cpython-313/Bio/NMR 2025-09-05T18:22:55,897 copying Bio/NMR/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/NMR 2025-09-05T18:22:55,898 copying Bio/NMR/NOEtools.py -> build/lib.linux-armv7l-cpython-313/Bio/NMR 2025-09-05T18:22:55,898 creating build/lib.linux-armv7l-cpython-313/Bio/Pathway 2025-09-05T18:22:55,898 copying Bio/Pathway/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Pathway 2025-09-05T18:22:55,899 creating build/lib.linux-armv7l-cpython-313/Bio/Pathway/Rep 2025-09-05T18:22:55,899 copying Bio/Pathway/Rep/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Pathway/Rep 2025-09-05T18:22:55,900 copying Bio/Pathway/Rep/MultiGraph.py -> build/lib.linux-armv7l-cpython-313/Bio/Pathway/Rep 2025-09-05T18:22:55,901 copying Bio/Pathway/Rep/Graph.py -> build/lib.linux-armv7l-cpython-313/Bio/Pathway/Rep 2025-09-05T18:22:55,902 copying Bio/PDB/vectors.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,903 copying Bio/PDB/qcprot.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,903 copying Bio/PDB/parse_pdb_header.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,904 copying Bio/PDB/mmcifio.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,904 copying Bio/PDB/internal_coords.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,906 copying Bio/PDB/ic_rebuild.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,906 copying Bio/PDB/ic_data.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,907 copying Bio/PDB/cealign.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,908 copying Bio/PDB/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,908 copying Bio/PDB/Superimposer.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,909 copying Bio/PDB/StructureBuilder.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,909 copying Bio/PDB/StructureAlignment.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,910 copying Bio/PDB/Structure.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,910 copying Bio/PDB/Selection.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,911 copying Bio/PDB/SCADIO.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,911 copying Bio/PDB/SASA.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,912 copying Bio/PDB/ResidueDepth.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,913 copying Bio/PDB/Residue.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,913 copying Bio/PDB/Polypeptide.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,914 copying Bio/PDB/PSEA.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,914 copying Bio/PDB/PICIO.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,915 copying Bio/PDB/PDBParser.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,915 copying Bio/PDB/PDBList.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,916 copying Bio/PDB/PDBIO.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,917 copying Bio/PDB/PDBExceptions.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,917 copying Bio/PDB/NeighborSearch.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,918 copying Bio/PDB/NACCESS.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,918 copying Bio/PDB/Model.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,919 copying Bio/PDB/MMCIFParser.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,919 copying Bio/PDB/MMCIF2Dict.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,920 copying Bio/PDB/HSExposure.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,920 copying Bio/PDB/FragmentMapper.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,921 copying Bio/PDB/Entity.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,921 copying Bio/PDB/Dice.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,922 copying Bio/PDB/DSSP.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,922 copying Bio/PDB/Chain.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,923 copying Bio/PDB/Atom.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,924 copying Bio/PDB/AbstractPropertyMap.py -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:55,924 creating build/lib.linux-armv7l-cpython-313/Bio/phenotype 2025-09-05T18:22:55,925 copying Bio/phenotype/pm_fitting.py -> build/lib.linux-armv7l-cpython-313/Bio/phenotype 2025-09-05T18:22:55,925 copying Bio/phenotype/phen_micro.py -> build/lib.linux-armv7l-cpython-313/Bio/phenotype 2025-09-05T18:22:55,926 copying Bio/phenotype/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/phenotype 2025-09-05T18:22:55,926 creating build/lib.linux-armv7l-cpython-313/Bio/PopGen 2025-09-05T18:22:55,927 copying Bio/PopGen/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/PopGen 2025-09-05T18:22:55,928 creating build/lib.linux-armv7l-cpython-313/Bio/PopGen/GenePop 2025-09-05T18:22:55,928 copying Bio/PopGen/GenePop/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/PopGen/GenePop 2025-09-05T18:22:55,928 copying Bio/PopGen/GenePop/LargeFileParser.py -> build/lib.linux-armv7l-cpython-313/Bio/PopGen/GenePop 2025-09-05T18:22:55,929 copying Bio/PopGen/GenePop/FileParser.py -> build/lib.linux-armv7l-cpython-313/Bio/PopGen/GenePop 2025-09-05T18:22:55,929 copying Bio/PopGen/GenePop/EasyController.py -> build/lib.linux-armv7l-cpython-313/Bio/PopGen/GenePop 2025-09-05T18:22:55,930 copying Bio/PopGen/GenePop/Controller.py -> build/lib.linux-armv7l-cpython-313/Bio/PopGen/GenePop 2025-09-05T18:22:55,931 creating build/lib.linux-armv7l-cpython-313/Bio/Restriction 2025-09-05T18:22:55,931 copying Bio/Restriction/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Restriction 2025-09-05T18:22:55,932 copying Bio/Restriction/Restriction_Dictionary.py -> build/lib.linux-armv7l-cpython-313/Bio/Restriction 2025-09-05T18:22:55,934 copying Bio/Restriction/Restriction.py -> build/lib.linux-armv7l-cpython-313/Bio/Restriction 2025-09-05T18:22:55,935 copying Bio/Restriction/PrintFormat.py -> build/lib.linux-armv7l-cpython-313/Bio/Restriction 2025-09-05T18:22:55,936 creating build/lib.linux-armv7l-cpython-313/Bio/SCOP 2025-09-05T18:22:55,936 copying Bio/SCOP/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SCOP 2025-09-05T18:22:55,937 copying Bio/SCOP/Residues.py -> build/lib.linux-armv7l-cpython-313/Bio/SCOP 2025-09-05T18:22:55,938 copying Bio/SCOP/Raf.py -> build/lib.linux-armv7l-cpython-313/Bio/SCOP 2025-09-05T18:22:55,938 copying Bio/SCOP/Hie.py -> build/lib.linux-armv7l-cpython-313/Bio/SCOP 2025-09-05T18:22:55,939 copying Bio/SCOP/Dom.py -> build/lib.linux-armv7l-cpython-313/Bio/SCOP 2025-09-05T18:22:55,939 copying Bio/SCOP/Des.py -> build/lib.linux-armv7l-cpython-313/Bio/SCOP 2025-09-05T18:22:55,940 copying Bio/SCOP/Cla.py -> build/lib.linux-armv7l-cpython-313/Bio/SCOP 2025-09-05T18:22:55,940 creating build/lib.linux-armv7l-cpython-313/Bio/SearchIO 2025-09-05T18:22:55,941 copying Bio/SearchIO/_utils.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO 2025-09-05T18:22:55,941 copying Bio/SearchIO/_index.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO 2025-09-05T18:22:55,942 copying Bio/SearchIO/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO 2025-09-05T18:22:55,942 copying Bio/SearchIO/FastaIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO 2025-09-05T18:22:55,943 copying Bio/SearchIO/BlatIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO 2025-09-05T18:22:55,944 creating build/lib.linux-armv7l-cpython-313/Bio/SearchIO/_model 2025-09-05T18:22:55,944 copying Bio/SearchIO/_model/query.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/_model 2025-09-05T18:22:55,945 copying Bio/SearchIO/_model/hsp.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/_model 2025-09-05T18:22:55,946 copying Bio/SearchIO/_model/hit.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/_model 2025-09-05T18:22:55,946 copying Bio/SearchIO/_model/_base.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/_model 2025-09-05T18:22:55,947 copying Bio/SearchIO/_model/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/_model 2025-09-05T18:22:55,947 creating build/lib.linux-armv7l-cpython-313/Bio/SearchIO/BlastIO 2025-09-05T18:22:55,948 copying Bio/SearchIO/BlastIO/blast_xml.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/BlastIO 2025-09-05T18:22:55,948 copying Bio/SearchIO/BlastIO/blast_tab.