2024-06-18T08:39:38,050 Created temporary directory: /tmp/pip-build-tracker-zjyztf0h 2024-06-18T08:39:38,051 Initialized build tracking at /tmp/pip-build-tracker-zjyztf0h 2024-06-18T08:39:38,052 Created build tracker: /tmp/pip-build-tracker-zjyztf0h 2024-06-18T08:39:38,052 Entered build tracker: /tmp/pip-build-tracker-zjyztf0h 2024-06-18T08:39:38,053 Created temporary directory: /tmp/pip-wheel-drnyjazb 2024-06-18T08:39:38,056 Created temporary directory: /tmp/pip-ephem-wheel-cache-hrg9rt9u 2024-06-18T08:39:38,078 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-06-18T08:39:38,082 2 location(s) to search for versions of biotite: 2024-06-18T08:39:38,082 * https://pypi.org/simple/biotite/ 2024-06-18T08:39:38,082 * https://www.piwheels.org/simple/biotite/ 2024-06-18T08:39:38,083 Fetching project page and analyzing links: https://pypi.org/simple/biotite/ 2024-06-18T08:39:38,083 Getting page https://pypi.org/simple/biotite/ 2024-06-18T08:39:38,085 Found index url https://pypi.org/simple/ 2024-06-18T08:39:38,257 Fetched page https://pypi.org/simple/biotite/ as application/vnd.pypi.simple.v1+json 2024-06-18T08:39:38,315 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/b9/6e/65ea67df910859c5baad20c22f9c1bbe8d111f3dcb41b66b39607bf8c26f/biotite-0.20.0-cp36-cp36m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,315 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/ea/4b/51ae211af1c86945f440c4ae1450b0a40724e203a143fc036c0d577852e4/biotite-0.20.0-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,316 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/b6/1d/03eb65625279ed224e6a69e9a4be702ae0e0c0c653327b40373b6866a591/biotite-0.20.0-cp36-cp36m-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,317 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/b3/39/a388b163f3e6db9ac594588c87e9b8491f3719c784c5c78251260cdedba4/biotite-0.20.0-cp36-cp36m-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,317 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/bd/cd/94b19bf3ab280aeb9be4dde6f38ad9e7f33f67205e2440c6f8be346c64f4/biotite-0.20.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,318 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/b2/e8/48c7076e8cf7e98b956f3ac1b7e975b7f727aaa39fbfea75c8146ad8b15a/biotite-0.20.0-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,318 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/94/7e/8d752a43fd4814f3a6e23d68f7dc852708fb9c65dc8dce8dcaa546a733fe/biotite-0.20.0-cp37-cp37m-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,319 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/5d/2c/52c796a44874dcbbaca0eeccd3407ab0d35800ebdee840c7184f1db34b9f/biotite-0.20.0-cp37-cp37m-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,320 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/21/70/c0fd146ef7fb3a5f10b7712b196717ada987fdefe1e2726a400d67d41c34/biotite-0.20.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,320 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/2d/ce/51d542b4a320a3df015ec03ed77799cf414cad67c2eff2d5a79ca132d100/biotite-0.20.0-cp38-cp38-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,321 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/02/94/219eff6f457a59bd80680e45c77f50695d6a00ff60c8ac034aba1d342ce7/biotite-0.20.0-cp38-cp38-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,322 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/0b/e7/4e04d366cc51d1293bd4aa5c992e977772d22861db0433f44dd134bed79d/biotite-0.20.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,323 Found link https://files.pythonhosted.org/packages/be/1f/c9ffdf5109c511c6faf471672f384ede4859f4c335e317a6bc0221597154/biotite-0.20.0.tar.gz (from https://pypi.org/simple/biotite/) (requires-python:>=3.6), version: 0.20.0 2024-06-18T08:39:38,323 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/5a/c8/098f346fd598b2630ddb399c0770a68ae601a07d9a2d28982c97e1fc4062/biotite-0.20.1-cp36-cp36m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,324 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/c0/61/ad0d4e6f803847187d7d012c35dac97c27bc41ebf3dcc5c557b5a56d3248/biotite-0.20.1-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,325 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/0a/68/19b38b4fbdd3e360e963a866f721750c86439f13ce70d0a5b8ffaa48c241/biotite-0.20.1-cp36-cp36m-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,325 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/02/81/48eea3c80d36dce06ccf218cb98e6785ff8b5341cfb6ccbeb9e6a799bd37/biotite-0.20.1-cp36-cp36m-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,326 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/e8/9e/a453bf8f350cf357831987b376c2d886c8c79bfa4fb8a216c9159f96346e/biotite-0.20.1-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,326 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/04/b9/b2163e79f4c62971b622dc95cfbe510d7af6ad2ec5cba9170ab3c3b89984/biotite-0.20.1-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,327 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/79/bf/1a68d4a135eba6ae5516d84bd7a2f7d44d949fd926a55e5631b45024103c/biotite-0.20.1-cp37-cp37m-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,328 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/68/6b/0217761418f3cab64f0699cf049276293edb0d03a99bddf06e43af178574/biotite-0.20.1-cp37-cp37m-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,329 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/7d/a5/8768d8ee2ca6afe6057720fc20bbcbea54a4d78d87934111a98778240621/biotite-0.20.1-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,329 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/40/91/ac068f12fb375ee226059a578e33d6c61b063a5866bf279a0c46f1d2b610/biotite-0.20.1-cp38-cp38-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,330 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/a4/30/4c13d535922519d8878f6886b66a3875b0bb17d40d5f4117b7fa36297481/biotite-0.20.1-cp38-cp38-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,331 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/78/d7/4b8ce96eb672b7161aecd1d6b115dd870b8e0974218b473bd21f8b9d5c47/biotite-0.20.1-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,332 Found link https://files.pythonhosted.org/packages/cf/bd/e5310ace99c15a2fd322e5fa8f43fc859bf40b1915dd708b7816a7a0fdb2/biotite-0.20.1.tar.gz (from https://pypi.org/simple/biotite/) (requires-python:>=3.6), version: 0.20.1 2024-06-18T08:39:38,333 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/44/f5/4bc5b93214da056b21dd78d5f1fe280eceb7a7144fdc3ada7c2934b96a2b/biotite-0.21.0-cp36-cp36m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,334 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/5f/d3/2a4cb3aefcc62149188e24c9398f1799d1e3b1b310560ebb9ddf59315bf1/biotite-0.21.0-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,334 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/01/6e/21c303564f54898ca5ff53d0eb37deff50004d57d008427be4f9d8600f9a/biotite-0.21.0-cp36-cp36m-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,335 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/a7/34/c4e9e007714ee6a2a7f2c0297efcb36ce21b980ed5e0530c9a9c13727596/biotite-0.21.0-cp36-cp36m-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,335 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/5c/5e/6472660e9169cc70fba30cb732c6f6450a3d63fe3d447aa4bd68f3762fa5/biotite-0.21.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,336 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/4c/30/bccf534260e2e7669c48d5e1fb63fa0c3bb56e4562c88517e979ecd1f564/biotite-0.21.0-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,336 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/07/62/701525280f1355b8517f90d82ccad6628d4f8a4a33aae47e8a35f1f34faa/biotite-0.21.0-cp37-cp37m-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,337 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/da/0d/ab3cd36f43169bef842a1f3719cce06ae45bf6c02703bcbb202394a037a0/biotite-0.21.0-cp37-cp37m-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,337 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/bc/c1/4ebb2215fae82c02f8262b5fe3b6ec5b19fbea46561dad0ec8b24d2a2863/biotite-0.21.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,338 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/5b/0c/4ae8644a9dc8a59f15bfd1206e96235aa290d28bcc4fbc00ad65ed779b37/biotite-0.21.0-cp38-cp38-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,339 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/f0/77/6f111d39a1130a0fa11cad9373a0eff197c04a4953b9432859745b75090b/biotite-0.21.0-cp38-cp38-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,339 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/11/14/c29e051e234287e374dd1c93dea6913488200e8f67bf2e33009c1f23f3af/biotite-0.21.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,340 Found link https://files.pythonhosted.org/packages/49/fa/dd5ce1ce2c5e01a3da54f96019e6c51a4fa3b55693c85ba29f94e2919758/biotite-0.21.0.tar.gz (from https://pypi.org/simple/biotite/) (requires-python:>=3.6), version: 0.21.0 2024-06-18T08:39:38,341 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/eb/b7/8473b815dcc25fb104a5d8e8c924336aa36eebc45ba3fe7a54e370d90c7e/biotite-0.22.0-cp36-cp36m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,342 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/38/d2/a979dfff76b41cb14703cf561c738567397447d120da7d1da5000bba54dd/biotite-0.22.0-cp36-cp36m-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,343 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/11/68/099a69f31219c0463c763db6a34691e084818b58af3063b865cec3a4e63d/biotite-0.22.0-cp36-cp36m-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,343 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/ab/c0/a19748e92a16eb366f62653647195d64b0e9aa3d084b1960f2c3820f70ce/biotite-0.22.0-cp36-cp36m-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,344 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/d1/12/1170e017f231341e19cfd6fad7f2bdff06e10a0eb02712ca40e663b15fd3/biotite-0.22.0-cp37-cp37m-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,344 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/56/9c/d0e333824e5eaae54f0d511ccfd75362d5aa4c6994ea0f7f2a6ad760ec02/biotite-0.22.0-cp37-cp37m-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,345 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/14/de/8b68e505633508ec394d2f4c214934c8f2b81fc764e0f808fe6b73d9200d/biotite-0.22.0-cp37-cp37m-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,345 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/87/5c/4832c3f43bca15a0bb80babf71e3fcc3ac8661460d8ff9c775731029a423/biotite-0.22.0-cp37-cp37m-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,346 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/62/ee/ddd4e3e7e08cdc05c6d34c8d874dfa6b75d22c3adf338217dd57cf519114/biotite-0.22.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,346 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/8f/1a/8e88fe7d5aab588ea1442afef89553de68cafbb3d708ed4e95334092772f/biotite-0.22.0-cp38-cp38-manylinux1_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,347 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/2f/1e/d1fd0f2461c60efe2da76d56d226831c8521d6609dc207ca45348ae77d1b/biotite-0.22.0-cp38-cp38-win32.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,348 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/4e/3e/af048338059f139492e1cbb7ce49d59ff55dece1b2492a15ba17d00b3f84/biotite-0.22.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,349 Found link https://files.pythonhosted.org/packages/f1/82/c2c6dd6ede5a2fa61c5101635a4d16bcba4f06be9c0bcd8c14868cf42ab5/biotite-0.22.0.tar.gz (from https://pypi.org/simple/biotite/) 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https://files.pythonhosted.org/packages/3f/0d/69565c78aecdd8a6cdff12f138f75760d5c416022f04e9c94f2212b3f11d/biotite-0.36.0-cp39-cp39-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,461 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/c1/f1/8cc9fd6ba0137d96f43ef08fe81cc0c20d662312387709f61cb15fbe190d/biotite-0.36.