2022-12-16T17:46:21,287 Created temporary directory: /tmp/pip-ephem-wheel-cache-fwowcvj0 2022-12-16T17:46:21,289 Created temporary directory: /tmp/pip-build-tracker-rxb05060 2022-12-16T17:46:21,290 Initialized build tracking at /tmp/pip-build-tracker-rxb05060 2022-12-16T17:46:21,290 Created build tracker: /tmp/pip-build-tracker-rxb05060 2022-12-16T17:46:21,290 Entered build tracker: /tmp/pip-build-tracker-rxb05060 2022-12-16T17:46:21,291 Created temporary directory: /tmp/pip-wheel-hdwm2qrf 2022-12-16T17:46:21,294 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2022-12-16T17:46:21,296 Created temporary directory: /tmp/pip-ephem-wheel-cache-0wdsmpnm 2022-12-16T17:46:21,324 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-12-16T17:46:21,327 2 location(s) to search for versions of mdanalysis: 2022-12-16T17:46:21,327 * https://pypi.org/simple/mdanalysis/ 2022-12-16T17:46:21,327 * https://www.piwheels.org/simple/mdanalysis/ 2022-12-16T17:46:21,328 Fetching project page and analyzing links: https://pypi.org/simple/mdanalysis/ 2022-12-16T17:46:21,328 Getting page https://pypi.org/simple/mdanalysis/ 2022-12-16T17:46:21,329 Found index url https://pypi.org/simple 2022-12-16T17:46:21,383 Fetched page https://pypi.org/simple/mdanalysis/ as application/vnd.pypi.simple.v1+json 2022-12-16T17:46:21,395 Found link https://files.pythonhosted.org/packages/97/94/fd5a74e25fba58cfb514dc39ef4717baa392057503d6c38897f886b2c0c6/MDAnalysis-0.7.6.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.7.6 2022-12-16T17:46:21,396 Found link https://files.pythonhosted.org/packages/9d/32/36e44fd1b946331bd72c7cc8806dd2b37f597a49ac7ccfe2a64ad91e59f7/MDAnalysis-0.8.0rc2.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.8.0rc2 2022-12-16T17:46:21,396 Found link https://files.pythonhosted.org/packages/d9/c4/27ff9dcd35aeef52f41f01a6eff0328eda8a5fa6dfa8097daa9ff70dcdf8/MDAnalysis-0.8.0rc4.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.8.0rc4 2022-12-16T17:46:21,396 Found link https://files.pythonhosted.org/packages/35/04/425a87220983514ef06f87cd98f54db0a84eed5bec9dfd4b27b6799ae99e/MDAnalysis-0.8.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.8.0 2022-12-16T17:46:21,397 Found link https://files.pythonhosted.org/packages/7d/39/0afea6f9c2cb10259479800c3b8496c59ecdab8019d5c0cf868729db4c91/MDAnalysis-0.8.1rc1.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.8.1rc1 2022-12-16T17:46:21,397 Found link https://files.pythonhosted.org/packages/9b/45/5cfc731f70af562c860d5b79329980b8b380dd8e283847c950c1f7af8d4c/MDAnalysis-0.8.1.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.8.1 2022-12-16T17:46:21,397 Found link https://files.pythonhosted.org/packages/b5/f0/a3d1acd3fedafd4b56f3cc8f880acb7f7f0f1c68c46121b4c180975435bb/MDAnalysis-0.9.0-dev.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.9.0-dev 2022-12-16T17:46:21,397 Found link https://files.pythonhosted.org/packages/3b/1a/3bd08be00e453a29b6bcbb3320bb91619539eef69ab5ddef46e4b477b34d/MDAnalysis-0.9.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.9.0 2022-12-16T17:46:21,398 Found link https://files.pythonhosted.org/packages/e5/28/dcafeb58175edede7e4393d5ccfeafc77c3ca8eac6dd2f14d3919e9d4c0c/MDAnalysis-0.9.1.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.9.1 2022-12-16T17:46:21,398 Found link https://files.pythonhosted.org/packages/4e/59/72545bc442ee0f6a45cafbd3b0e99add0aca51cbbbe3a882cc930f993306/MDAnalysis-0.9.2.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.9.2 2022-12-16T17:46:21,398 Found link https://files.pythonhosted.org/packages/82/db/8d468530d1a4834031166fcd9fb754a13e3fd5cc65ee09970ec57c9948cb/MDAnalysis-0.10.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.10.0 2022-12-16T17:46:21,398 Found link https://files.pythonhosted.org/packages/18/80/e6a5502a43f2ce2c432e08a9b404febc46fd403fb5e4b13ddc429f676fd7/MDAnalysis-0.11.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.11.0 2022-12-16T17:46:21,399 Found link https://files.pythonhosted.org/packages/66/77/d666034a559dc75a0cc485345f3058b45b8b067a858adb009b6fae0bcefc/MDAnalysis-0.12.1.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.12.1 2022-12-16T17:46:21,399 Found link https://files.pythonhosted.org/packages/78/33/704a708797267b35bfe27cc40e83eedabad62c7bb143babbc728ee285082/MDAnalysis-0.13.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.13.0 2022-12-16T17:46:21,399 Found link https://files.pythonhosted.org/packages/11/4c/1b683b1448f14e73f8a45981e27689ca694d5f1106e0453145f8619ffc0c/MDAnalysis-0.14.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.14.0 2022-12-16T17:46:21,400 Found link https://files.pythonhosted.org/packages/9f/56/a4cae14e45aa893a3578905a97e17a325d663e424736366adbc134e72dce/MDAnalysis-0.15.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.15.0 2022-12-16T17:46:21,400 Found link https://files.pythonhosted.org/packages/55/bb/32c3dbd8e92b661a98839a50bd3185d29949afe4618fc1a846e42bad0ebf/MDAnalysis-0.16.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.16.0 2022-12-16T17:46:21,400 Found link https://files.pythonhosted.org/packages/5f/68/7e7ce717700411e25821100a3bc3d31866ef7abee7e282736f9e0635fef7/MDAnalysis-0.16.1.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.16.1 2022-12-16T17:46:21,400 Found link https://files.pythonhosted.org/packages/ae/d5/07c38db64a6bd9bcec03caea8e07137bb2e571ce2bd145f9804727dfc2a5/MDAnalysis-0.16.2.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.16.2 2022-12-16T17:46:21,401 Found link https://files.pythonhosted.org/packages/91/e0/b12ee57016dffcf8da1f5651745ab981a09bc9e51519b6fa752a1a9a6d0f/MDAnalysis-0.17.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.17.0 2022-12-16T17:46:21,401 Found link https://files.pythonhosted.org/packages/17/44/e9aff78fc88f6b8ac56b7626f3c83ed3c53f723b3f756d4c211ebd5add74/MDAnalysis-0.18.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.18.0 2022-12-16T17:46:21,401 Found link https://files.pythonhosted.org/packages/6e/30/a2b4339369e252bf22dc8d1e732870bf88c33a73e4f5e73788c1a65b25a3/MDAnalysis-0.19.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.19.0 2022-12-16T17:46:21,401 Found link https://files.pythonhosted.org/packages/1c/24/b03a9bf48a1703b1ec31c34585aab123ca73e7778155ac3d5301a564fde6/MDAnalysis-0.19.1.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.19.1 2022-12-16T17:46:21,402 Found link https://files.pythonhosted.org/packages/be/72/6c2f9fcd842c9a50315ac93c4079b3f70735c6125fe903d04fb68a6e616a/MDAnalysis-0.19.2.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.19.2 2022-12-16T17:46:21,402 Found link https://files.pythonhosted.org/packages/b8/49/a0470dda3837aa4c42a7d2e69a4aaa1646ce2aeffe686f6887666f265b43/MDAnalysis-0.20.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.20.0 2022-12-16T17:46:21,402 Found link https://files.pythonhosted.org/packages/83/4b/97c2df212f1eee47144648aa0e0da1a9022eab74d3fc1fbaf2767734de3d/MDAnalysis-0.20.1.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 0.20.1 2022-12-16T17:46:21,403 Found link https://files.pythonhosted.org/packages/c9/ae/11905971cc6cdb436bff040270f58fb3fc54ef77aea2ce2dfc269129f74e/MDAnalysis-1.0.0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 1.0.0 2022-12-16T17:46:21,404 Link requires a different Python (3.9.2 not in: '>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3,!=3.4.*,<3.9'): https://files.pythonhosted.org/packages/9e/19/1d32ded1891605facf6faf6e0de4ff6bd33db3f7983d84cfc10074363990/MDAnalysis-1.0.1.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3,!=3.4.*,<3.9) 2022-12-16T17:46:21,404 Skipping link: 1.0.1 Requires-Python >=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3,!=3.4.*,<3.9: https://files.pythonhosted.org/packages/9e/19/1d32ded1891605facf6faf6e0de4ff6bd33db3f7983d84cfc10074363990/MDAnalysis-1.0.1.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3,!=3.4.*,<3.9) 2022-12-16T17:46:21,405 Link requires a different Python (3.9.2 not in: '>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9'): https://files.pythonhosted.org/packages/0f/5a/3f34615abbe7c7758847636167d0caad7bb428c3950da64e7a3003b2c6fc/MDAnalysis-1.1.0.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-12-16T17:46:21,405 Skipping link: 1.1.0 Requires-Python >=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9: https://files.pythonhosted.org/packages/0f/5a/3f34615abbe7c7758847636167d0caad7bb428c3950da64e7a3003b2c6fc/MDAnalysis-1.1.0.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-12-16T17:46:21,406 Link requires a different Python (3.9.2 not in: '>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9'): https://files.pythonhosted.org/packages/43/64/5fc4d327f242130f983b9a1ded4a406191385370dbc55a7be99f8ead126d/MDAnalysis-1.1.1.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-12-16T17:46:21,406 Skipping link: 1.1.1 Requires-Python >=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9: https://files.pythonhosted.org/packages/43/64/5fc4d327f242130f983b9a1ded4a406191385370dbc55a7be99f8ead126d/MDAnalysis-1.1.1.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-12-16T17:46:21,406 Found link https://files.pythonhosted.org/packages/55/d1/9e302a51bdf6b3d0b7045c20b42203ad8ad20bf2103e8c19db2da868c6e7/MDAnalysis-2.0.0b0.tar.gz (from https://pypi.org/simple/mdanalysis/), version: 2.0.0b0 2022-12-16T17:46:21,407 Found link https://files.pythonhosted.org/packages/bf/a2/5371b04ff9009b7c33e2e211bd622f961d30ccc47cb45b579f314572dfee/MDAnalysis-2.0.0.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.6), version: 2.0.0 2022-12-16T17:46:21,407 Found link https://files.pythonhosted.org/packages/fd/5a/ff83875f292645f916cc3df339ce45b9f23a06183da51638efb6c593d2e6/MDAnalysis-2.1.0.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.7), version: 2.1.0 2022-12-16T17:46:21,408 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/da/e6/70ff5c7854cde5b6506cfd017f1b8271cb58f1d23f0d2e92b2119a5a2ab8/MDAnalysis-2.2.0-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,408 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/dd/91/227cddc28727e6d5ba1671f46657c9affe449d4259f9e598af74d1e878ae/MDAnalysis-2.2.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,408 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/8d/1d/e7355508ddd8254f4d67cae78675b48cf1fb0d91480b1ef6f836afb8d7fa/MDAnalysis-2.2.0-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,408 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/bb/d7/e97e9ddf0dbc048765a02f2d16d09f62814ff12ab26d78ca00ee5ca5e21f/MDAnalysis-2.2.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,408 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/f3/07/a888f3fe052fb83ef68491a4f9e818bcf37e499492a206a3bd8e74f713bc/MDAnalysis-2.2.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,409 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/bc/c2/e8ba8d35609854287ec30cdb80a79e8de33f1cd88fd05efd40bdb705b142/MDAnalysis-2.2.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,409 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/17/0f/c96e22c0487dc4758d6cb895c0707c12e359b9e48d5022f7316df42f8c84/MDAnalysis-2.2.0-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,409 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/50/d9/af23d161bc9c50678f955d802b8cb1ab624e715ed7d86e8e14f86e4b8f80/MDAnalysis-2.2.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,409 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/83/5c/464d58a27ce0e2b0f010b1c65d0b4149256a7c470f5076beee1928e5e9a9/MDAnalysis-2.2.0-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,410 Found link https://files.pythonhosted.org/packages/5b/73/a077ff42d0cd88c5d3d6320fb156811cf67b28b5ea09a3c800e31af84b9b/MDAnalysis-2.2.0.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8), version: 2.2.0 2022-12-16T17:46:21,410 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/8b/2f/b256ebf5f841f7db75f882fcd40a4260fe5b0f58a005ec80b5b6a06d00eb/MDAnalysis-2.3.0-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,410 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/bd/3f/a2671e82dd0cce8ba6989ab7a2ca7b41caf030c060826e51f755db342ba7/MDAnalysis-2.3.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,411 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/49/ee/ec90cb066842d53783b8ee5b64ff6e53516072c248e175959d0a8fc7bf22/MDAnalysis-2.3.0-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,411 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/34/53/4b049681653aff30fa7f071a2aef6a842efe5c1f17d5852c0650517779c9/MDAnalysis-2.3.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,411 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/92/13/6e132a997503ecc40413196317a6bd8698ba503a7fc0af766af94b441da7/MDAnalysis-2.3.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,411 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/87/89/cf077bb830fecea88bafb1496dce463292195e957560f50853010ff30337/MDAnalysis-2.3.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,411 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/f1/13/f2f10cb68c696fe39700c6efc44ac3d4e3e0700dcf53e38057f4a659183b/MDAnalysis-2.3.0-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,412 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/df/01/07823d486611f6ab2a71b6a378554e95b4e804eb59f00f196db0f54a014d/MDAnalysis-2.3.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,412 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/f3/12/1ca45a5c081c74219a3de9d0886a164cbcd22205f628eb7c9dd6cf2b83e8/MDAnalysis-2.3.0-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,412 Found link https://files.pythonhosted.org/packages/30/c2/f2508b8e57e164eacb29af064eb633861515fdb26b641fb13da24dd56c13/MDAnalysis-2.3.0.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8), version: 2.3.0 2022-12-16T17:46:21,413 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/b9/eb/37ec700b4b4ab96f9e7e2e4d6e00fc5eac5ca4a93108ae372b68a7400e36/MDAnalysis-2.4.0-cp310-cp310-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,413 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/21/f8/975a66519b62a477edcc5478f9e13cba80b360e274f70c74c808f52dcacb/MDAnalysis-2.4.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,413 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/2f/6e/f8361e40f161ea078c3a0d8f14e7934c02ddb2e6bb22d6645f927ccb2b0a/MDAnalysis-2.4.0-cp310-cp310-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,413 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/42/61/dcfeec3752842e387baf268ba2ac21d3b7af30a2fd79cc133d34d545f84d/MDAnalysis-2.4.0-cp311-cp311-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,413 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/7e/b8/d37658555ff36a7bb6e934d017d6892be5f244d1b978b4b3afe78b7ce70c/MDAnalysis-2.4.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,414 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/33/71/89f035c3610952f590e833c06e95ebc951ee8b38ec15fa3a9b16dbf03ac5/MDAnalysis-2.4.0-cp311-cp311-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,414 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/75/26/21dbc3d45af119b4f62a26a6da01d26974bfff38d31ce28fda1c4dafd2e1/MDAnalysis-2.4.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,414 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/c0/ea/59497208df61454b914456144adad561b8a2949b62dfc7016f979661556c/MDAnalysis-2.4.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,414 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/e7/14/7d169a6807b2a80430e56df3d8a365fd77472666eca2699a406229e31a30/MDAnalysis-2.4.0-cp38-cp38-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,414 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/96/9d/08c32ba004d58c9c9b9113cb5026ec4f4787b5cbe909b35ac7fedde50582/MDAnalysis-2.4.0-cp39-cp39-macosx_10_9_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,415 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/98/8d/27b01addb197cd266414763403e88bbaaf2c4f3afa457a5d0f223d2cabbc/MDAnalysis-2.4.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,415 Skipping link: No binaries permitted for mdanalysis: https://files.pythonhosted.org/packages/ac/19/a4a8d5000be7bcadf20b6150731d2aab5e0842e6313c7b2c7b4d121e7ca6/MDAnalysis-2.4.0-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,415 Found link https://files.pythonhosted.org/packages/a9/b0/67c19de6f80f4d0b2b465b3d5f94d347ce0d200d7da6ed7d9d91b712db4d/MDAnalysis-2.4.0.tar.gz (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.8), version: 2.4.0 2022-12-16T17:46:21,416 Fetching project page and analyzing links: https://www.piwheels.org/simple/mdanalysis/ 2022-12-16T17:46:21,416 Getting page https://www.piwheels.org/simple/mdanalysis/ 2022-12-16T17:46:21,417 Found index url https://www.piwheels.org/simple 2022-12-16T17:46:21,602 Fetched page https://www.piwheels.org/simple/mdanalysis/ as text/html 2022-12-16T17:46:21,644 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.3.0-cp39-cp39-linux_armv7l.whl#sha256=954b2d003fe675d5b27a743a9345ee42bd958991591afd1dee95b8aacf8314d0 (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,645 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.3.0-cp39-cp39-linux_armv6l.whl#sha256=954b2d003fe675d5b27a743a9345ee42bd958991591afd1dee95b8aacf8314d0 (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,645 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.2.0-cp39-cp39-linux_armv7l.whl#sha256=4d852c41177612532ba7f7ec2627465cdaa02e4f2d480c72586209ed68e9827f (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,646 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.2.0-cp39-cp39-linux_armv6l.whl#sha256=4d852c41177612532ba7f7ec2627465cdaa02e4f2d480c72586209ed68e9827f (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.8) 2022-12-16T17:46:21,646 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.1.0-cp39-cp39-linux_armv7l.whl#sha256=d9556ba8add30ef268b271c12910975221cca955af752f664094b594c5290f82 (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.7) 2022-12-16T17:46:21,646 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.1.0-cp39-cp39-linux_armv6l.whl#sha256=d9556ba8add30ef268b271c12910975221cca955af752f664094b594c5290f82 (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.7) 2022-12-16T17:46:21,646 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.1.0-cp37-cp37m-linux_armv7l.whl#sha256=15211cf0c7bf4819d9c48762d3c10d7541b273818dfe16cade585528469acb6e (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.7) 2022-12-16T17:46:21,647 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.1.0-cp37-cp37m-linux_armv6l.whl#sha256=15211cf0c7bf4819d9c48762d3c10d7541b273818dfe16cade585528469acb6e (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.7) 2022-12-16T17:46:21,647 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.0.0-cp39-cp39-linux_armv7l.whl#sha256=565f74ce6e9dd72729736ca534c18c243dfa384a984c24dd759f1a263cd3c98c (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.6) 2022-12-16T17:46:21,647 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.0.0-cp39-cp39-linux_armv6l.whl#sha256=565f74ce6e9dd72729736ca534c18c243dfa384a984c24dd759f1a263cd3c98c (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.6) 2022-12-16T17:46:21,648 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.0.0-cp37-cp37m-linux_armv7l.whl#sha256=87407fa5dde4f05cd7b764dacc7ed05d672fdc5965332ce5d91d62d081ccbfc7 (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.6) 2022-12-16T17:46:21,648 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.0.0-cp37-cp37m-linux_armv6l.whl#sha256=87407fa5dde4f05cd7b764dacc7ed05d672fdc5965332ce5d91d62d081ccbfc7 (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=3.6) 2022-12-16T17:46:21,648 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.0.0b0-cp39-cp39-linux_armv7l.whl#sha256=6faa74b3b1a64cdd53a1313f3ecf13a260e99df077e63a45b273edd2b5afc680 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,649 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.0.0b0-cp39-cp39-linux_armv6l.whl#sha256=6faa74b3b1a64cdd53a1313f3ecf13a260e99df077e63a45b273edd2b5afc680 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,649 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.0.0b0-cp37-cp37m-linux_armv7l.whl#sha256=331239f905d05b614d662e8a60615f80c2611d8f6ea8f3e256a0cbcefdf53191 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,649 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-2.0.0b0-cp37-cp37m-linux_armv6l.whl#sha256=331239f905d05b614d662e8a60615f80c2611d8f6ea8f3e256a0cbcefdf53191 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,650 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.1.1-cp37-cp37m-linux_armv7l.whl#sha256=636760cd892a8524f5912fafc58d29ffcce61acbd8730c7c69a3e922a164476f (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-12-16T17:46:21,650 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.1.1-cp37-cp37m-linux_armv6l.whl#sha256=636760cd892a8524f5912fafc58d29ffcce61acbd8730c7c69a3e922a164476f (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-12-16T17:46:21,650 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.1.0-cp37-cp37m-linux_armv7l.whl#sha256=9693d11a44eeb74415f6614dca0791bfe7f0cf24552a0ed3d17c133ff5b361ef (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-12-16T17:46:21,651 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.1.0-cp37-cp37m-linux_armv6l.whl#sha256=9693d11a44eeb74415f6614dca0791bfe7f0cf24552a0ed3d17c133ff5b361ef (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-12-16T17:46:21,651 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.1-cp37-cp37m-linux_armv7l.whl#sha256=1214ca3490e50243b48350c6c6a2c89b77cce8f1cd72f6d2549860b3db1ad84c (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3,!=3.4.*,<3.9) 2022-12-16T17:46:21,651 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.1-cp37-cp37m-linux_armv6l.whl#sha256=1214ca3490e50243b48350c6c6a2c89b77cce8f1cd72f6d2549860b3db1ad84c (from https://www.piwheels.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3,!=3.4.