2022-03-08T11:28:12,637 Created temporary directory: /tmp/pip-ephem-wheel-cache-6lkx4mpj 2022-03-08T11:28:12,642 Created temporary directory: /tmp/pip-req-tracker-rvd16opl 2022-03-08T11:28:12,643 Initialized build tracking at /tmp/pip-req-tracker-rvd16opl 2022-03-08T11:28:12,643 Created build tracker: /tmp/pip-req-tracker-rvd16opl 2022-03-08T11:28:12,644 Entered build tracker: /tmp/pip-req-tracker-rvd16opl 2022-03-08T11:28:12,645 Created temporary directory: /tmp/pip-wheel-hu1m7vye 2022-03-08T11:28:12,719 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-03-08T11:28:12,727 2 location(s) to search for versions of mdanalysis: 2022-03-08T11:28:12,727 * https://pypi.org/simple/mdanalysis/ 2022-03-08T11:28:12,727 * https://www.piwheels.org/simple/mdanalysis/ 2022-03-08T11:28:12,728 Fetching project page and analyzing links: https://pypi.org/simple/mdanalysis/ 2022-03-08T11:28:12,729 Getting page https://pypi.org/simple/mdanalysis/ 2022-03-08T11:28:12,732 Found index url https://pypi.org/simple 2022-03-08T11:28:12,867 Found link https://files.pythonhosted.org/packages/97/94/fd5a74e25fba58cfb514dc39ef4717baa392057503d6c38897f886b2c0c6/MDAnalysis-0.7.6.tar.gz#sha256=4225660533926ce808ae425f22edc643db296274ac3b95d9feae4eec0b38ff24 (from https://pypi.org/simple/mdanalysis/), version: 0.7.6 2022-03-08T11:28:12,868 Found link https://files.pythonhosted.org/packages/9d/32/36e44fd1b946331bd72c7cc8806dd2b37f597a49ac7ccfe2a64ad91e59f7/MDAnalysis-0.8.0rc2.tar.gz#sha256=5e14ea8593b80d93a75e4445965f79fb245a7b581ebc8389b9360b9145e88f32 (from https://pypi.org/simple/mdanalysis/), version: 0.8.0rc2 2022-03-08T11:28:12,869 Found link https://files.pythonhosted.org/packages/d9/c4/27ff9dcd35aeef52f41f01a6eff0328eda8a5fa6dfa8097daa9ff70dcdf8/MDAnalysis-0.8.0rc4.tar.gz#sha256=881af3c86c796995d3c48f803227ff9ae7c3f0b8f5b86e382ea0e24feda222c6 (from https://pypi.org/simple/mdanalysis/), version: 0.8.0rc4 2022-03-08T11:28:12,870 Found link 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https://files.pythonhosted.org/packages/ae/d5/07c38db64a6bd9bcec03caea8e07137bb2e571ce2bd145f9804727dfc2a5/MDAnalysis-0.16.2.tar.gz#sha256=407d9a9ff1ab8a5e47973714d06fabff220f8d08a28792dee93e88e70e995b0a (from https://pypi.org/simple/mdanalysis/), version: 0.16.2 2022-03-08T11:28:12,881 Found link https://files.pythonhosted.org/packages/91/e0/b12ee57016dffcf8da1f5651745ab981a09bc9e51519b6fa752a1a9a6d0f/MDAnalysis-0.17.0.tar.gz#sha256=9bd61760334698cc7b8a57ad26456451e926e9c9e66722594ad8816561348cde (from https://pypi.org/simple/mdanalysis/), version: 0.17.0 2022-03-08T11:28:12,881 Found link https://files.pythonhosted.org/packages/17/44/e9aff78fc88f6b8ac56b7626f3c83ed3c53f723b3f756d4c211ebd5add74/MDAnalysis-0.18.0.tar.gz#sha256=a08acea1755112411e7db55e3f282e164b47a59e15794b38744cce6c596f252a (from https://pypi.org/simple/mdanalysis/), version: 0.18.0 2022-03-08T11:28:12,882 Found link https://files.pythonhosted.org/packages/6e/30/a2b4339369e252bf22dc8d1e732870bf88c33a73e4f5e73788c1a65b25a3/MDAnalysis-0.19.0.tar.gz#sha256=248e3b37fc6150e31c609cc18a3927c32aee37b76d29cbfedf635e7e1aa982cf (from https://pypi.org/simple/mdanalysis/), version: 0.19.0 2022-03-08T11:28:12,883 Found link https://files.pythonhosted.org/packages/1c/24/b03a9bf48a1703b1ec31c34585aab123ca73e7778155ac3d5301a564fde6/MDAnalysis-0.19.1.tar.gz#sha256=ff1d694f8598c0833ec340de6a6adb3b5e62b92d0fa94ee6401718ba972db3cc (from https://pypi.org/simple/mdanalysis/), version: 0.19.1 2022-03-08T11:28:12,884 Found link https://files.pythonhosted.org/packages/be/72/6c2f9fcd842c9a50315ac93c4079b3f70735c6125fe903d04fb68a6e616a/MDAnalysis-0.19.2.tar.gz#sha256=c5395bbafa5efca2e1aee4715d26129844140c47cb8301da0293106cb969de7d (from https://pypi.org/simple/mdanalysis/), version: 0.19.2 2022-03-08T11:28:12,884 Found link https://files.pythonhosted.org/packages/b8/49/a0470dda3837aa4c42a7d2e69a4aaa1646ce2aeffe686f6887666f265b43/MDAnalysis-0.20.0.tar.gz#sha256=03938fc6c25bc16af7a2f5030118e6fb3d95b47a40ac70e887ba08048d87b33f (from https://pypi.org/simple/mdanalysis/), version: 0.20.0 2022-03-08T11:28:12,885 Found link https://files.pythonhosted.org/packages/83/4b/97c2df212f1eee47144648aa0e0da1a9022eab74d3fc1fbaf2767734de3d/MDAnalysis-0.20.1.tar.gz#sha256=d04b71b193b9716d2597ffb9938b93f43487fa535da1bb5c1f2baccf356d7df9 (from https://pypi.org/simple/mdanalysis/), version: 0.20.1 2022-03-08T11:28:12,886 Found link https://files.pythonhosted.org/packages/c9/ae/11905971cc6cdb436bff040270f58fb3fc54ef77aea2ce2dfc269129f74e/MDAnalysis-1.0.0.tar.gz#sha256=f45a024aca45e390ff1c45ca90beb2180b78881be377e2a1aa9cd6c109bcfa81 (from https://pypi.org/simple/mdanalysis/), version: 1.0.0 2022-03-08T11:28:12,889 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#sha256=dc2cf34391b5eb1733fca1ab14e0de2e381d2d595c95923403f42cb2e39c9dad (from https://pypi.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3,!=3.4.*,<3.9) 2022-03-08T11:28:12,892 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#sha256=17cafb982e4380d62c6e2ba951c7717e9393b4c7b6200b6632763100ea2b0839 (from https://pypi.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-03-08T11:28:12,896 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#sha256=edfd5a8ac6cbaa8d02f505ac3e68d5a1866644a2d392a8f20e279c43e0886253 (from https://pypi.org/simple/mdanalysis/) (requires-python:>=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,<3.9) 2022-03-08T11:28:12,896 Found link https://files.pythonhosted.org/packages/55/d1/9e302a51bdf6b3d0b7045c20b42203ad8ad20bf2103e8c19db2da868c6e7/MDAnalysis-2.0.0b0.tar.gz#sha256=09e0b855bddca9c386d3d674e3baf684ebcbb1668348844372232dc2b9a4ea4e (from https://pypi.org/simple/mdanalysis/), version: 2.0.0b0 2022-03-08T11:28:12,898 Found link https://files.pythonhosted.org/packages/bf/a2/5371b04ff9009b7c33e2e211bd622f961d30ccc47cb45b579f314572dfee/MDAnalysis-2.0.0.tar.gz#sha256=aa3079d1a82305eba58cf567fac8fc231940184ed88f9a4451be8433f4a06d3e (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.6), version: 2.0.0 2022-03-08T11:28:12,899 Found link https://files.pythonhosted.org/packages/fd/5a/ff83875f292645f916cc3df339ce45b9f23a06183da51638efb6c593d2e6/MDAnalysis-2.1.0.tar.gz#sha256=6f94715e031a818220bc927f5535bf139dd659aab66cb248775c2d14c7ab6822 (from https://pypi.org/simple/mdanalysis/) (requires-python:>=3.7), version: 2.1.0 2022-03-08T11:28:12,900 Fetching project page and analyzing links: https://www.piwheels.org/simple/mdanalysis/ 2022-03-08T11:28:12,901 Getting page https://www.piwheels.org/simple/mdanalysis/ 2022-03-08T11:28:12,903 Found index url https://www.piwheels.org/simple 2022-03-08T11:28:13,206 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/) 2022-03-08T11:28:13,207 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/) 2022-03-08T11:28:13,208 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/) 2022-03-08T11:28:13,208 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/) 2022-03-08T11:28:13,209 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/) 2022-03-08T11:28:13,209 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/) 2022-03-08T11:28:13,210 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/) 2022-03-08T11:28:13,210 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/) 2022-03-08T11:28:13,211 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/) 2022-03-08T11:28:13,211 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/) 2022-03-08T11:28:13,212 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/) 2022-03-08T11:28:13,212 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/) 2022-03-08T11:28:13,213 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/) 2022-03-08T11:28:13,213 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/) 2022-03-08T11:28:13,214 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/) 2022-03-08T11:28:13,214 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/) 2022-03-08T11:28:13,215 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/) 2022-03-08T11:28:13,215 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/) 