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/BlastIO 2025-09-05T18:22:55,949 copying Bio/SearchIO/BlastIO/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/BlastIO 2025-09-05T18:22:55,950 creating build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HHsuiteIO 2025-09-05T18:22:55,950 copying Bio/SearchIO/HHsuiteIO/hhsuite2_text.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HHsuiteIO 2025-09-05T18:22:55,951 copying Bio/SearchIO/HHsuiteIO/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HHsuiteIO 2025-09-05T18:22:55,952 creating build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HmmerIO 2025-09-05T18:22:55,952 copying Bio/SearchIO/HmmerIO/hmmer3_text.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HmmerIO 2025-09-05T18:22:55,953 copying Bio/SearchIO/HmmerIO/hmmer3_tab.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HmmerIO 2025-09-05T18:22:55,953 copying Bio/SearchIO/HmmerIO/hmmer3_domtab.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HmmerIO 2025-09-05T18:22:55,954 copying Bio/SearchIO/HmmerIO/hmmer2_text.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HmmerIO 2025-09-05T18:22:55,954 copying Bio/SearchIO/HmmerIO/_base.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HmmerIO 2025-09-05T18:22:55,955 copying Bio/SearchIO/HmmerIO/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/HmmerIO 2025-09-05T18:22:55,956 creating build/lib.linux-armv7l-cpython-313/Bio/SearchIO/ExonerateIO 2025-09-05T18:22:55,956 copying Bio/SearchIO/ExonerateIO/exonerate_vulgar.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/ExonerateIO 2025-09-05T18:22:55,956 copying Bio/SearchIO/ExonerateIO/exonerate_text.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/ExonerateIO 2025-09-05T18:22:55,957 copying Bio/SearchIO/ExonerateIO/exonerate_cigar.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/ExonerateIO 2025-09-05T18:22:55,958 copying Bio/SearchIO/ExonerateIO/_base.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/ExonerateIO 2025-09-05T18:22:55,958 copying Bio/SearchIO/ExonerateIO/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/ExonerateIO 2025-09-05T18:22:55,959 creating build/lib.linux-armv7l-cpython-313/Bio/SearchIO/InterproscanIO 2025-09-05T18:22:55,959 copying Bio/SearchIO/InterproscanIO/interproscan_xml.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/InterproscanIO 2025-09-05T18:22:55,960 copying Bio/SearchIO/InterproscanIO/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SearchIO/InterproscanIO 2025-09-05T18:22:55,961 creating build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,961 copying Bio/SeqIO/_index.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,962 copying Bio/SeqIO/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,962 copying Bio/SeqIO/XdnaIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,963 copying Bio/SeqIO/UniprotIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,964 copying Bio/SeqIO/TwoBitIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,964 copying Bio/SeqIO/TabIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,965 copying Bio/SeqIO/SwissIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,965 copying Bio/SeqIO/SnapGeneIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,966 copying Bio/SeqIO/SffIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,966 copying Bio/SeqIO/SeqXmlIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,967 copying Bio/SeqIO/QualityIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,968 copying Bio/SeqIO/PirIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,969 copying Bio/SeqIO/PhdIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,969 copying Bio/SeqIO/PdbIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,970 copying Bio/SeqIO/NibIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,970 copying Bio/SeqIO/Interfaces.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,971 copying Bio/SeqIO/InsdcIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,971 copying Bio/SeqIO/IgIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,972 copying Bio/SeqIO/GckIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,973 copying Bio/SeqIO/FastaIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,973 copying Bio/SeqIO/AceIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,974 copying Bio/SeqIO/AbiIO.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:55,975 creating build/lib.linux-armv7l-cpython-313/Bio/SeqUtils 2025-09-05T18:22:55,975 copying Bio/SeqUtils/lcc.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqUtils 2025-09-05T18:22:55,975 copying Bio/SeqUtils/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqUtils 2025-09-05T18:22:55,976 copying Bio/SeqUtils/ProtParamData.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqUtils 2025-09-05T18:22:55,976 copying Bio/SeqUtils/ProtParam.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqUtils 2025-09-05T18:22:55,977 copying Bio/SeqUtils/MeltingTemp.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqUtils 2025-09-05T18:22:55,978 copying Bio/SeqUtils/IsoelectricPoint.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqUtils 2025-09-05T18:22:55,978 copying Bio/SeqUtils/CheckSum.py -> build/lib.linux-armv7l-cpython-313/Bio/SeqUtils 2025-09-05T18:22:55,979 creating build/lib.linux-armv7l-cpython-313/Bio/Sequencing 2025-09-05T18:22:55,979 copying Bio/Sequencing/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Sequencing 2025-09-05T18:22:55,980 copying Bio/Sequencing/Phd.py -> build/lib.linux-armv7l-cpython-313/Bio/Sequencing 2025-09-05T18:22:55,980 copying Bio/Sequencing/Ace.py -> build/lib.linux-armv7l-cpython-313/Bio/Sequencing 2025-09-05T18:22:55,981 creating build/lib.linux-armv7l-cpython-313/Bio/Sequencing/Applications 2025-09-05T18:22:55,981 copying Bio/Sequencing/Applications/_samtools.py -> build/lib.linux-armv7l-cpython-313/Bio/Sequencing/Applications 2025-09-05T18:22:55,982 copying Bio/Sequencing/Applications/_bwa.py -> build/lib.linux-armv7l-cpython-313/Bio/Sequencing/Applications 2025-09-05T18:22:55,983 copying Bio/Sequencing/Applications/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Sequencing/Applications 2025-09-05T18:22:55,983 copying Bio/Sequencing/Applications/_Novoalign.py -> build/lib.linux-armv7l-cpython-313/Bio/Sequencing/Applications 2025-09-05T18:22:55,984 creating build/lib.linux-armv7l-cpython-313/Bio/SVDSuperimposer 2025-09-05T18:22:55,984 copying Bio/SVDSuperimposer/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SVDSuperimposer 2025-09-05T18:22:55,985 creating build/lib.linux-armv7l-cpython-313/Bio/SwissProt 2025-09-05T18:22:55,985 copying Bio/SwissProt/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/SwissProt 2025-09-05T18:22:55,986 copying Bio/SwissProt/KeyWList.py -> build/lib.linux-armv7l-cpython-313/Bio/SwissProt 2025-09-05T18:22:55,987 creating build/lib.linux-armv7l-cpython-313/Bio/TogoWS 2025-09-05T18:22:55,987 copying Bio/TogoWS/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/TogoWS 2025-09-05T18:22:55,988 creating build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,988 copying Bio/Phylo/_utils.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,989 copying Bio/Phylo/_io.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,989 copying Bio/Phylo/_cdao_owl.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,990 copying Bio/Phylo/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,991 copying Bio/Phylo/TreeConstruction.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,992 copying Bio/Phylo/PhyloXMLIO.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,992 copying Bio/Phylo/PhyloXML.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,993 copying Bio/Phylo/NexusIO.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,993 copying Bio/Phylo/NewickIO.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,994 copying Bio/Phylo/Newick.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,995 copying Bio/Phylo/NeXMLIO.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,995 copying Bio/Phylo/NeXML.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,996 copying Bio/Phylo/Consensus.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,996 copying Bio/Phylo/CDAOIO.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,997 copying Bio/Phylo/CDAO.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,997 copying Bio/Phylo/BaseTree.