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,461 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/9e/24/7392e9332afce97c195ac7d1db320414c2f69864cd459364643980679d90/biotite-0.36.0-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,463 Found link https://files.pythonhosted.org/packages/29/86/e5ec721925d9e4973c87d838fc1e240c2ab5d11246e38884a87250f86ccf/biotite-0.36.0.tar.gz (from 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2024-06-18T08:39:38,465 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/b2/f2/fb932e2caa7fad7ee60e58ac6cbf6837cde9575d84eec3824f3acdb24140/biotite-0.36.1-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,465 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/28/65/1c7a90de0ebf54573527f8ec8845f3cfbc8156b1a69144693d8bbc32b933/biotite-0.36.1-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,466 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/62/70/c5ce4d25b896c2a42d76fe1706fde79ce5f8715eca89d90a42908fd8a13a/biotite-0.36.1-cp311-cp311-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,467 Skipping link: No binaries permitted for biotite: 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2024-06-18T08:39:38,476 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/a0/81/3b2b4c0213f678b72f3ae454ff2e4282634a464cf97e58635a5b72aa248a/biotite-0.37.0-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,477 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/46/dd/ae47108eeddce2a46248a1efc8aed01ee133ab89809d5b2cda64a0510eb6/biotite-0.37.0-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,478 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/d0/0f/ea7930a7050b1a73031bdece9ceb1f76e86fed8cebea69e6d4f1814aec3f/biotite-0.37.0-cp311-cp311-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,479 Skipping link: No binaries permitted for biotite: 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2024-06-18T08:39:38,486 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/22/b6/0e3caab0c0d5981e0a6485d18b234f6236746fbf2e1e92a35d416c3a7911/biotite-0.38.0-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,486 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/e9/b1/1375e204abc0779b2ce61c85f1c0ecbdbd4a4ea5dc3899ab72977e3c121a/biotite-0.38.0-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,487 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/c3/a4/4966684c45ca63f2636450f80af177a602392fb8a65daacfce1212393ca1/biotite-0.38.0-cp311-cp311-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,487 Skipping link: No binaries permitted for biotite: 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2024-06-18T08:39:38,495 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/69/5a/ac6df75cc2cefb44917a06b070c426fe88cafbd093b7b2608d2897697eb4/biotite-0.39.0-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,496 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/80/0f/50bf10819d4b8913cf21a16e6db3855a4cafec446fa4245cef308c17f655/biotite-0.39.0-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,496 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/a9/85/8bf4e394dec38ed224c8e8cb9708d20570e5813f3e45667274b9dc784407/biotite-0.39.0-cp311-cp311-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,497 Skipping link: No binaries permitted for biotite: 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https://files.pythonhosted.org/packages/d9/a9/c6c3c259e2fcc7afd107e483f0b8314b1ea106951c6efedfe29ae008cdaf/biotite-0.39.0-cp312-cp312-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,499 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/59/f3/433401057ec659f87da178bac856627f1942cfeb49dd0c5941a5b9166144/biotite-0.39.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,500 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/15/28/9aaed80685093a36dd8cbd68f691942ffc49a29a51af7192dcc391fb6249/biotite-0.39.0-cp312-cp312-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,501 Found link https://files.pythonhosted.org/packages/34/40/5295d7e2f182dfb5236b20f74cfce3eabf9c0a2613b4a63d5409d5f03efd/biotite-0.39.0.tar.gz (from https://pypi.org/simple/biotite/) (requires-python:>=3.7), version: 0.39.0 2024-06-18T08:39:38,502 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/9a/8a/f1ecd9cfd530baed03560e0a20f6620872eb730e0f41f4305a016556a656/biotite-0.40.0-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,502 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/81/eb/098d255645cefadd3d912ea325567795daa6bbbe2efe07171e45343b1b27/biotite-0.40.0-cp310-cp310-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,503 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/a2/6c/677c93014ff64c93b9162836a9716b2c3da6f830f5223b7e0ff32ede7982/biotite-0.40.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,504 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/de/f4/d31f32ddacddc5c60ee6ee896b778919c735bd2c392863dc4bb560246ff6/biotite-0.40.0-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,505 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/67/fe/1532a0cc0217d7e75ba6e05179cc7ec850abb4358557716f2fc167bf86be/biotite-0.40.0-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,505 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/f4/9f/d8b54b623844f73946854015d39eda1da8f5f1d1b6d60d3d3fff159e0417/biotite-0.40.0-cp311-cp311-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,506 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/17/ac/f9dd997ce9e760f7b756425d004e68dee6c8556558b2d58fcd7ef89436d0/biotite-0.40.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,506 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/d3/7a/56ffbfd2c4bc6a1986f163ace756d1adfccf7683760f6389a345148aab5d/biotite-0.40.0-cp311-cp311-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,507 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/6b/4e/72c788e802c1b1d2be89045369839bcd8758a2419b314397dd49de68bcf4/biotite-0.40.0-cp312-cp312-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,507 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/f0/d8/1bf2422d705f40250d0a3f44daebb62f5d57e3b78834fa0987d8b2e4f1b0/biotite-0.40.0-cp312-cp312-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,508 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/0c/fb/b3cb02519ea5f867451f6894d338f67169f10733840b751fd4b34ada9392/biotite-0.40.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,509 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/fd/83/5f22b2609ff05f0c46e19987d50f1927fc2a495539a900a9cae0a4e4be00/biotite-0.40.0-cp312-cp312-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.7) 2024-06-18T08:39:38,510 Found link https://files.pythonhosted.org/packages/8b/02/522ce4624262088426792bfa671382f775abadd0e8ccbc75f828bd15d65f/biotite-0.40.0.tar.gz (from https://pypi.org/simple/biotite/) (requires-python:>=3.7), version: 0.40.0 2024-06-18T08:39:38,510 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/60/d0/c71a43bd0c1879466b21c1a81f4c05ea518980eec9712660408fdacdd408/biotite-0.41.0-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,511 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/87/5f/e201f0ae2958a16413c8d3b1e8d9c7c7b4f65315beea02b2deeb5162d669/biotite-0.41.0-cp310-cp310-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,512 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/94/27/c56ac5e8983920f2367a7e0492734b7ff7436b1385c0fc623ee246b8eedb/biotite-0.41.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,512 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/ce/cd/35099622b68b1df16d606a7f310f18ad7b82194f2ecae8cd0bf739f57c4d/biotite-0.41.0-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,513 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/7a/10/bc28547ad560c9e09d75050b13ef5588dbd4fc05ad437ade3779f144b1c2/biotite-0.41.0-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,514 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/5f/a3/3871cf6a289e5e700d752643a391f4eaef55b275edd109fe310668898ee5/biotite-0.41.0-cp311-cp311-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,514 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/f2/3e/02c4de7e5fb0e3941f9cf40bd787ecf7cd5d8e8d569599def6c7e4d65efb/biotite-0.41.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,515 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/9d/d2/c4235b6decdde4f6d9d3989068100d64e905b084cf8cbd4889d515adad0e/biotite-0.41.0-cp311-cp311-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,515 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/5f/7c/e948351e8f41c73b7f9bc5408cdae2ef63f87b5d363aa3db60ec0e9b5600/biotite-0.41.0-cp312-cp312-macosx_10_9_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,516 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/b6/42/a0529cae4ea554573b50e3d16f27e504ba2e5bb07bfb68e3ff2710e8a811/biotite-0.41.0-cp312-cp312-macosx_11_0_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,517 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/76/61/14c269f8c9f76170e15ee2d6655fd3a5139bc27a518794be13cfa52db06c/biotite-0.41.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,517 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/ab/89/d43d9707e0c8fec0c1a57750ad971933695ab904ab4a174ee16be6861ce7/biotite-0.41.0-cp312-cp312-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,518 Found link https://files.pythonhosted.org/packages/43/6f/2e233d4a889ce606839ae30b48a5a493f5e153014614fbf501e4a1a60999/biotite-0.41.0.tar.gz (from https://pypi.org/simple/biotite/) (requires-python:>=3.10), version: 0.41.0 2024-06-18T08:39:38,519 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/36/a2/b6a5154d318d9748bf2367f90ceeed601c79dcd672a4d066854cf4478d37/biotite-0.41.1-cp310-cp310-macosx_10_16_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,520 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/9f/65/3f9d011c9836944de8f51c55b2a53e7497877fc7e54dd789362a5d782687/biotite-0.41.1-cp310-cp310-macosx_10_16_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,520 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/a7/fc/5c287e4850680eed896addda0e2b4ded8a1c969d1aaff093633b204bc373/biotite-0.41.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,521 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/5e/a1/eb193b124fda07ffc64cd97be93d032b794d3c22a09bdfad4fea1c43386e/biotite-0.41.1-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,522 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/90/35/f320f0edf51878acb02fe7147c59c513bc4ecf55a3a310b5fb2fd80c3397/biotite-0.41.1-cp311-cp311-macosx_10_16_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,522 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/42/3d/fdca99512c2ad9e20ef37559563ec1b8650dc58eaab6117bc6befaed2842/biotite-0.41.1-cp311-cp311-macosx_10_16_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,523 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/1d/39/66f275a5feec3817ace38dc0de1abac0487496239418248de42988d44b21/biotite-0.41.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,523 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/90/db/4ff9e54969107fd3d6057b518aebb64f674de2a5fe6ef9c916fe7ff42890/biotite-0.41.1-cp311-cp311-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,523 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/15/15/a9ce89f2dac507e9ac046f53610a51b148c0e509dfb045c4e3ab8dfb75fd/biotite-0.41.1-cp312-cp312-macosx_10_16_arm64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,524 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/33/b2/575954148420ad02466dbfc1c8c540cb48a8b42129d194d669870b342ef6/biotite-0.41.1-cp312-cp312-macosx_10_16_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,525 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/a3/5d/ff014b36ac6f1f38b45bf58567e95efe5bb1f9006077847eace8af3ffe17/biotite-0.41.1-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,526 Skipping link: No binaries permitted for biotite: https://files.pythonhosted.org/packages/70/5b/1cf4765e7d4fa1063f6a7e27a763a6fb1789e5b663eb5bc815b0977ef12a/biotite-0.41.1-cp312-cp312-win_amd64.whl (from https://pypi.