2022-03-08T11:28:13,216 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/) 2022-03-08T11:28:13,216 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/) 2022-03-08T11:28:13,217 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/) 2022-03-08T11:28:13,217 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/) 2022-03-08T11:28:13,218 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/) 2022-03-08T11:28:13,218 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/) 2022-03-08T11:28:13,219 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/) 2022-03-08T11:28:13,219 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/) 2022-03-08T11:28:13,219 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/) 2022-03-08T11:28:13,220 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/) 2022-03-08T11:28:13,220 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/) 2022-03-08T11:28:13,221 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/) 2022-03-08T11:28:13,221 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/) 2022-03-08T11:28:13,222 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/) 2022-03-08T11:28:13,222 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/) 2022-03-08T11:28:13,223 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/) 2022-03-08T11:28:13,223 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/) 2022-03-08T11:28:13,224 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/) 2022-03-08T11:28:13,224 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/) 2022-03-08T11:28:13,225 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/) 2022-03-08T11:28:13,225 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/) 2022-03-08T11:28:13,226 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/) 2022-03-08T11:28:13,226 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/) 2022-03-08T11:28:13,227 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/) 2022-03-08T11:28:13,227 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/) 2022-03-08T11:28:13,228 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/) 2022-03-08T11:28:13,228 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/) 2022-03-08T11:28:13,229 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/) 2022-03-08T11:28:13,229 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/) 2022-03-08T11:28:13,230 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/) 2022-03-08T11:28:13,230 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/) 2022-03-08T11:28:13,230 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/) 2022-03-08T11:28:13,231 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/) 2022-03-08T11:28:13,231 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/) 2022-03-08T11:28:13,232 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/) 2022-03-08T11:28:13,232 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/) 2022-03-08T11:28:13,233 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/) 2022-03-08T11:28:13,233 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/) 2022-03-08T11:28:13,234 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/) 2022-03-08T11:28:13,234 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/) 2022-03-08T11:28:13,235 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/) 2022-03-08T11:28:13,235 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/) 2022-03-08T11:28:13,236 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/) 2022-03-08T11:28:13,236 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/) 2022-03-08T11:28:13,237 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/) 2022-03-08T11:28:13,237 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/) 2022-03-08T11:28:13,238 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/) 2022-03-08T11:28:13,238 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/) 2022-03-08T11:28:13,239 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/) 2022-03-08T11:28:13,239 Skipping link: No binaries permitted for mdanalysis: 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https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.1-cp35-cp35m-linux_armv6l.whl#sha256=dafe9f34f8fc19527a5e2ebbe3080bfa1e89a5ceb160e8a52bf3ca2a9dce6442 (from https://www.piwheels.org/simple/mdanalysis/) 2022-03-08T11:28:13,241 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/) 2022-03-08T11:28:13,241 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/) 2022-03-08T11:28:13,242 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/) 2022-03-08T11:28:13,242 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/) 2022-03-08T11:28:13,243 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/) 2022-03-08T11:28:13,244 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/) 2022-03-08T11:28:13,244 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/) 2022-03-08T11:28:13,245 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/) 2022-03-08T11:28:13,245 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/) 2022-03-08T11:28:13,246 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/) 2022-03-08T11:28:13,246 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/) 2022-03-08T11:28:13,247 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/) 2022-03-08T11:28:13,247 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/) 2022-03-08T11:28:13,247 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) 2022-03-08T11:28:13,248 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) 2022-03-08T11:28:13,248 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) 2022-03-08T11:28:13,249 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) 2022-03-08T11:28:13,249 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) 2022-03-08T11:28:13,250 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) 2022-03-08T11:28:13,250 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) 2022-03-08T11:28:13,251 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) 2022-03-08T11:28:13,251 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) 2022-03-08T11:28:13,252 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) 2022-03-08T11:28:13,252 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/) 2022-03-08T11:28:13,253 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/) 2022-03-08T11:28:13,253 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/) 2022-03-08T11:28:13,254 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/) 2022-03-08T11:28:13,254 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) 2022-03-08T11:28:13,255 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) 2022-03-08T11:28:13,255 Skipping link: not a file: https://www.piwheels.org/simple/mdanalysis/ 2022-03-08T11:28:13,256 Skipping link: not a file: https://pypi.org/simple/mdanalysis/ 2022-03-08T11:28:13,310 Given no hashes to check 1 links for project 'mdanalysis': discarding no candidates 2022-03-08T11:28:13,352 Collecting mdanalysis==2.1.0 2022-03-08T11:28:13,356 Created temporary directory: /tmp/pip-unpack-imzf6380 2022-03-08T11:28:13,457 Downloading MDAnalysis-2.1.0.tar.gz (3.5 MB) 2022-03-08T11:28:16,951 Added mdanalysis==2.1.0 from https://files.pythonhosted.org/packages/fd/5a/ff83875f292645f916cc3df339ce45b9f23a06183da51638efb6c593d2e6/MDAnalysis-2.1.0.tar.gz#sha256=6f94715e031a818220bc927f5535bf139dd659aab66cb248775c2d14c7ab6822 to build tracker '/tmp/pip-req-tracker-rvd16opl' 2022-03-08T11:28:17,027 Created temporary directory: /tmp/pip-build-env-obvcf9jk 2022-03-08T11:28:17,048 Created temporary directory: /tmp/pip-standalone-pip-b6pyao2l 2022-03-08T11:28:19,372 Installing build dependencies: started 2022-03-08T11:28:19,374 Running command pip subprocess to install build dependencies 2022-03-08T11:28:30,974 Using pip 22.0.3 from /tmp/pip-standalone-pip-b6pyao2l/__env_pip__.zip/pip (python 3.9) 2022-03-08T11:28:32,442 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-03-08T11:28:32,446 Ignoring numpy: markers 'python_version == "3.7" and (platform_machine != "arm64" or platform_system != "Darwin") and platform_machine != "aarch64"' don't match your environment 2022-03-08T11:28:32,448 Ignoring numpy: markers 'python_version == "3.8" and (platform_machine != "arm64" or platform_system != "Darwin") and platform_machine != "aarch64"' don't match your environment 2022-03-08T11:28:32,452 Ignoring numpy: markers 'python_version == "3.10" and platform_python_implementation != "PyPy"' don't match your environment 2022-03-08T11:28:36,140 Collecting Cython>=0.28 2022-03-08T11:28:37,164 Using cached https://www.piwheels.org/simple/cython/Cython-0.29.28-cp39-cp39-linux_armv7l.whl (5.0 MB) 2022-03-08T11:28:38,016 Collecting packaging 2022-03-08T11:28:38,048 Using cached https://www.piwheels.org/simple/packaging/packaging-21.3-py3-none-any.whl (40 kB) 2022-03-08T11:28:41,478 Collecting numpy==1.19.3 2022-03-08T11:28:43,428 Using cached https://www.piwheels.org/simple/numpy/numpy-1.19.3-cp39-cp39-linux_armv7l.whl (10.5 MB) 2022-03-08T11:28:47,821 Collecting setuptools 2022-03-08T11:28:48,063 Using cached https://www.piwheels.org/simple/setuptools/setuptools-60.9.3-py3-none-any.whl (1.1 MB) 2022-03-08T11:28:48,704 Collecting wheel 2022-03-08T11:28:48,736 Using cached https://www.piwheels.org/simple/wheel/wheel-0.37.1-py2.py3-none-any.whl (35 kB) 2022-03-08T11:28:49,420 Collecting pyparsing!=3.0.5,>=2.0.2 2022-03-08T11:28:49,458 Using cached https://www.piwheels.org/simple/pyparsing/pyparsing-3.0.7-py3-none-any.whl (98 kB) 2022-03-08T11:28:53,131 Installing collected packages: wheel, setuptools, pyparsing, numpy, Cython, packaging 2022-03-08T11:28:53,428 Creating /tmp/pip-build-env-obvcf9jk/overlay/bin 2022-03-08T11:28:53,433 changing mode of /tmp/pip-build-env-obvcf9jk/overlay/bin/wheel to 755 2022-03-08T11:29:12,370 changing mode of /tmp/pip-build-env-obvcf9jk/overlay/bin/f2py to 755 2022-03-08T11:29:12,375 changing mode of /tmp/pip-build-env-obvcf9jk/overlay/bin/f2py3 to 755 2022-03-08T11:29:12,379 changing mode of /tmp/pip-build-env-obvcf9jk/overlay/bin/f2py3.9 to 755 2022-03-08T11:29:18,481 changing mode of /tmp/pip-build-env-obvcf9jk/overlay/bin/cygdb to 755 2022-03-08T11:29:18,485 changing mode of /tmp/pip-build-env-obvcf9jk/overlay/bin/cython to 755 2022-03-08T11:29:18,490 changing mode of /tmp/pip-build-env-obvcf9jk/overlay/bin/cythonize to 755 2022-03-08T11:29:18,804 Successfully installed Cython-0.29.28 numpy-1.19.3 packaging-21.3 pyparsing-3.0.7 setuptools-60.9.3 wheel-0.37.1 2022-03-08T11:29:18,996 WARNING: You are using pip version 22.0.3; however, version 22.0.4 is available. 2022-03-08T11:29:18,996 You should consider upgrading via the '/usr/bin/python3 -m pip install --upgrade pip' command. 2022-03-08T11:29:19,624 Installing build dependencies: finished with status 'done' 2022-03-08T11:29:19,670 Getting requirements to build wheel: started 2022-03-08T11:29:19,672 Running command Getting requirements to build wheel 2022-03-08T11:29:24,662 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2022-03-08T11:29:24,664 Will attempt to use Cython. 2022-03-08T11:29:25,032 Getting requirements to build wheel: finished with status 'done' 2022-03-08T11:29:25,065 Created temporary directory: /tmp/pip-modern-metadata-a2x6jsid 2022-03-08T11:29:25,070 Preparing metadata (pyproject.toml): started 2022-03-08T11:29:25,073 Running command Preparing metadata (pyproject.toml) 2022-03-08T11:29:29,430 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2022-03-08T11:29:29,431 Will attempt to use Cython. 2022-03-08T11:29:29,951 running dist_info 2022-03-08T11:29:29,982 creating /tmp/pip-modern-metadata-a2x6jsid/MDAnalysis.egg-info 2022-03-08T11:29:29,996 writing manifest file '/tmp/pip-modern-metadata-a2x6jsid/MDAnalysis.egg-info/SOURCES.txt' 2022-03-08T11:29:30,399 warning: no previously-included files matching 'doc/html/html' found anywhere in distribution 2022-03-08T11:29:30,403 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2022-03-08T11:29:30,406 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2022-03-08T11:29:30,409 warning: no previously-included files matching '*.pyd' found anywhere in distribution 2022-03-08T11:29:30,412 warning: no previously-included files matching '*~' found anywhere in distribution 2022-03-08T11:29:30,415 warning: no previously-included files matching '.git' found anywhere in distribution 2022-03-08T11:29:30,456 writing manifest file '/tmp/pip-modern-metadata-a2x6jsid/MDAnalysis.egg-info/SOURCES.txt' 2022-03-08T11:29:30,534 The [wheel] section is deprecated. Use [bdist_wheel] instead. 2022-03-08T11:29:30,902 Preparing metadata (pyproject.toml): finished with status 'done' 2022-03-08T11:29:30,917 Source in /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a has version 2.1.0, which satisfies requirement mdanalysis==2.1.0 from https://files.pythonhosted.org/packages/fd/5a/ff83875f292645f916cc3df339ce45b9f23a06183da51638efb6c593d2e6/MDAnalysis-2.1.0.tar.gz#sha256=6f94715e031a818220bc927f5535bf139dd659aab66cb248775c2d14c7ab6822 2022-03-08T11:29:30,920 Removed mdanalysis==2.1.0 from https://files.pythonhosted.org/packages/fd/5a/ff83875f292645f916cc3df339ce45b9f23a06183da51638efb6c593d2e6/MDAnalysis-2.1.0.tar.gz#sha256=6f94715e031a818220bc927f5535bf139dd659aab66cb248775c2d14c7ab6822 from build tracker '/tmp/pip-req-tracker-rvd16opl' 2022-03-08T11:29:30,934 Created temporary directory: /tmp/pip-unpack-lwr941yc 2022-03-08T11:29:30,935 Building wheels for collected packages: mdanalysis 2022-03-08T11:29:30,945 Created temporary directory: /tmp/pip-wheel-3rhf3ekf 2022-03-08T11:29:30,945 Destination directory: /tmp/pip-wheel-3rhf3ekf 2022-03-08T11:29:30,950 Building wheel for mdanalysis (pyproject.toml): started 2022-03-08T11:29:30,952 Running command Building wheel for mdanalysis (pyproject.toml) 2022-03-08T11:29:35,316 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2022-03-08T11:29:35,318 Will attempt to use Cython. 2022-03-08T11:29:35,904 running bdist_wheel 2022-03-08T11:29:35,908 The [wheel] section is deprecated. Use [bdist_wheel] instead. 2022-03-08T11:29:35,913 running build 2022-03-08T11:29:35,914 running build_py 2022-03-08T11:29:35,922 creating build 2022-03-08T11:29:35,923 creating build/lib.linux-armv7l-3.9 2022-03-08T11:29:35,924 creating build/lib.linux-armv7l-3.9/MDAnalysis 2022-03-08T11:29:35,926 copying MDAnalysis/exceptions.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2022-03-08T11:29:35,930 copying MDAnalysis/version.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2022-03-08T11:29:35,934 copying MDAnalysis/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2022-03-08T11:29:35,938 copying MDAnalysis/units.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2022-03-08T11:29:35,943 copying MDAnalysis/due.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2022-03-08T11:29:35,946 copying MDAnalysis/authors.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2022-03-08T11:29:35,950 creating build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2022-03-08T11:29:35,952 copying MDAnalysis/auxiliary/XVG.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2022-03-08T11:29:35,957 copying MDAnalysis/auxiliary/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2022-03-08T11:29:35,963 copying MDAnalysis/auxiliary/core.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2022-03-08T11:29:35,966 copying MDAnalysis/auxiliary/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2022-03-08T11:29:35,972 creating build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:35,974 copying MDAnalysis/lib/mdamath.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:35,979 copying MDAnalysis/lib/log.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:35,984 copying MDAnalysis/lib/NeighborSearch.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:35,988 copying MDAnalysis/lib/util.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:35,996 copying MDAnalysis/lib/correlations.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:36,000 copying MDAnalysis/lib/distances.