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo 2025-09-05T18:22:55,998 creating build/lib.linux-armv7l-cpython-313/Bio/Phylo/Applications 2025-09-05T18:22:55,998 copying Bio/Phylo/Applications/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/Applications 2025-09-05T18:22:55,999 copying Bio/Phylo/Applications/_Raxml.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/Applications 2025-09-05T18:22:56,000 copying Bio/Phylo/Applications/_Phyml.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/Applications 2025-09-05T18:22:56,000 copying Bio/Phylo/Applications/_Fasttree.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/Applications 2025-09-05T18:22:56,002 creating build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,002 copying Bio/Phylo/PAML/yn00.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,002 copying Bio/Phylo/PAML/codeml.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,003 copying Bio/Phylo/PAML/chi2.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,003 copying Bio/Phylo/PAML/baseml.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,004 copying Bio/Phylo/PAML/_parse_yn00.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,004 copying Bio/Phylo/PAML/_parse_codeml.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,005 copying Bio/Phylo/PAML/_parse_baseml.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,006 copying Bio/Phylo/PAML/_paml.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,006 copying Bio/Phylo/PAML/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/Phylo/PAML 2025-09-05T18:22:56,007 creating build/lib.linux-armv7l-cpython-313/Bio/UniGene 2025-09-05T18:22:56,007 copying Bio/UniGene/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/UniGene 2025-09-05T18:22:56,008 creating build/lib.linux-armv7l-cpython-313/Bio/UniProt 2025-09-05T18:22:56,008 copying Bio/UniProt/__init__.py -> build/lib.linux-armv7l-cpython-313/Bio/UniProt 2025-09-05T18:22:56,009 copying Bio/UniProt/GOA.py -> build/lib.linux-armv7l-cpython-313/Bio/UniProt 2025-09-05T18:22:56,009 creating build/lib.linux-armv7l-cpython-313/BioSQL 2025-09-05T18:22:56,010 copying BioSQL/__init__.py -> build/lib.linux-armv7l-cpython-313/BioSQL 2025-09-05T18:22:56,010 copying BioSQL/Loader.py -> build/lib.linux-armv7l-cpython-313/BioSQL 2025-09-05T18:22:56,011 copying BioSQL/DBUtils.py -> build/lib.linux-armv7l-cpython-313/BioSQL 2025-09-05T18:22:56,011 copying BioSQL/BioSeqDatabase.py -> build/lib.linux-armv7l-cpython-313/BioSQL 2025-09-05T18:22:56,012 copying BioSQL/BioSeq.py -> build/lib.linux-armv7l-cpython-313/BioSQL 2025-09-05T18:22:56,013 running egg_info 2025-09-05T18:22:56,087 writing biopython.egg-info/PKG-INFO 2025-09-05T18:22:56,088 writing dependency_links to biopython.egg-info/dependency_links.txt 2025-09-05T18:22:56,089 writing requirements to biopython.egg-info/requires.txt 2025-09-05T18:22:56,089 writing top-level names to biopython.egg-info/top_level.txt 2025-09-05T18:22:56,199 reading manifest file 'biopython.egg-info/SOURCES.txt' 2025-09-05T18:22:56,320 reading manifest template 'MANIFEST.in' 2025-09-05T18:22:56,551 warning: no previously-included files found matching 'Tests/Gck/DGVC_GCK.zip' 2025-09-05T18:22:56,559 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2025-09-05T18:22:56,567 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2025-09-05T18:22:56,576 warning: no previously-included files matching '*.py{}' found anywhere in distribution 2025-09-05T18:22:56,584 warning: no previously-included files matching '*.py-e' found anywhere in distribution 2025-09-05T18:22:56,599 warning: no previously-included files found matching 'Bio/Align/substitution_matrices/data/README.txt' 2025-09-05T18:22:56,599 adding license file 'LICENSE' 2025-09-05T18:22:56,599 adding license file 'LICENSE.rst' 2025-09-05T18:22:56,689 writing manifest file 'biopython.egg-info/SOURCES.txt' 2025-09-05T18:22:56,692 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'Bio.Align.substitution_matrices.data' is absent from the `packages` configuration. 2025-09-05T18:22:56,692 !! 2025-09-05T18:22:56,692 ******************************************************************************** 2025-09-05T18:22:56,692 ############################ 2025-09-05T18:22:56,692 # Package would be ignored # 2025-09-05T18:22:56,693 ############################ 2025-09-05T18:22:56,693 Python recognizes 'Bio.Align.substitution_matrices.data' as an importable package[^1], 2025-09-05T18:22:56,693 but it is absent from setuptools' `packages` configuration. 2025-09-05T18:22:56,693 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-05T18:22:56,693 package, please make sure that 'Bio.Align.substitution_matrices.data' is explicitly added 2025-09-05T18:22:56,693 to the `packages` configuration field. 2025-09-05T18:22:56,693 Alternatively, you can also rely on setuptools' discovery methods 2025-09-05T18:22:56,693 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-05T18:22:56,693 instead of `find_packages(...)`/`find:`). 2025-09-05T18:22:56,694 You can read more about "package discovery" on setuptools documentation page: 2025-09-05T18:22:56,694 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-05T18:22:56,694 If you don't want 'Bio.Align.substitution_matrices.data' to be distributed and are 2025-09-05T18:22:56,694 already explicitly excluding 'Bio.Align.substitution_matrices.data' via 2025-09-05T18:22:56,694 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-05T18:22:56,694 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-05T18:22:56,694 combination with a more fine grained `package-data` configuration. 2025-09-05T18:22:56,694 You can read more about "package data files" on setuptools documentation page: 2025-09-05T18:22:56,695 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-05T18:22:56,695 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-05T18:22:56,695 even if it does not contain any `.py` files. 2025-09-05T18:22:56,695 On the other hand, currently there is no concept of package data 2025-09-05T18:22:56,695 directory, all directories are treated like packages. 2025-09-05T18:22:56,695 ******************************************************************************** 2025-09-05T18:22:56,695 !! 2025-09-05T18:22:56,695 check.warn(importable) 2025-09-05T18:22:56,696 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'Bio.Entrez.DTDs' is absent from the `packages` configuration. 2025-09-05T18:22:56,696 !! 2025-09-05T18:22:56,696 ******************************************************************************** 2025-09-05T18:22:56,696 ############################ 2025-09-05T18:22:56,696 # Package would be ignored # 2025-09-05T18:22:56,696 ############################ 2025-09-05T18:22:56,696 Python recognizes 'Bio.Entrez.DTDs' as an importable package[^1], 2025-09-05T18:22:56,696 but it is absent from setuptools' `packages` configuration. 2025-09-05T18:22:56,696 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-05T18:22:56,697 package, please make sure that 'Bio.Entrez.DTDs' is explicitly added 2025-09-05T18:22:56,697 to the `packages` configuration field. 2025-09-05T18:22:56,697 Alternatively, you can also rely on setuptools' discovery methods 2025-09-05T18:22:56,697 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-05T18:22:56,697 instead of `find_packages(...)`/`find:`). 2025-09-05T18:22:56,697 You can read more about "package discovery" on setuptools documentation page: 2025-09-05T18:22:56,697 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-05T18:22:56,698 If you don't want 'Bio.Entrez.DTDs' to be distributed and are 2025-09-05T18:22:56,698 already explicitly excluding 'Bio.Entrez.DTDs' via 2025-09-05T18:22:56,698 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-05T18:22:56,698 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-05T18:22:56,698 combination with a more fine grained `package-data` configuration. 2025-09-05T18:22:56,698 You can read more about "package data files" on setuptools documentation page: 2025-09-05T18:22:56,698 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-05T18:22:56,698 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-05T18:22:56,699 even if it does not contain any `.py` files. 2025-09-05T18:22:56,699 On the other hand, currently there is no concept of package data 2025-09-05T18:22:56,699 directory, all directories are treated like packages. 