*,<3.9) 2022-12-16T17:46:21,651 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.0-cp39-cp39-linux_armv7l.whl#sha256=e43dbbd4ecd06fb475d80e5dae571708415e1287e6dd2c669c98095e13ea2ae8 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,652 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.0-cp39-cp39-linux_armv6l.whl#sha256=e43dbbd4ecd06fb475d80e5dae571708415e1287e6dd2c669c98095e13ea2ae8 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,652 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.0-cp37-cp37m-linux_armv7l.whl#sha256=1368159b6134befa021a6536dcc02e047dc27b4c4672ae7f3b2f8e1559b43f8e (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,652 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.0-cp37-cp37m-linux_armv6l.whl#sha256=1368159b6134befa021a6536dcc02e047dc27b4c4672ae7f3b2f8e1559b43f8e (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,653 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.0-cp35-cp35m-linux_armv6l.whl#sha256=b669220c967a8cc746ae35c931d22da666f540595d1e9a9c3bb620effa9205b3 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,653 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.0-cp35-cp35m-linux_armv7l.whl#sha256=b669220c967a8cc746ae35c931d22da666f540595d1e9a9c3bb620effa9205b3 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,653 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.0-cp34-cp34m-linux_armv7l.whl#sha256=73adf04061df9ef3a9987e05113ccef5654aba2f3d2a3fe680ad590a76b2cd4c (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,654 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-1.0.0-cp34-cp34m-linux_armv6l.whl#sha256=73adf04061df9ef3a9987e05113ccef5654aba2f3d2a3fe680ad590a76b2cd4c (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,654 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.1-cp39-cp39-linux_armv7l.whl#sha256=89f6feff5fc44ebffd65aa746c268db44a975620306dfebc09a8e7b8e9d5e4da (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,654 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.1-cp39-cp39-linux_armv6l.whl#sha256=89f6feff5fc44ebffd65aa746c268db44a975620306dfebc09a8e7b8e9d5e4da (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,654 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.1-cp35-cp35m-linux_armv7l.whl#sha256=dafe9f34f8fc19527a5e2ebbe3080bfa1e89a5ceb160e8a52bf3ca2a9dce6442 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,655 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.1-cp35-cp35m-linux_armv6l.whl#sha256=dafe9f34f8fc19527a5e2ebbe3080bfa1e89a5ceb160e8a52bf3ca2a9dce6442 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,655 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.1-cp37-cp37m-linux_armv6l.whl#sha256=51964d1254a62b7b673ddfa8ce4eb6616d3b13f1ea26702fc5ba1ea0a2d30696 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,655 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.1-cp37-cp37m-linux_armv7l.whl#sha256=51964d1254a62b7b673ddfa8ce4eb6616d3b13f1ea26702fc5ba1ea0a2d30696 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,656 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.0-cp39-cp39-linux_armv7l.whl#sha256=71f4f4953090bbbbafab4e8e5f1af9286acd1dbe6863f95771e62ca51d6772be (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,656 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.0-cp39-cp39-linux_armv6l.whl#sha256=71f4f4953090bbbbafab4e8e5f1af9286acd1dbe6863f95771e62ca51d6772be (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,656 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.0-cp37-cp37m-linux_armv7l.whl#sha256=9b6fa10f5b5f2473db79f5704fbfc697f53d7c356f152ba8d80c761e63acbed7 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,657 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.0-cp37-cp37m-linux_armv6l.whl#sha256=9b6fa10f5b5f2473db79f5704fbfc697f53d7c356f152ba8d80c761e63acbed7 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,657 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.0-cp35-cp35m-linux_armv6l.whl#sha256=0f4e4569bec6b9d3d93de52938352429f2e85e568b7f35bd3a69f0a111ded689 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,657 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.0-cp35-cp35m-linux_armv7l.whl#sha256=0f4e4569bec6b9d3d93de52938352429f2e85e568b7f35bd3a69f0a111ded689 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,657 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.2-cp35-cp35m-linux_armv6l.whl#sha256=eb34e69945631c173f5b4ad0378dcf44bf0760fc8f90c68501d757ed9b6203f3 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,658 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.2-cp35-cp35m-linux_armv7l.whl#sha256=eb34e69945631c173f5b4ad0378dcf44bf0760fc8f90c68501d757ed9b6203f3 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,658 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.2-cp37-cp37m-linux_armv7l.whl#sha256=10a68d03d53e547d0cd2b7be40ec9af8591482bb43aeb5aad582f8a4926205b1 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,658 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.2-cp37-cp37m-linux_armv6l.whl#sha256=10a68d03d53e547d0cd2b7be40ec9af8591482bb43aeb5aad582f8a4926205b1 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,659 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.1-cp35-cp35m-linux_armv7l.whl#sha256=813d426b8a410f1c2297d31517407d5684acd025090423a79196237743514a41 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,659 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.1-cp35-cp35m-linux_armv6l.whl#sha256=813d426b8a410f1c2297d31517407d5684acd025090423a79196237743514a41 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,659 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.1-cp34-cp34m-linux_armv6l.whl#sha256=20c2668ada02b91f1fde53c86ba8f14bcf3690458546f09a9fe1694ce814ad54 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,660 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.1-cp34-cp34m-linux_armv7l.whl#sha256=20c2668ada02b91f1fde53c86ba8f14bcf3690458546f09a9fe1694ce814ad54 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,660 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.1-cp37-cp37m-linux_armv6l.whl#sha256=82dd02ba237b4261c0f0d1f180ee08cda6cd1c25871e12db138518ab9f8ca8a6 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,660 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.1-cp37-cp37m-linux_armv7l.whl#sha256=82dd02ba237b4261c0f0d1f180ee08cda6cd1c25871e12db138518ab9f8ca8a6 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,660 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.0-cp34-cp34m-linux_armv7l.whl#sha256=2182ab1095b6fb7758816fb8041d325e39216149dd9cc19f98b2394392a14f1b (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,661 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.0-cp34-cp34m-linux_armv6l.whl#sha256=2182ab1095b6fb7758816fb8041d325e39216149dd9cc19f98b2394392a14f1b (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,661 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.0-cp35-cp35m-linux_armv6l.whl#sha256=426923348f9332d0762be3c94068ab6f54e143815453ae85d2a749e77e4226f7 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,661 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.0-cp35-cp35m-linux_armv7l.whl#sha256=426923348f9332d0762be3c94068ab6f54e143815453ae85d2a749e77e4226f7 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,662 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.0-cp37-cp37m-linux_armv7l.whl#sha256=12656c0ac065200b557f80654ef49efaf3e7605ed9abdb94875f64143616f41d (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,662 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.19.0-cp37-cp37m-linux_armv6l.whl#sha256=12656c0ac065200b557f80654ef49efaf3e7605ed9abdb94875f64143616f41d (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,662 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.18.0-cp34-cp34m-linux_armv7l.whl#sha256=9ed92944cd4b3322d05b9a4bb840fe590ed3be07609a93ffb09fe1f760ac363d (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,662 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.18.0-cp34-cp34m-linux_armv6l.whl#sha256=9ed92944cd4b3322d05b9a4bb840fe590ed3be07609a93ffb09fe1f760ac363d (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,663 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.18.0-cp35-cp35m-linux_armv7l.whl#sha256=66b3e7f35c28b424a6ad19307554c223ebc24916dddb557dbd08762989c32119 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,663 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.18.0-cp35-cp35m-linux_armv6l.whl#sha256=66b3e7f35c28b424a6ad19307554c223ebc24916dddb557dbd08762989c32119 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,663 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.18.0-cp37-cp37m-linux_armv6l.whl#sha256=07e291f5c3ee08d16b280c629411107ae1984f33458036e3418429e5f1a33092 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,664 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.18.0-cp37-cp37m-linux_armv7l.whl#sha256=07e291f5c3ee08d16b280c629411107ae1984f33458036e3418429e5f1a33092 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,664 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.17.0-cp37-cp37m-linux_armv7l.whl#sha256=bff2b2b18becae8ee1095f65c6e0d35f33fbc31544d3a12e9ab41bcdb6a775ce (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,664 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.17.0-cp37-cp37m-linux_armv6l.whl#sha256=bff2b2b18becae8ee1095f65c6e0d35f33fbc31544d3a12e9ab41bcdb6a775ce (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,665 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.17.0-cp34-cp34m-linux_armv6l.whl#sha256=ca0488c00e0be959cac05340ae1deb148c2769996e5abb346ad3a7487c2193d1 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,665 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.17.0-cp34-cp34m-linux_armv7l.whl#sha256=ca0488c00e0be959cac05340ae1deb148c2769996e5abb346ad3a7487c2193d1 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,665 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.17.0-cp35-cp35m-linux_armv6l.whl#sha256=58492c63068e648dfb1879b19f1fa55e6e3b9589ee9141eda53c4aed5a915136 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,665 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.17.0-cp35-cp35m-linux_armv7l.whl#sha256=58492c63068e648dfb1879b19f1fa55e6e3b9589ee9141eda53c4aed5a915136 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,666 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.2-cp35-cp35m-linux_armv6l.whl#sha256=28e395835220893e8a10d101072b742e6401a4376ddfacc41e30572d8aa6ed65 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,666 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.2-cp35-cp35m-linux_armv7l.whl#sha256=28e395835220893e8a10d101072b742e6401a4376ddfacc41e30572d8aa6ed65 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,666 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.2-cp34-cp34m-linux_armv6l.whl#sha256=e959b452e988fe4a9b8459143d6a64eef168bc3b9355a04b20ba20c4bb1bf601 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,667 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.2-cp34-cp34m-linux_armv7l.whl#sha256=e959b452e988fe4a9b8459143d6a64eef168bc3b9355a04b20ba20c4bb1bf601 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,667 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.1-cp34-cp34m-linux_armv6l.whl#sha256=985988f3d88079fe20f14ddee546fbb7b13e2a70dbeb4ac10c0f38f45afa7261 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,667 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.1-cp34-cp34m-linux_armv7l.whl#sha256=985988f3d88079fe20f14ddee546fbb7b13e2a70dbeb4ac10c0f38f45afa7261 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,667 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.1-cp35-cp35m-linux_armv7l.whl#sha256=933bf37f65e3ae59c832a6798365a3da99432510fcfc802e2d6eaa48db3a7261 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,668 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.1-cp35-cp35m-linux_armv6l.whl#sha256=933bf37f65e3ae59c832a6798365a3da99432510fcfc802e2d6eaa48db3a7261 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,668 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.0-cp34-cp34m-linux_armv6l.whl#sha256=34198e0f9e509df1779c2255812cee0f720dc8e989c7d4b7196337f75f1ef51b (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,668 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.0-cp34-cp34m-linux_armv7l.whl#sha256=34198e0f9e509df1779c2255812cee0f720dc8e989c7d4b7196337f75f1ef51b (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,669 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.0-cp35-cp35m-linux_armv7l.whl#sha256=032867bf17eecd5fd249607198ad5c191fac901f2856d5a485ffc53a8eb687d4 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,669 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.16.0-cp35-cp35m-linux_armv6l.whl#sha256=032867bf17eecd5fd249607198ad5c191fac901f2856d5a485ffc53a8eb687d4 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,669 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.15.0-cp35-cp35m-linux_armv7l.whl#sha256=04685acd7ab3d9f580c6dccdc18dfa33d89ea596521eede98bef2ec3f8f58af7 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,670 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.15.0-cp35-cp35m-linux_armv6l.whl#sha256=04685acd7ab3d9f580c6dccdc18dfa33d89ea596521eede98bef2ec3f8f58af7 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,670 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.15.0-cp34-cp34m-linux_armv6l.whl#sha256=30c2bb9cf26e969dbdc8978bd4710e9e8a42ee42ed7c9ad506c63a0855448307 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,670 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.15.0-cp34-cp34m-linux_armv7l.whl#sha256=30c2bb9cf26e969dbdc8978bd4710e9e8a42ee42ed7c9ad506c63a0855448307 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,670 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.14.0-cp34-cp34m-linux_armv6l.whl#sha256=527918d821e76043cda119ee29aa26b835f8f85251d560d47616e9147b5a1539 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,671 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.14.0-cp34-cp34m-linux_armv7l.whl#sha256=527918d821e76043cda119ee29aa26b835f8f85251d560d47616e9147b5a1539 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,671 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.14.0-cp35-cp35m-linux_armv6l.whl#sha256=b9d6e5734efb33b9383183904d491de8ef28aeeac7bbfdd617d48084126af113 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,671 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.14.0-cp35-cp35m-linux_armv7l.whl#sha256=b9d6e5734efb33b9383183904d491de8ef28aeeac7bbfdd617d48084126af113 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,672 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.13.0-cp39-cp39-linux_armv7l.whl#sha256=ef25ee9269f3b7f8ab95f1c3c563c39740fd2b7801df49d6be7e702c7db7f8fc (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,672 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.13.0-cp39-cp39-linux_armv6l.whl#sha256=ef25ee9269f3b7f8ab95f1c3c563c39740fd2b7801df49d6be7e702c7db7f8fc (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,672 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.13.0-cp35-cp35m-linux_armv7l.whl#sha256=46ca86446af4c56b5805a1cb36dd77ac64d009abb5500878ea4fa26320c7ba43 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,672 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.13.0-cp35-cp35m-linux_armv6l.whl#sha256=46ca86446af4c56b5805a1cb36dd77ac64d009abb5500878ea4fa26320c7ba43 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,673 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.13.0-cp34-cp34m-linux_armv6l.whl#sha256=89151b95fc0cd948f7a2d1d660b8c2453a612a752a2a2d7d8fb6d169ff2782d4 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,673 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.13.0-cp34-cp34m-linux_armv7l.whl#sha256=89151b95fc0cd948f7a2d1d660b8c2453a612a752a2a2d7d8fb6d169ff2782d4 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,673 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.13.0-cp37-cp37m-linux_armv7l.whl#sha256=a073eda71f157be82bd9b81ac12793e63834dde1ac9b63ca704668a88b025c1e (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,674 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.13.0-cp37-cp37m-linux_armv6l.whl#sha256=a073eda71f157be82bd9b81ac12793e63834dde1ac9b63ca704668a88b025c1e (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,674 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.12.1-cp35-cp35m-linux_armv7l.whl#sha256=47de147e5ee68a99b75107632aaa1e3bf84b4fa1f5bd7a456c1537266d437fbb (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,674 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.12.1-cp35-cp35m-linux_armv6l.whl#sha256=47de147e5ee68a99b75107632aaa1e3bf84b4fa1f5bd7a456c1537266d437fbb (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,674 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.12.1-cp34-cp34m-linux_armv6l.whl#sha256=a0ddeb70a574aee9a5c491f2da635dc26e5e5b2b4cac7d8abbbffb3c1b4c7a8a (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,675 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.12.1-cp34-cp34m-linux_armv7l.whl#sha256=a0ddeb70a574aee9a5c491f2da635dc26e5e5b2b4cac7d8abbbffb3c1b4c7a8a (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,675 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.11.0-cp35-cp35m-linux_armv6l.whl#sha256=28a9bbed8fd84f6ebdf4efb48ef9e2435715169ef7a558ad7f11a33232e83815 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,675 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.11.0-cp35-cp35m-linux_armv7l.whl#sha256=28a9bbed8fd84f6ebdf4efb48ef9e2435715169ef7a558ad7f11a33232e83815 (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,676 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.11.0-cp34-cp34m-linux_armv6l.whl#sha256=6d813f8dee5bde52fe344b851079bfaab34030f253869d7098ee33929566e36a (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,676 Skipping link: No binaries permitted for mdanalysis: https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.11.0-cp34-cp34m-linux_armv7l.whl#sha256=6d813f8dee5bde52fe344b851079bfaab34030f253869d7098ee33929566e36a (from https://www.piwheels.org/simple/mdanalysis/) 2022-12-16T17:46:21,676 Skipping link: not a file: https://www.piwheels.org/simple/mdanalysis/ 2022-12-16T17:46:21,677 Skipping link: not a file: https://pypi.org/simple/mdanalysis/ 2022-12-16T17:46:21,709 Given no hashes to check 1 links for project 'mdanalysis': discarding no candidates 2022-12-16T17:46:21,733 Collecting mdanalysis==2.4.0 2022-12-16T17:46:21,736 Created temporary directory: /tmp/pip-unpack-65ms92ox 2022-12-16T17:46:22,125 Downloading MDAnalysis-2.4.0.tar.gz (3.7 MB) 2022-12-16T17:46:25,670 Added mdanalysis==2.4.0 from https://files.pythonhosted.org/packages/a9/b0/67c19de6f80f4d0b2b465b3d5f94d347ce0d200d7da6ed7d9d91b712db4d/MDAnalysis-2.4.0.tar.gz to build tracker '/tmp/pip-build-tracker-rxb05060' 2022-12-16T17:46:25,722 Created temporary directory: /tmp/pip-build-env-f8u7dtp9 2022-12-16T17:46:25,729 Installing build dependencies: started 2022-12-16T17:46:25,730 Running command pip subprocess to install build dependencies 2022-12-16T17:46:26,921 Using pip 22.3 from /usr/local/lib/python3.9/dist-packages/pip (python 3.9) 2022-12-16T17:46:27,349 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2022-12-16T17:46:27,374 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-12-16T17:46:27,375 Ignoring numpy: markers 'python_version == "3.8" and (platform_machine != "arm64" or platform_system != "Darwin") and platform_python_implementation != "PyPy"' don't match your environment 2022-12-16T17:46:27,377 Ignoring numpy: markers 'python_version == "3.8" and platform_machine == "arm64" and platform_system == "Darwin" and platform_python_implementation != "PyPy"' don't match your environment 2022-12-16T17:46:27,378 Ignoring numpy: markers 'python_version == "3.9" and platform_machine == "arm64" and platform_system == "Darwin" and platform_python_implementation != "PyPy"' don't match your environment 2022-12-16T17:46:27,379 Ignoring numpy: markers 'python_version == "3.10" and platform_system == "Windows" and platform_python_implementation != "PyPy"' don't match your environment 2022-12-16T17:46:27,380 Ignoring numpy: markers 'python_version == "3.10" and platform_system != "Windows" and platform_python_implementation != "PyPy"' don't match your environment 2022-12-16T17:46:27,381 Ignoring numpy: markers 'python_version == "3.11" and platform_python_implementation != "PyPy"' don't match your environment 2022-12-16T17:46:27,382 Ignoring numpy: markers 'python_version >= "3.12"' don't match your environment 2022-12-16T17:46:29,026 Collecting Cython>=0.28 2022-12-16T17:46:29,531 Using cached https://www.piwheels.org/simple/cython/Cython-0.29.32-cp39-cp39-linux_armv7l.whl (5.0 MB) 2022-12-16T17:46:29,881 Collecting packaging 2022-12-16T17:46:29,898 Using cached https://www.piwheels.org/simple/packaging/packaging-22.0-py3-none-any.whl (42 kB) 2022-12-16T17:46:31,294 Collecting numpy==1.20.0 2022-12-16T17:46:31,327 Downloading https://www.piwheels.org/simple/numpy/numpy-1.20.0-cp39-cp39-linux_armv7l.whl (11.6 MB) 2022-12-16T17:46:33,878 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 11.6/11.6 MB 4.2 MB/s eta 0:00:00 2022-12-16T17:46:35,613 Collecting setuptools 2022-12-16T17:46:35,726 Using cached https://www.piwheels.org/simple/setuptools/setuptools-65.6.3-py3-none-any.whl (1.2 MB) 2022-12-16T17:46:36,010 Collecting wheel 2022-12-16T17:46:36,047 Using cached https://www.piwheels.org/simple/wheel/wheel-0.38.4-py3-none-any.whl (36 kB) 2022-12-16T17:46:38,063 Installing collected packages: wheel, setuptools, packaging, numpy, Cython 2022-12-16T17:46:38,212 Creating /tmp/pip-build-env-f8u7dtp9/overlay/bin 2022-12-16T17:46:38,214 changing mode of /tmp/pip-build-env-f8u7dtp9/overlay/bin/wheel to 755 2022-12-16T17:46:49,080 changing mode of /tmp/pip-build-env-f8u7dtp9/overlay/bin/f2py to 755 2022-12-16T17:46:49,082 changing mode of /tmp/pip-build-env-f8u7dtp9/overlay/bin/f2py3 to 755 2022-12-16T17:46:49,085 changing mode of /tmp/pip-build-env-f8u7dtp9/overlay/bin/f2py3.9 to 755 2022-12-16T17:46:52,166 changing mode of /tmp/pip-build-env-f8u7dtp9/overlay/bin/cygdb to 755 2022-12-16T17:46:52,168 changing mode of /tmp/pip-build-env-f8u7dtp9/overlay/bin/cython to 755 2022-12-16T17:46:52,170 changing mode of /tmp/pip-build-env-f8u7dtp9/overlay/bin/cythonize to 755 2022-12-16T17:46:52,196 Successfully installed Cython-0.29.32 numpy-1.20.0 packaging-22.0 setuptools-65.6.3 wheel-0.38.4 2022-12-16T17:46:52,211 [notice] A new release of pip available: 22.3 -> 22.3.1 2022-12-16T17:46:52,211 [notice] To update, run: python3 -m pip install --upgrade pip 2022-12-16T17:46:52,597 Installing build dependencies: finished with status 'done' 2022-12-16T17:46:52,610 Getting requirements to build wheel: started 2022-12-16T17:46:52,611 Running command Getting requirements to build wheel 2022-12-16T17:47:29,244 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2022-12-16T17:47:29,245 Will attempt to use Cython. 2022-12-16T17:47:29,245 Compiling MDAnalysis/lib/formats/libdcd.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2022-12-16T17:47:29,245 Compiling MDAnalysis/lib/c_distances.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2022-12-16T17:47:29,245 Compiling MDAnalysis/lib/c_distances_openmp.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2022-12-16T17:47:29,246 Compiling MDAnalysis/lib/qcprot.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2022-12-16T17:47:29,246 Compiling MDAnalysis/lib/formats/libmdaxdr.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2022-12-16T17:47:29,246 Compiling MDAnalysis/lib/formats/cython_util.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2022-12-16T17:47:29,246 Compiling MDAnalysis/analysis/encore/cutils.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2022-12-16T17:47:29,247 Compiling MDAnalysis/analysis/encore/clustering/affinityprop.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2022-12-16T17:47:29,247 Compiling MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libc/string.pxd. 2022-12-16T17:47:29,247 Compiling MDAnalysis/lib/_cutil.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2022-12-16T17:47:29,247 Compiling MDAnalysis/lib/_augment.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2022-12-16T17:47:29,247 Compiling MDAnalysis/lib/nsgrid.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/vector.pxd. 2022-12-16T17:47:29,248 Compiling MDAnalysis/coordinates/timestep.pyx because it depends on /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/Cython/Includes/libcpp/__init__.pxd. 2022-12-16T17:47:29,248 [ 1/13] Cythonizing MDAnalysis/lib/_augment.pyx 2022-12-16T17:47:29,248 [ 2/13] Cythonizing MDAnalysis/lib/_cutil.pyx 2022-12-16T17:47:29,248 [ 3/13] Cythonizing MDAnalysis/lib/nsgrid.pyx 2022-12-16T17:47:29,248 [ 4/13] Cythonizing MDAnalysis/analysis/encore/clustering/affinityprop.pyx 2022-12-16T17:47:29,249 [ 5/13] Cythonizing MDAnalysis/analysis/encore/cutils.pyx 2022-12-16T17:47:29,249 [ 6/13] Cythonizing MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.pyx 2022-12-16T17:47:29,249 [ 7/13] Cythonizing MDAnalysis/coordinates/timestep.pyx 2022-12-16T17:47:29,249 [ 8/13] Cythonizing MDAnalysis/lib/c_distances.pyx 2022-12-16T17:47:29,249 [ 9/13] Cythonizing MDAnalysis/lib/c_distances_openmp.pyx 2022-12-16T17:47:29,250 [10/13] Cythonizing MDAnalysis/lib/formats/cython_util.pyx 2022-12-16T17:47:29,250 [11/13] Cythonizing MDAnalysis/lib/formats/libdcd.pyx 2022-12-16T17:47:29,250 [12/13] Cythonizing MDAnalysis/lib/formats/libmdaxdr.pyx 2022-12-16T17:47:29,250 [13/13] Cythonizing MDAnalysis/lib/qcprot.pyx 2022-12-16T17:47:30,304 Getting requirements to build wheel: finished with status 'done' 2022-12-16T17:47:30,318 Created temporary directory: /tmp/pip-modern-metadata-_k3ut97q 2022-12-16T17:47:30,321 Preparing metadata (pyproject.toml): started 2022-12-16T17:47:30,322 Running command Preparing metadata (pyproject.toml) 2022-12-16T17:47:32,625 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2022-12-16T17:47:32,625 Will attempt to use Cython. 