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:36,007 copying MDAnalysis/lib/picklable_file_io.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:36,012 copying MDAnalysis/lib/transformations.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:36,020 copying MDAnalysis/lib/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:36,024 copying MDAnalysis/lib/pkdtree.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:36,029 creating build/lib.linux-armv7l-3.9/MDAnalysis/tests 2022-03-08T11:29:36,031 copying MDAnalysis/tests/datafiles.py -> build/lib.linux-armv7l-3.9/MDAnalysis/tests 2022-03-08T11:29:36,034 copying MDAnalysis/tests/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/tests 2022-03-08T11:29:36,042 creating build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,044 copying MDAnalysis/coordinates/chain.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,049 copying MDAnalysis/coordinates/CRD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,054 copying MDAnalysis/coordinates/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,063 copying MDAnalysis/coordinates/NAMDBIN.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,067 copying MDAnalysis/coordinates/TRJ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,074 copying MDAnalysis/coordinates/DLPoly.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,078 copying MDAnalysis/coordinates/XTC.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,082 copying MDAnalysis/coordinates/core.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,086 copying MDAnalysis/coordinates/ParmEd.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,089 copying MDAnalysis/coordinates/TXYZ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,094 copying MDAnalysis/coordinates/LAMMPS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,099 copying MDAnalysis/coordinates/XYZ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,104 copying MDAnalysis/coordinates/chemfiles.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,108 copying MDAnalysis/coordinates/GSD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,112 copying MDAnalysis/coordinates/PDBQT.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,117 copying MDAnalysis/coordinates/PDB.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,124 copying MDAnalysis/coordinates/H5MD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,130 copying MDAnalysis/coordinates/DMS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,135 copying MDAnalysis/coordinates/INPCRD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,138 copying MDAnalysis/coordinates/TRZ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,143 copying MDAnalysis/coordinates/FHIAIMS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,147 copying MDAnalysis/coordinates/PQR.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,151 copying MDAnalysis/coordinates/XDR.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,156 copying MDAnalysis/coordinates/null.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,159 copying MDAnalysis/coordinates/MMTF.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,163 copying MDAnalysis/coordinates/memory.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,168 copying MDAnalysis/coordinates/GRO.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,173 copying MDAnalysis/coordinates/TRR.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,177 copying MDAnalysis/coordinates/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,183 copying MDAnalysis/coordinates/GMS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,188 copying MDAnalysis/coordinates/DCD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,193 copying MDAnalysis/coordinates/MOL2.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2022-03-08T11:29:36,199 creating build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,201 copying MDAnalysis/core/accessors.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,206 copying MDAnalysis/core/selection.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,212 copying MDAnalysis/core/topologyattrs.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,222 copying MDAnalysis/core/_get_readers.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,226 copying MDAnalysis/core/topology.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,232 copying MDAnalysis/core/universe.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,239 copying MDAnalysis/core/topologyobjects.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,245 copying MDAnalysis/core/groups.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,258 copying MDAnalysis/core/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2022-03-08T11:29:36,265 creating build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,267 copying MDAnalysis/topology/PDBQTParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,271 copying MDAnalysis/topology/TOPParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,276 copying MDAnalysis/topology/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,280 copying MDAnalysis/topology/TPRParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,285 copying MDAnalysis/topology/LAMMPSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,289 copying MDAnalysis/topology/DMSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,294 copying MDAnalysis/topology/PDBParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,298 copying MDAnalysis/topology/core.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,302 copying MDAnalysis/topology/XYZParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,305 copying MDAnalysis/topology/MinimalParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,309 copying MDAnalysis/topology/MOL2Parser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,313 copying MDAnalysis/topology/DLPolyParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,317 copying MDAnalysis/topology/tables.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,322 copying MDAnalysis/topology/ITPParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,327 copying MDAnalysis/topology/ParmEdParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,330 copying MDAnalysis/topology/MMTFParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,335 copying MDAnalysis/topology/CRDParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,339 copying MDAnalysis/topology/PQRParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,343 copying MDAnalysis/topology/ExtendedPDBParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,346 copying MDAnalysis/topology/guessers.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,351 copying MDAnalysis/topology/FHIAIMSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,354 copying MDAnalysis/topology/GROParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,358 copying MDAnalysis/topology/HoomdXMLParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,362 copying MDAnalysis/topology/GSDParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,366 copying MDAnalysis/topology/PSFParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,370 copying MDAnalysis/topology/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,375 copying MDAnalysis/topology/GMSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,378 copying MDAnalysis/topology/TXYZParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2022-03-08T11:29:36,383 creating build/lib.linux-armv7l-3.9/MDAnalysis/selections 2022-03-08T11:29:36,385 copying MDAnalysis/selections/pymol.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2022-03-08T11:29:36,389 copying MDAnalysis/selections/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2022-03-08T11:29:36,393 copying MDAnalysis/selections/gromacs.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2022-03-08T11:29:36,396 copying MDAnalysis/selections/charmm.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2022-03-08T11:29:36,400 copying MDAnalysis/selections/jmol.