2025-09-05T18:22:56,699 ******************************************************************************** 2025-09-05T18:22:56,699 !! 2025-09-05T18:22:56,699 check.warn(importable) 2025-09-05T18:22:56,710 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'Bio.Entrez.XSDs' is absent from the `packages` configuration. 2025-09-05T18:22:56,711 !! 2025-09-05T18:22:56,711 ******************************************************************************** 2025-09-05T18:22:56,711 ############################ 2025-09-05T18:22:56,711 # Package would be ignored # 2025-09-05T18:22:56,711 ############################ 2025-09-05T18:22:56,711 Python recognizes 'Bio.Entrez.XSDs' as an importable package[^1], 2025-09-05T18:22:56,711 but it is absent from setuptools' `packages` configuration. 2025-09-05T18:22:56,711 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-05T18:22:56,712 package, please make sure that 'Bio.Entrez.XSDs' is explicitly added 2025-09-05T18:22:56,712 to the `packages` configuration field. 2025-09-05T18:22:56,712 Alternatively, you can also rely on setuptools' discovery methods 2025-09-05T18:22:56,712 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-05T18:22:56,712 instead of `find_packages(...)`/`find:`). 2025-09-05T18:22:56,712 You can read more about "package discovery" on setuptools documentation page: 2025-09-05T18:22:56,712 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-05T18:22:56,712 If you don't want 'Bio.Entrez.XSDs' to be distributed and are 2025-09-05T18:22:56,713 already explicitly excluding 'Bio.Entrez.XSDs' via 2025-09-05T18:22:56,713 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-05T18:22:56,713 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-05T18:22:56,713 combination with a more fine grained `package-data` configuration. 2025-09-05T18:22:56,713 You can read more about "package data files" on setuptools documentation page: 2025-09-05T18:22:56,713 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-05T18:22:56,713 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-05T18:22:56,713 even if it does not contain any `.py` files. 2025-09-05T18:22:56,713 On the other hand, currently there is no concept of package data 2025-09-05T18:22:56,714 directory, all directories are treated like packages. 2025-09-05T18:22:56,714 ******************************************************************************** 2025-09-05T18:22:56,714 !! 2025-09-05T18:22:56,714 check.warn(importable) 2025-09-05T18:22:56,764 copying Bio/cpairwise2module.c -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:56,765 copying Bio/py.typed -> build/lib.linux-armv7l-cpython-313/Bio 2025-09-05T18:22:56,765 copying Bio/Align/_codonaligner.c -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:56,766 copying Bio/Align/_pairwisealigner.c -> build/lib.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:56,767 creating build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,768 copying Bio/Align/substitution_matrices/data/BENNER22 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,768 copying Bio/Align/substitution_matrices/data/BENNER6 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,769 copying Bio/Align/substitution_matrices/data/BENNER74 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,769 copying Bio/Align/substitution_matrices/data/BLASTN -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,770 copying Bio/Align/substitution_matrices/data/BLASTP -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,770 copying Bio/Align/substitution_matrices/data/BLOSUM45 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,771 copying Bio/Align/substitution_matrices/data/BLOSUM50 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,771 copying Bio/Align/substitution_matrices/data/BLOSUM62 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,772 copying Bio/Align/substitution_matrices/data/BLOSUM80 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,773 copying Bio/Align/substitution_matrices/data/BLOSUM90 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,773 copying Bio/Align/substitution_matrices/data/DAYHOFF -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,774 copying Bio/Align/substitution_matrices/data/FENG -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,774 copying Bio/Align/substitution_matrices/data/GENETIC -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,775 copying Bio/Align/substitution_matrices/data/GONNET1992 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,775 copying Bio/Align/substitution_matrices/data/HOXD70 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,776 copying Bio/Align/substitution_matrices/data/JOHNSON -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,776 copying Bio/Align/substitution_matrices/data/JONES -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,777 copying Bio/Align/substitution_matrices/data/LEVIN -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,777 copying Bio/Align/substitution_matrices/data/MCLACHLAN -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,778 copying Bio/Align/substitution_matrices/data/MDM78 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,778 copying Bio/Align/substitution_matrices/data/MEGABLAST -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,779 copying Bio/Align/substitution_matrices/data/NUC.4.4 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,779 copying Bio/Align/substitution_matrices/data/PAM250 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,780 copying Bio/Align/substitution_matrices/data/PAM30 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,780 copying Bio/Align/substitution_matrices/data/PAM70 -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,781 copying Bio/Align/substitution_matrices/data/RAO -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,782 copying Bio/Align/substitution_matrices/data/RISLER -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,782 copying Bio/Align/substitution_matrices/data/SCHNEIDER -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,783 copying Bio/Align/substitution_matrices/data/STR -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,783 copying Bio/Align/substitution_matrices/data/TRANS -> build/lib.linux-armv7l-cpython-313/Bio/Align/substitution_matrices/data 2025-09-05T18:22:56,784 copying Bio/Cluster/cluster.c -> build/lib.linux-armv7l-cpython-313/Bio/Cluster 2025-09-05T18:22:56,785 copying Bio/Cluster/cluster.h -> build/lib.linux-armv7l-cpython-313/Bio/Cluster 2025-09-05T18:22:56,786 copying Bio/Cluster/clustermodule.c -> build/lib.linux-armv7l-cpython-313/Bio/Cluster 2025-09-05T18:22:56,786 creating build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,787 copying Bio/Entrez/DTDs/BITS-embedded-index2.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,787 copying Bio/Entrez/DTDs/BITS-question-answer2.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,788 copying Bio/Entrez/DTDs/Docsum_3_0.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,788 copying Bio/Entrez/DTDs/Docsum_3_0.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,789 copying Bio/Entrez/DTDs/Docsum_3_1.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,790 copying Bio/Entrez/DTDs/Docsum_3_1.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,790 copying Bio/Entrez/DTDs/Docsum_3_2.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,791 copying Bio/Entrez/DTDs/Docsum_3_2.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,792 copying Bio/Entrez/DTDs/Docsum_3_3.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,792 copying Bio/Entrez/DTDs/Docsum_3_3.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,793 copying Bio/Entrez/DTDs/Docsum_3_4.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,793 copying Bio/Entrez/DTDs/Docsum_3_4.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,794 copying Bio/Entrez/DTDs/EMBL_General.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,794 copying Bio/Entrez/DTDs/EMBL_General.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,795 copying Bio/Entrez/DTDs/GenBank_General.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,796 copying Bio/Entrez/DTDs/GenBank_General.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,796 copying Bio/Entrez/DTDs/HomoloGene.