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,527 Found link https://files.pythonhosted.org/packages/8d/ce/755fdb2282d430053183341b44d9c9a0d265d336f1353ba29d2818b0708a/biotite-0.41.1.tar.gz (from https://pypi.org/simple/biotite/) (requires-python:>=3.10), version: 0.41.1 2024-06-18T08:39:38,528 Fetching project page and analyzing links: https://www.piwheels.org/simple/biotite/ 2024-06-18T08:39:38,529 Getting page https://www.piwheels.org/simple/biotite/ 2024-06-18T08:39:38,530 Found index url https://www.piwheels.org/simple/ 2024-06-18T08:39:38,685 Fetched page https://www.piwheels.org/simple/biotite/ as text/html 2024-06-18T08:39:38,712 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.41.0-cp311-cp311-linux_armv6l.whl#sha256=e856bf3921f68f98d5da0bbdbb0ae70d3b007be6d36ec56610093aaeb03232bd (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.10) 2024-06-18T08:39:38,713 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.41.0-cp311-cp311-linux_armv7l.whl#sha256=e856bf3921f68f98d5da0bbdbb0ae70d3b007be6d36ec56610093aaeb03232bd (from 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https://www.piwheels.org/simple/biotite/biotite-0.32.0-cp39-cp39-linux_armv7l.whl#sha256=e857fa2b4994593ea69f60c72d44eabb826054f1a7efa67bc0b122b1c4e0de23 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,759 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.31.0-cp37-cp37m-linux_armv6l.whl#sha256=30ae3f2cfd4cc2a8c1d2606a2066a4fd5b89ad1cbc8c8f4e063730be20a84712 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,760 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.31.0-cp37-cp37m-linux_armv7l.whl#sha256=30ae3f2cfd4cc2a8c1d2606a2066a4fd5b89ad1cbc8c8f4e063730be20a84712 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,761 Skipping link: No binaries permitted for biotite: 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https://www.piwheels.org/simple/biotite/biotite-0.30.0-cp37-cp37m-linux_armv7l.whl#sha256=03fce93d953aa859c9c64df346af29bd71fca02ee37cba7c829a3ec464abe45d (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,763 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.30.0-cp39-cp39-linux_armv6l.whl#sha256=21a9f631ac7bf724a6fb90b38669300350a31439b98367336e782bb110a720fd (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,763 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.30.0-cp39-cp39-linux_armv7l.whl#sha256=21a9f631ac7bf724a6fb90b38669300350a31439b98367336e782bb110a720fd (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,764 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.29.0-cp37-cp37m-linux_armv6l.whl#sha256=66e5cb4f650c62d00826f2f1f2f4f093f9b3bfe43ba08da26cb983d5918e6d72 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,765 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.29.0-cp37-cp37m-linux_armv7l.whl#sha256=66e5cb4f650c62d00826f2f1f2f4f093f9b3bfe43ba08da26cb983d5918e6d72 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,765 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.29.0-cp39-cp39-linux_armv6l.whl#sha256=2855c26e8945db583cb38acc2c8ec9b3363c00e53aa613b2b81e579450bbdff6 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,766 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.29.0-cp39-cp39-linux_armv7l.whl#sha256=2855c26e8945db583cb38acc2c8ec9b3363c00e53aa613b2b81e579450bbdff6 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,767 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.28.0-cp37-cp37m-linux_armv6l.whl#sha256=d0f72f24f91ea7eb1361394651a026ec52bb7e89127f79b1aa893955afcaddbc (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,767 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.28.0-cp37-cp37m-linux_armv7l.whl#sha256=d0f72f24f91ea7eb1361394651a026ec52bb7e89127f79b1aa893955afcaddbc (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,768 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.28.0-cp39-cp39-linux_armv6l.whl#sha256=6925888fd276896e1ef35606aef5a4d1738084207127320d4e5c155c30b45e4d (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,769 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.28.0-cp39-cp39-linux_armv7l.whl#sha256=6925888fd276896e1ef35606aef5a4d1738084207127320d4e5c155c30b45e4d (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,769 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.27.0-cp37-cp37m-linux_armv6l.whl#sha256=8fea3ddbb2ae22645fcb2e8a3e0b3f347d7047d38c59f343ce9302402b70744b (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,770 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.27.0-cp37-cp37m-linux_armv7l.whl#sha256=8fea3ddbb2ae22645fcb2e8a3e0b3f347d7047d38c59f343ce9302402b70744b (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,771 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.27.0-cp39-cp39-linux_armv6l.whl#sha256=850991b1941907a6aa783163e8c0298e2cfbea1800d0e0d365dba84050968e6e (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,772 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.27.0-cp39-cp39-linux_armv7l.whl#sha256=850991b1941907a6aa783163e8c0298e2cfbea1800d0e0d365dba84050968e6e (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,772 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.26.0-cp37-cp37m-linux_armv6l.whl#sha256=fd0d06a9ae069cce77f00ee26e264076ac780e5686513a446d1b548190e53402 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,773 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.26.0-cp37-cp37m-linux_armv7l.whl#sha256=fd0d06a9ae069cce77f00ee26e264076ac780e5686513a446d1b548190e53402 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,773 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.26.0-cp39-cp39-linux_armv6l.whl#sha256=f021b7ec95045c0db3310656b5a92703e6272391e055ca13e585bb2ac3018714 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,774 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.26.0-cp39-cp39-linux_armv7l.whl#sha256=f021b7ec95045c0db3310656b5a92703e6272391e055ca13e585bb2ac3018714 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,774 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.25.0-cp37-cp37m-linux_armv6l.whl#sha256=b3586768709bd0c2d3338f074347a528bda920cd0f7532bfbe88008d3a6d37c8 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,775 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.25.0-cp37-cp37m-linux_armv7l.whl#sha256=b3586768709bd0c2d3338f074347a528bda920cd0f7532bfbe88008d3a6d37c8 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,776 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.25.0-cp39-cp39-linux_armv6l.whl#sha256=7345966793a0c7ef4fbd75d4b2e0b9e5941c7c2fbea5f605dc1eda6f0d90621d (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,777 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.25.0-cp39-cp39-linux_armv7l.whl#sha256=7345966793a0c7ef4fbd75d4b2e0b9e5941c7c2fbea5f605dc1eda6f0d90621d (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,779 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.24.0-cp37-cp37m-linux_armv6l.whl#sha256=22056fe4b4bedadc898dff66fcdbbc04afdb238e33f613df573889c59f8c2704 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,780 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.24.0-cp37-cp37m-linux_armv7l.whl#sha256=22056fe4b4bedadc898dff66fcdbbc04afdb238e33f613df573889c59f8c2704 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,781 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.24.0-cp39-cp39-linux_armv6l.whl#sha256=e01b1143d014f7a2fd04efbd7d24a8e394ca7e585e750d2bb4a76e1f5b8cac42 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,784 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.24.0-cp39-cp39-linux_armv7l.whl#sha256=e01b1143d014f7a2fd04efbd7d24a8e394ca7e585e750d2bb4a76e1f5b8cac42 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,784 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.23.0-cp39-cp39-linux_armv6l.whl#sha256=d923c4f49aa36118dcf2cee686327bd3a204766ffa50d4ede05b98e03bbb7d1e (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,785 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.23.0-cp39-cp39-linux_armv7l.whl#sha256=d923c4f49aa36118dcf2cee686327bd3a204766ffa50d4ede05b98e03bbb7d1e (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,786 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.22.0-cp37-cp37m-linux_armv7l.whl#sha256=50b852ab7066e52d0afbbc67d104715ed219bec8f5eb9d4cd5193b869b2a24d3 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,786 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.22.0-cp37-cp37m-linux_armv6l.whl#sha256=50b852ab7066e52d0afbbc67d104715ed219bec8f5eb9d4cd5193b869b2a24d3 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,787 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.22.0-cp39-cp39-linux_armv6l.whl#sha256=b28c8a82ff461bb31adc66049957fce95539cf43d189e187a16d59dfb0c8ca7a (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,787 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.22.0-cp39-cp39-linux_armv7l.whl#sha256=b28c8a82ff461bb31adc66049957fce95539cf43d189e187a16d59dfb0c8ca7a (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,788 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.21.0-cp37-cp37m-linux_armv7l.whl#sha256=778f2f3d16434a10427974a04a468a0189c81ea9a7ab97ac6c08c413091ca850 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,789 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.21.0-cp37-cp37m-linux_armv6l.whl#sha256=778f2f3d16434a10427974a04a468a0189c81ea9a7ab97ac6c08c413091ca850 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,789 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.21.0-cp39-cp39-linux_armv6l.whl#sha256=b7e7a2bcde6d9d2624cbcd353feeb3cf6bd96abea889404ae744a82f52d90990 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,790 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.21.0-cp39-cp39-linux_armv7l.whl#sha256=b7e7a2bcde6d9d2624cbcd353feeb3cf6bd96abea889404ae744a82f52d90990 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,790 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.20.1-cp37-cp37m-linux_armv7l.whl#sha256=8605ce0ce04db1e823619e4fe00aa92d30b6d9e66f6078b4e0f3fc6755433403 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,791 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.20.1-cp37-cp37m-linux_armv6l.whl#sha256=8605ce0ce04db1e823619e4fe00aa92d30b6d9e66f6078b4e0f3fc6755433403 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,792 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.20.1-cp39-cp39-linux_armv6l.whl#sha256=5315c80595d4dd6b2704d221908ef2439de4c1fc5d233abbdebe4f29cb9120dd (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,793 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.20.1-cp39-cp39-linux_armv7l.whl#sha256=5315c80595d4dd6b2704d221908ef2439de4c1fc5d233abbdebe4f29cb9120dd (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,793 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.20.0-cp37-cp37m-linux_armv7l.whl#sha256=f38e4ddcc9fa30912bf944a59496fdc869352c6342e793a5d97df08cd8041690 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,794 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.20.0-cp37-cp37m-linux_armv6l.whl#sha256=f38e4ddcc9fa30912bf944a59496fdc869352c6342e793a5d97df08cd8041690 (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,794 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.20.0-cp39-cp39-linux_armv6l.whl#sha256=36d7728cf6f8691019e271c9c0e4c2858b97da29fdfeb0e49c7872f67ba6b5ba (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,795 Skipping link: No binaries permitted for biotite: https://www.piwheels.org/simple/biotite/biotite-0.20.0-cp39-cp39-linux_armv7l.whl#sha256=36d7728cf6f8691019e271c9c0e4c2858b97da29fdfeb0e49c7872f67ba6b5ba (from https://www.piwheels.org/simple/biotite/) (requires-python:>=3.6) 2024-06-18T08:39:38,795 Skipping link: not a file: https://www.piwheels.org/simple/biotite/ 2024-06-18T08:39:38,796 Skipping link: not a file: https://pypi.org/simple/biotite/ 2024-06-18T08:39:38,820 Given no hashes to check 1 links for project 'biotite': discarding no candidates 2024-06-18T08:39:38,839 Collecting biotite==0.41.1 2024-06-18T08:39:38,841 Created temporary directory: /tmp/pip-unpack-_ywa25t7 2024-06-18T08:39:39,309 Downloading biotite-0.41.1.tar.gz (17.4 MB) 2024-06-18T08:39:43,877 Added biotite==0.41.1 from https://files.pythonhosted.org/packages/8d/ce/755fdb2282d430053183341b44d9c9a0d265d336f1353ba29d2818b0708a/biotite-0.41.1.tar.gz to build tracker '/tmp/pip-build-tracker-zjyztf0h' 2024-06-18T08:39:43,886 Created temporary directory: /tmp/pip-build-env-dlphq4zy 2024-06-18T08:39:43,891 Installing build dependencies: started 2024-06-18T08:39:43,892 Running command pip subprocess to install build dependencies 2024-06-18T08:39:45,086 Using pip 24.0 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11) 2024-06-18T08:39:45,591 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-06-18T08:39:46,157 Collecting hatchling 2024-06-18T08:39:46,171 Using cached https://www.piwheels.org/simple/hatchling/hatchling-1.24.2-py3-none-any.whl (83 kB) 2024-06-18T08:39:46,258 Collecting hatch-vcs==0.4 2024-06-18T08:39:46,281 Using cached https://www.piwheels.org/simple/hatch-vcs/hatch_vcs-0.4.0-py3-none-any.whl (8.4 kB) 2024-06-18T08:39:46,495 Collecting hatch-cython==0.5 2024-06-18T08:39:46,508 Downloading https://www.piwheels.org/simple/hatch-cython/hatch_cython-0.5.0-py3-none-any.whl (22 kB) 2024-06-18T08:39:46,630 Collecting oldest-supported-numpy 2024-06-18T08:39:46,648 Using cached https://www.piwheels.org/simple/oldest-supported-numpy/oldest_supported_numpy-2023.12.21-py3-none-any.whl (4.9 kB) 2024-06-18T08:39:47,869 Collecting cython>=3.0 2024-06-18T08:39:47,892 Using cached https://www.piwheels.org/simple/cython/Cython-3.0.10-cp311-cp311-linux_armv7l.whl (11.8 MB) 2024-06-18T08:39:48,544 Collecting setuptools-scm>=6.4.0 (from hatch-vcs==0.4) 2024-06-18T08:39:48,560 Using cached https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-8.1.0-py3-none-any.whl (43 kB) 2024-06-18T08:39:48,821 Collecting hatch (from hatch-cython==0.5) 2024-06-18T08:39:48,833 Downloading https://www.piwheels.org/simple/hatch/hatch-1.12.0-py3-none-any.whl (125 kB) 2024-06-18T08:39:48,860 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 125.4/125.4 kB 7.0 MB/s eta 0:00:00 2024-06-18T08:39:50,128 Collecting setuptools (from hatch-cython==0.5) 2024-06-18T08:39:50,150 Using cached https://www.piwheels.org/simple/setuptools/setuptools-70.0.0-py3-none-any.whl (863 kB) 2024-06-18T08:39:50,351 Collecting packaging>=23.2 (from hatchling) 2024-06-18T08:39:50,365 Using cached https://www.piwheels.org/simple/packaging/packaging-24.1-py3-none-any.whl (53 kB) 2024-06-18T08:39:50,473 Collecting pathspec>=0.10.1 (from hatchling) 2024-06-18T08:39:50,486 Using cached https://www.piwheels.org/simple/pathspec/pathspec-0.12.1-py3-none-any.whl (31 kB) 2024-06-18T08:39:50,601 Collecting pluggy>=1.0.0 (from hatchling) 2024-06-18T08:39:50,614 Using cached https://www.piwheels.org/simple/pluggy/pluggy-1.5.0-py3-none-any.whl (20 kB) 2024-06-18T08:39:50,797 Collecting trove-classifiers (from hatchling) 2024-06-18T08:39:50,819 Using cached https://www.piwheels.org/simple/trove-classifiers/trove_classifiers-2024.5.22-py3-none-any.whl (13 kB) 2024-06-18T08:39:51,597 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/3a/be/650f9c091ef71cb01d735775d554e068752d3ff63d7943b26316dc401749/numpy-1.21.2.