2022-12-16T17:47:32,831 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:196: UserWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2022-12-16T17:47:32,832 warnings.warn(msg) 2022-12-16T17:47:33,044 running dist_info 2022-12-16T17:47:33,052 creating /tmp/pip-modern-metadata-_k3ut97q/MDAnalysis.egg-info 2022-12-16T17:47:33,058 writing /tmp/pip-modern-metadata-_k3ut97q/MDAnalysis.egg-info/PKG-INFO 2022-12-16T17:47:33,062 writing dependency_links to /tmp/pip-modern-metadata-_k3ut97q/MDAnalysis.egg-info/dependency_links.txt 2022-12-16T17:47:33,065 writing requirements to /tmp/pip-modern-metadata-_k3ut97q/MDAnalysis.egg-info/requires.txt 2022-12-16T17:47:33,066 writing top-level names to /tmp/pip-modern-metadata-_k3ut97q/MDAnalysis.egg-info/top_level.txt 2022-12-16T17:47:33,067 writing manifest file '/tmp/pip-modern-metadata-_k3ut97q/MDAnalysis.egg-info/SOURCES.txt' 2022-12-16T17:47:33,113 reading manifest file '/tmp/pip-modern-metadata-_k3ut97q/MDAnalysis.egg-info/SOURCES.txt' 2022-12-16T17:47:33,116 reading manifest template 'MANIFEST.in' 2022-12-16T17:47:33,285 warning: no previously-included files matching 'doc/html/html' found anywhere in distribution 2022-12-16T17:47:33,287 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2022-12-16T17:47:33,288 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2022-12-16T17:47:33,290 warning: no previously-included files matching '*.pyd' found anywhere in distribution 2022-12-16T17:47:33,291 warning: no previously-included files matching '*~' found anywhere in distribution 2022-12-16T17:47:33,292 warning: no previously-included files matching '.git' found anywhere in distribution 2022-12-16T17:47:33,292 adding license file 'LICENSE' 2022-12-16T17:47:33,293 adding license file 'AUTHORS' 2022-12-16T17:47:33,310 writing manifest file '/tmp/pip-modern-metadata-_k3ut97q/MDAnalysis.egg-info/SOURCES.txt' 2022-12-16T17:47:33,312 creating '/tmp/pip-modern-metadata-_k3ut97q/MDAnalysis-2.4.0.dist-info' 2022-12-16T17:47:33,621 Preparing metadata (pyproject.toml): finished with status 'done' 2022-12-16T17:47:33,632 Source in /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b has version 2.4.0, which satisfies requirement mdanalysis==2.4.0 from https://files.pythonhosted.org/packages/a9/b0/67c19de6f80f4d0b2b465b3d5f94d347ce0d200d7da6ed7d9d91b712db4d/MDAnalysis-2.4.0.tar.gz 2022-12-16T17:47:33,633 Removed mdanalysis==2.4.0 from https://files.pythonhosted.org/packages/a9/b0/67c19de6f80f4d0b2b465b3d5f94d347ce0d200d7da6ed7d9d91b712db4d/MDAnalysis-2.4.0.tar.gz from build tracker '/tmp/pip-build-tracker-rxb05060' 2022-12-16T17:47:33,643 Created temporary directory: /tmp/pip-unpack-3u66ammj 2022-12-16T17:47:33,644 Building wheels for collected packages: mdanalysis 2022-12-16T17:47:33,649 Created temporary directory: /tmp/pip-wheel-twzxis1s 2022-12-16T17:47:33,649 Destination directory: /tmp/pip-wheel-twzxis1s 2022-12-16T17:47:33,652 Building wheel for mdanalysis (pyproject.toml): started 2022-12-16T17:47:33,653 Running command Building wheel for mdanalysis (pyproject.toml) 2022-12-16T17:47:35,802 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2022-12-16T17:47:35,802 Will attempt to use Cython. 2022-12-16T17:47:36,002 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/config/_apply_pyprojecttoml.py:196: UserWarning: `install_requires` overwritten in `pyproject.toml` (dependencies) 2022-12-16T17:47:36,002 warnings.warn(msg) 2022-12-16T17:47:36,194 running bdist_wheel 2022-12-16T17:47:36,214 running build 2022-12-16T17:47:36,214 running build_py 2022-12-16T17:47:36,221 creating build 2022-12-16T17:47:36,221 creating build/lib.linux-armv7l-cpython-39 2022-12-16T17:47:36,222 creating build/lib.linux-armv7l-cpython-39/MDAnalysis 2022-12-16T17:47:36,224 copying MDAnalysis/due.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis 2022-12-16T17:47:36,226 copying MDAnalysis/exceptions.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis 2022-12-16T17:47:36,228 copying MDAnalysis/units.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis 2022-12-16T17:47:36,231 copying MDAnalysis/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis 2022-12-16T17:47:36,233 copying MDAnalysis/version.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis 2022-12-16T17:47:36,235 copying MDAnalysis/authors.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis 2022-12-16T17:47:36,239 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,240 copying MDAnalysis/coordinates/MMTF.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,242 copying MDAnalysis/coordinates/LAMMPS.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,245 copying MDAnalysis/coordinates/ParmEd.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,247 copying MDAnalysis/coordinates/chemfiles.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,250 copying MDAnalysis/coordinates/DCD.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,253 copying MDAnalysis/coordinates/TRJ.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,256 copying MDAnalysis/coordinates/H5MD.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,261 copying MDAnalysis/coordinates/INPCRD.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,263 copying MDAnalysis/coordinates/PDB.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,267 copying MDAnalysis/coordinates/chain.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,270 copying MDAnalysis/coordinates/TRZ.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,272 copying MDAnalysis/coordinates/GSD.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,275 copying MDAnalysis/coordinates/base.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,279 copying MDAnalysis/coordinates/core.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,282 copying MDAnalysis/coordinates/FHIAIMS.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,285 copying MDAnalysis/coordinates/XYZ.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,287 copying MDAnalysis/coordinates/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,290 copying MDAnalysis/coordinates/MOL2.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,293 copying MDAnalysis/coordinates/XTC.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,296 copying MDAnalysis/coordinates/GRO.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,298 copying MDAnalysis/coordinates/memory.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,302 copying MDAnalysis/coordinates/DLPoly.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,304 copying MDAnalysis/coordinates/XDR.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,307 copying MDAnalysis/coordinates/NAMDBIN.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,310 copying MDAnalysis/coordinates/null.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,312 copying MDAnalysis/coordinates/PQR.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,314 copying MDAnalysis/coordinates/TNG.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,317 copying MDAnalysis/coordinates/GMS.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,320 copying MDAnalysis/coordinates/TXYZ.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,322 copying MDAnalysis/coordinates/PDBQT.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,325 copying MDAnalysis/coordinates/CRD.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,328 copying MDAnalysis/coordinates/TRR.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,330 copying MDAnalysis/coordinates/DMS.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:36,333 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary 2022-12-16T17:47:36,334 copying MDAnalysis/auxiliary/base.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary 2022-12-16T17:47:36,338 copying MDAnalysis/auxiliary/core.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary 2022-12-16T17:47:36,340 copying MDAnalysis/auxiliary/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary 2022-12-16T17:47:36,343 copying MDAnalysis/auxiliary/EDR.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary 2022-12-16T17:47:36,346 copying MDAnalysis/auxiliary/XVG.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary 2022-12-16T17:47:36,350 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,351 copying MDAnalysis/analysis/distances.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,354 copying MDAnalysis/analysis/bat.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,357 copying MDAnalysis/analysis/rms.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,360 copying MDAnalysis/analysis/msd.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,363 copying MDAnalysis/analysis/dihedrals.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,366 copying MDAnalysis/analysis/leaflet.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,369 copying MDAnalysis/analysis/base.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,373 copying MDAnalysis/analysis/nucleicacids.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,375 copying MDAnalysis/analysis/density.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,379 copying MDAnalysis/analysis/dielectric.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,381 copying MDAnalysis/analysis/pca.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,384 copying MDAnalysis/analysis/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,386 copying MDAnalysis/analysis/psa.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,390 copying MDAnalysis/analysis/align.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,394 copying MDAnalysis/analysis/nuclinfo.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,397 copying MDAnalysis/analysis/rdf.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,400 copying MDAnalysis/analysis/diffusionmap.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,403 copying MDAnalysis/analysis/lineardensity.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,405 copying MDAnalysis/analysis/waterdynamics.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,408 copying MDAnalysis/analysis/polymer.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,411 copying MDAnalysis/analysis/helix_analysis.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,414 copying MDAnalysis/analysis/contacts.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,417 copying MDAnalysis/analysis/gnm.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:47:36,420 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/tests 2022-12-16T17:47:36,421 copying MDAnalysis/tests/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/tests 2022-12-16T17:47:36,423 copying MDAnalysis/tests/datafiles.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/tests 2022-12-16T17:47:36,426 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,427 copying MDAnalysis/topology/PQRParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,430 copying MDAnalysis/topology/ITPParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,433 copying MDAnalysis/topology/DLPolyParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,435 copying MDAnalysis/topology/GSDParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,438 copying MDAnalysis/topology/GROParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,440 copying MDAnalysis/topology/ParmEdParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,442 copying MDAnalysis/topology/XYZParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,444 copying MDAnalysis/topology/TXYZParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,447 copying MDAnalysis/topology/base.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,449 copying MDAnalysis/topology/PSFParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,452 copying MDAnalysis/topology/core.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,454 copying MDAnalysis/topology/DMSParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,457 copying MDAnalysis/topology/FHIAIMSParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,459 copying MDAnalysis/topology/ExtendedPDBParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,461 copying MDAnalysis/topology/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,464 copying MDAnalysis/topology/HoomdXMLParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,466 copying MDAnalysis/topology/tables.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,469 copying MDAnalysis/topology/MOL2Parser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,471 copying MDAnalysis/topology/LAMMPSParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,474 copying MDAnalysis/topology/CRDParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,477 copying MDAnalysis/topology/guessers.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,480 copying MDAnalysis/topology/MinimalParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,482 copying MDAnalysis/topology/TOPParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,485 copying MDAnalysis/topology/PDBQTParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,488 copying MDAnalysis/topology/TPRParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,491 copying MDAnalysis/topology/PDBParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,493 copying MDAnalysis/topology/GMSParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,496 copying MDAnalysis/topology/MMTFParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology 2022-12-16T17:47:36,499 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,500 copying MDAnalysis/lib/log.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,503 copying MDAnalysis/lib/distances.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,508 copying MDAnalysis/lib/NeighborSearch.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,510 copying MDAnalysis/lib/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,512 copying MDAnalysis/lib/picklable_file_io.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,515 copying MDAnalysis/lib/transformations.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,519 copying MDAnalysis/lib/mdamath.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,522 copying MDAnalysis/lib/correlations.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,524 copying MDAnalysis/lib/util.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,529 copying MDAnalysis/lib/pkdtree.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:36,533 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,534 copying MDAnalysis/core/topologyattrs.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,540 copying MDAnalysis/core/topology.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,543 copying MDAnalysis/core/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,545 copying MDAnalysis/core/topologyobjects.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,548 copying MDAnalysis/core/accessors.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,551 copying MDAnalysis/core/_get_readers.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,554 copying MDAnalysis/core/universe.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,558 copying MDAnalysis/core/selection.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,562 copying MDAnalysis/core/groups.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/core 2022-12-16T17:47:36,571 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations 2022-12-16T17:47:36,572 copying MDAnalysis/transformations/positionaveraging.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations 2022-12-16T17:47:36,575 copying MDAnalysis/transformations/base.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations 2022-12-16T17:47:36,577 copying MDAnalysis/transformations/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations 2022-12-16T17:47:36,580 copying MDAnalysis/transformations/translate.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations 2022-12-16T17:47:36,583 copying MDAnalysis/transformations/wrap.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations 2022-12-16T17:47:36,585 copying MDAnalysis/transformations/rotate.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations 2022-12-16T17:47:36,588 copying MDAnalysis/transformations/fit.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations 2022-12-16T17:47:36,591 copying MDAnalysis/transformations/boxdimensions.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations 2022-12-16T17:47:36,594 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/converters 2022-12-16T17:47:36,595 copying MDAnalysis/converters/OpenMM.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/converters 2022-12-16T17:47:36,598 copying MDAnalysis/converters/ParmEd.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/converters 2022-12-16T17:47:36,601 copying MDAnalysis/converters/ParmEdParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/converters 2022-12-16T17:47:36,604 copying MDAnalysis/converters/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/converters 2022-12-16T17:47:36,606 copying MDAnalysis/converters/RDKitParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/converters 2022-12-16T17:47:36,609 copying MDAnalysis/converters/OpenMMParser.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/converters 2022-12-16T17:47:36,612 copying MDAnalysis/converters/RDKit.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/converters 2022-12-16T17:47:36,616 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/selections 2022-12-16T17:47:36,618 copying MDAnalysis/selections/pymol.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/selections 2022-12-16T17:47:36,620 copying MDAnalysis/selections/vmd.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/selections 2022-12-16T17:47:36,622 copying MDAnalysis/selections/base.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/selections 2022-12-16T17:47:36,625 copying MDAnalysis/selections/jmol.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/selections 2022-12-16T17:47:36,627 copying MDAnalysis/selections/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/selections 2022-12-16T17:47:36,630 copying MDAnalysis/selections/gromacs.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/selections 2022-12-16T17:47:36,632 copying MDAnalysis/selections/charmm.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/selections 2022-12-16T17:47:36,635 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/visualization 2022-12-16T17:47:36,636 copying MDAnalysis/visualization/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/visualization 2022-12-16T17:47:36,638 copying MDAnalysis/visualization/streamlines.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/visualization 2022-12-16T17:47:36,641 copying MDAnalysis/visualization/streamlines_3D.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/visualization 2022-12-16T17:47:36,645 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/data 2022-12-16T17:47:36,646 copying MDAnalysis/analysis/data/filenames.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/data 2022-12-16T17:47:36,649 copying MDAnalysis/analysis/data/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/data 2022-12-16T17:47:36,652 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hbonds 2022-12-16T17:47:36,653 copying MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hbonds 2022-12-16T17:47:36,655 copying MDAnalysis/analysis/hbonds/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hbonds 2022-12-16T17:47:36,658 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:47:36,659 copying MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:47:36,663 copying MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:47:36,666 copying MDAnalysis/analysis/hydrogenbonds/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:47:36,668 copying MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:47:36,674 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hole2 2022-12-16T17:47:36,675 copying MDAnalysis/analysis/hole2/templates.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hole2 2022-12-16T17:47:36,678 copying MDAnalysis/analysis/hole2/hole.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hole2 2022-12-16T17:47:36,682 copying MDAnalysis/analysis/hole2/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hole2 2022-12-16T17:47:36,685 copying MDAnalysis/analysis/hole2/utils.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hole2 2022-12-16T17:47:36,689 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:47:36,690 copying MDAnalysis/analysis/encore/confdistmatrix.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:47:36,693 copying MDAnalysis/analysis/encore/bootstrap.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:47:36,696 copying MDAnalysis/analysis/encore/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:47:36,698 copying MDAnalysis/analysis/encore/utils.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:47:36,701 copying MDAnalysis/analysis/encore/covariance.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:47:36,703 copying MDAnalysis/analysis/encore/similarity.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:47:36,708 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/legacy 2022-12-16T17:47:36,709 copying MDAnalysis/analysis/legacy/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/legacy 2022-12-16T17:47:36,712 copying MDAnalysis/analysis/legacy/x3dna.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/legacy 2022-12-16T17:47:36,715 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:47:36,716 copying MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:47:36,719 copying MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:47:36,722 copying MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:47:36,725 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering 2022-12-16T17:47:36,726 copying MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering 2022-12-16T17:47:36,729 copying MDAnalysis/analysis/encore/clustering/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering 2022-12-16T17:47:36,731 copying MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering 2022-12-16T17:47:36,734 copying MDAnalysis/analysis/encore/clustering/cluster.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering 2022-12-16T17:47:36,737 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tpr 2022-12-16T17:47:36,738 copying MDAnalysis/topology/tpr/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tpr 2022-12-16T17:47:36,740 copying MDAnalysis/topology/tpr/utils.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tpr 2022-12-16T17:47:36,743 copying MDAnalysis/topology/tpr/obj.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tpr 2022-12-16T17:47:36,746 copying MDAnalysis/topology/tpr/setting.