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2022-03-08T11:29:36,403 copying MDAnalysis/selections/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2022-03-08T11:29:36,406 copying MDAnalysis/selections/vmd.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2022-03-08T11:29:36,411 creating build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2022-03-08T11:29:36,412 copying MDAnalysis/visualization/streamlines_3D.py -> build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2022-03-08T11:29:36,418 copying MDAnalysis/visualization/streamlines.py -> build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2022-03-08T11:29:36,423 copying MDAnalysis/visualization/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2022-03-08T11:29:36,427 creating build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2022-03-08T11:29:36,429 copying MDAnalysis/transformations/rotate.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2022-03-08T11:29:36,433 copying MDAnalysis/transformations/boxdimensions.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2022-03-08T11:29:36,437 copying MDAnalysis/transformations/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2022-03-08T11:29:36,441 copying MDAnalysis/transformations/fit.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2022-03-08T11:29:36,445 copying MDAnalysis/transformations/positionaveraging.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2022-03-08T11:29:36,449 copying MDAnalysis/transformations/wrap.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2022-03-08T11:29:36,453 copying MDAnalysis/transformations/translate.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2022-03-08T11:29:36,457 copying MDAnalysis/transformations/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2022-03-08T11:29:36,463 creating build/lib.linux-armv7l-3.9/MDAnalysis/converters 2022-03-08T11:29:36,464 copying MDAnalysis/converters/OpenMMParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2022-03-08T11:29:36,469 copying MDAnalysis/converters/RDKit.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2022-03-08T11:29:36,474 copying MDAnalysis/converters/ParmEd.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2022-03-08T11:29:36,479 copying MDAnalysis/converters/RDKitParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2022-03-08T11:29:36,483 copying MDAnalysis/converters/ParmEdParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2022-03-08T11:29:36,487 copying MDAnalysis/converters/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2022-03-08T11:29:36,490 copying MDAnalysis/converters/OpenMM.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2022-03-08T11:29:36,498 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,499 copying MDAnalysis/analysis/lineardensity.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,504 copying MDAnalysis/analysis/dielectric.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,508 copying MDAnalysis/analysis/msd.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,512 copying MDAnalysis/analysis/dihedrals.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,518 copying MDAnalysis/analysis/psa.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,526 copying MDAnalysis/analysis/density.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,531 copying MDAnalysis/analysis/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,535 copying MDAnalysis/analysis/align.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,542 copying MDAnalysis/analysis/helix_analysis.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,547 copying MDAnalysis/analysis/waterdynamics.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,552 copying MDAnalysis/analysis/distances.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,556 copying MDAnalysis/analysis/gnm.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,561 copying MDAnalysis/analysis/diffusionmap.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,565 copying MDAnalysis/analysis/leaflet.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,569 copying MDAnalysis/analysis/bat.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,574 copying MDAnalysis/analysis/rms.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,580 copying MDAnalysis/analysis/pca.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,585 copying MDAnalysis/analysis/nuclinfo.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,589 copying MDAnalysis/analysis/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,593 copying MDAnalysis/analysis/rdf.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,597 copying MDAnalysis/analysis/contacts.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,602 copying MDAnalysis/analysis/polymer.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:29:36,607 creating build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats 2022-03-08T11:29:36,608 copying MDAnalysis/lib/formats/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats 2022-03-08T11:29:36,613 creating build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2022-03-08T11:29:36,614 copying MDAnalysis/topology/tpr/setting.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2022-03-08T11:29:36,619 copying MDAnalysis/topology/tpr/utils.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2022-03-08T11:29:36,624 copying MDAnalysis/topology/tpr/obj.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2022-03-08T11:29:36,628 copying MDAnalysis/topology/tpr/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2022-03-08T11:29:36,633 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2022-03-08T11:29:36,634 copying MDAnalysis/analysis/encore/similarity.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2022-03-08T11:29:36,641 copying MDAnalysis/analysis/encore/utils.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2022-03-08T11:29:36,645 copying MDAnalysis/analysis/encore/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2022-03-08T11:29:36,649 copying MDAnalysis/analysis/encore/covariance.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2022-03-08T11:29:36,653 copying MDAnalysis/analysis/encore/confdistmatrix.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2022-03-08T11:29:36,658 copying MDAnalysis/analysis/encore/bootstrap.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2022-03-08T11:29:36,662 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy 2022-03-08T11:29:36,664 copying MDAnalysis/analysis/legacy/x3dna.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy 2022-03-08T11:29:36,669 copying MDAnalysis/analysis/legacy/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy 2022-03-08T11:29:36,674 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2022-03-08T11:29:36,675 copying MDAnalysis/analysis/data/filenames.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2022-03-08T11:29:36,679 copying MDAnalysis/analysis/data/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2022-03-08T11:29:36,683 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2022-03-08T11:29:36,685 copying MDAnalysis/analysis/hole2/hole.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2022-03-08T11:29:36,692 copying MDAnalysis/analysis/hole2/utils.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2022-03-08T11:29:36,697 copying MDAnalysis/analysis/hole2/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2022-03-08T11:29:36,700 copying MDAnalysis/analysis/hole2/templates.