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-18T08:39:51,601 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/5f/d6/ad58ded26556eaeaa8c971e08b6466f17c4ac4d786cd3d800e26ce59cc01/numpy-1.21.3.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-18T08:39:51,605 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/fb/48/b0708ebd7718a8933f0d3937513ef8ef2f4f04529f1f66ca86d873043921/numpy-1.21.4.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-18T08:39:51,609 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/c2/a8/a924a09492bdfee8c2ec3094d0a13f2799800b4fdc9c890738aeeb12c72e/numpy-1.21.5.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-18T08:39:51,613 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/45/b7/de7b8e67f2232c26af57c205aaad29fe17754f793404f59c8a730c7a191a/numpy-1.21.6.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-18T08:39:51,899 Collecting numpy==1.23.2 (from oldest-supported-numpy) 2024-06-18T08:39:51,937 Using cached https://www.piwheels.org/simple/numpy/numpy-1.23.2-cp311-cp311-linux_armv7l.whl (12.4 MB) 2024-06-18T08:39:52,624 Collecting click>=8.0.6 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:52,639 Using cached https://www.piwheels.org/simple/click/click-8.1.7-py3-none-any.whl (97 kB) 2024-06-18T08:39:52,858 Collecting httpx>=0.22.0 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:52,878 Using cached https://www.piwheels.org/simple/httpx/httpx-0.27.0-py3-none-any.whl (75 kB) 2024-06-18T08:39:52,963 Collecting hyperlink>=21.0.0 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:52,974 Downloading https://www.piwheels.org/simple/hyperlink/hyperlink-21.0.0-py2.py3-none-any.whl (74 kB) 2024-06-18T08:39:52,995 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 74.6/74.6 kB 5.1 MB/s eta 0:00:00 2024-06-18T08:39:53,453 Collecting keyring>=23.5.0 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:53,464 Downloading https://www.piwheels.org/simple/keyring/keyring-25.2.1-py3-none-any.whl (38 kB) 2024-06-18T08:39:53,609 Collecting pexpect~=4.8 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:53,625 Using cached https://www.piwheels.org/simple/pexpect/pexpect-4.9.0-py2.py3-none-any.whl (63 kB) 2024-06-18T08:39:53,783 Collecting platformdirs>=2.5.0 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:53,799 Using cached https://www.piwheels.org/simple/platformdirs/platformdirs-4.2.2-py3-none-any.whl (18 kB) 2024-06-18T08:39:54,275 Collecting rich>=11.2.0 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:54,291 Using cached https://www.piwheels.org/simple/rich/rich-13.7.1-py3-none-any.whl (240 kB) 2024-06-18T08:39:54,554 Collecting shellingham>=1.4.0 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:54,572 Using cached https://www.piwheels.org/simple/shellingham/shellingham-1.5.4-py2.py3-none-any.whl (9.8 kB) 2024-06-18T08:39:54,644 Collecting tomli-w>=1.0 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:54,660 Using cached https://www.piwheels.org/simple/tomli-w/tomli_w-1.0.0-py3-none-any.whl (6.0 kB) 2024-06-18T08:39:54,869 Collecting tomlkit>=0.11.1 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:54,885 Using cached https://www.piwheels.org/simple/tomlkit/tomlkit-0.12.5-py3-none-any.whl (37 kB) 2024-06-18T08:39:54,965 Collecting userpath~=1.7 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:54,981 Using cached https://www.piwheels.org/simple/userpath/userpath-1.9.2-py3-none-any.whl (9.1 kB) 2024-06-18T08:39:55,417 Collecting uv>=0.1.35 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:55,419 Obtaining dependency information for uv>=0.1.35 from https://files.pythonhosted.org/packages/f4/8a/56ec76855372e4b59d9a0e4338282b7027fde43dda1da6d1ce3e744834c9/uv-0.2.12-py3-none-manylinux_2_17_armv7l.manylinux2014_armv7l.whl.metadata 2024-06-18T08:39:55,628 Downloading uv-0.2.12-py3-none-manylinux_2_17_armv7l.manylinux2014_armv7l.whl.metadata (35 kB) 2024-06-18T08:39:56,193 Collecting virtualenv>=20.26.1 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:56,210 Using cached https://www.piwheels.org/simple/virtualenv/virtualenv-20.26.2-py3-none-any.whl (3.9 MB) 2024-06-18T08:39:56,737 Collecting zstandard<1 (from hatch->hatch-cython==0.5) 2024-06-18T08:39:56,753 Downloading https://www.piwheels.org/simple/zstandard/zstandard-0.22.0-cp311-cp311-linux_armv7l.whl (3.7 MB) 2024-06-18T08:39:57,871 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.7/3.7 MB 3.3 MB/s eta 0:00:00 2024-06-18T08:39:58,294 Collecting anyio (from httpx>=0.22.0->hatch->hatch-cython==0.5) 2024-06-18T08:39:58,326 Using cached https://www.piwheels.org/simple/anyio/anyio-4.4.0-py3-none-any.whl (86 kB) 2024-06-18T08:39:58,477 Collecting certifi (from httpx>=0.22.0->hatch->hatch-cython==0.5) 2024-06-18T08:39:58,492 Using cached https://www.piwheels.org/simple/certifi/certifi-2024.6.2-py3-none-any.whl (164 kB) 2024-06-18T08:39:58,662 Collecting httpcore==1.* (from httpx>=0.22.0->hatch->hatch-cython==0.5) 2024-06-18T08:39:58,678 Using cached 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keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:39:59,539 Using cached https://www.piwheels.org/simple/jaraco-functools/jaraco.functools-4.0.1-py3-none-any.whl (9.8 kB) 2024-06-18T08:39:59,644 Collecting jaraco.context (from keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:39:59,664 Using cached https://www.piwheels.org/simple/jaraco-context/jaraco.context-5.3.0-py3-none-any.whl (6.5 kB) 2024-06-18T08:40:00,016 Collecting importlib-metadata>=4.11.4 (from keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:40:00,033 Using cached https://www.piwheels.org/simple/importlib-metadata/importlib_metadata-7.1.0-py3-none-any.whl (24 kB) 2024-06-18T08:40:00,120 Collecting SecretStorage>=3.2 (from keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:40:00,136 Using cached https://www.piwheels.org/simple/secretstorage/SecretStorage-3.3.3-py3-none-any.whl (15 kB) 2024-06-18T08:40:00,229 Collecting jeepney>=0.4.2 (from keyring>=23.5.0->hatch->hatch-cython==0.5) 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https://www.piwheels.org/simple/distlib/distlib-0.3.8-py2.py3-none-any.whl (468 kB) 2024-06-18T08:40:01,330 Collecting filelock<4,>=3.12.2 (from virtualenv>=20.26.1->hatch->hatch-cython==0.5) 2024-06-18T08:40:01,351 Using cached https://www.piwheels.org/simple/filelock/filelock-3.15.1-py3-none-any.whl (15 kB) 2024-06-18T08:40:01,758 Collecting zipp>=0.5 (from importlib-metadata>=4.11.4->keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:40:01,998 Using cached https://www.piwheels.org/simple/zipp/zipp-3.19.2-py3-none-any.whl (9.0 kB) 2024-06-18T08:40:02,242 Collecting mdurl~=0.1 (from markdown-it-py>=2.2.0->rich>=11.2.0->hatch->hatch-cython==0.5) 2024-06-18T08:40:02,269 Using cached https://www.piwheels.org/simple/mdurl/mdurl-0.1.2-py3-none-any.whl (10.0 kB) 2024-06-18T08:40:03,572 Collecting cryptography>=2.0 (from SecretStorage>=3.2->keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:40:03,603 Using cached https://www.piwheels.org/simple/cryptography/cryptography-42.0.8-cp311-cp311-linux_armv7l.whl (1.4 MB) 2024-06-18T08:40:04,045 Collecting more-itertools (from jaraco.classes->keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:40:04,079 Using cached https://www.piwheels.org/simple/more-itertools/more_itertools-10.3.0-py3-none-any.whl (59 kB) 2024-06-18T08:40:04,229 Collecting backports.tarfile (from jaraco.context->keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:40:04,245 Using cached https://www.piwheels.org/simple/backports-tarfile/backports.tarfile-1.2.0-py3-none-any.whl (30 kB) 2024-06-18T08:40:05,280 Collecting cffi>=1.12 (from cryptography>=2.0->SecretStorage>=3.2->keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:40:05,316 Using cached https://www.piwheels.org/simple/cffi/cffi-1.16.0-cp311-cp311-linux_armv7l.whl (382 kB) 2024-06-18T08:40:05,664 Collecting pycparser (from cffi>=1.12->cryptography>=2.0->SecretStorage>=3.2->keyring>=23.5.0->hatch->hatch-cython==0.5) 2024-06-18T08:40:05,687 Using cached https://www.piwheels.org/simple/pycparser/pycparser-2.22-py3-none-any.whl (117 kB) 2024-06-18T08:40:05,841 Downloading uv-0.2.12-py3-none-manylinux_2_17_armv7l.manylinux2014_armv7l.whl (10.2 MB) 2024-06-18T08:40:07,594 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 10.2/10.2 MB 5.9 MB/s eta 0:00:00 2024-06-18T08:40:11,470 Installing collected packages: trove-classifiers, ptyprocess, distlib, zstandard, zipp, uv, tomlkit, tomli-w, sniffio, shellingham, setuptools, pygments, pycparser, pluggy, platformdirs, pexpect, pathspec, packaging, numpy, more-itertools, mdurl, jeepney, idna, h11, filelock, cython, click, certifi, backports.tarfile, virtualenv, userpath, setuptools-scm, oldest-supported-numpy, markdown-it-py, jaraco.functools, jaraco.context, jaraco.classes, importlib-metadata, hyperlink, httpcore, hatchling, cffi, anyio, rich, httpx, hatch-vcs, cryptography, SecretStorage, keyring, hatch, hatch-cython 2024-06-18T08:40:18,917 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/pygmentize to 755 2024-06-18T08:40:28,831 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/f2py to 755 2024-06-18T08:40:28,834 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/f2py3 to 755 2024-06-18T08:40:28,836 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/f2py3.11 to 755 2024-06-18T08:40:33,700 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/cygdb to 755 2024-06-18T08:40:33,703 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/cython to 755 2024-06-18T08:40:33,705 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/cythonize to 755 2024-06-18T08:40:36,318 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/virtualenv to 755 2024-06-18T08:40:36,386 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/userpath to 755 2024-06-18T08:40:37,112 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/markdown-it to 755 2024-06-18T08:40:38,205 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/hatchling to 755 2024-06-18T08:40:40,131 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/httpx to 755 2024-06-18T08:40:41,258 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/keyring to 755 2024-06-18T08:40:41,954 changing mode of /tmp/pip-build-env-dlphq4zy/overlay/local/bin/hatch to 755 2024-06-18T08:40:43,790 Successfully installed SecretStorage-3.3.3 anyio-4.4.0 backports.tarfile-1.2.0 certifi-2024.6.2 cffi-1.16.0 click-8.1.7 cryptography-42.0.8 cython-3.0.10 distlib-0.3.8 filelock-3.15.1 h11-0.14.0 hatch-1.12.0 hatch-cython-0.5.0 hatch-vcs-0.4.0 hatchling-1.24.2 httpcore-1.0.5 httpx-0.27.0 hyperlink-21.0.0 idna-3.7 importlib-metadata-7.1.0 jaraco.classes-3.4.0 jaraco.context-5.3.0 jaraco.functools-4.0.1 jeepney-0.8.0 keyring-25.2.1 markdown-it-py-3.0.0 mdurl-0.1.2 more-itertools-10.3.0 numpy-1.23.2 oldest-supported-numpy-2023.12.21 packaging-24.1 pathspec-0.12.1 pexpect-4.9.0 platformdirs-4.2.2 pluggy-1.5.0 ptyprocess-0.7.0 pycparser-2.22 pygments-2.18.0 rich-13.7.1 setuptools-70.0.0 setuptools-scm-8.1.0 shellingham-1.5.4 sniffio-1.3.1 tomli-w-1.0.0 tomlkit-0.12.5 trove-classifiers-2024.5.22 userpath-1.9.2 uv-0.2.12 virtualenv-20.26.2 zipp-3.19.2 zstandard-0.22.0 2024-06-18T08:40:44,991 Installing build dependencies: finished with status 'done' 2024-06-18T08:40:44,994 Getting requirements to build wheel: started 2024-06-18T08:40:44,995 Running command Getting requirements to build wheel 2024-06-18T08:40:45,601 Getting requirements to build wheel: finished with status 'done' 2024-06-18T08:40:45,641 Created temporary directory: /tmp/pip-modern-metadata-ctkbg1gm 2024-06-18T08:40:45,644 Preparing metadata (pyproject.toml): started 2024-06-18T08:40:45,645 Running command Preparing metadata (pyproject.toml) 2024-06-18T08:40:46,638 [cython] 2024-06-18T08:40:46,902 pre-build artifacts 2024-06-18T08:40:46,955 attempted to use .pxd file without .py file (./src/biotite/sequence/align/tracetable.pxd) 2024-06-18T08:40:47,032 Building c/c++ extensions... 