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tpr 2022-12-16T17:47:36,749 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:36,750 copying MDAnalysis/lib/formats/__init__.py -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:36,752 running egg_info 2022-12-16T17:47:36,765 writing MDAnalysis.egg-info/PKG-INFO 2022-12-16T17:47:36,769 writing dependency_links to MDAnalysis.egg-info/dependency_links.txt 2022-12-16T17:47:36,772 writing requirements to MDAnalysis.egg-info/requires.txt 2022-12-16T17:47:36,773 writing top-level names to MDAnalysis.egg-info/top_level.txt 2022-12-16T17:47:36,802 reading manifest file 'MDAnalysis.egg-info/SOURCES.txt' 2022-12-16T17:47:36,815 reading manifest template 'MANIFEST.in' 2022-12-16T17:47:37,014 warning: no previously-included files matching 'doc/html/html' found anywhere in distribution 2022-12-16T17:47:37,016 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2022-12-16T17:47:37,018 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2022-12-16T17:47:37,021 warning: no previously-included files matching '*.pyd' found anywhere in distribution 2022-12-16T17:47:37,023 warning: no previously-included files matching '*~' found anywhere in distribution 2022-12-16T17:47:37,025 warning: no previously-included files matching '.git' found anywhere in distribution 2022-12-16T17:47:37,025 adding license file 'LICENSE' 2022-12-16T17:47:37,025 adding license file 'AUTHORS' 2022-12-16T17:47:37,050 writing manifest file 'MDAnalysis.egg-info/SOURCES.txt' 2022-12-16T17:47:37,054 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'MDAnalysis.analysis.encore.clustering.include' as data is deprecated, please list it in `packages`. 2022-12-16T17:47:37,054 !! 2022-12-16T17:47:37,054 ############################ 2022-12-16T17:47:37,055 # Package would be ignored # 2022-12-16T17:47:37,055 ############################ 2022-12-16T17:47:37,055 Python recognizes 'MDAnalysis.analysis.encore.clustering.include' as an importable package, 2022-12-16T17:47:37,055 but it is not listed in the `packages` configuration of setuptools. 2022-12-16T17:47:37,055 'MDAnalysis.analysis.encore.clustering.include' has been automatically added to the distribution only 2022-12-16T17:47:37,055 because it may contain data files, but this behavior is likely to change 2022-12-16T17:47:37,055 in future versions of setuptools (and therefore is considered deprecated). 2022-12-16T17:47:37,056 Please make sure that 'MDAnalysis.analysis.encore.clustering.include' is included as a package by using 2022-12-16T17:47:37,056 the `packages` configuration field or the proper discovery methods 2022-12-16T17:47:37,056 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-12-16T17:47:37,056 instead of `find_packages(...)`/`find:`). 2022-12-16T17:47:37,056 You can read more about "package discovery" and "data files" on setuptools 2022-12-16T17:47:37,056 documentation page. 2022-12-16T17:47:37,057 !! 2022-12-16T17:47:37,057 check.warn(importable) 2022-12-16T17:47:37,057 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'MDAnalysis.analysis.encore.clustering.src' as data is deprecated, please list it in `packages`. 2022-12-16T17:47:37,057 !! 2022-12-16T17:47:37,057 ############################ 2022-12-16T17:47:37,058 # Package would be ignored # 2022-12-16T17:47:37,058 ############################ 2022-12-16T17:47:37,058 Python recognizes 'MDAnalysis.analysis.encore.clustering.src' as an importable package, 2022-12-16T17:47:37,058 but it is not listed in the `packages` configuration of setuptools. 2022-12-16T17:47:37,058 'MDAnalysis.analysis.encore.clustering.src' has been automatically added to the distribution only 2022-12-16T17:47:37,058 because it may contain data files, but this behavior is likely to change 2022-12-16T17:47:37,058 in future versions of setuptools (and therefore is considered deprecated). 2022-12-16T17:47:37,059 Please make sure that 'MDAnalysis.analysis.encore.clustering.src' is included as a package by using 2022-12-16T17:47:37,059 the `packages` configuration field or the proper discovery methods 2022-12-16T17:47:37,059 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-12-16T17:47:37,059 instead of `find_packages(...)`/`find:`). 2022-12-16T17:47:37,059 You can read more about "package discovery" and "data files" on setuptools 2022-12-16T17:47:37,059 documentation page. 2022-12-16T17:47:37,060 !! 2022-12-16T17:47:37,060 check.warn(importable) 2022-12-16T17:47:37,060 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'MDAnalysis.analysis.encore.dimensionality_reduction.include' as data is deprecated, please list it in `packages`. 2022-12-16T17:47:37,060 !! 2022-12-16T17:47:37,061 ############################ 2022-12-16T17:47:37,061 # Package would be ignored # 2022-12-16T17:47:37,061 ############################ 2022-12-16T17:47:37,061 Python recognizes 'MDAnalysis.analysis.encore.dimensionality_reduction.include' as an importable package, 2022-12-16T17:47:37,061 but it is not listed in the `packages` configuration of setuptools. 2022-12-16T17:47:37,061 'MDAnalysis.analysis.encore.dimensionality_reduction.include' has been automatically added to the distribution only 2022-12-16T17:47:37,061 because it may contain data files, but this behavior is likely to change 2022-12-16T17:47:37,061 in future versions of setuptools (and therefore is considered deprecated). 2022-12-16T17:47:37,062 Please make sure that 'MDAnalysis.analysis.encore.dimensionality_reduction.include' is included as a package by using 2022-12-16T17:47:37,062 the `packages` configuration field or the proper discovery methods 2022-12-16T17:47:37,062 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-12-16T17:47:37,062 instead of `find_packages(...)`/`find:`). 2022-12-16T17:47:37,062 You can read more about "package discovery" and "data files" on setuptools 2022-12-16T17:47:37,062 documentation page. 2022-12-16T17:47:37,063 !! 2022-12-16T17:47:37,063 check.warn(importable) 2022-12-16T17:47:37,063 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'MDAnalysis.analysis.encore.dimensionality_reduction.src' as data is deprecated, please list it in `packages`. 2022-12-16T17:47:37,063 !! 2022-12-16T17:47:37,063 ############################ 2022-12-16T17:47:37,063 # Package would be ignored # 2022-12-16T17:47:37,064 ############################ 2022-12-16T17:47:37,064 Python recognizes 'MDAnalysis.analysis.encore.dimensionality_reduction.src' as an importable package, 2022-12-16T17:47:37,064 but it is not listed in the `packages` configuration of setuptools. 2022-12-16T17:47:37,064 'MDAnalysis.analysis.encore.dimensionality_reduction.src' has been automatically added to the distribution only 2022-12-16T17:47:37,064 because it may contain data files, but this behavior is likely to change 2022-12-16T17:47:37,064 in future versions of setuptools (and therefore is considered deprecated). 2022-12-16T17:47:37,064 Please make sure that 'MDAnalysis.analysis.encore.dimensionality_reduction.src' is included as a package by using 2022-12-16T17:47:37,065 the `packages` configuration field or the proper discovery methods 2022-12-16T17:47:37,065 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-12-16T17:47:37,065 instead of `find_packages(...)`/`find:`). 2022-12-16T17:47:37,065 You can read more about "package discovery" and "data files" on setuptools 2022-12-16T17:47:37,065 documentation page. 2022-12-16T17:47:37,065 !! 2022-12-16T17:47:37,066 check.warn(importable) 2022-12-16T17:47:37,066 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'MDAnalysis.lib.formats.include' as data is deprecated, please list it in `packages`. 2022-12-16T17:47:37,066 !! 2022-12-16T17:47:37,066 ############################ 2022-12-16T17:47:37,066 # Package would be ignored # 2022-12-16T17:47:37,066 ############################ 2022-12-16T17:47:37,067 Python recognizes 'MDAnalysis.lib.formats.include' as an importable package, 2022-12-16T17:47:37,067 but it is not listed in the `packages` configuration of setuptools. 2022-12-16T17:47:37,067 'MDAnalysis.lib.formats.include' has been automatically added to the distribution only 2022-12-16T17:47:37,067 because it may contain data files, but this behavior is likely to change 2022-12-16T17:47:37,067 in future versions of setuptools (and therefore is considered deprecated). 2022-12-16T17:47:37,067 Please make sure that 'MDAnalysis.lib.formats.include' is included as a package by using 2022-12-16T17:47:37,067 the `packages` configuration field or the proper discovery methods 2022-12-16T17:47:37,068 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-12-16T17:47:37,068 instead of `find_packages(...)`/`find:`). 2022-12-16T17:47:37,068 You can read more about "package discovery" and "data files" on setuptools 2022-12-16T17:47:37,068 documentation page. 2022-12-16T17:47:37,068 !! 2022-12-16T17:47:37,069 check.warn(importable) 2022-12-16T17:47:37,069 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'MDAnalysis.lib.formats.src' as data is deprecated, please list it in `packages`. 2022-12-16T17:47:37,069 !! 2022-12-16T17:47:37,069 ############################ 2022-12-16T17:47:37,069 # Package would be ignored # 2022-12-16T17:47:37,069 ############################ 2022-12-16T17:47:37,069 Python recognizes 'MDAnalysis.lib.formats.src' as an importable package, 2022-12-16T17:47:37,070 but it is not listed in the `packages` configuration of setuptools. 2022-12-16T17:47:37,070 'MDAnalysis.lib.formats.src' has been automatically added to the distribution only 2022-12-16T17:47:37,070 because it may contain data files, but this behavior is likely to change 2022-12-16T17:47:37,070 in future versions of setuptools (and therefore is considered deprecated). 2022-12-16T17:47:37,070 Please make sure that 'MDAnalysis.lib.formats.src' is included as a package by using 2022-12-16T17:47:37,070 the `packages` configuration field or the proper discovery methods 2022-12-16T17:47:37,070 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-12-16T17:47:37,071 instead of `find_packages(...)`/`find:`). 2022-12-16T17:47:37,071 You can read more about "package discovery" and "data files" on setuptools 2022-12-16T17:47:37,071 documentation page. 2022-12-16T17:47:37,071 !! 2022-12-16T17:47:37,071 check.warn(importable) 2022-12-16T17:47:37,072 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'MDAnalysis.lib.include' as data is deprecated, please list it in `packages`. 2022-12-16T17:47:37,072 !! 2022-12-16T17:47:37,072 ############################ 2022-12-16T17:47:37,072 # Package would be ignored # 2022-12-16T17:47:37,072 ############################ 2022-12-16T17:47:37,072 Python recognizes 'MDAnalysis.lib.include' as an importable package, 2022-12-16T17:47:37,072 but it is not listed in the `packages` configuration of setuptools. 2022-12-16T17:47:37,073 'MDAnalysis.lib.include' has been automatically added to the distribution only 2022-12-16T17:47:37,073 because it may contain data files, but this behavior is likely to change 2022-12-16T17:47:37,073 in future versions of setuptools (and therefore is considered deprecated). 2022-12-16T17:47:37,073 Please make sure that 'MDAnalysis.lib.include' is included as a package by using 2022-12-16T17:47:37,073 the `packages` configuration field or the proper discovery methods 2022-12-16T17:47:37,073 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-12-16T17:47:37,074 instead of `find_packages(...)`/`find:`). 2022-12-16T17:47:37,074 You can read more about "package discovery" and "data files" on setuptools 2022-12-16T17:47:37,074 documentation page. 2022-12-16T17:47:37,074 !! 2022-12-16T17:47:37,074 check.warn(importable) 2022-12-16T17:47:37,075 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'MDAnalysis.lib.libmdanalysis' as data is deprecated, please list it in `packages`. 2022-12-16T17:47:37,075 !! 2022-12-16T17:47:37,075 ############################ 2022-12-16T17:47:37,075 # Package would be ignored # 2022-12-16T17:47:37,075 ############################ 2022-12-16T17:47:37,075 Python recognizes 'MDAnalysis.lib.libmdanalysis' as an importable package, 2022-12-16T17:47:37,075 but it is not listed in the `packages` configuration of setuptools. 2022-12-16T17:47:37,076 'MDAnalysis.lib.libmdanalysis' has been automatically added to the distribution only 2022-12-16T17:47:37,076 because it may contain data files, but this behavior is likely to change 2022-12-16T17:47:37,076 in future versions of setuptools (and therefore is considered deprecated). 2022-12-16T17:47:37,076 Please make sure that 'MDAnalysis.lib.libmdanalysis' is included as a package by using 2022-12-16T17:47:37,076 the `packages` configuration field or the proper discovery methods 2022-12-16T17:47:37,076 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-12-16T17:47:37,076 instead of `find_packages(...)`/`find:`). 2022-12-16T17:47:37,077 You can read more about "package discovery" and "data files" on setuptools 2022-12-16T17:47:37,077 documentation page. 2022-12-16T17:47:37,077 !! 2022-12-16T17:47:37,077 check.warn(importable) 2022-12-16T17:47:37,077 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'MDAnalysis.lib.src.transformations' as data is deprecated, please list it in `packages`. 2022-12-16T17:47:37,077 !! 2022-12-16T17:47:37,078 ############################ 2022-12-16T17:47:37,078 # Package would be ignored # 2022-12-16T17:47:37,078 ############################ 2022-12-16T17:47:37,078 Python recognizes 'MDAnalysis.lib.src.transformations' as an importable package, 2022-12-16T17:47:37,078 but it is not listed in the `packages` configuration of setuptools. 2022-12-16T17:47:37,078 'MDAnalysis.lib.src.transformations' has been automatically added to the distribution only 2022-12-16T17:47:37,079 because it may contain data files, but this behavior is likely to change 2022-12-16T17:47:37,079 in future versions of setuptools (and therefore is considered deprecated). 2022-12-16T17:47:37,079 Please make sure that 'MDAnalysis.lib.src.transformations' is included as a package by using 2022-12-16T17:47:37,079 the `packages` configuration field or the proper discovery methods 2022-12-16T17:47:37,080 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2022-12-16T17:47:37,080 instead of `find_packages(...)`/`find:`). 2022-12-16T17:47:37,080 You can read more about "package discovery" and "data files" on setuptools 2022-12-16T17:47:37,080 documentation page. 2022-12-16T17:47:37,082 !! 2022-12-16T17:47:37,082 check.warn(importable) 2022-12-16T17:47:37,082 copying MDAnalysis/analysis/data/rama_ref_data.npy -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/data 2022-12-16T17:47:37,083 copying MDAnalysis/analysis/data/janin_ref_data.npy -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/data 2022-12-16T17:47:37,087 copying MDAnalysis/coordinates/timestep.cpp -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:37,107 copying MDAnalysis/coordinates/timestep.pxd -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:37,109 copying MDAnalysis/coordinates/timestep.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:47:37,112 copying MDAnalysis/lib/_augment.cpp -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,136 copying MDAnalysis/lib/_augment.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,139 copying MDAnalysis/lib/_cutil.cpp -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,164 copying MDAnalysis/lib/_cutil.pxd -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,166 copying MDAnalysis/lib/_cutil.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,169 copying MDAnalysis/lib/c_distances.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,213 copying MDAnalysis/lib/c_distances.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,216 copying MDAnalysis/lib/c_distances_openmp.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,228 copying MDAnalysis/lib/c_distances_openmp.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,231 copying MDAnalysis/lib/nsgrid.cpp -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,259 copying MDAnalysis/lib/nsgrid.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,262 copying MDAnalysis/lib/qcprot.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,275 copying MDAnalysis/lib/qcprot.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,278 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/include 2022-12-16T17:47:37,279 copying MDAnalysis/lib/include/calc_distances.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/include 2022-12-16T17:47:37,283 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/libmdanalysis 2022-12-16T17:47:37,284 copying MDAnalysis/lib/libmdanalysis/__init__.pxd -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/libmdanalysis 2022-12-16T17:47:37,286 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/src 2022-12-16T17:47:37,286 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations 2022-12-16T17:47:37,287 copying MDAnalysis/lib/src/transformations/AUTHOR -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations 2022-12-16T17:47:37,290 copying MDAnalysis/lib/src/transformations/LICENCE -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations 2022-12-16T17:47:37,292 copying MDAnalysis/lib/src/transformations/transformations.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations 2022-12-16T17:47:37,298 copying MDAnalysis/analysis/encore/cutils.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:47:37,308 copying MDAnalysis/analysis/encore/cutils.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:47:37,310 copying MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:47:37,321 copying MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:47:37,323 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/include 2022-12-16T17:47:37,324 copying MDAnalysis/analysis/encore/dimensionality_reduction/include/spe.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/include 2022-12-16T17:47:37,327 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/src 2022-12-16T17:47:37,328 copying MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/src 2022-12-16T17:47:37,330 copying MDAnalysis/analysis/encore/clustering/affinityprop.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering 2022-12-16T17:47:37,344 copying MDAnalysis/analysis/encore/clustering/affinityprop.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering 2022-12-16T17:47:37,347 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/include 2022-12-16T17:47:37,348 copying MDAnalysis/analysis/encore/clustering/include/ap.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/include 2022-12-16T17:47:37,350 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/src 2022-12-16T17:47:37,351 copying MDAnalysis/analysis/encore/clustering/src/ap.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/src 2022-12-16T17:47:37,354 copying MDAnalysis/lib/formats/cython_util.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,379 copying MDAnalysis/lib/formats/cython_util.pxd -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,381 copying MDAnalysis/lib/formats/cython_util.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,383 copying MDAnalysis/lib/formats/libdcd.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,419 copying MDAnalysis/lib/formats/libdcd.pxd -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,422 copying MDAnalysis/lib/formats/libdcd.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,425 copying MDAnalysis/lib/formats/libmdaxdr.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,456 copying MDAnalysis/lib/formats/libmdaxdr.pxd -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,458 copying MDAnalysis/lib/formats/libmdaxdr.pyx -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,462 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include 2022-12-16T17:47:37,463 copying MDAnalysis/lib/formats/include/endianswap.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include 2022-12-16T17:47:37,466 copying MDAnalysis/lib/formats/include/fastio.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include 2022-12-16T17:47:37,469 copying MDAnalysis/lib/formats/include/readdcd.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include 2022-12-16T17:47:37,472 copying MDAnalysis/lib/formats/include/trr_seek.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include 2022-12-16T17:47:37,475 copying MDAnalysis/lib/formats/include/xdrfile.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include 2022-12-16T17:47:37,478 copying MDAnalysis/lib/formats/include/xdrfile_trr.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include 2022-12-16T17:47:37,480 copying MDAnalysis/lib/formats/include/xdrfile_xtc.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include 2022-12-16T17:47:37,483 copying MDAnalysis/lib/formats/include/xtc_seek.h -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include 2022-12-16T17:47:37,485 creating build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src 2022-12-16T17:47:37,486 copying MDAnalysis/lib/formats/src/trr_seek.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src 2022-12-16T17:47:37,489 copying MDAnalysis/lib/formats/src/xdrfile.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src 2022-12-16T17:47:37,493 copying MDAnalysis/lib/formats/src/xdrfile_trr.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src 2022-12-16T17:47:37,497 copying MDAnalysis/lib/formats/src/xdrfile_xtc.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src 2022-12-16T17:47:37,499 copying MDAnalysis/lib/formats/src/xtc_seek.c -> build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src 2022-12-16T17:47:37,518 running build_ext 2022-12-16T17:47:37,519 building 'MDAnalysis.lib.formats.libdcd' extension 2022-12-16T17:47:37,521 creating build/temp.linux-armv7l-cpython-39 2022-12-16T17:47:37,521 creating build/temp.linux-armv7l-cpython-39/MDAnalysis 2022-12-16T17:47:37,522 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/lib 2022-12-16T17:47:37,523 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats 2022-12-16T17:47:37,524 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include -I/usr/include/python3.9 -c MDAnalysis/lib/formats/libdcd.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libdcd.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:47:37,558 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:47:37,903 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:47:37,904 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:47:37,904 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:47:37,904 from MDAnalysis/lib/formats/libdcd.c:781: 2022-12-16T17:47:37,904 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:47:37,905 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:47:37,905 | ^~~~~~~ 2022-12-16T17:47:37,971 In file included from MDAnalysis/lib/formats/libdcd.c:791: 2022-12-16T17:47:37,971 MDAnalysis/lib/formats/include/readdcd.h: In function ‘read_dcdstep’: 2022-12-16T17:47:37,971 MDAnalysis/lib/formats/include/readdcd.h:562:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-12-16T17:47:37,971 562 | if (tmpbuf[i] != sizeof(float)*N) return DCD_BADFORMAT; 2022-12-16T17:47:37,972 | ^~ 2022-12-16T17:47:37,974 MDAnalysis/lib/formats/include/readdcd.h: In function ‘write_dcdheader’: 2022-12-16T17:47:37,974 MDAnalysis/lib/formats/include/readdcd.h:698:14: warning: unused variable ‘tmbuf’ [-Wunused-variable] 2022-12-16T17:47:37,974 698 | struct tm *tmbuf; 2022-12-16T17:47:37,974 | ^~~~~ 2022-12-16T17:47:37,975 MDAnalysis/lib/formats/include/readdcd.h:697:10: warning: unused variable ‘cur_time’ [-Wunused-variable] 2022-12-16T17:47:37,975 697 | time_t cur_time; 2022-12-16T17:47:37,975 | ^~~~~~~~ 2022-12-16T17:47:39,685 In file included from MDAnalysis/lib/formats/include/readdcd.h:25, 2022-12-16T17:47:39,685 from MDAnalysis/lib/formats/libdcd.c:791: 2022-12-16T17:47:39,685 At top level: 2022-12-16T17:47:39,686 MDAnalysis/lib/formats/include/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function] 2022-12-16T17:47:39,686 96 | static void swap2_aligned(void *v, long ndata) { 2022-12-16T17:47:39,686 | ^~~~~~~~~~~~~ 2022-12-16T17:47:39,686 MDAnalysis/lib/formats/include/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function] 2022-12-16T17:47:39,686 32 | static void swap2_unaligned(void *v, long ndata) { 2022-12-16T17:47:39,686 | ^~~~~~~~~~~~~~~ 2022-12-16T17:47:39,686 In file included from MDAnalysis/lib/formats/libdcd.c:790: 2022-12-16T17:47:39,687 MDAnalysis/lib/formats/include/fastio.h:453:12: warning: ‘fio_write_str’ defined but not used [-Wunused-function] 2022-12-16T17:47:39,687 453 | static int fio_write_str(fio_fd fd, const char *str) { 2022-12-16T17:47:39,687 | ^~~~~~~~~~~~~ 2022-12-16T17:47:39,687 MDAnalysis/lib/formats/include/fastio.h:449:12: warning: ‘fio_read_int32’ defined but not used [-Wunused-function] 2022-12-16T17:47:39,687 449 | static int fio_read_int32(fio_fd fd, int *i) { 2022-12-16T17:47:39,687 | ^~~~~~~~~~~~~~ 2022-12-16T17:48:10,418 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libdcd.