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2022-03-08T11:29:36,705 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2022-03-08T11:29:36,706 copying MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2022-03-08T11:29:36,710 copying MDAnalysis/analysis/hbonds/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2022-03-08T11:29:36,714 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2022-03-08T11:29:36,716 copying MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2022-03-08T11:29:36,721 copying MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2022-03-08T11:29:36,729 copying MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2022-03-08T11:29:36,735 copying MDAnalysis/analysis/hydrogenbonds/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2022-03-08T11:29:36,739 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2022-03-08T11:29:36,740 copying MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2022-03-08T11:29:36,745 copying MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2022-03-08T11:29:36,748 copying MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2022-03-08T11:29:36,753 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2022-03-08T11:29:36,754 copying MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2022-03-08T11:29:36,759 copying MDAnalysis/analysis/encore/clustering/cluster.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2022-03-08T11:29:36,764 copying MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2022-03-08T11:29:36,767 copying MDAnalysis/analysis/encore/clustering/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2022-03-08T11:29:36,776 copying MDAnalysis/analysis/data/janin_ref_data.npy -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2022-03-08T11:29:36,781 copying MDAnalysis/analysis/data/rama_ref_data.npy -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2022-03-08T11:29:36,824 running build_ext 2022-03-08T11:29:36,830 creating build/temp.linux-armv7l-3.9 2022-03-08T11:29:36,830 creating build/temp.linux-armv7l-3.9/MDAnalysis 2022-03-08T11:29:36,831 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib 2022-03-08T11:29:36,832 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats 2022-03-08T11:29:36,834 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-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include -I/usr/include/python3.9 -c MDAnalysis/lib/formats/libdcd.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/libdcd.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:29:36,898 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:29:37,643 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:29:37,644 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:29:37,644 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:29:37,645 from MDAnalysis/lib/formats/libdcd.c:720: 2022-03-08T11:29:37,645 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:29:37,645 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:29:37,646 | ^~~~~~~ 2022-03-08T11:29:37,783 In file included from MDAnalysis/lib/formats/libdcd.c:732: 2022-03-08T11:29:37,783 MDAnalysis/lib/formats/include/readdcd.h: In function ‘read_dcdstep’: 2022-03-08T11:29:37,784 MDAnalysis/lib/formats/include/readdcd.h:562:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-03-08T11:29:37,784 562 | if (tmpbuf[i] != sizeof(float)*N) return DCD_BADFORMAT; 2022-03-08T11:29:37,784 | ^~ 2022-03-08T11:29:37,791 MDAnalysis/lib/formats/include/readdcd.h: In function ‘write_dcdheader’: 2022-03-08T11:29:37,791 MDAnalysis/lib/formats/include/readdcd.h:698:14: warning: unused variable ‘tmbuf’ [-Wunused-variable] 2022-03-08T11:29:37,792 698 | struct tm *tmbuf; 2022-03-08T11:29:37,792 | ^~~~~ 2022-03-08T11:29:37,792 MDAnalysis/lib/formats/include/readdcd.h:697:10: warning: unused variable ‘cur_time’ [-Wunused-variable] 2022-03-08T11:29:37,793 697 | time_t cur_time; 2022-03-08T11:29:37,793 | ^~~~~~~~ 2022-03-08T11:29:43,231 In file included from MDAnalysis/lib/formats/include/readdcd.h:25, 2022-03-08T11:29:43,231 from MDAnalysis/lib/formats/libdcd.c:732: 2022-03-08T11:29:43,232 At top level: 2022-03-08T11:29:43,232 MDAnalysis/lib/formats/include/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function] 2022-03-08T11:29:43,233 96 | static void swap2_aligned(void *v, long ndata) { 2022-03-08T11:29:43,233 | ^~~~~~~~~~~~~ 2022-03-08T11:29:43,234 MDAnalysis/lib/formats/include/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function] 2022-03-08T11:29:43,234 32 | static void swap2_unaligned(void *v, long ndata) { 2022-03-08T11:29:43,234 | ^~~~~~~~~~~~~~~ 2022-03-08T11:29:43,235 In file included from MDAnalysis/lib/formats/libdcd.c:731: 2022-03-08T11:29:43,235 MDAnalysis/lib/formats/include/fastio.h:453:12: warning: ‘fio_write_str’ defined but not used [-Wunused-function] 2022-03-08T11:29:43,235 453 | static int fio_write_str(fio_fd fd, const char *str) { 2022-03-08T11:29:43,236 | ^~~~~~~~~~~~~ 2022-03-08T11:29:43,236 MDAnalysis/lib/formats/include/fastio.h:449:12: warning: ‘fio_read_int32’ defined but not used [-Wunused-function] 2022-03-08T11:29:43,236 449 | static int fio_read_int32(fio_fd fd, int *i) { 2022-03-08T11:29:43,237 | ^~~~~~~~~~~~~~ 2022-03-08T11:30:59,936 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/libdcd.o -L/usr/lib -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/libdcd.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:31:00,429 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include -I/usr/include/python3.9 -c MDAnalysis/lib/c_distances.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/c_distances.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:31:00,499 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:31:01,241 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:31:01,241 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:31:01,242 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:31:01,242 from MDAnalysis/lib/c_distances.c:722: 2022-03-08T11:31:01,243 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:31:01,243 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:31:01,243 | ^~~~~~~ 2022-03-08T11:32:11,173 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/c_distances.o -L/usr/lib -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/c_distances.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:32:11,664 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include -I/usr/include/python3.9 -c MDAnalysis/lib/c_distances_openmp.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/c_distances_openmp.o -fopenmp -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:32:11,726 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:32:12,452 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:32:12,453 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:32:12,453 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:32:12,453 from MDAnalysis/lib/c_distances_openmp.c:733: 2022-03-08T11:32:12,454 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:32:12,454 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:32:12,455 | ^~~~~~~ 2022-03-08T11:32:25,876 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/c_distances_openmp.o -L/usr/lib -lm -lgomp -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/c_distances_openmp.cpython-39-arm-linux-gnueabihf.so -fopenmp 2022-03-08T11:32:26,201 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/qcprot.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/qcprot.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:32:26,256 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:32:26,941 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:32:26,941 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:32:26,942 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:32:26,942 from MDAnalysis/lib/qcprot.c:716: 2022-03-08T11:32:26,942 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:32:26,943 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:32:26,943 | ^~~~~~~ 2022-03-08T11:32:27,072 MDAnalysis/lib/qcprot.c: In function ‘__pyx_pf_10MDAnalysis_3lib_6qcprot_InnerProduct’: 2022-03-08T11:32:27,075 MDAnalysis/lib/qcprot.c:2320:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-08T11:32:27,075 2320 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2022-03-08T11:32:27,075 | ^ 2022-03-08T11:32:27,084 MDAnalysis/lib/qcprot.c:2528:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-08T11:32:27,085 2528 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2022-03-08T11:32:27,085 | ^ 2022-03-08T11:32:40,485 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/qcprot.o -L/usr/lib -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/qcprot.