2024-06-18T08:40:47,068 ['./src/biotite/sequence/align/selector.pyx', './src/biotite/sequence/align/localungapped.pyx', './src/biotite/structure/io/mmtf/convertarray.pyx', './src/biotite/structure/bonds.pyx', './src/biotite/sequence/align/multiple.pyx', './src/biotite/sequence/align/banded.pyx', './src/biotite/sequence/align/kmertable.pyx', './src/biotite/structure/io/mmtf/convertfile.pyx', './src/biotite/sequence/phylo/upgma.pyx', './src/biotite/sequence/align/tracetable.pyx', './src/biotite/sequence/align/permutation.pyx', './src/biotite/sequence/align/pairwise.pyx', './src/biotite/sequence/align/kmeralphabet.pyx', './src/biotite/sequence/phylo/tree.pyx', './src/biotite/sequence/align/localgapped.pyx', './src/biotite/sequence/codec.pyx', './src/biotite/structure/io/pdb/hybrid36.pyx', './src/biotite/structure/charges.pyx', './src/biotite/structure/io/pdbx/encoding.pyx', './src/biotite/structure/sasa.pyx', './src/biotite/structure/io/mmtf/encode.pyx', './src/biotite/sequence/phylo/nj.pyx', './src/biotite/structure/io/mmtf/decode.pyx', './src/biotite/sequence/align/kmersimilarity.pyx', './src/biotite/structure/celllist.pyx', './src/biotite/sequence/align/tracetable.pxd'] 2024-06-18T08:40:47,107 attempted to use .pxd file without .py file (./src/biotite/sequence/align/tracetable.pxd) 2024-06-18T09:06:22,448 performance hint: src/biotite/sequence/align/localungapped.pyx:202:37: Index should be typed for more efficient access 2024-06-18T09:06:22,449 performance hint: src/biotite/sequence/align/localungapped.pyx:202:56: Index should be typed for more efficient access 2024-06-18T09:06:22,450 Compiling ./src/biotite/sequence/align/selector.pyx because it changed. 2024-06-18T09:06:22,450 Compiling ./src/biotite/sequence/align/localungapped.pyx because it changed. 2024-06-18T09:06:22,450 Compiling ./src/biotite/structure/io/mmtf/convertarray.pyx because it changed. 2024-06-18T09:06:22,451 Compiling ./src/biotite/structure/bonds.pyx because it changed. 2024-06-18T09:06:22,452 Compiling ./src/biotite/sequence/align/multiple.pyx because it changed. 2024-06-18T09:06:22,452 Compiling ./src/biotite/sequence/align/banded.pyx because it changed. 2024-06-18T09:06:22,453 Compiling ./src/biotite/sequence/align/kmertable.pyx because it changed. 2024-06-18T09:06:22,453 Compiling ./src/biotite/structure/io/mmtf/convertfile.pyx because it changed. 2024-06-18T09:06:22,453 Compiling ./src/biotite/sequence/phylo/upgma.pyx because it changed. 2024-06-18T09:06:22,454 Compiling ./src/biotite/sequence/align/tracetable.pyx because it changed. 2024-06-18T09:06:22,455 Compiling ./src/biotite/sequence/align/permutation.pyx because it changed. 2024-06-18T09:06:22,455 Compiling ./src/biotite/sequence/align/pairwise.pyx because it changed. 2024-06-18T09:06:22,456 Compiling ./src/biotite/sequence/align/kmeralphabet.pyx because it changed. 2024-06-18T09:06:22,456 Compiling ./src/biotite/sequence/phylo/tree.pyx because it changed. 2024-06-18T09:06:22,457 Compiling ./src/biotite/sequence/align/localgapped.pyx because it changed. 2024-06-18T09:06:22,457 Compiling ./src/biotite/sequence/codec.pyx because it changed. 2024-06-18T09:06:22,458 Compiling ./src/biotite/structure/io/pdb/hybrid36.pyx because it changed. 2024-06-18T09:06:22,458 Compiling ./src/biotite/structure/charges.pyx because it changed. 2024-06-18T09:06:22,459 Compiling ./src/biotite/structure/io/pdbx/encoding.pyx because it changed. 2024-06-18T09:06:22,460 Compiling ./src/biotite/structure/sasa.pyx because it changed. 2024-06-18T09:06:22,460 Compiling ./src/biotite/structure/io/mmtf/encode.pyx because it changed. 2024-06-18T09:06:22,461 Compiling ./src/biotite/sequence/phylo/nj.pyx because it changed. 2024-06-18T09:06:22,461 Compiling ./src/biotite/structure/io/mmtf/decode.pyx because it changed. 2024-06-18T09:06:22,462 Compiling ./src/biotite/sequence/align/kmersimilarity.pyx because it changed. 2024-06-18T09:06:22,462 Compiling ./src/biotite/structure/celllist.pyx because it changed. 2024-06-18T09:06:22,463 [ 1/25] Cythonizing ./src/biotite/sequence/align/banded.pyx 2024-06-18T09:06:22,463 [ 2/25] Cythonizing ./src/biotite/sequence/align/kmeralphabet.pyx 2024-06-18T09:06:22,464 [ 3/25] Cythonizing ./src/biotite/sequence/align/kmersimilarity.pyx 2024-06-18T09:06:22,464 [ 4/25] Cythonizing ./src/biotite/sequence/align/kmertable.pyx 2024-06-18T09:06:22,465 [ 5/25] Cythonizing ./src/biotite/sequence/align/localgapped.pyx 2024-06-18T09:06:22,465 [ 6/25] Cythonizing ./src/biotite/sequence/align/localungapped.pyx 2024-06-18T09:06:22,465 [ 7/25] Cythonizing ./src/biotite/sequence/align/multiple.pyx 2024-06-18T09:06:22,466 [ 8/25] Cythonizing ./src/biotite/sequence/align/pairwise.pyx 2024-06-18T09:06:22,466 [ 9/25] Cythonizing ./src/biotite/sequence/align/permutation.pyx 2024-06-18T09:06:22,467 [10/25] Cythonizing ./src/biotite/sequence/align/selector.pyx 2024-06-18T09:06:22,467 [11/25] Cythonizing ./src/biotite/sequence/align/tracetable.pyx 2024-06-18T09:06:22,468 [12/25] Cythonizing ./src/biotite/sequence/codec.pyx 2024-06-18T09:06:22,468 [13/25] Cythonizing ./src/biotite/sequence/phylo/nj.pyx 2024-06-18T09:06:22,469 [14/25] Cythonizing ./src/biotite/sequence/phylo/tree.pyx 2024-06-18T09:06:22,469 [15/25] Cythonizing ./src/biotite/sequence/phylo/upgma.pyx 2024-06-18T09:06:22,470 [16/25] Cythonizing ./src/biotite/structure/bonds.pyx 2024-06-18T09:06:22,470 [17/25] Cythonizing ./src/biotite/structure/celllist.pyx 2024-06-18T09:06:22,470 [18/25] Cythonizing ./src/biotite/structure/charges.pyx 2024-06-18T09:06:22,471 [19/25] Cythonizing ./src/biotite/structure/io/mmtf/convertarray.pyx 2024-06-18T09:06:22,472 [20/25] Cythonizing ./src/biotite/structure/io/mmtf/convertfile.pyx 2024-06-18T09:06:22,472 [21/25] Cythonizing ./src/biotite/structure/io/mmtf/decode.pyx 2024-06-18T09:06:22,473 [22/25] Cythonizing ./src/biotite/structure/io/mmtf/encode.pyx 2024-06-18T09:06:22,473 [23/25] Cythonizing ./src/biotite/structure/io/pdb/hybrid36.pyx 2024-06-18T09:06:22,473 [24/25] Cythonizing ./src/biotite/structure/io/pdbx/encoding.pyx 2024-06-18T09:06:22,474 [25/25] Cythonizing ./src/biotite/structure/sasa.pyx 2024-06-18T09:06:22,474 running build_ext 2024-06-18T09:06:22,475 building 'biotite.sequence.align.selector' extension 2024-06-18T09:06:22,475 creating /tmp/tmprn7ykzn6/tmp/src 2024-06-18T09:06:22,476 creating /tmp/tmprn7ykzn6/tmp/src/biotite 2024-06-18T09:06:22,476 creating /tmp/tmprn7ykzn6/tmp/src/biotite/sequence 2024-06-18T09:06:22,477 creating /tmp/tmprn7ykzn6/tmp/src/biotite/sequence/align 2024-06-18T09:06:22,478 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/selector.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/selector.o -I/usr/local/include -O2 2024-06-18T09:06:22,478 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,478 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,479 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,480 from ./src/biotite/sequence/align/selector.c:1256: 2024-06-18T09:06:22,480 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,481 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,481 | ^~~~~~~ 2024-06-18T09:06:22,482 ./src/biotite/sequence/align/selector.c: In function ‘__pyx_f_7biotite_8sequence_5align_8selector__chunk_wise_forward_argcummin’: 2024-06-18T09:06:22,482 ./src/biotite/sequence/align/selector.c:28040:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_8sequence_5align_8selector_uint32’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2024-06-18T09:06:22,483 28040 | for (__pyx_t_9 = 0; __pyx_t_9 < __pyx_t_8; __pyx_t_9+=1) { 2024-06-18T09:06:22,483 | ^ 2024-06-18T09:06:22,484 creating /tmp/tmprn7ykzn6/build/biotite 2024-06-18T09:06:22,484 creating /tmp/tmprn7ykzn6/build/biotite/sequence 2024-06-18T09:06:22,484 creating /tmp/tmprn7ykzn6/build/biotite/sequence/align 2024-06-18T09:06:22,485 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/selector.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/selector.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,485 building 'biotite.sequence.align.localungapped' extension 2024-06-18T09:06:22,486 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/localungapped.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/localungapped.o -I/usr/local/include -O2 2024-06-18T09:06:22,486 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,487 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,487 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,488 from ./src/biotite/sequence/align/localungapped.c:1256: 2024-06-18T09:06:22,488 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,489 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,489 | ^~~~~~~ 2024-06-18T09:06:22,490 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/localungapped.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/localungapped.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,490 building 'biotite.structure.io.mmtf.convertarray' extension 2024-06-18T09:06:22,491 creating /tmp/tmprn7ykzn6/tmp/src/biotite/structure 2024-06-18T09:06:22,491 creating /tmp/tmprn7ykzn6/tmp/src/biotite/structure/io 2024-06-18T09:06:22,492 creating /tmp/tmprn7ykzn6/tmp/src/biotite/structure/io/mmtf 2024-06-18T09:06:22,492 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/io/mmtf/convertarray.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/mmtf/convertarray.o -I/usr/local/include -O2 2024-06-18T09:06:22,493 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,493 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,494 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,495 from ./src/biotite/structure/io/mmtf/convertarray.c:1256: 2024-06-18T09:06:22,495 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,496 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,496 | ^~~~~~~ 2024-06-18T09:06:22,496 creating /tmp/tmprn7ykzn6/build/biotite/structure 2024-06-18T09:06:22,497 creating /tmp/tmprn7ykzn6/build/biotite/structure/io 2024-06-18T09:06:22,497 creating /tmp/tmprn7ykzn6/build/biotite/structure/io/mmtf 2024-06-18T09:06:22,498 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/mmtf/convertarray.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/io/mmtf/convertarray.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,498 building 'biotite.structure.bonds' extension 2024-06-18T09:06:22,499 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/bonds.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/bonds.o -I/usr/local/include -O2 2024-06-18T09:06:22,499 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,500 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,500 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,501 from ./src/biotite/structure/bonds.c:1256: 2024-06-18T09:06:22,501 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,502 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,502 | ^~~~~~~ 2024-06-18T09:06:22,503 ./src/biotite/structure/bonds.c: In function ‘__pyx_pf_7biotite_9structure_5bonds_8BondList_54_remove_redundant_bonds’: 2024-06-18T09:06:22,503 ./src/biotite/structure/bonds.c:32084:66: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2024-06-18T09:06:22,504 32084 | __pyx_t_17 = __pyx_f_7biotite_9structure_5bonds__in_array(((__pyx_t_7biotite_9structure_5bonds_uint32 *)(*((__pyx_t_7biotite_9structure_5bonds_ptr *) ( /* dim=0 */ (__pyx_v_ptrs_v.data + __pyx_t_15 * __pyx_v_ptrs_v.strides[0]) )))), __pyx_v_i2, (*((int *) ( /* dim=0 */ (__pyx_v_array_len_v.data + __pyx_t_16 * __pyx_v_array_len_v.strides[0]) )))); if (unlikely(__pyx_t_17 == ((int)-1) && PyErr_Occurred())) __PYX_ERR(0, 1199, __pyx_L4_error) 2024-06-18T09:06:22,504 | ^ 2024-06-18T09:06:22,505 ./src/biotite/structure/bonds.c:32126:30: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2024-06-18T09:06:22,505 32126 | __pyx_v_array_ptr = ((__pyx_t_7biotite_9structure_5bonds_uint32 *)(*((__pyx_t_7biotite_9structure_5bonds_ptr *) ( /* dim=0 */ (__pyx_v_ptrs_v.data + __pyx_t_16 * __pyx_v_ptrs_v.strides[0]) )))); 2024-06-18T09:06:22,506 | ^ 2024-06-18T09:06:22,507 ./src/biotite/structure/bonds.c:32182:137: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 2024-06-18T09:06:22,507 32182 | *((__pyx_t_7biotite_9structure_5bonds_ptr *) ( /* dim=0 */ (__pyx_v_ptrs_v.data + __pyx_t_16 * __pyx_v_ptrs_v.strides[0]) )) = ((__pyx_t_7biotite_9structure_5bonds_ptr)__pyx_v_array_ptr); 2024-06-18T09:06:22,508 | ^ 2024-06-18T09:06:22,508 ./src/biotite/structure/bonds.c:32220:15: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2024-06-18T09:06:22,509 32220 | free(((int *)(*((__pyx_t_7biotite_9structure_5bonds_ptr *) ( /* dim=0 */ (__pyx_v_ptrs_v.data + __pyx_t_13 * __pyx_v_ptrs_v.strides[0]) ))))); 2024-06-18T09:06:22,509 | ^ 2024-06-18T09:06:22,510 ./src/biotite/structure/bonds.c:32273:17: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2024-06-18T09:06:22,510 32273 | free(((int *)(*((__pyx_t_7biotite_9structure_5bonds_ptr *) ( /* dim=0 */ (__pyx_v_ptrs_v.data + __pyx_t_13 * __pyx_v_ptrs_v.strides[0]) ))))); 2024-06-18T09:06:22,510 | ^ 2024-06-18T09:06:22,511 ./src/biotite/structure/bonds.c: In function ‘__pyx_pf_7biotite_9structure_5bonds_4_to_bool_mask’: 2024-06-18T09:06:22,511 ./src/biotite/structure/bonds.c:37715:28: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘__pyx_t_7biotite_9structure_5bonds_uint32’ {aka ‘long unsigned int’} [-Wsign-compare] 2024-06-18T09:06:22,512 37715 | __pyx_t_1 = (__pyx_t_5 != __pyx_v_length); 2024-06-18T09:06:22,512 | ^~ 2024-06-18T09:06:22,513 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/bonds.