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libdcd.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:48:10,641 building 'MDAnalysis.lib.c_distances' extension 2022-12-16T17:48:10,642 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include -I/usr/include/python3.9 -c MDAnalysis/lib/c_distances.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:48:10,679 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:48:10,997 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:48:10,998 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:48:10,998 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:48:10,998 from MDAnalysis/lib/c_distances.c:781: 2022-12-16T17:48:10,998 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:48:10,998 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:48:10,999 | ^~~~~~~ 2022-12-16T17:48:41,233 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances.o -L/usr/lib -lm -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:48:41,456 building 'MDAnalysis.lib.c_distances_openmp' extension 2022-12-16T17:48:41,457 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DPARALLEL -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include -I/usr/include/python3.9 -c MDAnalysis/lib/c_distances_openmp.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances_openmp.o -fopenmp -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:48:41,487 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:48:41,799 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:48:41,799 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:48:41,799 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:48:41,799 from MDAnalysis/lib/c_distances_openmp.c:792: 2022-12-16T17:48:41,799 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:48:41,799 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:48:41,799 | ^~~~~~~ 2022-12-16T17:48:47,532 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances_openmp.o -L/usr/lib -lm -lgomp -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances_openmp.cpython-39-arm-linux-gnueabihf.so -fopenmp 2022-12-16T17:48:47,730 building 'MDAnalysis.lib.qcprot' extension 2022-12-16T17:48:47,732 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/qcprot.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/qcprot.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:48:47,772 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:48:48,086 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:48:48,087 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:48:48,087 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:48:48,087 from MDAnalysis/lib/qcprot.c:775: 2022-12-16T17:48:48,087 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:48:48,087 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:48:48,088 | ^~~~~~~ 2022-12-16T17:48:48,146 MDAnalysis/lib/qcprot.c: In function ‘__pyx_pf_10MDAnalysis_3lib_6qcprot_InnerProduct’: 2022-12-16T17:48:48,147 MDAnalysis/lib/qcprot.c:2383:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-12-16T17:48:48,147 2383 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2022-12-16T17:48:48,147 | ^ 2022-12-16T17:48:48,150 MDAnalysis/lib/qcprot.c:2591:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-12-16T17:48:48,151 2591 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2022-12-16T17:48:48,151 | ^ 2022-12-16T17:48:54,017 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/qcprot.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/qcprot.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:48:54,148 building 'MDAnalysis.lib._transformations' extension 2022-12-16T17:48:54,149 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/src 2022-12-16T17:48:54,150 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations 2022-12-16T17:48:54,151 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/src/transformations/transformations.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations/transformations.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:48:54,179 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:48:54,489 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:48:54,490 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:48:54,490 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:48:54,490 from MDAnalysis/lib/src/transformations/transformations.c:73: 2022-12-16T17:48:54,490 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:48:54,491 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:48:54,491 | ^~~~~~~ 2022-12-16T17:48:54,554 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_superimposition_matrix’: 2022-12-16T17:48:54,555 MDAnalysis/lib/src/transformations/transformations.c:1845: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-12-16T17:48:54,555 1845 | #pragma vector always 2022-12-16T17:48:54,555 | 2022-12-16T17:48:54,557 MDAnalysis/lib/src/transformations/transformations.c:1962: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-12-16T17:48:54,557 1962 | #pragma vector always 2022-12-16T17:48:54,558 | 2022-12-16T17:48:54,558 MDAnalysis/lib/src/transformations/transformations.c:1986: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-12-16T17:48:54,558 1986 | #pragma vector always 2022-12-16T17:48:54,558 | 2022-12-16T17:48:54,561 MDAnalysis/lib/src/transformations/transformations.c: In function ‘axis2tuple’: 2022-12-16T17:48:54,562 MDAnalysis/lib/src/transformations/transformations.c:2122:5: warning: ‘PyUnicode_GetSize’ is deprecated [-Wdeprecated-declarations] 2022-12-16T17:48:54,563 2122 | if (PyUnicode_Check(axes) && (PyUnicode_GetSize(axes) == 4)) { 2022-12-16T17:48:54,563 | ^~ 2022-12-16T17:48:54,563 In file included from /usr/include/python3.9/Python.h:97, 2022-12-16T17:48:54,563 from MDAnalysis/lib/src/transformations/transformations.c:68: 2022-12-16T17:48:54,563 /usr/include/python3.9/unicodeobject.h:177:43: note: declared here 2022-12-16T17:48:54,563 177 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_ssize_t) PyUnicode_GetSize( 2022-12-16T17:48:54,564 | ^~~~~~~~~~~~~~~~~ 2022-12-16T17:48:54,599 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_vector_norm’: 2022-12-16T17:48:54,599 MDAnalysis/lib/src/transformations/transformations.c:3427: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-12-16T17:48:54,600 3427 | #pragma vector always 2022-12-16T17:48:54,600 | 2022-12-16T17:48:54,602 MDAnalysis/lib/src/transformations/transformations.c:3508: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-12-16T17:48:54,602 3508 | #pragma vector always 2022-12-16T17:48:54,602 | 2022-12-16T17:48:54,607 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_unit_vector’: 2022-12-16T17:48:54,608 MDAnalysis/lib/src/transformations/transformations.c:3610: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-12-16T17:48:54,608 3610 | #pragma vector always 2022-12-16T17:48:54,608 | 2022-12-16T17:48:54,608 MDAnalysis/lib/src/transformations/transformations.c:3615: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-12-16T17:48:54,608 3615 | #pragma vector always 2022-12-16T17:48:54,608 | 2022-12-16T17:48:54,612 MDAnalysis/lib/src/transformations/transformations.c:3679: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-12-16T17:48:54,612 3679 | #pragma vector always 2022-12-16T17:48:54,612 | 2022-12-16T17:48:54,612 MDAnalysis/lib/src/transformations/transformations.c:3684: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-12-16T17:48:54,613 3684 | #pragma vector always 2022-12-16T17:48:54,613 | 2022-12-16T17:48:54,682 At top level: 2022-12-16T17:48:54,683 MDAnalysis/lib/src/transformations/transformations.c:910:1: warning: ‘PyConverter_DoubleVector4Copy’ defined but not used [-Wunused-function] 2022-12-16T17:48:54,683 910 | PyConverter_DoubleVector4Copy( 2022-12-16T17:48:54,683 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:48:54,683 MDAnalysis/lib/src/transformations/transformations.c:804:1: warning: ‘PyConverter_DoubleArrayOrNone’ defined but not used [-Wunused-function] 2022-12-16T17:48:54,683 804 | PyConverter_DoubleArrayOrNone( 2022-12-16T17:48:54,683 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:48:54,684 MDAnalysis/lib/src/transformations/transformations.c:774:1: warning: ‘PyConverter_DoubleArray’ defined but not used [-Wunused-function] 2022-12-16T17:48:54,684 774 | PyConverter_DoubleArray( 2022-12-16T17:48:54,684 | ^~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:49:00,462 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations/transformations.o -L/usr/lib -lm -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_transformations.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:49:00,622 building 'MDAnalysis.lib.formats.libmdaxdr' extension 2022-12-16T17:49:00,624 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src 2022-12-16T17:49:00,626 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/libmdaxdr.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libmdaxdr.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:49:00,665 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:49:00,987 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:49:00,987 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:49:00,987 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:49:00,987 from MDAnalysis/lib/formats/libmdaxdr.c:802: 2022-12-16T17:49:00,988 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:49:00,988 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:49:00,988 | ^~~~~~~ 2022-12-16T17:49:01,027 In file included from MDAnalysis/lib/formats/libmdaxdr.c:811: 2022-12-16T17:49:01,027 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:01,027 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:01,027 | 2022-12-16T17:49:01,029 In file included from MDAnalysis/lib/formats/libmdaxdr.c:812: 2022-12-16T17:49:01,029 MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:01,029 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:01,030 | 2022-12-16T17:49:01,030 In file included from MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2022-12-16T17:49:01,030 from MDAnalysis/lib/formats/libmdaxdr.c:812: 2022-12-16T17:49:01,031 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:01,031 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:01,031 | 2022-12-16T17:49:01,032 In file included from MDAnalysis/lib/formats/libmdaxdr.c:813: 2022-12-16T17:49:01,032 MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:01,032 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:01,033 | 2022-12-16T17:49:33,049 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/trr_seek.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/trr_seek.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:49:33,080 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:49:33,135 In file included from MDAnalysis/lib/formats/src/trr_seek.c:30: 2022-12-16T17:49:33,135 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:33,135 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:33,135 | 2022-12-16T17:49:33,141 In file included from MDAnalysis/lib/formats/src/trr_seek.c:31: 2022-12-16T17:49:33,141 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:33,141 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:33,141 | 2022-12-16T17:49:33,142 In file included from /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile_trr.h:42, 2022-12-16T17:49:33,142 from MDAnalysis/lib/formats/src/trr_seek.c:31: 2022-12-16T17:49:33,142 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:33,143 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:33,143 | 2022-12-16T17:49:33,146 MDAnalysis/lib/formats/src/trr_seek.c: In function ‘read_trr_n_frames’: 2022-12-16T17:49:33,146 MDAnalysis/lib/formats/src/trr_seek.c:39:27: warning: unused variable ‘totalframebytes’ [-Wunused-variable] 2022-12-16T17:49:33,147 39 | int result, framebytes, totalframebytes; 2022-12-16T17:49:33,147 | ^~~~~~~~~~~~~~~ 2022-12-16T17:49:33,147 MDAnalysis/lib/formats/src/trr_seek.c:38:15: warning: unused variable ‘lambda’ [-Wunused-variable] 2022-12-16T17:49:33,147 38 | float time, lambda; 2022-12-16T17:49:33,147 | ^~~~~~ 2022-12-16T17:49:33,147 MDAnalysis/lib/formats/src/trr_seek.c:38:9: warning: unused variable ‘time’ [-Wunused-variable] 2022-12-16T17:49:33,147 38 | float time, lambda; 2022-12-16T17:49:33,148 | ^~~~ 2022-12-16T17:49:33,262 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/xdrfile.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xdrfile.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:49:33,288 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:49:33,388 In file included from MDAnalysis/lib/formats/src/xdrfile.c:62: 2022-12-16T17:49:33,388 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:33,388 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:33,389 | 2022-12-16T17:49:33,398 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘sizeofint’: 2022-12-16T17:49:33,399 MDAnalysis/lib/formats/src/xdrfile.c:501:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-12-16T17:49:33,399 501 | while (size >= num && num_of_bits < 32) 2022-12-16T17:49:33,399 | ^~ 2022-12-16T17:49:33,399 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘sizeofints’: 2022-12-16T17:49:33,400 MDAnalysis/lib/formats/src/xdrfile.c:547:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-12-16T17:49:33,400 547 | while (bytes[num_of_bytes] >= num) 2022-12-16T17:49:33,400 | ^~ 2022-12-16T17:49:33,401 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘encodeints’: 2022-12-16T17:49:33,402 MDAnalysis/lib/formats/src/xdrfile.c:656:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-12-16T17:49:33,402 656 | if (num_of_bits >= num_of_bytes * 8) 2022-12-16T17:49:33,402 | ^~ 2022-12-16T17:49:33,403 MDAnalysis/lib/formats/src/xdrfile.c:658:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-12-16T17:49:33,403 658 | for (i = 0; i < num_of_bytes; i++) 2022-12-16T17:49:33,403 | ^ 2022-12-16T17:49:33,403 MDAnalysis/lib/formats/src/xdrfile.c:666:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-12-16T17:49:33,403 666 | for (i = 0; i < num_of_bytes-1; i++) 2022-12-16T17:49:33,404 | ^ 2022-12-16T17:49:33,404 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘decodebits’: 2022-12-16T17:49:33,405 MDAnalysis/lib/formats/src/xdrfile.c:706:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-12-16T17:49:33,405 706 | if (lastbits < num_of_bits) 2022-12-16T17:49:33,405 | ^ 2022-12-16T17:49:33,407 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2022-12-16T17:49:33,407 MDAnalysis/lib/formats/src/xdrfile.c:816:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-12-16T17:49:33,408 816 | if(size3>xfp->buf1size) 2022-12-16T17:49:33,408 | ^ 2022-12-16T17:49:33,409 MDAnalysis/lib/formats/src/xdrfile.c:868:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-12-16T17:49:33,410 868 | maxidx = (LASTIDXxfp->buf1size) 2022-12-16T17:49:33,416 | ^ 2022-12-16T17:49:33,420 MDAnalysis/lib/formats/src/xdrfile.c:1135:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-12-16T17:49:33,421 1135 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2022-12-16T17:49:33,421 | ^ 2022-12-16T17:49:33,422 MDAnalysis/lib/formats/src/xdrfile.c:1141:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-12-16T17:49:33,422 1141 | maxidx = (LASTIDXxfp->buf1size) 2022-12-16T17:49:33,429 | ^ 2022-12-16T17:49:33,431 MDAnalysis/lib/formats/src/xdrfile.c:1368:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-12-16T17:49:33,432 1368 | maxidx = (LASTIDXxfp->buf1size) { 2022-12-16T17:49:33,439 | ^ 2022-12-16T17:49:33,446 MDAnalysis/lib/formats/src/xdrfile.c:1619:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-12-16T17:49:33,446 1619 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2022-12-16T17:49:33,446 | ^ 2022-12-16T17:49:33,447 MDAnalysis/lib/formats/src/xdrfile.c:1624:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-12-16T17:49:33,447 1624 | maxidx = (LASTIDX maxsize) 2022-12-16T17:49:35,111 | ^ 2022-12-16T17:49:35,112 MDAnalysis/lib/formats/src/xdrfile.c:2335:15: note: ‘size’ was declared here 2022-12-16T17:49:35,112 2335 | unsigned int size; 2022-12-16T17:49:35,112 | ^~~~ 2022-12-16T17:49:35,546 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_compress_coord_float’: 2022-12-16T17:49:35,547 MDAnalysis/lib/formats/src/xdrfile.c:1157:21: warning: ‘prevcoord[2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-12-16T17:49:35,547 1157 | abs(thiscoord[2] - prevcoord[2]) < larger) { 2022-12-16T17:49:35,547 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-12-16T17:49:35,548 MDAnalysis/lib/formats/src/xdrfile.c:1156:21: warning: ‘prevcoord[1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-12-16T17:49:35,548 1156 | abs(thiscoord[1] - prevcoord[1]) < larger && 2022-12-16T17:49:35,548 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-12-16T17:49:35,549 MDAnalysis/lib/formats/src/xdrfile.c:1155:21: warning: ‘prevcoord[0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-12-16T17:49:35,549 1155 | abs(thiscoord[0] - prevcoord[0]) < larger && 2022-12-16T17:49:35,549 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-12-16T17:49:36,304 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_compress_coord_double’: 2022-12-16T17:49:36,305 MDAnalysis/lib/formats/src/xdrfile.c:1639:21: warning: ‘prevcoord[2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-12-16T17:49:36,305 1639 | abs(thiscoord[2] - prevcoord[2]) < larger) { 2022-12-16T17:49:36,305 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-12-16T17:49:36,306 MDAnalysis/lib/formats/src/xdrfile.c:1638:21: warning: ‘prevcoord[1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-12-16T17:49:36,307 1638 | abs(thiscoord[1] - prevcoord[1]) < larger && 2022-12-16T17:49:36,307 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-12-16T17:49:36,308 MDAnalysis/lib/formats/src/xdrfile.c:1637:21: warning: ‘prevcoord[0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-12-16T17:49:36,308 1637 | abs(thiscoord[0] - prevcoord[0]) < larger && 2022-12-16T17:49:36,308 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-12-16T17:49:37,341 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/xdrfile_trr.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xdrfile_trr.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:49:37,370 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:49:37,423 In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:38: 2022-12-16T17:49:37,423 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:37,423 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:37,423 | 2022-12-16T17:49:37,428 In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:39: 2022-12-16T17:49:37,428 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:37,428 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:37,428 | 2022-12-16T17:49:37,428 In file included from /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile_trr.h:42, 2022-12-16T17:49:37,428 from MDAnalysis/lib/formats/src/xdrfile_trr.c:39: 2022-12-16T17:49:37,429 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:37,429 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:37,429 | 2022-12-16T17:49:37,430 MDAnalysis/lib/formats/src/xdrfile_trr.c: In function ‘do_trnheader’: 2022-12-16T17:49:37,430 MDAnalysis/lib/formats/src/xdrfile_trr.c:78:14: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2022-12-16T17:49:37,431 78 | if (slen != strlen(version) + 1) 2022-12-16T17:49:37,431 | ^~ 2022-12-16T17:49:37,431 MDAnalysis/lib/formats/src/xdrfile_trr.c:86:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2022-12-16T17:49:37,431 86 | if (xdrfile_write_string(version, xd) != (strlen(version) + 1)) 2022-12-16T17:49:37,431 | ^~ 2022-12-16T17:49:37,447 MDAnalysis/lib/formats/src/xdrfile_trr.c: In function ‘write_trr’: 2022-12-16T17:49:37,447 MDAnalysis/lib/formats/src/xdrfile_trr.c:408:10: warning: ‘plcholder’ is used uninitialized in this function [-Wuninitialized] 2022-12-16T17:49:37,447 408 | return do_trn(xd, 0, &step, &t, &lambda, box, &natoms, x, v, f, plcholder); 2022-12-16T17:49:37,447 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:49:38,584 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/xdrfile_xtc.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xdrfile_xtc.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:49:38,612 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:49:38,636 In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:30: 2022-12-16T17:49:38,636 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:38,637 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:38,637 | 2022-12-16T17:49:38,648 In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:31: 2022-12-16T17:49:38,649 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:38,649 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:38,649 | 2022-12-16T17:49:38,649 In file included from /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2022-12-16T17:49:38,649 from MDAnalysis/lib/formats/src/xdrfile_xtc.c:31: 2022-12-16T17:49:38,649 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:38,649 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:38,650 | 2022-12-16T17:49:38,775 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/xtc_seek.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xtc_seek.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:49:38,803 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:49:38,827 In file included from MDAnalysis/lib/formats/src/xtc_seek.c:25: 2022-12-16T17:49:38,827 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:38,827 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:38,827 | 2022-12-16T17:49:38,838 In file included from MDAnalysis/lib/formats/src/xtc_seek.c:26: 2022-12-16T17:49:38,839 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:38,839 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:38,839 | 2022-12-16T17:49:38,839 In file included from /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2022-12-16T17:49:38,839 from MDAnalysis/lib/formats/src/xtc_seek.c:26: 2022-12-16T17:49:38,839 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-12-16T17:49:38,840 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-12-16T17:49:38,840 | 2022-12-16T17:49:39,001 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libmdaxdr.o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/trr_seek.o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xdrfile.o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xdrfile_trr.o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xdrfile_xtc.o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xtc_seek.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libmdaxdr.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:49:39,283 building 'MDAnalysis.lib.formats.cython_util' extension 2022-12-16T17:49:39,284 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/formats/cython_util.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/cython_util.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-12-16T17:49:39,318 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:49:39,627 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:49:39,628 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:49:39,628 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:49:39,628 from MDAnalysis/lib/formats/cython_util.c:775: 2022-12-16T17:49:39,628 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:49:39,628 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:49:39,628 | ^~~~~~~ 2022-12-16T17:49:56,511 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/formats/cython_util.