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,797 copying Bio/Entrez/DTDs/HomoloGene.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,797 copying Bio/Entrez/DTDs/INSD_INSDSeq.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,798 copying Bio/Entrez/DTDs/INSD_INSDSeq.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,798 copying Bio/Entrez/DTDs/JATS-XHTMLtablesetup1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,799 copying Bio/Entrez/DTDs/JATS-ali-namespace1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,799 copying Bio/Entrez/DTDs/JATS-archivearticle1-3-mathml3.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,800 copying Bio/Entrez/DTDs/JATS-archivecustom-classes1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,801 copying Bio/Entrez/DTDs/JATS-archivecustom-mixes1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,801 copying Bio/Entrez/DTDs/JATS-archivecustom-models1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,802 copying Bio/Entrez/DTDs/JATS-archivecustom-modules1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,803 copying Bio/Entrez/DTDs/JATS-articlemeta1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,804 copying Bio/Entrez/DTDs/JATS-backmatter1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,805 copying Bio/Entrez/DTDs/JATS-chars1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,805 copying Bio/Entrez/DTDs/JATS-common-atts1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,806 copying Bio/Entrez/DTDs/JATS-common1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,807 copying Bio/Entrez/DTDs/JATS-default-classes1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,808 copying Bio/Entrez/DTDs/JATS-default-mixes1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,809 copying Bio/Entrez/DTDs/JATS-display1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,810 copying Bio/Entrez/DTDs/JATS-format1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,811 copying Bio/Entrez/DTDs/JATS-funding1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,812 copying Bio/Entrez/DTDs/JATS-journalmeta1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,812 copying Bio/Entrez/DTDs/JATS-link1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,813 copying Bio/Entrez/DTDs/JATS-list1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,813 copying Bio/Entrez/DTDs/JATS-math1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,814 copying Bio/Entrez/DTDs/JATS-mathml3-mathmlsetup1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,815 copying Bio/Entrez/DTDs/JATS-mathml3-modules1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,815 copying Bio/Entrez/DTDs/JATS-modules1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,816 copying Bio/Entrez/DTDs/JATS-nlmcitation1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,817 copying Bio/Entrez/DTDs/JATS-notat1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,817 copying Bio/Entrez/DTDs/JATS-para1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,818 copying Bio/Entrez/DTDs/JATS-phrase1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,819 copying Bio/Entrez/DTDs/JATS-references1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,819 copying Bio/Entrez/DTDs/JATS-related-object1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,820 copying Bio/Entrez/DTDs/JATS-section1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,821 copying Bio/Entrez/DTDs/JATS-xmlspecchars1-3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,821 copying Bio/Entrez/DTDs/MMDB.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,822 copying Bio/Entrez/DTDs/MMDB.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,822 copying Bio/Entrez/DTDs/MMDB_Chemical_graph.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,823 copying Bio/Entrez/DTDs/MMDB_Chemical_graph.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,823 copying Bio/Entrez/DTDs/MMDB_Features.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,824 copying Bio/Entrez/DTDs/MMDB_Features.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,825 copying Bio/Entrez/DTDs/MMDB_Structural_model.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,825 copying Bio/Entrez/DTDs/MMDB_Structural_model.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,826 copying Bio/Entrez/DTDs/NCBI_Access.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,826 copying Bio/Entrez/DTDs/NCBI_Access.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,827 copying Bio/Entrez/DTDs/NCBI_Biblio.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,827 copying Bio/Entrez/DTDs/NCBI_Biblio.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,828 copying Bio/Entrez/DTDs/NCBI_BioSource.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,828 copying Bio/Entrez/DTDs/NCBI_BioSource.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,829 copying Bio/Entrez/DTDs/NCBI_BioTree.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,829 copying Bio/Entrez/DTDs/NCBI_BioTree.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,830 copying Bio/Entrez/DTDs/NCBI_Blast4.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,831 copying Bio/Entrez/DTDs/NCBI_Blast4.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,831 copying Bio/Entrez/DTDs/NCBI_BlastDL.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,832 copying Bio/Entrez/DTDs/NCBI_BlastDL.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,833 copying Bio/Entrez/DTDs/NCBI_BlastOutput.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,833 copying Bio/Entrez/DTDs/NCBI_BlastOutput.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,834 copying Bio/Entrez/DTDs/NCBI_Cdd.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,834 copying Bio/Entrez/DTDs/NCBI_Cdd.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,835 copying Bio/Entrez/DTDs/NCBI_Cn3d.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,835 copying Bio/Entrez/DTDs/NCBI_Cn3d.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,836 copying Bio/Entrez/DTDs/NCBI_Entity.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,836 copying Bio/Entrez/DTDs/NCBI_Entrez2.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,837 copying Bio/Entrez/DTDs/NCBI_Entrez2.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,837 copying Bio/Entrez/DTDs/NCBI_Entrezgene.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,838 copying Bio/Entrez/DTDs/NCBI_Entrezgene.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,839 copying Bio/Entrez/DTDs/NCBI_FeatDef.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,839 copying Bio/Entrez/DTDs/NCBI_FeatDef.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,840 copying Bio/Entrez/DTDs/NCBI_GBSeq.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,840 copying Bio/Entrez/DTDs/NCBI_GBSeq.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,841 copying Bio/Entrez/DTDs/NCBI_Gene.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,841 copying Bio/Entrez/DTDs/NCBI_Gene.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,842 copying Bio/Entrez/DTDs/NCBI_General.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,842 copying Bio/Entrez/DTDs/NCBI_General.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,843 copying Bio/Entrez/DTDs/NCBI_ID1Access.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,843 copying Bio/Entrez/DTDs/NCBI_ID1Access.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,844 copying Bio/Entrez/DTDs/NCBI_ID2Access.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,844 copying Bio/Entrez/DTDs/NCBI_ID2Access.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,845 copying Bio/Entrez/DTDs/NCBI_MedArchive.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,845 copying Bio/Entrez/DTDs/NCBI_MedArchive.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,846 copying Bio/Entrez/DTDs/NCBI_Medlars.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,846 copying Bio/Entrez/DTDs/NCBI_Medlars.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,847 copying Bio/Entrez/DTDs/NCBI_Medline.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,847 copying Bio/Entrez/DTDs/NCBI_Medline.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,848 copying Bio/Entrez/DTDs/NCBI_Mim.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,848 copying Bio/Entrez/DTDs/NCBI_Mim.