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/bonds.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,514 building 'biotite.sequence.align.multiple' extension 2024-06-18T09:06:22,514 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/multiple.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/multiple.o -I/usr/local/include -O2 2024-06-18T09:06:22,515 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,516 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,516 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,517 from ./src/biotite/sequence/align/multiple.c:1256: 2024-06-18T09:06:22,517 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,518 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,518 | ^~~~~~~ 2024-06-18T09:06:22,519 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/multiple.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/multiple.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,519 building 'biotite.sequence.align.banded' extension 2024-06-18T09:06:22,520 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/banded.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/banded.o -I/usr/local/include -O2 2024-06-18T09:06:22,520 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,521 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,522 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,522 from ./src/biotite/sequence/align/banded.c:1256: 2024-06-18T09:06:22,523 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,523 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,524 | ^~~~~~~ 2024-06-18T09:06:22,524 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/banded.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/banded.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,524 building 'biotite.sequence.align.kmertable' extension 2024-06-18T09:06:22,525 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/kmertable.cpp -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/kmertable.o -I/usr/local/include -O2 2024-06-18T09:06:22,525 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,526 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,526 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,527 from ./src/biotite/sequence/align/kmertable.cpp:1269: 2024-06-18T09:06:22,527 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,528 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,528 | ^~~~~~~ 2024-06-18T09:06:22,529 ./src/biotite/sequence/align/kmertable.cpp: In function ‘PyObject* __pyx_pf_7biotite_8sequence_5align_9kmertable_9KmerTable_44_count_kmers(__pyx_obj_7biotite_8sequence_5align_9kmertable_KmerTable*, __Pyx_memviewslice)’: 2024-06-18T09:06:22,529 ./src/biotite/sequence/align/kmertable.cpp:31690:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_8sequence_5align_9kmertable_uint32’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2024-06-18T09:06:22,530 31690 | for (__pyx_t_4 = 0; __pyx_t_4 < __pyx_t_3; __pyx_t_4+=1) { 2024-06-18T09:06:22,530 | ~~~~~~~~~~^~~~~~~~~~~ 2024-06-18T09:06:22,531 ./src/biotite/sequence/align/kmertable.cpp: In function ‘PyObject* __pyx_pf_7biotite_8sequence_5align_9kmertable_9KmerTable_46_count_masked_kmers(__pyx_obj_7biotite_8sequence_5align_9kmertable_KmerTable*, __Pyx_memviewslice, __Pyx_memviewslice)’: 2024-06-18T09:06:22,532 ./src/biotite/sequence/align/kmertable.cpp:31901:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_8sequence_5align_9kmertable_uint32’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2024-06-18T09:06:22,532 31901 | for (__pyx_t_4 = 0; __pyx_t_4 < __pyx_t_3; __pyx_t_4+=1) { 2024-06-18T09:06:22,533 | ~~~~~~~~~~^~~~~~~~~~~ 2024-06-18T09:06:22,533 ./src/biotite/sequence/align/kmertable.cpp: In function ‘PyObject* __pyx_pf_7biotite_8sequence_5align_9kmertable_9KmerTable_48_add_kmers(__pyx_obj_7biotite_8sequence_5align_9kmertable_KmerTable*, __Pyx_memviewslice, __pyx_t_7biotite_8sequence_5align_9kmertable_uint32, __Pyx_memviewslice)’: 2024-06-18T09:06:22,534 ./src/biotite/sequence/align/kmertable.cpp:32240:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_8sequence_5align_9kmertable_uint32’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2024-06-18T09:06:22,534 32240 | for (__pyx_t_8 = 0; __pyx_t_8 < __pyx_t_7; __pyx_t_8+=1) { 2024-06-18T09:06:22,534 | ~~~~~~~~~~^~~~~~~~~~~ 2024-06-18T09:06:22,535 ./src/biotite/sequence/align/kmertable.cpp: In function ‘PyObject* __pyx_pf_7biotite_8sequence_5align_9kmertable_9KmerTable_50_add_kmer_selection(__pyx_obj_7biotite_8sequence_5align_9kmertable_KmerTable*, __Pyx_memviewslice, __Pyx_memviewslice, __pyx_t_7biotite_8sequence_5align_9kmertable_uint32)’: 2024-06-18T09:06:22,536 ./src/biotite/sequence/align/kmertable.cpp:32614:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_8sequence_5align_9kmertable_uint32’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2024-06-18T09:06:22,536 32614 | for (__pyx_t_8 = 0; __pyx_t_8 < __pyx_t_7; __pyx_t_8+=1) { 2024-06-18T09:06:22,536 | ~~~~~~~~~~^~~~~~~~~~~ 2024-06-18T09:06:22,537 ./src/biotite/sequence/align/kmertable.cpp: In function ‘PyObject* __pyx_pf_7biotite_8sequence_5align_9kmertable_15BucketKmerTable_36_count_kmers(__pyx_obj_7biotite_8sequence_5align_9kmertable_BucketKmerTable*, __Pyx_memviewslice)’: 2024-06-18T09:06:22,537 ./src/biotite/sequence/align/kmertable.cpp:43553:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_8sequence_5align_9kmertable_uint32’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2024-06-18T09:06:22,538 43553 | for (__pyx_t_4 = 0; __pyx_t_4 < __pyx_t_3; __pyx_t_4+=1) { 2024-06-18T09:06:22,538 | ~~~~~~~~~~^~~~~~~~~~~ 2024-06-18T09:06:22,539 ./src/biotite/sequence/align/kmertable.cpp: In function ‘PyObject* __pyx_pf_7biotite_8sequence_5align_9kmertable_15BucketKmerTable_38_count_masked_kmers(__pyx_obj_7biotite_8sequence_5align_9kmertable_BucketKmerTable*, __Pyx_memviewslice, __Pyx_memviewslice)’: 2024-06-18T09:06:22,540 ./src/biotite/sequence/align/kmertable.cpp:43763:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_8sequence_5align_9kmertable_uint32’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2024-06-18T09:06:22,540 43763 | for (__pyx_t_4 = 0; __pyx_t_4 < __pyx_t_3; __pyx_t_4+=1) { 2024-06-18T09:06:22,540 | ~~~~~~~~~~^~~~~~~~~~~ 2024-06-18T09:06:22,541 ./src/biotite/sequence/align/kmertable.cpp: In function ‘PyObject* __pyx_pf_7biotite_8sequence_5align_9kmertable_15BucketKmerTable_40_add_kmers(__pyx_obj_7biotite_8sequence_5align_9kmertable_BucketKmerTable*, __Pyx_memviewslice, __pyx_t_7biotite_8sequence_5align_9kmertable_uint32, __Pyx_memviewslice)’: 2024-06-18T09:06:22,542 ./src/biotite/sequence/align/kmertable.cpp:44102:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_8sequence_5align_9kmertable_uint32’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2024-06-18T09:06:22,542 44102 | for (__pyx_t_8 = 0; __pyx_t_8 < __pyx_t_7; __pyx_t_8+=1) { 2024-06-18T09:06:22,543 | ~~~~~~~~~~^~~~~~~~~~~ 2024-06-18T09:06:22,543 ./src/biotite/sequence/align/kmertable.cpp: In function ‘PyObject* __pyx_pf_7biotite_8sequence_5align_9kmertable_15BucketKmerTable_42_add_kmer_selection(__pyx_obj_7biotite_8sequence_5align_9kmertable_BucketKmerTable*, __Pyx_memviewslice, __Pyx_memviewslice, __pyx_t_7biotite_8sequence_5align_9kmertable_uint32)’: 2024-06-18T09:06:22,544 ./src/biotite/sequence/align/kmertable.cpp:44494:33: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_8sequence_5align_9kmertable_uint32’ {aka ‘long unsigned int’} and ‘Py_ssize_t’ {aka ‘int’} [-Wsign-compare] 2024-06-18T09:06:22,544 44494 | for (__pyx_t_8 = 0; __pyx_t_8 < __pyx_t_7; __pyx_t_8+=1) { 2024-06-18T09:06:22,545 | ~~~~~~~~~~^~~~~~~~~~~ 2024-06-18T09:06:22,545 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/kmertable.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/kmertable.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,546 building 'biotite.structure.io.mmtf.convertfile' extension 2024-06-18T09:06:22,546 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/io/mmtf/convertfile.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/mmtf/convertfile.o -I/usr/local/include -O2 2024-06-18T09:06:22,546 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,547 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,548 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,548 from ./src/biotite/structure/io/mmtf/convertfile.c:1256: 2024-06-18T09:06:22,549 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,549 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,549 | ^~~~~~~ 2024-06-18T09:06:22,550 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/mmtf/convertfile.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/io/mmtf/convertfile.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,550 building 'biotite.sequence.phylo.upgma' extension 2024-06-18T09:06:22,551 creating /tmp/tmprn7ykzn6/tmp/src/biotite/sequence/phylo 2024-06-18T09:06:22,551 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/phylo/upgma.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/phylo/upgma.o -I/usr/local/include -O2 2024-06-18T09:06:22,552 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,552 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,553 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,554 from ./src/biotite/sequence/phylo/upgma.c:1256: 2024-06-18T09:06:22,554 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,554 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,555 | ^~~~~~~ 2024-06-18T09:06:22,555 creating /tmp/tmprn7ykzn6/build/biotite/sequence/phylo 2024-06-18T09:06:22,556 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/phylo/upgma.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/phylo/upgma.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,556 building 'biotite.sequence.align.tracetable' extension 2024-06-18T09:06:22,557 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/tracetable.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/tracetable.o -I/usr/local/include -O2 2024-06-18T09:06:22,557 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,557 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,558 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,558 from ./src/biotite/sequence/align/tracetable.c:1256: 2024-06-18T09:06:22,559 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,559 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,560 | ^~~~~~~ 2024-06-18T09:06:22,560 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/tracetable.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/tracetable.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,560 building 'biotite.sequence.align.permutation' extension 2024-06-18T09:06:22,561 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/permutation.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/permutation.o -I/usr/local/include -O2 2024-06-18T09:06:22,561 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,562 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,562 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,563 from ./src/biotite/sequence/align/permutation.c:1256: 2024-06-18T09:06:22,563 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,564 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,564 | ^~~~~~~ 2024-06-18T09:06:22,565 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/permutation.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/permutation.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,565 building 'biotite.sequence.align.pairwise' extension 2024-06-18T09:06:22,566 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/pairwise.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/pairwise.o -I/usr/local/include -O2 2024-06-18T09:06:22,566 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,566 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,567 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,567 from ./src/biotite/sequence/align/pairwise.c:1256: 2024-06-18T09:06:22,568 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,568 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,569 | ^~~~~~~ 2024-06-18T09:06:22,569 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/pairwise.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/pairwise.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,570 building 'biotite.sequence.align.kmeralphabet' extension 2024-06-18T09:06:22,570 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/kmeralphabet.