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/cython_util.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:49:56,680 building 'MDAnalysis.analysis.encore.cutils' extension 2022-12-16T17:49:56,681 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis 2022-12-16T17:49:56,681 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore 2022-12-16T17:49:56,682 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/analysis/encore/cutils.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/cutils.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-12-16T17:49:56,713 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:49:57,051 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:49:57,051 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:49:57,051 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:49:57,051 from MDAnalysis/analysis/encore/cutils.c:775: 2022-12-16T17:49:57,052 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:49:57,052 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:49:57,052 | ^~~~~~~ 2022-12-16T17:49:59,667 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/cutils.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/cutils.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:49:59,787 building 'MDAnalysis.analysis.encore.clustering.affinityprop' extension 2022-12-16T17:49:59,788 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering 2022-12-16T17:49:59,789 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/src 2022-12-16T17:49:59,790 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/analysis/encore/clustering/include -I/usr/include/python3.9 -c MDAnalysis/analysis/encore/clustering/affinityprop.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/affinityprop.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-12-16T17:49:59,820 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:50:00,166 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:50:00,166 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:50:00,166 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:50:00,166 from MDAnalysis/analysis/encore/clustering/affinityprop.c:781: 2022-12-16T17:50:00,166 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:50:00,166 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:50:00,166 | ^~~~~~~ 2022-12-16T17:50:10,689 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/analysis/encore/clustering/include -I/usr/include/python3.9 -c MDAnalysis/analysis/encore/clustering/src/ap.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/src/ap.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-12-16T17:50:10,717 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:50:11,748 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/affinityprop.o build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/src/ap.o -L/usr/lib -lm -o build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/affinityprop.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:50:11,883 building 'MDAnalysis.analysis.encore.dimensionality_reduction.stochasticproxembed' extension 2022-12-16T17:50:11,884 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:50:11,885 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/src 2022-12-16T17:50:11,887 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/analysis/encore/dimensionality_reduction/include -I/usr/include/python3.9 -c MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-12-16T17:50:11,915 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:50:12,599 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/analysis/encore/dimensionality_reduction/include -I/usr/include/python3.9 -c MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c -o build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-12-16T17:50:12,631 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:50:12,943 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:50:12,943 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:50:12,944 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:50:12,944 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:781: 2022-12-16T17:50:12,944 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:50:12,944 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:50:12,944 | ^~~~~~~ 2022-12-16T17:50:17,389 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.o build/temp.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.o -L/usr/lib -lm -o build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:50:17,528 building 'MDAnalysis.lib._cutil' extension 2022-12-16T17:50:17,529 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include -I/usr/include/python3.9 -c MDAnalysis/lib/_cutil.cpp -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/_cutil.o -ffast-math -O3 -funroll-loops -fsigned-zeros -std=c++11 2022-12-16T17:50:17,564 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:50:17,842 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:50:17,842 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:50:17,842 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:50:17,842 from MDAnalysis/lib/_cutil.cpp:795: 2022-12-16T17:50:17,842 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:50:17,842 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:50:17,843 | ^~~~~~~ 2022-12-16T17:50:20,729 In file included from MDAnalysis/lib/_cutil.cpp:824: 2022-12-16T17:50:20,730 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:827:13: warning: ‘void _calc_dihedral_triclinic(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,730 827 | static void _calc_dihedral_triclinic(coordinate* atom1, coordinate* atom2, 2022-12-16T17:50:20,730 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,730 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:791:13: warning: ‘void _calc_dihedral_ortho(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,730 791 | static void _calc_dihedral_ortho(coordinate* atom1, coordinate* atom2, 2022-12-16T17:50:20,731 | ^~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,731 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:764:13: warning: ‘void _calc_dihedral(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,731 764 | static void _calc_dihedral(coordinate* atom1, coordinate* atom2, 2022-12-16T17:50:20,731 | ^~~~~~~~~~~~~~ 2022-12-16T17:50:20,731 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:689:13: warning: ‘void _calc_angle_triclinic(float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,731 689 | static void _calc_angle_triclinic(coordinate* atom1, coordinate* atom2, 2022-12-16T17:50:20,732 | ^~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,732 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:647:13: warning: ‘void _calc_angle_ortho(float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,732 647 | static void _calc_angle_ortho(coordinate* atom1, coordinate* atom2, 2022-12-16T17:50:20,732 | ^~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,732 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:618:13: warning: ‘void _calc_angle(float (*)[3], float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,732 618 | static void _calc_angle(coordinate* atom1, coordinate* atom2, 2022-12-16T17:50:20,733 | ^~~~~~~~~~~ 2022-12-16T17:50:20,733 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:596:13: warning: ‘void _calc_bond_distance_triclinic(float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,733 596 | static void _calc_bond_distance_triclinic(coordinate* atom1, coordinate* atom2, 2022-12-16T17:50:20,733 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,733 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:573:13: warning: ‘void _calc_bond_distance_ortho(float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,733 573 | static void _calc_bond_distance_ortho(coordinate* atom1, coordinate* atom2, 2022-12-16T17:50:20,733 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,734 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:557:13: warning: ‘void _calc_bond_distance(float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,734 557 | static void _calc_bond_distance(coordinate* atom1, coordinate* atom2, 2022-12-16T17:50:20,734 | ^~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,734 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:505:13: warning: ‘void _calc_self_distance_array_triclinic(float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,734 505 | static void _calc_self_distance_array_triclinic(coordinate* ref, uint64_t numref, 2022-12-16T17:50:20,734 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,735 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:472:13: warning: ‘void _calc_self_distance_array_ortho(float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,735 472 | static void _calc_self_distance_array_ortho(coordinate* ref, uint64_t numref, 2022-12-16T17:50:20,735 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,735 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:448:13: warning: ‘void _calc_self_distance_array(float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,735 448 | static void _calc_self_distance_array(coordinate* ref, uint64_t numref, 2022-12-16T17:50:20,735 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,736 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:424:13: warning: ‘void _calc_distance_array_triclinic(float (*)[3], uint64_t, float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,736 424 | static void _calc_distance_array_triclinic(coordinate* ref, uint64_t numref, 2022-12-16T17:50:20,736 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,736 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:399:13: warning: ‘void _calc_distance_array_ortho(float (*)[3], uint64_t, float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,736 399 | static void _calc_distance_array_ortho(coordinate* ref, uint64_t numref, coordinate* conf, 2022-12-16T17:50:20,736 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,737 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:381:13: warning: ‘void _calc_distance_array(float (*)[3], uint64_t, float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,737 381 | static void _calc_distance_array(coordinate* ref, uint64_t numref, coordinate* conf, 2022-12-16T17:50:20,737 | ^~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:50:20,737 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:116:13: warning: ‘void _ortho_pbc(float (*)[3], uint64_t, float*)’ defined but not used [-Wunused-function] 2022-12-16T17:50:20,737 116 | static void _ortho_pbc(coordinate* coords, uint64_t numcoords, float* box) 2022-12-16T17:50:20,737 | ^~~~~~~~~~ 2022-12-16T17:50:47,240 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/_cutil.o -L/usr/lib -lm -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_cutil.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:50:47,629 building 'MDAnalysis.lib._augment' extension 2022-12-16T17:50:47,630 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/_augment.cpp -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/_augment.o -ffast-math -O3 -funroll-loops -fsigned-zeros -std=c++11 2022-12-16T17:50:47,666 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:50:47,903 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:50:47,903 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:50:47,903 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:50:47,903 from MDAnalysis/lib/_augment.cpp:790: 2022-12-16T17:50:47,903 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:50:47,903 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:50:47,903 | ^~~~~~~ 2022-12-16T17:51:13,585 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/_augment.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_augment.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:51:13,936 building 'MDAnalysis.lib.nsgrid' extension 2022-12-16T17:51:13,936 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include -I/usr/include/python3.9 -c MDAnalysis/lib/nsgrid.cpp -o build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/nsgrid.o -ffast-math -O3 -funroll-loops -fsigned-zeros -std=c++11 2022-12-16T17:51:13,966 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:51:16,380 In file included from MDAnalysis/lib/nsgrid.cpp:791: 2022-12-16T17:51:16,380 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:827:13: warning: ‘void _calc_dihedral_triclinic(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,380 827 | static void _calc_dihedral_triclinic(coordinate* atom1, coordinate* atom2, 2022-12-16T17:51:16,381 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,381 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:791:13: warning: ‘void _calc_dihedral_ortho(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,381 791 | static void _calc_dihedral_ortho(coordinate* atom1, coordinate* atom2, 2022-12-16T17:51:16,381 | ^~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,381 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:764:13: warning: ‘void _calc_dihedral(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,382 764 | static void _calc_dihedral(coordinate* atom1, coordinate* atom2, 2022-12-16T17:51:16,382 | ^~~~~~~~~~~~~~ 2022-12-16T17:51:16,382 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:689:13: warning: ‘void _calc_angle_triclinic(float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,382 689 | static void _calc_angle_triclinic(coordinate* atom1, coordinate* atom2, 2022-12-16T17:51:16,382 | ^~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,382 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:647:13: warning: ‘void _calc_angle_ortho(float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,382 647 | static void _calc_angle_ortho(coordinate* atom1, coordinate* atom2, 2022-12-16T17:51:16,383 | ^~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,383 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:618:13: warning: ‘void _calc_angle(float (*)[3], float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,383 618 | static void _calc_angle(coordinate* atom1, coordinate* atom2, 2022-12-16T17:51:16,383 | ^~~~~~~~~~~ 2022-12-16T17:51:16,383 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:596:13: warning: ‘void _calc_bond_distance_triclinic(float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,383 596 | static void _calc_bond_distance_triclinic(coordinate* atom1, coordinate* atom2, 2022-12-16T17:51:16,384 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,384 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:573:13: warning: ‘void _calc_bond_distance_ortho(float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,384 573 | static void _calc_bond_distance_ortho(coordinate* atom1, coordinate* atom2, 2022-12-16T17:51:16,384 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,384 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:557:13: warning: ‘void _calc_bond_distance(float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,384 557 | static void _calc_bond_distance(coordinate* atom1, coordinate* atom2, 2022-12-16T17:51:16,384 | ^~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,384 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:505:13: warning: ‘void _calc_self_distance_array_triclinic(float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,385 505 | static void _calc_self_distance_array_triclinic(coordinate* ref, uint64_t numref, 2022-12-16T17:51:16,385 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,385 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:472:13: warning: ‘void _calc_self_distance_array_ortho(float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,385 472 | static void _calc_self_distance_array_ortho(coordinate* ref, uint64_t numref, 2022-12-16T17:51:16,385 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,385 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:448:13: warning: ‘void _calc_self_distance_array(float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,385 448 | static void _calc_self_distance_array(coordinate* ref, uint64_t numref, 2022-12-16T17:51:16,385 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,386 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:424:13: warning: ‘void _calc_distance_array_triclinic(float (*)[3], uint64_t, float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,386 424 | static void _calc_distance_array_triclinic(coordinate* ref, uint64_t numref, 2022-12-16T17:51:16,386 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,386 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:399:13: warning: ‘void _calc_distance_array_ortho(float (*)[3], uint64_t, float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,386 399 | static void _calc_distance_array_ortho(coordinate* ref, uint64_t numref, coordinate* conf, 2022-12-16T17:51:16,386 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:16,386 /tmp/pip-wheel-hdwm2qrf/mdanalysis_507bf1b628ab44fbad3d03bc0eddb39b/MDAnalysis/lib/include/calc_distances.h:381:13: warning: ‘void _calc_distance_array(float (*)[3], uint64_t, float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-12-16T17:51:16,386 381 | static void _calc_distance_array(coordinate* ref, uint64_t numref, coordinate* conf, 2022-12-16T17:51:16,387 | ^~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:38,947 In file included from /usr/include/c++/10/vector:72, 2022-12-16T17:51:38,947 from MDAnalysis/lib/nsgrid.cpp:789: 2022-12-16T17:51:38,948 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2022-12-16T17:51:38,948 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-12-16T17:51:38,948 426 | vector<_Tp, _Alloc>:: 2022-12-16T17:51:38,948 | ^~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:38,984 In file included from /usr/include/c++/10/vector:67, 2022-12-16T17:51:38,984 from MDAnalysis/lib/nsgrid.cpp:789: 2022-12-16T17:51:38,984 /usr/include/c++/10/bits/stl_vector.h: In function ‘void __pyx_f_10MDAnalysis_3lib_6nsgrid_9NSResults_add_neighbors(__pyx_obj_10MDAnalysis_3lib_6nsgrid_NSResults*, int, int, double)’: 2022-12-16T17:51:38,985 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-12-16T17:51:38,985 1198 | _M_realloc_insert(end(), __x); 2022-12-16T17:51:38,985 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-12-16T17:51:39,021 In file included from /usr/include/c++/10/vector:72, 2022-12-16T17:51:39,022 from MDAnalysis/lib/nsgrid.cpp:789: 2022-12-16T17:51:39,022 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: 2022-12-16T17:51:39,022 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-12-16T17:51:39,022 426 | vector<_Tp, _Alloc>:: 2022-12-16T17:51:39,022 | ^~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:39,274 /usr/include/c++/10/bits/vector.tcc: In function ‘PyObject* __pyx_f_10MDAnalysis_3lib_6nsgrid___pyx_unpickle_NSResults__set_state(__pyx_obj_10MDAnalysis_3lib_6nsgrid_NSResults*, PyObject*)’: 2022-12-16T17:51:39,274 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2022-12-16T17:51:39,275 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2022-12-16T17:51:39,275 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-12-16T17:51:42,601 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/lib/nsgrid.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/nsgrid.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:51:42,966 building 'MDAnalysis.coordinates.timestep' extension 2022-12-16T17:51:42,967 creating build/temp.linux-armv7l-cpython-39/MDAnalysis/coordinates 2022-12-16T17:51:42,968 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/coordinates/timestep.cpp -o build/temp.linux-armv7l-cpython-39/MDAnalysis/coordinates/timestep.o -ffast-math -O3 -funroll-loops -fsigned-zeros -std=c++11 2022-12-16T17:51:43,001 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-12-16T17:51:43,236 In file included from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1944, 2022-12-16T17:51:43,237 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-12-16T17:51:43,237 from /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2022-12-16T17:51:43,237 from MDAnalysis/coordinates/timestep.cpp:791: 2022-12-16T17:51:43,237 /tmp/pip-build-env-f8u7dtp9/overlay/lib/python3.9/site-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] 2022-12-16T17:51:43,237 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-12-16T17:51:43,237 | ^~~~~~~ 2022-12-16T17:52:01,293 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/MDAnalysis/coordinates/timestep.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/timestep.cpython-39-arm-linux-gnueabihf.so 2022-12-16T17:52:01,522 installing to build/bdist.linux-armv7l/wheel 2022-12-16T17:52:01,522 running install 2022-12-16T17:52:01,549 running install_lib 2022-12-16T17:52:01,555 creating build/bdist.linux-armv7l 2022-12-16T17:52:01,555 creating build/bdist.linux-armv7l/wheel 2022-12-16T17:52:01,556 creating build/bdist.linux-armv7l/wheel/MDAnalysis 2022-12-16T17:52:01,558 creating build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,560 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/MMTF.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,562 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/LAMMPS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,565 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/ParmEd.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,567 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/chemfiles.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,570 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/DCD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,791 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/TRJ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,795 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/H5MD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,799 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/INPCRD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,801 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/PDB.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,804 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/chain.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,807 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/TRZ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,809 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/GSD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,812 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,816 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/core.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,818 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/FHIAIMS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,820 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/XYZ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,823 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,826 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/MOL2.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,829 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/XTC.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,831 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/timestep.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,834 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/GRO.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,837 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/memory.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,839 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/timestep.pxd -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,841 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/DLPoly.