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:32:40,762 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/src 2022-03-08T11:32:40,763 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/src/transformations 2022-03-08T11:32:40,765 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/src/transformations/transformations.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/src/transformations/transformations.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:32:40,820 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:32:41,507 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:32:41,508 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:32:41,508 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:32:41,508 from MDAnalysis/lib/src/transformations/transformations.c:73: 2022-03-08T11:32:41,509 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:32:41,509 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:32:41,509 | ^~~~~~~ 2022-03-08T11:32:41,662 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_superimposition_matrix’: 2022-03-08T11:32:41,663 MDAnalysis/lib/src/transformations/transformations.c:1845: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-03-08T11:32:41,664 1845 | #pragma vector always 2022-03-08T11:32:41,664 | 2022-03-08T11:32:41,671 MDAnalysis/lib/src/transformations/transformations.c:1962: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-03-08T11:32:41,671 1962 | #pragma vector always 2022-03-08T11:32:41,672 | 2022-03-08T11:32:41,674 MDAnalysis/lib/src/transformations/transformations.c:1986: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-03-08T11:32:41,674 1986 | #pragma vector always 2022-03-08T11:32:41,675 | 2022-03-08T11:32:41,684 MDAnalysis/lib/src/transformations/transformations.c: In function ‘axis2tuple’: 2022-03-08T11:32:41,688 MDAnalysis/lib/src/transformations/transformations.c:2122:5: warning: ‘PyUnicode_GetSize’ is deprecated [-Wdeprecated-declarations] 2022-03-08T11:32:41,688 2122 | if (PyUnicode_Check(axes) && (PyUnicode_GetSize(axes) == 4)) { 2022-03-08T11:32:41,689 | ^~ 2022-03-08T11:32:41,690 In file included from /usr/include/python3.9/Python.h:97, 2022-03-08T11:32:41,691 from MDAnalysis/lib/src/transformations/transformations.c:68: 2022-03-08T11:32:41,691 /usr/include/python3.9/unicodeobject.h:177:43: note: declared here 2022-03-08T11:32:41,691 177 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_ssize_t) PyUnicode_GetSize( 2022-03-08T11:32:41,691 | ^~~~~~~~~~~~~~~~~ 2022-03-08T11:32:41,788 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_vector_norm’: 2022-03-08T11:32:41,789 MDAnalysis/lib/src/transformations/transformations.c:3427: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-03-08T11:32:41,790 3427 | #pragma vector always 2022-03-08T11:32:41,790 | 2022-03-08T11:32:41,797 MDAnalysis/lib/src/transformations/transformations.c:3508: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-03-08T11:32:41,797 3508 | #pragma vector always 2022-03-08T11:32:41,798 | 2022-03-08T11:32:41,811 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_unit_vector’: 2022-03-08T11:32:41,813 MDAnalysis/lib/src/transformations/transformations.c:3610: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-03-08T11:32:41,813 3610 | #pragma vector always 2022-03-08T11:32:41,814 | 2022-03-08T11:32:41,816 MDAnalysis/lib/src/transformations/transformations.c:3615: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-03-08T11:32:41,816 3615 | #pragma vector always 2022-03-08T11:32:41,816 | 2022-03-08T11:32:41,826 MDAnalysis/lib/src/transformations/transformations.c:3679: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-03-08T11:32:41,826 3679 | #pragma vector always 2022-03-08T11:32:41,827 | 2022-03-08T11:32:41,829 MDAnalysis/lib/src/transformations/transformations.c:3684: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2022-03-08T11:32:41,829 3684 | #pragma vector always 2022-03-08T11:32:41,829 | 2022-03-08T11:32:41,995 At top level: 2022-03-08T11:32:41,997 MDAnalysis/lib/src/transformations/transformations.c:910:1: warning: ‘PyConverter_DoubleVector4Copy’ defined but not used [-Wunused-function] 2022-03-08T11:32:41,998 910 | PyConverter_DoubleVector4Copy( 2022-03-08T11:32:41,998 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:32:42,000 MDAnalysis/lib/src/transformations/transformations.c:804:1: warning: ‘PyConverter_DoubleArrayOrNone’ defined but not used [-Wunused-function] 2022-03-08T11:32:42,000 804 | PyConverter_DoubleArrayOrNone( 2022-03-08T11:32:42,000 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:32:42,002 MDAnalysis/lib/src/transformations/transformations.c:774:1: warning: ‘PyConverter_DoubleArray’ defined but not used [-Wunused-function] 2022-03-08T11:32:42,002 774 | PyConverter_DoubleArray( 2022-03-08T11:32:42,003 | ^~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:32:55,702 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/src/transformations/transformations.o -L/usr/lib -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/_transformations.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:32:55,972 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src 2022-03-08T11:32:55,975 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-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/libmdaxdr.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/libmdaxdr.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:32:56,041 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:32:56,739 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:32:56,740 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:32:56,740 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:32:56,741 from MDAnalysis/lib/formats/libmdaxdr.c:743: 2022-03-08T11:32:56,741 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:32:56,742 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:32:56,742 | ^~~~~~~ 2022-03-08T11:32:56,823 In file included from MDAnalysis/lib/formats/libmdaxdr.c:752: 2022-03-08T11:32:56,824 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:32:56,824 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:32:56,824 | 2022-03-08T11:32:56,827 In file included from MDAnalysis/lib/formats/libmdaxdr.c:753: 2022-03-08T11:32:56,827 MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:32:56,828 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:32:56,828 | 2022-03-08T11:32:56,828 In file included from MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2022-03-08T11:32:56,829 from MDAnalysis/lib/formats/libmdaxdr.c:753: 2022-03-08T11:32:56,829 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:32:56,830 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:32:56,830 | 2022-03-08T11:32:56,830 In file included from MDAnalysis/lib/formats/libmdaxdr.c:754: 2022-03-08T11:32:56,831 MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:32:56,831 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:32:56,831 | 2022-03-08T11:34:09,576 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-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/trr_seek.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/trr_seek.