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/kmeralphabet.o -I/usr/local/include -O2 2024-06-18T09:06:22,571 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,571 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,572 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,572 from ./src/biotite/sequence/align/kmeralphabet.c:1256: 2024-06-18T09:06:22,572 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,573 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,573 | ^~~~~~~ 2024-06-18T09:06:22,574 ./src/biotite/sequence/align/kmeralphabet.c: In function ‘__pyx_pf_7biotite_8sequence_5align_12kmeralphabet_12KmerAlphabet_38_create_continuous_kmers’: 2024-06-18T09:06:22,575 ./src/biotite/sequence/align/kmeralphabet.c:25897:26: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 2024-06-18T09:06:22,575 25897 | __pyx_t_5 = (__pyx_t_3 < ((unsigned int)__pyx_v_k)); 2024-06-18T09:06:22,576 | ^ 2024-06-18T09:06:22,576 ./src/biotite/sequence/align/kmeralphabet.c: In function ‘__pyx_pf_7biotite_8sequence_5align_12kmeralphabet_12KmerAlphabet_40_create_continuous_kmers’: 2024-06-18T09:06:22,577 ./src/biotite/sequence/align/kmeralphabet.c:26564:26: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 2024-06-18T09:06:22,577 26564 | __pyx_t_5 = (__pyx_t_3 < ((unsigned int)__pyx_v_k)); 2024-06-18T09:06:22,578 | ^ 2024-06-18T09:06:22,578 ./src/biotite/sequence/align/kmeralphabet.c: In function ‘__pyx_pf_7biotite_8sequence_5align_12kmeralphabet_12KmerAlphabet_42_create_continuous_kmers’: 2024-06-18T09:06:22,578 ./src/biotite/sequence/align/kmeralphabet.c:27231:26: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 2024-06-18T09:06:22,579 27231 | __pyx_t_5 = (__pyx_t_3 < ((unsigned int)__pyx_v_k)); 2024-06-18T09:06:22,579 | ^ 2024-06-18T09:06:22,580 ./src/biotite/sequence/align/kmeralphabet.c: In function ‘__pyx_pf_7biotite_8sequence_5align_12kmeralphabet_12KmerAlphabet_44_create_continuous_kmers’: 2024-06-18T09:06:22,580 ./src/biotite/sequence/align/kmeralphabet.c:27898:26: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 2024-06-18T09:06:22,580 27898 | __pyx_t_5 = (__pyx_t_3 < ((unsigned int)__pyx_v_k)); 2024-06-18T09:06:22,581 | ^ 2024-06-18T09:06:22,581 ./src/biotite/sequence/align/kmeralphabet.c: In function ‘__pyx_pf_7biotite_8sequence_5align_12kmeralphabet_12KmerAlphabet_48_create_spaced_kmers’: 2024-06-18T09:06:22,582 ./src/biotite/sequence/align/kmeralphabet.c:29661:26: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 2024-06-18T09:06:22,582 29661 | __pyx_t_6 = (__pyx_t_4 < ((unsigned int)__pyx_v_max_offset)); 2024-06-18T09:06:22,583 | ^ 2024-06-18T09:06:22,583 ./src/biotite/sequence/align/kmeralphabet.c: In function ‘__pyx_pf_7biotite_8sequence_5align_12kmeralphabet_12KmerAlphabet_50_create_spaced_kmers’: 2024-06-18T09:06:22,584 ./src/biotite/sequence/align/kmeralphabet.c:30223:26: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 2024-06-18T09:06:22,584 30223 | __pyx_t_6 = (__pyx_t_4 < ((unsigned int)__pyx_v_max_offset)); 2024-06-18T09:06:22,584 | ^ 2024-06-18T09:06:22,585 ./src/biotite/sequence/align/kmeralphabet.c: In function ‘__pyx_pf_7biotite_8sequence_5align_12kmeralphabet_12KmerAlphabet_52_create_spaced_kmers’: 2024-06-18T09:06:22,585 ./src/biotite/sequence/align/kmeralphabet.c:30785:26: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 2024-06-18T09:06:22,586 30785 | __pyx_t_6 = (__pyx_t_4 < ((unsigned int)__pyx_v_max_offset)); 2024-06-18T09:06:22,586 | ^ 2024-06-18T09:06:22,587 ./src/biotite/sequence/align/kmeralphabet.c: In function ‘__pyx_pf_7biotite_8sequence_5align_12kmeralphabet_12KmerAlphabet_54_create_spaced_kmers’: 2024-06-18T09:06:22,587 ./src/biotite/sequence/align/kmeralphabet.c:31347:26: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘unsigned int’ [-Wsign-compare] 2024-06-18T09:06:22,588 31347 | __pyx_t_6 = (__pyx_t_4 < ((unsigned int)__pyx_v_max_offset)); 2024-06-18T09:06:22,588 | ^ 2024-06-18T09:06:22,589 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/kmeralphabet.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/kmeralphabet.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,589 building 'biotite.sequence.phylo.tree' extension 2024-06-18T09:06:22,589 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/phylo/tree.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/phylo/tree.o -I/usr/local/include -O2 2024-06-18T09:06:22,590 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,590 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,591 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,591 from ./src/biotite/sequence/phylo/tree.c:1256: 2024-06-18T09:06:22,591 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,592 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,592 | ^~~~~~~ 2024-06-18T09:06:22,593 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/phylo/tree.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/phylo/tree.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,593 building 'biotite.sequence.align.localgapped' extension 2024-06-18T09:06:22,594 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/localgapped.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/localgapped.o -I/usr/local/include -O2 2024-06-18T09:06:22,594 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,594 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,595 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,596 from ./src/biotite/sequence/align/localgapped.c:1256: 2024-06-18T09:06:22,596 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,596 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,597 | ^~~~~~~ 2024-06-18T09:06:22,597 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/localgapped.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/localgapped.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,598 building 'biotite.sequence.codec' extension 2024-06-18T09:06:22,599 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/codec.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/codec.o -I/usr/local/include -O2 2024-06-18T09:06:22,599 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,599 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,600 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,600 from ./src/biotite/sequence/codec.c:1256: 2024-06-18T09:06:22,601 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,601 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,602 | ^~~~~~~ 2024-06-18T09:06:22,602 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/codec.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/codec.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,602 building 'biotite.structure.io.pdb.hybrid36' extension 2024-06-18T09:06:22,603 creating /tmp/tmprn7ykzn6/tmp/src/biotite/structure/io/pdb 2024-06-18T09:06:22,603 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/io/pdb/hybrid36.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/pdb/hybrid36.o -I/usr/local/include -O2 2024-06-18T09:06:22,604 creating /tmp/tmprn7ykzn6/build/biotite/structure/io/pdb 2024-06-18T09:06:22,604 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/pdb/hybrid36.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/io/pdb/hybrid36.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,605 building 'biotite.structure.charges' extension 2024-06-18T09:06:22,605 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/charges.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/charges.o -I/usr/local/include -O2 2024-06-18T09:06:22,606 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,606 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,607 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,607 from ./src/biotite/structure/charges.c:1256: 2024-06-18T09:06:22,608 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,608 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,609 | ^~~~~~~ 2024-06-18T09:06:22,609 ./src/biotite/structure/charges.c: In function ‘__pyx_pf_7biotite_9structure_7charges__get_parameters’: 2024-06-18T09:06:22,610 ./src/biotite/structure/charges.c:20586:161: warning: comparison of integer expressions of different signedness: ‘__pyx_t_7biotite_9structure_7charges_int8’ {aka ‘signed char’} and ‘__pyx_t_7biotite_9structure_7charges_uint32’ {aka ‘long unsigned int’} [-Wsign-compare] 2024-06-18T09:06:22,610 20586 | __pyx_t_14 = ((*((__pyx_t_7biotite_9structure_7charges_int8 *) ( /* dim=0 */ (__pyx_v_bond_types_v.data + __pyx_t_12 * __pyx_v_bond_types_v.strides[0]) ))) == __pyx_v_7biotite_9structure_7charges_ANY); 2024-06-18T09:06:22,610 | ^~ 2024-06-18T09:06:22,611 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/charges.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/charges.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,611 building 'biotite.structure.io.pdbx.encoding' extension 2024-06-18T09:06:22,612 creating /tmp/tmprn7ykzn6/tmp/src/biotite/structure/io/pdbx 2024-06-18T09:06:22,612 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/io/pdbx/encoding.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/pdbx/encoding.o -I/usr/local/include -O2 2024-06-18T09:06:22,613 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,613 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,613 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,614 from ./src/biotite/structure/io/pdbx/encoding.c:1256: 2024-06-18T09:06:22,614 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,615 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,615 | ^~~~~~~ 2024-06-18T09:06:22,616 creating /tmp/tmprn7ykzn6/build/biotite/structure/io/pdbx 2024-06-18T09:06:22,616 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/pdbx/encoding.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/io/pdbx/encoding.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,617 building 'biotite.structure.sasa' extension 2024-06-18T09:06:22,617 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/sasa.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/sasa.o -I/usr/local/include -O2 2024-06-18T09:06:22,617 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,618 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,618 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,619 from ./src/biotite/structure/sasa.c:1256: 2024-06-18T09:06:22,619 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,620 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,620 | ^~~~~~~ 2024-06-18T09:06:22,621 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/sasa.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/sasa.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,621 building 'biotite.structure.io.mmtf.encode' extension 2024-06-18T09:06:22,621 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/io/mmtf/encode.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/mmtf/encode.o -I/usr/local/include -O2 2024-06-18T09:06:22,622 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,622 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,623 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,623 from ./src/biotite/structure/io/mmtf/encode.c:1256: 2024-06-18T09:06:22,624 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,624 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,625 | ^~~~~~~ 2024-06-18T09:06:22,625 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/mmtf/encode.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/io/mmtf/encode.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,626 building 'biotite.sequence.phylo.nj' extension 2024-06-18T09:06:22,626 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/phylo/nj.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/phylo/nj.o -I/usr/local/include -O2 2024-06-18T09:06:22,626 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,627 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,627 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,628 from ./src/biotite/sequence/phylo/nj.c:1256: 2024-06-18T09:06:22,628 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,629 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,629 | ^~~~~~~ 2024-06-18T09:06:22,630 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/phylo/nj.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/phylo/nj.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,630 building 'biotite.structure.io.mmtf.decode' extension 2024-06-18T09:06:22,631 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/io/mmtf/decode.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/mmtf/decode.o -I/usr/local/include -O2 2024-06-18T09:06:22,631 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,631 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,632 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,632 from ./src/biotite/structure/io/mmtf/decode.c:1256: 2024-06-18T09:06:22,633 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,633 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,634 | ^~~~~~~ 2024-06-18T09:06:22,634 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/io/mmtf/decode.