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,849 copying Bio/Entrez/DTDs/NCBI_Mime.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,850 copying Bio/Entrez/DTDs/NCBI_Mime.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,850 copying Bio/Entrez/DTDs/NCBI_ObjPrt.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,851 copying Bio/Entrez/DTDs/NCBI_ObjPrt.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,851 copying Bio/Entrez/DTDs/NCBI_Organism.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,852 copying Bio/Entrez/DTDs/NCBI_Organism.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,852 copying Bio/Entrez/DTDs/NCBI_PCAssay.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,853 copying Bio/Entrez/DTDs/NCBI_PCAssay.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,853 copying Bio/Entrez/DTDs/NCBI_PCSubstance.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,854 copying Bio/Entrez/DTDs/NCBI_PCSubstance.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,855 copying Bio/Entrez/DTDs/NCBI_Project.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,855 copying Bio/Entrez/DTDs/NCBI_Project.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,856 copying Bio/Entrez/DTDs/NCBI_Protein.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,856 copying Bio/Entrez/DTDs/NCBI_Protein.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,857 copying Bio/Entrez/DTDs/NCBI_Pub.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,857 copying Bio/Entrez/DTDs/NCBI_Pub.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,858 copying Bio/Entrez/DTDs/NCBI_PubMed.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,858 copying Bio/Entrez/DTDs/NCBI_PubMed.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,859 copying Bio/Entrez/DTDs/NCBI_RNA.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,859 copying Bio/Entrez/DTDs/NCBI_RNA.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,860 copying Bio/Entrez/DTDs/NCBI_Remap.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,860 copying Bio/Entrez/DTDs/NCBI_Remap.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,861 copying Bio/Entrez/DTDs/NCBI_Rsite.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,861 copying Bio/Entrez/DTDs/NCBI_Rsite.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,862 copying Bio/Entrez/DTDs/NCBI_ScoreMat.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,862 copying Bio/Entrez/DTDs/NCBI_ScoreMat.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,863 copying Bio/Entrez/DTDs/NCBI_SeqCode.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,863 copying Bio/Entrez/DTDs/NCBI_SeqCode.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,864 copying Bio/Entrez/DTDs/NCBI_SeqTable.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,865 copying Bio/Entrez/DTDs/NCBI_SeqTable.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,865 copying Bio/Entrez/DTDs/NCBI_Seq_split.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,866 copying Bio/Entrez/DTDs/NCBI_Seq_split.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,866 copying Bio/Entrez/DTDs/NCBI_Seqalign.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,867 copying Bio/Entrez/DTDs/NCBI_Seqalign.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,867 copying Bio/Entrez/DTDs/NCBI_Seqfeat.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,868 copying Bio/Entrez/DTDs/NCBI_Seqfeat.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,868 copying Bio/Entrez/DTDs/NCBI_Seqloc.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,869 copying Bio/Entrez/DTDs/NCBI_Seqloc.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,869 copying Bio/Entrez/DTDs/NCBI_Seqres.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,870 copying Bio/Entrez/DTDs/NCBI_Seqres.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,870 copying Bio/Entrez/DTDs/NCBI_Seqset.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,871 copying Bio/Entrez/DTDs/NCBI_Seqset.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,872 copying Bio/Entrez/DTDs/NCBI_Sequence.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,872 copying Bio/Entrez/DTDs/NCBI_Sequence.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,873 copying Bio/Entrez/DTDs/NCBI_Submit.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,873 copying Bio/Entrez/DTDs/NCBI_Submit.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,874 copying Bio/Entrez/DTDs/NCBI_Systems.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,874 copying Bio/Entrez/DTDs/NCBI_TSeq.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,875 copying Bio/Entrez/DTDs/NCBI_TSeq.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,875 copying Bio/Entrez/DTDs/NCBI_TxInit.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,876 copying Bio/Entrez/DTDs/NCBI_TxInit.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,876 copying Bio/Entrez/DTDs/NCBI_Variation.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,877 copying Bio/Entrez/DTDs/NCBI_Variation.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,878 copying Bio/Entrez/DTDs/NCBI_all.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,878 copying Bio/Entrez/DTDs/NSE.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,879 copying Bio/Entrez/DTDs/NSE.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,879 copying Bio/Entrez/DTDs/OMSSA.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,880 copying Bio/Entrez/DTDs/OMSSA.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,880 copying Bio/Entrez/DTDs/PDB_General.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,881 copying Bio/Entrez/DTDs/PDB_General.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,882 copying Bio/Entrez/DTDs/PIR_General.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,882 copying Bio/Entrez/DTDs/PIR_General.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,883 copying Bio/Entrez/DTDs/PRF_General.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,883 copying Bio/Entrez/DTDs/PRF_General.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,884 copying Bio/Entrez/DTDs/SP_General.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,884 copying Bio/Entrez/DTDs/SP_General.mod.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,885 copying Bio/Entrez/DTDs/XHTMLtablesetup.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,885 copying Bio/Entrez/DTDs/archivearticle.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,886 copying Bio/Entrez/DTDs/archivecustom-classes.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,887 copying Bio/Entrez/DTDs/archivecustom-mixes.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,887 copying Bio/Entrez/DTDs/archivecustom-models.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,888 copying Bio/Entrez/DTDs/archivecustom-modules.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,888 copying Bio/Entrez/DTDs/articlemeta.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,889 copying Bio/Entrez/DTDs/backmatter.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,890 copying Bio/Entrez/DTDs/bookdoc_100301.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,890 copying Bio/Entrez/DTDs/bookdoc_110101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,891 copying Bio/Entrez/DTDs/bookdoc_120101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,892 copying Bio/Entrez/DTDs/bookdoc_130101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,892 copying Bio/Entrez/DTDs/bookdoc_140101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,893 copying Bio/Entrez/DTDs/bookdoc_150101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,893 copying Bio/Entrez/DTDs/chars.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,894 copying Bio/Entrez/DTDs/common.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,895 copying Bio/Entrez/DTDs/default-classes.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,896 copying Bio/Entrez/DTDs/default-mixes.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,896 copying Bio/Entrez/DTDs/display.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,897 copying Bio/Entrez/DTDs/eInfo_020511.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,898 copying Bio/Entrez/DTDs/eLink_090910.