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,844 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/XDR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,846 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/NAMDBIN.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,849 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/timestep.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,875 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/null.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,877 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/PQR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,880 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/TNG.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,882 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/GMS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,885 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/timestep.cpp -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,912 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/TXYZ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,915 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/PDBQT.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,918 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/CRD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,921 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/TRR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,923 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/coordinates/DMS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-12-16T17:52:01,926 creating build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2022-12-16T17:52:01,927 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2022-12-16T17:52:01,931 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary/core.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2022-12-16T17:52:01,934 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2022-12-16T17:52:01,937 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary/EDR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2022-12-16T17:52:01,940 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/auxiliary/XVG.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2022-12-16T17:52:01,943 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/due.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2022-12-16T17:52:01,945 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/exceptions.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2022-12-16T17:52:01,948 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:01,950 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2022-12-16T17:52:01,951 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/data/filenames.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2022-12-16T17:52:01,954 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/data/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2022-12-16T17:52:01,955 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/data/rama_ref_data.npy -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2022-12-16T17:52:01,960 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/data/janin_ref_data.npy -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2022-12-16T17:52:01,963 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2022-12-16T17:52:01,964 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2022-12-16T17:52:01,967 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hbonds/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2022-12-16T17:52:01,969 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/distances.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:01,972 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/bat.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:01,975 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:52:01,977 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:52:01,981 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:52:01,984 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hydrogenbonds/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:52:01,986 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2022-12-16T17:52:01,991 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/rms.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:01,994 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/msd.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:01,998 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2022-12-16T17:52:02,000 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hole2/templates.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2022-12-16T17:52:02,002 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hole2/hole.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2022-12-16T17:52:02,007 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hole2/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2022-12-16T17:52:02,010 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/hole2/utils.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2022-12-16T17:52:02,013 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/dihedrals.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,016 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/leaflet.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,019 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,023 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/nucleicacids.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,026 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,028 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/confdistmatrix.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,031 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/cutils.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,040 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/cutils.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,042 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/bootstrap.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,045 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,047 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/utils.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,050 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/cutils.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,057 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/covariance.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,061 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:52:02,062 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction/include 2022-12-16T17:52:02,064 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/include/spe.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction/include 2022-12-16T17:52:02,066 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:52:02,075 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:52:02,077 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:52:02,081 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction/src 2022-12-16T17:52:02,082 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction/src 2022-12-16T17:52:02,085 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:52:02,088 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:52:02,098 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2022-12-16T17:52:02,101 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2022-12-16T17:52:02,102 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering/include 2022-12-16T17:52:02,104 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/include/ap.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering/include 2022-12-16T17:52:02,106 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/affinityprop.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2022-12-16T17:52:02,109 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/affinityprop.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2022-12-16T17:52:02,119 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/affinityprop.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2022-12-16T17:52:02,131 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2022-12-16T17:52:02,134 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2022-12-16T17:52:02,138 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering/src 2022-12-16T17:52:02,140 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/src/ap.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering/src 2022-12-16T17:52:02,144 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2022-12-16T17:52:02,147 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/clustering/cluster.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2022-12-16T17:52:02,151 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/encore/similarity.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-12-16T17:52:02,158 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/density.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,163 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/dielectric.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,166 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/pca.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,171 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,175 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/psa.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,182 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/align.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,187 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/nuclinfo.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,192 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/rdf.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,197 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/diffusionmap.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,201 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/lineardensity.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,206 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/waterdynamics.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,211 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2022-12-16T17:52:02,213 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/legacy/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2022-12-16T17:52:02,217 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/legacy/x3dna.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2022-12-16T17:52:02,223 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/polymer.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,227 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/helix_analysis.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,231 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/contacts.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,235 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/analysis/gnm.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-12-16T17:52:02,239 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/units.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2022-12-16T17:52:02,242 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2022-12-16T17:52:02,245 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/version.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2022-12-16T17:52:02,247 creating build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2022-12-16T17:52:02,248 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/tests/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2022-12-16T17:52:02,251 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/tests/datafiles.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2022-12-16T17:52:02,254 creating build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,255 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/PQRParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,258 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/ITPParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,262 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/DLPolyParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,264 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/GSDParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,267 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/GROParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,270 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/ParmEdParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,272 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/XYZParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,274 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/TXYZParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,277 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,280 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/PSFParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,283 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/core.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,285 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/DMSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,288 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/FHIAIMSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,291 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/ExtendedPDBParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,293 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,296 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/HoomdXMLParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,298 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tables.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,302 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/MOL2Parser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,305 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/LAMMPSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,308 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/CRDParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,310 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/guessers.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,314 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/MinimalParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,316 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/TOPParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,319 creating build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2022-12-16T17:52:02,321 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tpr/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2022-12-16T17:52:02,323 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tpr/utils.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2022-12-16T17:52:02,326 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tpr/obj.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2022-12-16T17:52:02,329 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/tpr/setting.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2022-12-16T17:52:02,332 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/PDBQTParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,335 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/TPRParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,338 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/PDBParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,341 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/GMSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,344 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/topology/MMTFParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-12-16T17:52:02,348 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,349 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_augment.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,378 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/log.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,382 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/include 2022-12-16T17:52:02,383 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/include/calc_distances.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/include 2022-12-16T17:52:02,386 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_cutil.pxd -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,389 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/distances.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,393 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_cutil.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,432 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/NeighborSearch.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,434 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances_openmp.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,444 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,473 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/nsgrid.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,526 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_cutil.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,529 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_cutil.cpp -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,553 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/qcprot.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,562 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/libmdanalysis 2022-12-16T17:52:02,563 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/libmdanalysis/__init__.pxd -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/libmdanalysis 2022-12-16T17:52:02,565 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,568 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,571 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/picklable_file_io.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,573 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/qcprot.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,585 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/src 2022-12-16T17:52:02,587 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/src/transformations 2022-12-16T17:52:02,588 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations/AUTHOR -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/src/transformations 2022-12-16T17:52:02,591 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations/LICENCE -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/src/transformations 2022-12-16T17:52:02,593 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/src/transformations/transformations.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/src/transformations 2022-12-16T17:52:02,598 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances_openmp.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,601 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_augment.cpp -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,625 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/nsgrid.cpp -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,651 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/transformations.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,655 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/mdamath.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:02,659 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,660 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libmdaxdr.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,695 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/include 2022-12-16T17:52:02,696 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include/xdrfile_xtc.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/include 2022-12-16T17:52:02,699 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include/endianswap.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/include 2022-12-16T17:52:02,701 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include/trr_seek.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/include 2022-12-16T17:52:02,704 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include/xdrfile.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/include 2022-12-16T17:52:02,707 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include/readdcd.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/include 2022-12-16T17:52:02,710 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include/xtc_seek.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/include 2022-12-16T17:52:02,712 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include/fastio.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/include 2022-12-16T17:52:02,715 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/include/xdrfile_trr.h -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/include 2022-12-16T17:52:02,718 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libmdaxdr.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,721 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libmdaxdr.pxd -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,723 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libdcd.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,767 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/cython_util.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,791 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libdcd.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,794 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libdcd.pxd -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,797 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,800 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/src 2022-12-16T17:52:02,801 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xdrfile.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/src 2022-12-16T17:52:02,841 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xdrfile_xtc.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/src 2022-12-16T17:52:02,844 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xdrfile_trr.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/src 2022-12-16T17:52:02,847 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/xtc_seek.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/src 2022-12-16T17:52:02,872 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/src/trr_seek.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats/src 2022-12-16T17:52:02,875 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libmdaxdr.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,921 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/cython_util.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,944 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/cython_util.pxd -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,947 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/libdcd.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,987 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/formats/cython_util.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-12-16T17:52:02,990 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances_openmp.c -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:03,006 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/nsgrid.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:03,010 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_transformations.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:03,026 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/c_distances.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:03,076 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/correlations.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:03,079 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/qcprot.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:03,082 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/util.