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/io/mmtf/decode.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,635 building 'biotite.sequence.align.kmersimilarity' extension 2024-06-18T09:06:22,635 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/sequence/align/kmersimilarity.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/kmersimilarity.o -I/usr/local/include -O2 2024-06-18T09:06:22,636 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,636 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,637 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,637 from ./src/biotite/sequence/align/kmersimilarity.c:1256: 2024-06-18T09:06:22,638 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,638 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,639 | ^~~~~~~ 2024-06-18T09:06:22,639 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/sequence/align/kmersimilarity.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/sequence/align/kmersimilarity.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,640 building 'biotite.structure.celllist' extension 2024-06-18T09:06:22,640 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include -I/usr/include/python3.11 -c ./src/biotite/structure/celllist.c -o /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/celllist.o -I/usr/local/include -O2 2024-06-18T09:06:22,641 In file included from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1948, 2024-06-18T09:06:22,641 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-06-18T09:06:22,642 from /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-06-18T09:06:22,642 from ./src/biotite/structure/celllist.c:1256: 2024-06-18T09:06:22,643 /tmp/pip-build-env-dlphq4zy/overlay/local/lib/python3.11/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-06-18T09:06:22,643 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-18T09:06:22,643 | ^~~~~~~ 2024-06-18T09:06:22,644 ./src/biotite/structure/celllist.c: In function ‘__pyx_pf_7biotite_9structure_8celllist_8CellList___cinit__’: 2024-06-18T09:06:22,644 ./src/biotite/structure/celllist.c:21720:27: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2024-06-18T09:06:22,645 21720 | __pyx_v_cell_ptr = ((int *)(*((__pyx_t_7biotite_9structure_8celllist_ptr *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_self->_cells.data + __pyx_t_20 * __pyx_v_self->_cells.strides[0]) ) + __pyx_t_18 * __pyx_v_self->_cells.strides[1]) ) + __pyx_t_19 * __pyx_v_self->_cells.strides[2]) )))); 2024-06-18T09:06:22,645 | ^ 2024-06-18T09:06:22,646 ./src/biotite/structure/celllist.c:21818:280: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast] 2024-06-18T09:06:22,646 21818 | *((__pyx_t_7biotite_9structure_8celllist_ptr *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_self->_cells.data + __pyx_t_20 * __pyx_v_self->_cells.strides[0]) ) + __pyx_t_18 * __pyx_v_self->_cells.strides[1]) ) + __pyx_t_19 * __pyx_v_self->_cells.strides[2]) )) = ((__pyx_t_7biotite_9structure_8celllist_ptr)__pyx_v_cell_ptr); 2024-06-18T09:06:22,647 | ^ 2024-06-18T09:06:22,648 ./src/biotite/structure/celllist.c: In function ‘__pyx_f_7biotite_9structure_8celllist_8CellList__find_adjacent_atoms’: 2024-06-18T09:06:22,648 ./src/biotite/structure/celllist.c:24882:37: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2024-06-18T09:06:22,649 24882 | __pyx_v_list_ptr = ((int *)(*((__pyx_t_7biotite_9structure_8celllist_ptr *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_cells.data + __pyx_t_7 * __pyx_v_cells.strides[0]) ) + __pyx_t_6 * __pyx_v_cells.strides[1]) ) + __pyx_t_19 * __pyx_v_cells.strides[2]) )))); 2024-06-18T09:06:22,649 | ^ 2024-06-18T09:06:22,650 ./src/biotite/structure/celllist.c: In function ‘__pyx_f_7biotite_9structure_8celllist_deallocate_ptrs’: 2024-06-18T09:06:22,650 ./src/biotite/structure/celllist.c:27288:29: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] 2024-06-18T09:06:22,651 27288 | __pyx_v_cell_ptr = ((int *)(*((__pyx_t_7biotite_9structure_8celllist_ptr *) ( /* dim=2 */ (( /* dim=1 */ (( /* dim=0 */ (__pyx_v_ptrs.data + __pyx_t_10 * __pyx_v_ptrs.strides[0]) ) + __pyx_t_11 * __pyx_v_ptrs.strides[1]) ) + __pyx_t_12 * __pyx_v_ptrs.strides[2]) )))); 2024-06-18T09:06:22,652 | ^ 2024-06-18T09:06:22,652 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 /tmp/tmprn7ykzn6/tmp/./src/biotite/structure/celllist.o -L/usr/lib/arm-linux-gnueabihf -o /tmp/tmprn7ykzn6/build/biotite/structure/celllist.cpython-311-arm-linux-gnueabihf.so -L/usr/local/lib 2024-06-18T09:06:22,653 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/selector.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,653 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/localungapped.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,654 copying /tmp/tmprn7ykzn6/build/biotite/structure/io/mmtf/convertarray.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure/io/mmtf 2024-06-18T09:06:22,654 copying /tmp/tmprn7ykzn6/build/biotite/structure/bonds.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure 2024-06-18T09:06:22,655 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/multiple.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,655 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/banded.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,656 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/kmertable.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,656 copying /tmp/tmprn7ykzn6/build/biotite/structure/io/mmtf/convertfile.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure/io/mmtf 2024-06-18T09:06:22,656 copying /tmp/tmprn7ykzn6/build/biotite/sequence/phylo/upgma.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/phylo 2024-06-18T09:06:22,657 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/tracetable.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,657 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/permutation.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,658 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/pairwise.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,658 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/kmeralphabet.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,659 copying /tmp/tmprn7ykzn6/build/biotite/sequence/phylo/tree.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/phylo 2024-06-18T09:06:22,659 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/localgapped.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,660 copying /tmp/tmprn7ykzn6/build/biotite/sequence/codec.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence 2024-06-18T09:06:22,660 copying /tmp/tmprn7ykzn6/build/biotite/structure/io/pdb/hybrid36.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure/io/pdb 2024-06-18T09:06:22,661 copying /tmp/tmprn7ykzn6/build/biotite/structure/charges.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure 2024-06-18T09:06:22,661 copying /tmp/tmprn7ykzn6/build/biotite/structure/io/pdbx/encoding.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure/io/pdbx 2024-06-18T09:06:22,662 copying /tmp/tmprn7ykzn6/build/biotite/structure/sasa.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure 2024-06-18T09:06:22,662 copying /tmp/tmprn7ykzn6/build/biotite/structure/io/mmtf/encode.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure/io/mmtf 2024-06-18T09:06:22,663 copying /tmp/tmprn7ykzn6/build/biotite/sequence/phylo/nj.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/phylo 2024-06-18T09:06:22,663 copying /tmp/tmprn7ykzn6/build/biotite/structure/io/mmtf/decode.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure/io/mmtf 2024-06-18T09:06:22,664 copying /tmp/tmprn7ykzn6/build/biotite/sequence/align/kmersimilarity.cpython-311-arm-linux-gnueabihf.so -> src/biotite/sequence/align 2024-06-18T09:06:22,665 copying /tmp/tmprn7ykzn6/build/biotite/structure/celllist.cpython-311-arm-linux-gnueabihf.so -> src/biotite/structure 2024-06-18T09:06:22,665 Post-build artifacts 2024-06-18T09:06:22,666 ['./src/biotite/application/', './src/biotite/application/util.py', './src/biotite/application/tantan', './src/biotite/application/tantan/__init__.py', './src/biotite/application/tantan/app.py', './src/biotite/application/webapp.py', './src/biotite/application/localapp.py', './src/biotite/application/clustalo', './src/biotite/application/clustalo/__init__.py', './src/biotite/application/clustalo/app.py', './src/biotite/application/muscle', './src/biotite/application/muscle/app5.py', './src/biotite/application/muscle/__init__.py', './src/biotite/application/muscle/app3.py', './src/biotite/application/msaapp.py', './src/biotite/application/__init__.py', './src/biotite/application/blast', './src/biotite/application/blast/alignment.py', './src/biotite/application/blast/webapp.py', './src/biotite/application/blast/__init__.py', './src/biotite/application/sra', './src/biotite/application/sra/__init__.py', './src/biotite/application/sra/app.py', './src/biotite/application/mafft', './src/biotite/application/mafft/__init__.py', './src/biotite/application/mafft/app.py', './src/biotite/application/dssp', './src/biotite/application/dssp/__init__.py', './src/biotite/application/dssp/app.py', './src/biotite/application/application.py', './src/biotite/application/autodock', './src/biotite/application/autodock/__init__.py', './src/biotite/application/autodock/app.py', './src/biotite/application/viennarna', './src/biotite/application/viennarna/util.py', './src/biotite/application/viennarna/rnaplot.py', './src/biotite/application/viennarna/rnaalifold.py', './src/biotite/application/viennarna/__init__.py', './src/biotite/application/viennarna/rnafold.py', './src/biotite/structure/', './src/biotite/structure/util.py', './src/biotite/structure/celllist.c', './src/biotite/structure/dotbracket.py', './src/biotite/structure/resutil.py', './src/biotite/structure/integrity.py', './src/biotite/structure/transform.py', './src/biotite/structure/hbond.py', './src/biotite/structure/sse.py', './src/biotite/structure/residues.py', './src/biotite/structure/celllist.cpython-311-arm-linux-gnueabihf.so', './src/biotite/structure/sequence.py', './src/biotite/structure/atoms.py', './src/biotite/structure/compare.py', './src/biotite/structure/io', './src/biotite/structure/io/general.py', './src/biotite/structure/io/mmtf', './src/biotite/structure/io/mmtf/decode.pyx', './src/biotite/structure/io/mmtf/encode.c', './src/biotite/structure/io/mmtf/convertfile.cpython-311-arm-linux-gnueabihf.so', './src/biotite/structure/io/mmtf/assembly.py', './src/biotite/structure/io/mmtf/convertfile.c', './src/biotite/structure/io/mmtf/encode.cpython-311-arm-linux-gnueabihf.so', './src/biotite/structure/io/mmtf/decode.cpython-311-arm-linux-gnueabihf.so', './src/biotite/structure/io/mmtf/encode.pyx', './src/biotite/structure/io/mmtf/__init__.py', './src/biotite/structure/io/mmtf/decode.c', './src/biotite/structure/io/mmtf/convertfile.pyx', './src/biotite/structure/io/mmtf/convertarray.c', './src/biotite/structure/io/mmtf/file.py', './src/biotite/structure/io/mmtf/convertarray.cpython-311-arm-linux-gnueabihf.so', './src/biotite/structure/io/mmtf/convertarray.pyx', './src/biotite/structure/io/dcd', 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https://files.pythonhosted.org/packages/8d/ce/755fdb2282d430053183341b44d9c9a0d265d336f1353ba29d2818b0708a/biotite-0.41.1.tar.gz 2024-06-18T09:06:38,712 Removed biotite==0.41.1 from https://files.pythonhosted.org/packages/8d/ce/755fdb2282d430053183341b44d9c9a0d265d336f1353ba29d2818b0708a/biotite-0.41.1.tar.gz from build tracker '/tmp/pip-build-tracker-zjyztf0h' 2024-06-18T09:06:38,718 Created temporary directory: /tmp/pip-unpack-dwyvq9qr 2024-06-18T09:06:38,720 Created temporary directory: /tmp/pip-unpack-3u_rdm3n 2024-06-18T09:06:38,731 Building wheels for collected packages: biotite 2024-06-18T09:06:38,736 Created temporary directory: /tmp/pip-wheel-sg6ml7r4 2024-06-18T09:06:38,736 Destination directory: /tmp/pip-wheel-sg6ml7r4 2024-06-18T09:06:38,738 Building wheel for biotite (pyproject.toml): started 2024-06-18T09:06:38,739 Running command Building wheel for biotite (pyproject.toml) 2024-06-18T09:06:40,532 Building wheel for biotite (pyproject.toml): finished with status 'done' 2024-06-18T09:06:40,921 Created wheel for biotite: filename=biotite-0.41.1-cp311-cp311-manylinux_2_36_armv7l.whl size=35246913 sha256=443ea8a227548c13e5925429d99d8392695790235dfb6e898375fce836239b22 2024-06-18T09:06:40,923 Stored in directory: /tmp/pip-ephem-wheel-cache-hrg9rt9u/wheels/20/f7/5e/641497d4c7e13a9038df28f1ed13678ee00291c4d694589b5e 2024-06-18T09:06:40,995 Successfully built biotite 2024-06-18T09:06:42,311 Removed build tracker: '/tmp/pip-build-tracker-zjyztf0h'