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,898 copying Bio/Entrez/DTDs/eLink_101123.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,899 copying Bio/Entrez/DTDs/ePost_020511.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,899 copying Bio/Entrez/DTDs/eSearch_020511.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,900 copying Bio/Entrez/DTDs/eSpell.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,900 copying Bio/Entrez/DTDs/eSummary_041029.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,901 copying Bio/Entrez/DTDs/egquery.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,901 copying Bio/Entrez/DTDs/einfo.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,902 copying Bio/Entrez/DTDs/elink.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,902 copying Bio/Entrez/DTDs/elink_020122.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,903 copying Bio/Entrez/DTDs/epost.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,903 copying Bio/Entrez/DTDs/esearch.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,904 copying Bio/Entrez/DTDs/esummary-v1.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,904 copying Bio/Entrez/DTDs/esummary_gene.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,905 copying Bio/Entrez/DTDs/format.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,905 copying Bio/Entrez/DTDs/htmltable.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,906 copying Bio/Entrez/DTDs/isoamsa.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,906 copying Bio/Entrez/DTDs/isoamsb.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,907 copying Bio/Entrez/DTDs/isoamsc.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,908 copying Bio/Entrez/DTDs/isoamsn.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,908 copying Bio/Entrez/DTDs/isoamso.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,909 copying Bio/Entrez/DTDs/isoamsr.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,909 copying Bio/Entrez/DTDs/isobox.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,910 copying Bio/Entrez/DTDs/isocyr1.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,910 copying Bio/Entrez/DTDs/isocyr2.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,911 copying Bio/Entrez/DTDs/isodia.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,911 copying Bio/Entrez/DTDs/isogrk1.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,912 copying Bio/Entrez/DTDs/isogrk2.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,912 copying Bio/Entrez/DTDs/isogrk3.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,913 copying Bio/Entrez/DTDs/isogrk4.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,913 copying Bio/Entrez/DTDs/isolat1.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,914 copying Bio/Entrez/DTDs/isolat2.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,915 copying Bio/Entrez/DTDs/isomfrk.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,915 copying Bio/Entrez/DTDs/isomopf.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,916 copying Bio/Entrez/DTDs/isomscr.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,916 copying Bio/Entrez/DTDs/isonum.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,917 copying Bio/Entrez/DTDs/isopub.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,917 copying Bio/Entrez/DTDs/isotech.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,918 copying Bio/Entrez/DTDs/journalmeta.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,918 copying Bio/Entrez/DTDs/link.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,919 copying Bio/Entrez/DTDs/list.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,920 copying Bio/Entrez/DTDs/math.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,920 copying Bio/Entrez/DTDs/mathml-in-pubmed.mod -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,921 copying Bio/Entrez/DTDs/mathml2-qname-1.mod -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,921 copying Bio/Entrez/DTDs/mathml2.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,922 copying Bio/Entrez/DTDs/mathml3-qname1.mod -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,923 copying Bio/Entrez/DTDs/mathml3.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,923 copying Bio/Entrez/DTDs/mathmlsetup.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,924 copying Bio/Entrez/DTDs/mmlalias.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,925 copying Bio/Entrez/DTDs/mmlextra.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,925 copying Bio/Entrez/DTDs/modules.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,926 copying Bio/Entrez/DTDs/nlm-articleset-2.0.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,926 copying Bio/Entrez/DTDs/nlmcatalogrecordset_170601.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,927 copying Bio/Entrez/DTDs/nlmcommon_011101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,927 copying Bio/Entrez/DTDs/nlmcommon_080101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,928 copying Bio/Entrez/DTDs/nlmcommon_090101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,929 copying Bio/Entrez/DTDs/nlmmedline_011101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,929 copying Bio/Entrez/DTDs/nlmmedline_080101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,930 copying Bio/Entrez/DTDs/nlmmedline_090101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,930 copying Bio/Entrez/DTDs/nlmmedlinecitation_011101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,931 copying Bio/Entrez/DTDs/nlmmedlinecitation_080101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,931 copying Bio/Entrez/DTDs/nlmmedlinecitation_090101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,932 copying Bio/Entrez/DTDs/nlmmedlinecitationset_100101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,932 copying Bio/Entrez/DTDs/nlmmedlinecitationset_100301.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,933 copying Bio/Entrez/DTDs/nlmmedlinecitationset_110101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,934 copying Bio/Entrez/DTDs/nlmmedlinecitationset_120101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,934 copying Bio/Entrez/DTDs/nlmmedlinecitationset_130101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,935 copying Bio/Entrez/DTDs/nlmmedlinecitationset_130501.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,935 copying Bio/Entrez/DTDs/nlmmedlinecitationset_140101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,936 copying Bio/Entrez/DTDs/nlmmedlinecitationset_150101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,936 copying Bio/Entrez/DTDs/nlmserials_080101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,937 copying Bio/Entrez/DTDs/nlmserials_100101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,937 copying Bio/Entrez/DTDs/nlmsharedcatcit_080101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,938 copying Bio/Entrez/DTDs/nlmsharedcatcit_090101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,938 copying Bio/Entrez/DTDs/notat.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,939 copying Bio/Entrez/DTDs/para.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,940 copying Bio/Entrez/DTDs/phrase.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,940 copying Bio/Entrez/DTDs/pmc-1.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,941 copying Bio/Entrez/DTDs/pubmed_020114.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,941 copying Bio/Entrez/DTDs/pubmed_080101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,942 copying Bio/Entrez/DTDs/pubmed_090101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,942 copying Bio/Entrez/DTDs/pubmed_100101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,943 copying Bio/Entrez/DTDs/pubmed_100301.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,943 copying Bio/Entrez/DTDs/pubmed_110101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,944 copying Bio/Entrez/DTDs/pubmed_120101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,944 copying Bio/Entrez/DTDs/pubmed_130101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,945 copying Bio/Entrez/DTDs/pubmed_130501.