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:03,086 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/_augment.pyx -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:03,089 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/lib/pkdtree.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-12-16T17:52:03,099 creating build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,100 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/core/topologyattrs.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,105 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/core/topology.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,108 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/core/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,111 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/core/topologyobjects.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,114 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/core/accessors.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,117 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/core/_get_readers.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,120 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/core/universe.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,124 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/core/selection.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,129 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/core/groups.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-12-16T17:52:03,137 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/authors.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2022-12-16T17:52:03,140 creating build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-12-16T17:52:03,141 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations/positionaveraging.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-12-16T17:52:03,145 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-12-16T17:52:03,147 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-12-16T17:52:03,150 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations/translate.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-12-16T17:52:03,153 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations/wrap.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-12-16T17:52:03,156 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations/rotate.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-12-16T17:52:03,159 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations/fit.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-12-16T17:52:03,162 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/transformations/boxdimensions.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-12-16T17:52:03,165 creating build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2022-12-16T17:52:03,166 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/converters/OpenMM.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2022-12-16T17:52:03,169 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/converters/ParmEd.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2022-12-16T17:52:03,172 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/converters/ParmEdParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2022-12-16T17:52:03,175 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/converters/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2022-12-16T17:52:03,178 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/converters/RDKitParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2022-12-16T17:52:03,181 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/converters/OpenMMParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2022-12-16T17:52:03,184 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/converters/RDKit.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2022-12-16T17:52:03,189 creating build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2022-12-16T17:52:03,190 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/selections/pymol.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2022-12-16T17:52:03,193 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/selections/vmd.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2022-12-16T17:52:03,195 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/selections/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2022-12-16T17:52:03,199 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/selections/jmol.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2022-12-16T17:52:03,201 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/selections/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2022-12-16T17:52:03,204 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/selections/gromacs.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2022-12-16T17:52:03,206 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/selections/charmm.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2022-12-16T17:52:03,209 creating build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2022-12-16T17:52:03,210 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2022-12-16T17:52:03,216 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/visualization/streamlines.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2022-12-16T17:52:03,220 copying build/lib.linux-armv7l-cpython-39/MDAnalysis/visualization/streamlines_3D.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2022-12-16T17:52:03,223 running install_egg_info 2022-12-16T17:52:03,229 Copying MDAnalysis.egg-info to build/bdist.linux-armv7l/wheel/MDAnalysis-2.4.0-py3.9.egg-info 2022-12-16T17:52:03,245 running install_scripts 2022-12-16T17:52:03,340 creating build/bdist.linux-armv7l/wheel/MDAnalysis-2.4.0.dist-info/WHEEL 2022-12-16T17:52:03,344 creating '/tmp/pip-wheel-twzxis1s/.tmp-9uw13ms1/MDAnalysis-2.4.0-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2022-12-16T17:52:03,348 adding 'MDAnalysis/__init__.py' 2022-12-16T17:52:03,350 adding 'MDAnalysis/authors.py' 2022-12-16T17:52:03,352 adding 'MDAnalysis/due.py' 2022-12-16T17:52:03,353 adding 'MDAnalysis/exceptions.py' 2022-12-16T17:52:03,356 adding 'MDAnalysis/units.py' 2022-12-16T17:52:03,358 adding 'MDAnalysis/version.py' 2022-12-16T17:52:03,361 adding 'MDAnalysis/analysis/__init__.py' 2022-12-16T17:52:03,369 adding 'MDAnalysis/analysis/align.py' 2022-12-16T17:52:03,373 adding 'MDAnalysis/analysis/base.py' 2022-12-16T17:52:03,376 adding 'MDAnalysis/analysis/bat.py' 2022-12-16T17:52:03,380 adding 'MDAnalysis/analysis/contacts.py' 2022-12-16T17:52:03,385 adding 'MDAnalysis/analysis/density.py' 2022-12-16T17:52:03,387 adding 'MDAnalysis/analysis/dielectric.py' 2022-12-16T17:52:03,390 adding 'MDAnalysis/analysis/diffusionmap.py' 2022-12-16T17:52:03,394 adding 'MDAnalysis/analysis/dihedrals.py' 2022-12-16T17:52:03,396 adding 'MDAnalysis/analysis/distances.py' 2022-12-16T17:52:03,399 adding 'MDAnalysis/analysis/gnm.py' 2022-12-16T17:52:03,402 adding 'MDAnalysis/analysis/helix_analysis.py' 2022-12-16T17:52:03,405 adding 'MDAnalysis/analysis/leaflet.py' 2022-12-16T17:52:03,408 adding 'MDAnalysis/analysis/lineardensity.py' 2022-12-16T17:52:03,411 adding 'MDAnalysis/analysis/msd.py' 2022-12-16T17:52:03,413 adding 'MDAnalysis/analysis/nucleicacids.py' 2022-12-16T17:52:03,416 adding 'MDAnalysis/analysis/nuclinfo.py' 2022-12-16T17:52:03,421 adding 'MDAnalysis/analysis/pca.py' 2022-12-16T17:52:03,423 adding 'MDAnalysis/analysis/polymer.py' 2022-12-16T17:52:03,433 adding 'MDAnalysis/analysis/psa.py' 2022-12-16T17:52:03,437 adding 'MDAnalysis/analysis/rdf.py' 2022-12-16T17:52:03,442 adding 'MDAnalysis/analysis/rms.py' 2022-12-16T17:52:03,447 adding 'MDAnalysis/analysis/waterdynamics.py' 2022-12-16T17:52:03,450 adding 'MDAnalysis/analysis/data/__init__.py' 2022-12-16T17:52:03,452 adding 'MDAnalysis/analysis/data/filenames.py' 2022-12-16T17:52:03,456 adding 'MDAnalysis/analysis/data/janin_ref_data.npy' 2022-12-16T17:52:03,462 adding 'MDAnalysis/analysis/data/rama_ref_data.npy' 2022-12-16T17:52:03,465 adding 'MDAnalysis/analysis/encore/__init__.py' 2022-12-16T17:52:03,466 adding 'MDAnalysis/analysis/encore/bootstrap.py' 2022-12-16T17:52:03,469 adding 'MDAnalysis/analysis/encore/confdistmatrix.py' 2022-12-16T17:52:03,472 adding 'MDAnalysis/analysis/encore/covariance.py' 2022-12-16T17:52:03,494 adding 'MDAnalysis/analysis/encore/cutils.c' 2022-12-16T17:52:03,531 adding 'MDAnalysis/analysis/encore/cutils.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:03,534 adding 'MDAnalysis/analysis/encore/cutils.pyx' 2022-12-16T17:52:03,540 adding 'MDAnalysis/analysis/encore/similarity.py' 2022-12-16T17:52:03,543 adding 'MDAnalysis/analysis/encore/utils.py' 2022-12-16T17:52:03,546 adding 'MDAnalysis/analysis/encore/clustering/ClusterCollection.py' 2022-12-16T17:52:03,549 adding 'MDAnalysis/analysis/encore/clustering/ClusteringMethod.py' 2022-12-16T17:52:03,551 adding 'MDAnalysis/analysis/encore/clustering/__init__.py' 2022-12-16T17:52:03,581 adding 'MDAnalysis/analysis/encore/clustering/affinityprop.c' 2022-12-16T17:52:03,687 adding 'MDAnalysis/analysis/encore/clustering/affinityprop.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:03,692 adding 'MDAnalysis/analysis/encore/clustering/affinityprop.pyx' 2022-12-16T17:52:03,695 adding 'MDAnalysis/analysis/encore/clustering/cluster.py' 2022-12-16T17:52:03,697 adding 'MDAnalysis/analysis/encore/clustering/include/ap.h' 2022-12-16T17:52:03,701 adding 'MDAnalysis/analysis/encore/clustering/src/ap.c' 2022-12-16T17:52:03,703 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py' 2022-12-16T17:52:03,705 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py' 2022-12-16T17:52:03,708 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py' 2022-12-16T17:52:03,732 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c' 2022-12-16T17:52:03,799 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:03,803 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.pyx' 2022-12-16T17:52:03,806 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/include/spe.h' 2022-12-16T17:52:03,809 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.c' 2022-12-16T17:52:03,811 adding 'MDAnalysis/analysis/hbonds/__init__.py' 2022-12-16T17:52:03,813 adding 'MDAnalysis/analysis/hbonds/hbond_autocorrel.py' 2022-12-16T17:52:03,817 adding 'MDAnalysis/analysis/hole2/__init__.py' 2022-12-16T17:52:03,823 adding 'MDAnalysis/analysis/hole2/hole.py' 2022-12-16T17:52:03,825 adding 'MDAnalysis/analysis/hole2/templates.py' 2022-12-16T17:52:03,829 adding 'MDAnalysis/analysis/hole2/utils.py' 2022-12-16T17:52:03,831 adding 'MDAnalysis/analysis/hydrogenbonds/__init__.py' 2022-12-16T17:52:03,836 adding 'MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py' 2022-12-16T17:52:03,840 adding 'MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py' 2022-12-16T17:52:03,850 adding 'MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py' 2022-12-16T17:52:03,853 adding 'MDAnalysis/analysis/legacy/__init__.py' 2022-12-16T17:52:03,858 adding 'MDAnalysis/analysis/legacy/x3dna.py' 2022-12-16T17:52:03,862 adding 'MDAnalysis/auxiliary/EDR.py' 2022-12-16T17:52:03,864 adding 'MDAnalysis/auxiliary/XVG.py' 2022-12-16T17:52:03,868 adding 'MDAnalysis/auxiliary/__init__.py' 2022-12-16T17:52:03,874 adding 'MDAnalysis/auxiliary/base.py' 2022-12-16T17:52:03,876 adding 'MDAnalysis/auxiliary/core.py' 2022-12-16T17:52:03,879 adding 'MDAnalysis/converters/OpenMM.py' 2022-12-16T17:52:03,881 adding 'MDAnalysis/converters/OpenMMParser.py' 2022-12-16T17:52:03,884 adding 'MDAnalysis/converters/ParmEd.py' 2022-12-16T17:52:03,886 adding 'MDAnalysis/converters/ParmEdParser.py' 2022-12-16T17:52:03,892 adding 'MDAnalysis/converters/RDKit.py' 2022-12-16T17:52:03,895 adding 'MDAnalysis/converters/RDKitParser.py' 2022-12-16T17:52:03,897 adding 'MDAnalysis/converters/__init__.py' 2022-12-16T17:52:03,901 adding 'MDAnalysis/coordinates/CRD.py' 2022-12-16T17:52:03,904 adding 'MDAnalysis/coordinates/DCD.py' 2022-12-16T17:52:03,907 adding 'MDAnalysis/coordinates/DLPoly.py' 2022-12-16T17:52:03,909 adding 'MDAnalysis/coordinates/DMS.py' 2022-12-16T17:52:03,911 adding 'MDAnalysis/coordinates/FHIAIMS.py' 2022-12-16T17:52:03,914 adding 'MDAnalysis/coordinates/GMS.py' 2022-12-16T17:52:03,917 adding 'MDAnalysis/coordinates/GRO.py' 2022-12-16T17:52:03,919 adding 'MDAnalysis/coordinates/GSD.py' 2022-12-16T17:52:03,927 adding 'MDAnalysis/coordinates/H5MD.py' 2022-12-16T17:52:03,929 adding 'MDAnalysis/coordinates/INPCRD.py' 2022-12-16T17:52:03,934 adding 'MDAnalysis/coordinates/LAMMPS.py' 2022-12-16T17:52:03,936 adding 'MDAnalysis/coordinates/MMTF.py' 2022-12-16T17:52:03,939 adding 'MDAnalysis/coordinates/MOL2.py' 2022-12-16T17:52:03,941 adding 'MDAnalysis/coordinates/NAMDBIN.py' 2022-12-16T17:52:03,948 adding 'MDAnalysis/coordinates/PDB.py' 2022-12-16T17:52:03,952 adding 'MDAnalysis/coordinates/PDBQT.py' 2022-12-16T17:52:03,955 adding 'MDAnalysis/coordinates/PQR.py' 2022-12-16T17:52:03,958 adding 'MDAnalysis/coordinates/ParmEd.py' 2022-12-16T17:52:04,171 adding 'MDAnalysis/coordinates/TNG.py' 2022-12-16T17:52:04,178 adding 'MDAnalysis/coordinates/TRJ.py' 2022-12-16T17:52:04,180 adding 'MDAnalysis/coordinates/TRR.py' 2022-12-16T17:52:04,183 adding 'MDAnalysis/coordinates/TRZ.py' 2022-12-16T17:52:04,185 adding 'MDAnalysis/coordinates/TXYZ.py' 2022-12-16T17:52:04,188 adding 'MDAnalysis/coordinates/XDR.py' 2022-12-16T17:52:04,190 adding 'MDAnalysis/coordinates/XTC.py' 2022-12-16T17:52:04,193 adding 'MDAnalysis/coordinates/XYZ.py' 2022-12-16T17:52:04,198 adding 'MDAnalysis/coordinates/__init__.py' 2022-12-16T17:52:04,206 adding 'MDAnalysis/coordinates/base.py' 2022-12-16T17:52:04,210 adding 'MDAnalysis/coordinates/chain.py' 2022-12-16T17:52:04,214 adding 'MDAnalysis/coordinates/chemfiles.py' 2022-12-16T17:52:04,216 adding 'MDAnalysis/coordinates/core.py' 2022-12-16T17:52:04,219 adding 'MDAnalysis/coordinates/memory.py' 2022-12-16T17:52:04,221 adding 'MDAnalysis/coordinates/null.py' 2022-12-16T17:52:04,279 adding 'MDAnalysis/coordinates/timestep.cpp' 2022-12-16T17:52:04,510 adding 'MDAnalysis/coordinates/timestep.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:04,518 adding 'MDAnalysis/coordinates/timestep.pxd' 2022-12-16T17:52:04,523 adding 'MDAnalysis/coordinates/timestep.pyx' 2022-12-16T17:52:04,525 adding 'MDAnalysis/core/__init__.py' 2022-12-16T17:52:04,528 adding 'MDAnalysis/core/_get_readers.py' 2022-12-16T17:52:04,530 adding 'MDAnalysis/core/accessors.py' 2022-12-16T17:52:04,551 adding 'MDAnalysis/core/groups.py' 2022-12-16T17:52:04,559 adding 'MDAnalysis/core/selection.py' 2022-12-16T17:52:04,562 adding 'MDAnalysis/core/topology.py' 2022-12-16T17:52:04,573 adding 'MDAnalysis/core/topologyattrs.py' 2022-12-16T17:52:04,577 adding 'MDAnalysis/core/topologyobjects.py' 2022-12-16T17:52:04,586 adding 'MDAnalysis/core/universe.py' 2022-12-16T17:52:04,589 adding 'MDAnalysis/lib/NeighborSearch.py' 2022-12-16T17:52:04,591 adding 'MDAnalysis/lib/__init__.py' 2022-12-16T17:52:04,666 adding 'MDAnalysis/lib/_augment.cpp' 2022-12-16T17:52:04,940 adding 'MDAnalysis/lib/_augment.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:04,951 adding 'MDAnalysis/lib/_augment.pyx' 2022-12-16T17:52:05,033 adding 'MDAnalysis/lib/_cutil.cpp' 2022-12-16T17:52:05,382 adding 'MDAnalysis/lib/_cutil.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:05,395 adding 'MDAnalysis/lib/_cutil.pxd' 2022-12-16T17:52:05,398 adding 'MDAnalysis/lib/_cutil.pyx' 2022-12-16T17:52:05,452 adding 'MDAnalysis/lib/_transformations.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:05,546 adding 'MDAnalysis/lib/c_distances.c' 2022-12-16T17:52:05,875 adding 'MDAnalysis/lib/c_distances.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:05,888 adding 'MDAnalysis/lib/c_distances.pyx' 2022-12-16T17:52:05,912 adding 'MDAnalysis/lib/c_distances_openmp.c' 2022-12-16T17:52:05,975 adding 'MDAnalysis/lib/c_distances_openmp.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:05,979 adding 'MDAnalysis/lib/c_distances_openmp.pyx' 2022-12-16T17:52:05,981 adding 'MDAnalysis/lib/correlations.py' 2022-12-16T17:52:05,988 adding 'MDAnalysis/lib/distances.py' 2022-12-16T17:52:05,991 adding 'MDAnalysis/lib/log.py' 2022-12-16T17:52:05,994 adding 'MDAnalysis/lib/mdamath.py' 2022-12-16T17:52:06,079 adding 'MDAnalysis/lib/nsgrid.cpp' 2022-12-16T17:52:06,412 adding 'MDAnalysis/lib/nsgrid.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:06,427 adding 'MDAnalysis/lib/nsgrid.pyx' 2022-12-16T17:52:06,429 adding 'MDAnalysis/lib/picklable_file_io.py' 2022-12-16T17:52:06,432 adding 'MDAnalysis/lib/pkdtree.py' 2022-12-16T17:52:06,464 adding 'MDAnalysis/lib/qcprot.c' 2022-12-16T17:52:06,541 adding 'MDAnalysis/lib/qcprot.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:06,546 adding 'MDAnalysis/lib/qcprot.pyx' 2022-12-16T17:52:06,553 adding 'MDAnalysis/lib/transformations.py' 2022-12-16T17:52:06,566 adding 'MDAnalysis/lib/util.py' 2022-12-16T17:52:06,569 adding 'MDAnalysis/lib/formats/__init__.py' 2022-12-16T17:52:06,635 adding 'MDAnalysis/lib/formats/cython_util.c' 2022-12-16T17:52:06,844 adding 'MDAnalysis/lib/formats/cython_util.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:06,852 adding 'MDAnalysis/lib/formats/cython_util.pxd' 2022-12-16T17:52:06,854 adding 'MDAnalysis/lib/formats/cython_util.pyx' 2022-12-16T17:52:06,953 adding 'MDAnalysis/lib/formats/libdcd.c' 2022-12-16T17:52:07,336 adding 'MDAnalysis/lib/formats/libdcd.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:07,350 adding 'MDAnalysis/lib/formats/libdcd.pxd' 2022-12-16T17:52:07,354 adding 'MDAnalysis/lib/formats/libdcd.pyx' 2022-12-16T17:52:07,451 adding 'MDAnalysis/lib/formats/libmdaxdr.c' 2022-12-16T17:52:07,869 adding 'MDAnalysis/lib/formats/libmdaxdr.cpython-39-arm-linux-gnueabihf.so' 2022-12-16T17:52:07,884 adding 'MDAnalysis/lib/formats/libmdaxdr.pxd' 2022-12-16T17:52:07,888 adding 'MDAnalysis/lib/formats/libmdaxdr.pyx' 2022-12-16T17:52:07,891 adding 'MDAnalysis/lib/formats/include/endianswap.h' 2022-12-16T17:52:07,893 adding 'MDAnalysis/lib/formats/include/fastio.h' 2022-12-16T17:52:07,896 adding 'MDAnalysis/lib/formats/include/readdcd.h' 2022-12-16T17:52:07,898 adding 'MDAnalysis/lib/formats/include/trr_seek.h' 2022-12-16T17:52:07,901 adding 'MDAnalysis/lib/formats/include/xdrfile.h' 2022-12-16T17:52:07,903 adding 'MDAnalysis/lib/formats/include/xdrfile_trr.h' 2022-12-16T17:52:07,905 adding 'MDAnalysis/lib/formats/include/xdrfile_xtc.h' 2022-12-16T17:52:07,907 adding 'MDAnalysis/lib/formats/include/xtc_seek.h' 2022-12-16T17:52:07,909 adding 'MDAnalysis/lib/formats/src/trr_seek.c' 2022-12-16T17:52:07,916 adding 'MDAnalysis/lib/formats/src/xdrfile.c' 2022-12-16T17:52:07,919 adding 'MDAnalysis/lib/formats/src/xdrfile_trr.c' 2022-12-16T17:52:07,921 adding 'MDAnalysis/lib/formats/src/xdrfile_xtc.c' 2022-12-16T17:52:07,923 adding 'MDAnalysis/lib/formats/src/xtc_seek.c' 2022-12-16T17:52:07,927 adding 'MDAnalysis/lib/include/calc_distances.h' 2022-12-16T17:52:07,929 adding 'MDAnalysis/lib/libmdanalysis/__init__.pxd' 2022-12-16T17:52:07,932 adding 'MDAnalysis/lib/src/transformations/AUTHOR' 2022-12-16T17:52:07,933 adding 'MDAnalysis/lib/src/transformations/LICENCE' 2022-12-16T17:52:07,944 adding 'MDAnalysis/lib/src/transformations/transformations.c' 2022-12-16T17:52:07,947 adding 'MDAnalysis/selections/__init__.py' 2022-12-16T17:52:07,950 adding 'MDAnalysis/selections/base.py' 2022-12-16T17:52:07,951 adding 'MDAnalysis/selections/charmm.py' 2022-12-16T17:52:07,953 adding 'MDAnalysis/selections/gromacs.py' 2022-12-16T17:52:07,955 adding 'MDAnalysis/selections/jmol.py' 2022-12-16T17:52:07,957 adding 'MDAnalysis/selections/pymol.py' 2022-12-16T17:52:07,958 adding 'MDAnalysis/selections/vmd.py' 2022-12-16T17:52:07,961 adding 'MDAnalysis/tests/__init__.py' 2022-12-16T17:52:07,962 adding 'MDAnalysis/tests/datafiles.py' 2022-12-16T17:52:07,965 adding 'MDAnalysis/topology/CRDParser.py' 2022-12-16T17:52:07,967 adding 'MDAnalysis/topology/DLPolyParser.py' 2022-12-16T17:52:07,969 adding 'MDAnalysis/topology/DMSParser.py' 2022-12-16T17:52:07,971 adding 'MDAnalysis/topology/ExtendedPDBParser.py' 2022-12-16T17:52:07,973 adding 'MDAnalysis/topology/FHIAIMSParser.py' 2022-12-16T17:52:07,975 adding 'MDAnalysis/topology/GMSParser.py' 2022-12-16T17:52:07,977 adding 'MDAnalysis/topology/GROParser.py' 2022-12-16T17:52:07,979 adding 'MDAnalysis/topology/GSDParser.py' 2022-12-16T17:52:07,981 adding 'MDAnalysis/topology/HoomdXMLParser.py' 2022-12-16T17:52:07,984 adding 'MDAnalysis/topology/ITPParser.py' 2022-12-16T17:52:07,988 adding 'MDAnalysis/topology/LAMMPSParser.py' 2022-12-16T17:52:07,990 adding 'MDAnalysis/topology/MMTFParser.py' 2022-12-16T17:52:07,992 adding 'MDAnalysis/topology/MOL2Parser.py' 2022-12-16T17:52:07,994 adding 'MDAnalysis/topology/MinimalParser.py' 2022-12-16T17:52:07,997 adding 'MDAnalysis/topology/PDBParser.py' 2022-12-16T17:52:07,999 adding 'MDAnalysis/topology/PDBQTParser.py' 2022-12-16T17:52:08,001 adding 'MDAnalysis/topology/PQRParser.py' 2022-12-16T17:52:08,004 adding 'MDAnalysis/topology/PSFParser.py' 2022-12-16T17:52:08,006 adding 'MDAnalysis/topology/ParmEdParser.py' 2022-12-16T17:52:08,009 adding 'MDAnalysis/topology/TOPParser.py' 2022-12-16T17:52:08,012 adding 'MDAnalysis/topology/TPRParser.py' 2022-12-16T17:52:08,014 adding 'MDAnalysis/topology/TXYZParser.py' 2022-12-16T17:52:08,015 adding 'MDAnalysis/topology/XYZParser.py' 2022-12-16T17:52:08,018 adding 'MDAnalysis/topology/__init__.py' 2022-12-16T17:52:08,021 adding 'MDAnalysis/topology/base.py' 2022-12-16T17:52:08,022 adding 'MDAnalysis/topology/core.py' 2022-12-16T17:52:08,025 adding 'MDAnalysis/topology/guessers.py' 2022-12-16T17:52:08,028 adding 'MDAnalysis/topology/tables.py' 2022-12-16T17:52:08,031 adding 'MDAnalysis/topology/tpr/__init__.py' 2022-12-16T17:52:08,033 adding 'MDAnalysis/topology/tpr/obj.py' 2022-12-16T17:52:08,035 adding 'MDAnalysis/topology/tpr/setting.py' 2022-12-16T17:52:08,039 adding 'MDAnalysis/topology/tpr/utils.py' 2022-12-16T17:52:08,042 adding 'MDAnalysis/transformations/__init__.py' 2022-12-16T17:52:08,044 adding 'MDAnalysis/transformations/base.py' 2022-12-16T17:52:08,046 adding 'MDAnalysis/transformations/boxdimensions.py' 2022-12-16T17:52:08,048 adding 'MDAnalysis/transformations/fit.py' 2022-12-16T17:52:08,051 adding 'MDAnalysis/transformations/positionaveraging.py' 2022-12-16T17:52:08,053 adding 'MDAnalysis/transformations/rotate.py' 2022-12-16T17:52:08,055 adding 'MDAnalysis/transformations/translate.py' 2022-12-16T17:52:08,057 adding 'MDAnalysis/transformations/wrap.py' 2022-12-16T17:52:08,059 adding 'MDAnalysis/visualization/__init__.py' 2022-12-16T17:52:08,062 adding 'MDAnalysis/visualization/streamlines.py' 2022-12-16T17:52:08,066 adding 'MDAnalysis/visualization/streamlines_3D.py' 2022-12-16T17:52:08,069 adding 'MDAnalysis-2.4.0.dist-info/AUTHORS' 2022-12-16T17:52:08,074 adding 'MDAnalysis-2.4.0.dist-info/LICENSE' 2022-12-16T17:52:08,079 adding 'MDAnalysis-2.4.0.dist-info/METADATA' 2022-12-16T17:52:08,081 adding 'MDAnalysis-2.4.0.dist-info/WHEEL' 2022-12-16T17:52:08,082 adding 'MDAnalysis-2.4.0.dist-info/top_level.txt' 2022-12-16T17:52:08,086 adding 'MDAnalysis-2.4.0.dist-info/RECORD' 2022-12-16T17:52:08,198 removing build/bdist.linux-armv7l/wheel 2022-12-16T17:52:08,526 Building wheel for mdanalysis (pyproject.toml): finished with status 'done' 2022-12-16T17:52:08,718 Created wheel for mdanalysis: filename=MDAnalysis-2.4.0-cp39-cp39-linux_armv7l.whl size=7775838 sha256=89a99e9094d9455640680119bc09e7ea680423ed644c57a199c1f2c083589a01 2022-12-16T17:52:08,720 Stored in directory: /tmp/pip-ephem-wheel-cache-0wdsmpnm/wheels/c7/90/b3/d59e9f8b560a61e7ad1a7a30c24e0b6b6138ac7c1070a25799 2022-12-16T17:52:08,749 Successfully built mdanalysis 2022-12-16T17:52:08,984 Removed build tracker: '/tmp/pip-build-tracker-rxb05060'