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,945 copying Bio/Entrez/DTDs/pubmed_140101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,946 copying Bio/Entrez/DTDs/pubmed_150101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,946 copying Bio/Entrez/DTDs/pubmed_180101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,947 copying Bio/Entrez/DTDs/pubmed_180601.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,948 copying Bio/Entrez/DTDs/pubmed_190101.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,948 copying Bio/Entrez/DTDs/references.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,949 copying Bio/Entrez/DTDs/section.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,949 copying Bio/Entrez/DTDs/taxon.dtd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,950 copying Bio/Entrez/DTDs/xhtml-inlstyle-1.mod -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,950 copying Bio/Entrez/DTDs/xhtml-table-1.mod -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,951 copying Bio/Entrez/DTDs/xmlspecchars.ent -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/DTDs 2025-09-05T18:22:56,952 creating build/lib.linux-armv7l-cpython-313/Bio/Entrez/XSDs 2025-09-05T18:22:56,952 copying Bio/Entrez/XSDs/IPGReportSet.xsd -> build/lib.linux-armv7l-cpython-313/Bio/Entrez/XSDs 2025-09-05T18:22:56,952 copying Bio/motifs/_pwm.c -> build/lib.linux-armv7l-cpython-313/Bio/motifs 2025-09-05T18:22:56,953 copying Bio/Nexus/cnexus.c -> build/lib.linux-armv7l-cpython-313/Bio/Nexus 2025-09-05T18:22:56,953 copying Bio/PDB/ccealignmodule.c -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:56,954 copying Bio/PDB/kdtrees.c -> build/lib.linux-armv7l-cpython-313/Bio/PDB 2025-09-05T18:22:56,955 copying Bio/SeqIO/_twoBitIO.c -> build/lib.linux-armv7l-cpython-313/Bio/SeqIO 2025-09-05T18:22:56,955 copying BioSQL/py.typed -> build/lib.linux-armv7l-cpython-313/BioSQL 2025-09-05T18:22:56,970 running build_ext 2025-09-05T18:22:57,309 building 'Bio.Align._codonaligner' extension 2025-09-05T18:22:57,310 creating build/temp.linux-armv7l-cpython-313/Bio/Align 2025-09-05T18:22:57,310 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/include/python3.13 -c Bio/Align/_codonaligner.c -o build/temp.linux-armv7l-cpython-313/Bio/Align/_codonaligner.o 2025-09-05T18:22:59,012 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-313/Bio/Align/_codonaligner.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-313/Bio/Align/_codonaligner.cpython-313-arm-linux-gnueabihf.so 2025-09-05T18:22:59,123 building 'Bio.Align._pairwisealigner' extension 2025-09-05T18:22:59,124 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/include/python3.13 -c Bio/Align/_pairwisealigner.c -o build/temp.linux-armv7l-cpython-313/Bio/Align/_pairwisealigner.o 2025-09-05T18:23:19,131 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-313/Bio/Align/_pairwisealigner.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-313/Bio/Align/_pairwisealigner.cpython-313-arm-linux-gnueabihf.so 2025-09-05T18:23:19,252 building 'Bio.cpairwise2' extension 2025-09-05T18:23:19,252 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -I/usr/include/python3.13 -c Bio/cpairwise2module.c -o build/temp.linux-armv7l-cpython-313/Bio/cpairwise2module.o 2025-09-05T18:23:19,617 Bio/cpairwise2module.c: In function ‘_get_match_score’: 2025-09-05T18:23:19,618 Bio/cpairwise2module.c:60:22: error: implicit declaration of function ‘PyEval_CallObject’; did you mean ‘PyObject_CallObject’? [-Wimplicit-function-declaration] 2025-09-05T18:23:19,618 60 | if(!(py_result = PyEval_CallObject(py_match_fn, py_arglist))) 2025-09-05T18:23:19,618 | ^~~~~~~~~~~~~~~~~ 2025-09-05T18:23:19,618 | PyObject_CallObject 2025-09-05T18:23:19,618 Bio/cpairwise2module.c:60:20: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-05T18:23:19,618 60 | if(!(py_result = PyEval_CallObject(py_match_fn, py_arglist))) 2025-09-05T18:23:19,618 | ^ 2025-09-05T18:23:19,641 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-05T18:23:19,795 ERROR: python setup.py bdist_wheel exited with 1 2025-09-05T18:23:19,806 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-05T18:23:19,806 exec(compile('"'"''"'"''"'"' 2025-09-05T18:23:19,806 # This is -- a caller that pip uses to run setup.py 2025-09-05T18:23:19,806 # 2025-09-05T18:23:19,806 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-05T18:23:19,806 # import from `distutils.core` to work with newer packaging standards. 2025-09-05T18:23:19,806 # - It provides a clear error message when setuptools is not installed. 2025-09-05T18:23:19,806 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-05T18:23:19,806 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-05T18:23:19,806 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-05T18:23:19,806 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-05T18:23:19,806 import os, sys, tokenize, traceback 2025-09-05T18:23:19,806 2025-09-05T18:23:19,806 try: 2025-09-05T18:23:19,806 import setuptools 2025-09-05T18:23:19,806 except ImportError: 2025-09-05T18:23:19,806 print( 2025-09-05T18:23:19,806 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-05T18:23:19,806 "the build environment with exception:", 2025-09-05T18:23:19,806 file=sys.stderr, 2025-09-05T18:23:19,806 ) 2025-09-05T18:23:19,806 traceback.print_exc() 2025-09-05T18:23:19,806 sys.exit(1) 2025-09-05T18:23:19,806 2025-09-05T18:23:19,806 __file__ = %r 2025-09-05T18:23:19,806 sys.argv[0] = __file__ 2025-09-05T18:23:19,806 2025-09-05T18:23:19,806 if os.path.exists(__file__): 2025-09-05T18:23:19,806 filename = __file__ 2025-09-05T18:23:19,806 with tokenize.open(__file__) as f: 2025-09-05T18:23:19,806 setup_py_code = f.read() 2025-09-05T18:23:19,806 else: 2025-09-05T18:23:19,806 filename = "" 2025-09-05T18:23:19,806 setup_py_code = "from setuptools import setup; setup()" 2025-09-05T18:23:19,806 2025-09-05T18:23:19,806 exec(compile(setup_py_code, filename, "exec")) 2025-09-05T18:23:19,806 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-aax9yafu/biopython_31fb258823d04220b4285b4dc5cb72f4/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-o5x7ugnx[/] 2025-09-05T18:23:19,807 [bold magenta]cwd[/]: /tmp/pip-wheel-aax9yafu/biopython_31fb258823d04220b4285b4dc5cb72f4/ 2025-09-05T18:23:19,807 Building wheel for biopython (setup.py): finished with status 'error' 2025-09-05T18:23:19,807 ERROR: Failed building wheel for biopython 2025-09-05T18:23:19,808 Running setup.py clean for biopython 2025-09-05T18:23:19,809 Running command python setup.py clean 2025-09-05T18:23:20,972 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-05T18:23:20,972 !! 2025-09-05T18:23:20,973 ******************************************************************************** 2025-09-05T18:23:20,973 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-05T18:23:20,973 License :: Freely Distributable 2025-09-05T18:23:20,973 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-05T18:23:20,973 ******************************************************************************** 2025-09-05T18:23:20,973 !! 2025-09-05T18:23:20,973 self._finalize_license_expression() 2025-09-05T18:23:21,048 running clean 2025-09-05T18:23:21,193 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-05T18:23:21,193 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-05T18:23:21,219 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-05T18:23:21,220 'build/scripts-3.13' does not exist -- can't clean it 2025-09-05T18:23:21,220 removing 'build' 2025-09-05T18:23:21,332 Failed to build biopython 2025-09-05T18:23:21,333 ERROR: Failed to build one or more wheels 2025-09-05T18:23:21,334 Exception information: 2025-09-05T18:23:21,334 Traceback (most recent call last): 2025-09-05T18:23:21,334 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-05T18:23:21,334 status = _inner_run() 2025-09-05T18:23:21,334 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-05T18:23:21,334 return self.run(options, args) 2025-09-05T18:23:21,334 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-05T18:23:21,334 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-05T18:23:21,334 return func(self, options, args) 2025-09-05T18:23:21,334 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-05T18:23:21,334 raise CommandError("Failed to build one or more wheels") 2025-09-05T18:23:21,334 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-05T18:23:21,338 Removed build tracker: '/tmp/pip-build-tracker-jtma1vfy'