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:34:09,637 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:34:09,764 In file included from MDAnalysis/lib/formats/src/trr_seek.c:30: 2022-03-08T11:34:09,764 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:09,764 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:09,765 | 2022-03-08T11:34:09,777 In file included from MDAnalysis/lib/formats/src/trr_seek.c:31: 2022-03-08T11:34:09,777 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:09,778 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:09,778 | 2022-03-08T11:34:09,779 In file included from /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile_trr.h:42, 2022-03-08T11:34:09,780 from MDAnalysis/lib/formats/src/trr_seek.c:31: 2022-03-08T11:34:09,780 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:09,780 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:09,781 | 2022-03-08T11:34:09,787 MDAnalysis/lib/formats/src/trr_seek.c: In function ‘read_trr_n_frames’: 2022-03-08T11:34:09,788 MDAnalysis/lib/formats/src/trr_seek.c:39:27: warning: unused variable ‘totalframebytes’ [-Wunused-variable] 2022-03-08T11:34:09,789 39 | int result, framebytes, totalframebytes; 2022-03-08T11:34:09,789 | ^~~~~~~~~~~~~~~ 2022-03-08T11:34:09,789 MDAnalysis/lib/formats/src/trr_seek.c:38:15: warning: unused variable ‘lambda’ [-Wunused-variable] 2022-03-08T11:34:09,790 38 | float time, lambda; 2022-03-08T11:34:09,790 | ^~~~~~ 2022-03-08T11:34:09,790 MDAnalysis/lib/formats/src/trr_seek.c:38:9: warning: unused variable ‘time’ [-Wunused-variable] 2022-03-08T11:34:09,791 38 | float time, lambda; 2022-03-08T11:34:09,791 | ^~~~ 2022-03-08T11:34:10,040 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-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/xdrfile.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/xdrfile.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:34:10,094 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:34:10,331 In file included from MDAnalysis/lib/formats/src/xdrfile.c:62: 2022-03-08T11:34:10,331 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:10,332 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:10,332 | 2022-03-08T11:34:10,351 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘sizeofint’: 2022-03-08T11:34:10,352 MDAnalysis/lib/formats/src/xdrfile.c:501:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-03-08T11:34:10,352 501 | while (size >= num && num_of_bits < 32) 2022-03-08T11:34:10,353 | ^~ 2022-03-08T11:34:10,353 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘sizeofints’: 2022-03-08T11:34:10,354 MDAnalysis/lib/formats/src/xdrfile.c:547:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-08T11:34:10,354 547 | while (bytes[num_of_bytes] >= num) 2022-03-08T11:34:10,354 | ^~ 2022-03-08T11:34:10,356 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘encodeints’: 2022-03-08T11:34:10,356 MDAnalysis/lib/formats/src/xdrfile.c:656:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-03-08T11:34:10,357 656 | if (num_of_bits >= num_of_bytes * 8) 2022-03-08T11:34:10,357 | ^~ 2022-03-08T11:34:10,357 MDAnalysis/lib/formats/src/xdrfile.c:658:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-03-08T11:34:10,358 658 | for (i = 0; i < num_of_bytes; i++) 2022-03-08T11:34:10,358 | ^ 2022-03-08T11:34:10,358 MDAnalysis/lib/formats/src/xdrfile.c:666:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-03-08T11:34:10,359 666 | for (i = 0; i < num_of_bytes-1; i++) 2022-03-08T11:34:10,359 | ^ 2022-03-08T11:34:10,359 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘decodebits’: 2022-03-08T11:34:10,360 MDAnalysis/lib/formats/src/xdrfile.c:706:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-08T11:34:10,360 706 | if (lastbits < num_of_bits) 2022-03-08T11:34:10,360 | ^ 2022-03-08T11:34:10,363 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2022-03-08T11:34:10,364 MDAnalysis/lib/formats/src/xdrfile.c:816:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-08T11:34:10,364 816 | if(size3>xfp->buf1size) 2022-03-08T11:34:10,365 | ^ 2022-03-08T11:34:10,367 MDAnalysis/lib/formats/src/xdrfile.c:868:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-08T11:34:10,368 868 | maxidx = (LASTIDXxfp->buf1size) 2022-03-08T11:34:10,377 | ^ 2022-03-08T11:34:10,387 MDAnalysis/lib/formats/src/xdrfile.c:1135:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-03-08T11:34:10,387 1135 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2022-03-08T11:34:10,388 | ^ 2022-03-08T11:34:10,388 MDAnalysis/lib/formats/src/xdrfile.c:1141:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-08T11:34:10,389 1141 | maxidx = (LASTIDXxfp->buf1size) 2022-03-08T11:34:10,402 | ^ 2022-03-08T11:34:10,406 MDAnalysis/lib/formats/src/xdrfile.c:1368:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-08T11:34:10,406 1368 | maxidx = (LASTIDXxfp->buf1size) { 2022-03-08T11:34:10,419 | ^ 2022-03-08T11:34:10,434 MDAnalysis/lib/formats/src/xdrfile.c:1619:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-03-08T11:34:10,434 1619 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2022-03-08T11:34:10,434 | ^ 2022-03-08T11:34:10,436 MDAnalysis/lib/formats/src/xdrfile.c:1624:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-03-08T11:34:10,436 1624 | maxidx = (LASTIDX maxsize) 2022-03-08T11:34:14,461 | ^ 2022-03-08T11:34:14,463 MDAnalysis/lib/formats/src/xdrfile.c:2335:15: note: ‘size’ was declared here 2022-03-08T11:34:14,463 2335 | unsigned int size; 2022-03-08T11:34:14,464 | ^~~~ 2022-03-08T11:34:15,507 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_compress_coord_float’: 2022-03-08T11:34:15,508 MDAnalysis/lib/formats/src/xdrfile.c:1157:21: warning: ‘prevcoord[2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-03-08T11:34:15,509 1157 | abs(thiscoord[2] - prevcoord[2]) < larger) { 2022-03-08T11:34:15,509 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-03-08T11:34:15,510 MDAnalysis/lib/formats/src/xdrfile.c:1156:21: warning: ‘prevcoord[1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-03-08T11:34:15,510 1156 | abs(thiscoord[1] - prevcoord[1]) < larger && 2022-03-08T11:34:15,510 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-03-08T11:34:15,511 MDAnalysis/lib/formats/src/xdrfile.c:1155:21: warning: ‘prevcoord[0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-03-08T11:34:15,512 1155 | abs(thiscoord[0] - prevcoord[0]) < larger && 2022-03-08T11:34:15,512 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-03-08T11:34:17,334 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_compress_coord_double’: 2022-03-08T11:34:17,336 MDAnalysis/lib/formats/src/xdrfile.c:1639:21: warning: ‘prevcoord[2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-03-08T11:34:17,336 1639 | abs(thiscoord[2] - prevcoord[2]) < larger) { 2022-03-08T11:34:17,336 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-03-08T11:34:17,338 MDAnalysis/lib/formats/src/xdrfile.c:1638:21: warning: ‘prevcoord[1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-03-08T11:34:17,338 1638 | abs(thiscoord[1] - prevcoord[1]) < larger && 2022-03-08T11:34:17,338 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-03-08T11:34:17,340 MDAnalysis/lib/formats/src/xdrfile.c:1637:21: warning: ‘prevcoord[0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2022-03-08T11:34:17,340 1637 | abs(thiscoord[0] - prevcoord[0]) < larger && 2022-03-08T11:34:17,340 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2022-03-08T11:34:19,775 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-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/xdrfile_trr.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/xdrfile_trr.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:34:19,828 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:34:19,946 In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:38: 2022-03-08T11:34:19,947 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:19,947 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:19,947 | 2022-03-08T11:34:19,956 In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:39: 2022-03-08T11:34:19,956 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:19,957 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:19,957 | 2022-03-08T11:34:19,957 In file included from /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile_trr.h:42, 2022-03-08T11:34:19,958 from MDAnalysis/lib/formats/src/xdrfile_trr.c:39: 2022-03-08T11:34:19,958 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:19,958 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:19,959 | 2022-03-08T11:34:19,960 MDAnalysis/lib/formats/src/xdrfile_trr.c: In function ‘do_trnheader’: 2022-03-08T11:34:19,961 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] 2022-03-08T11:34:19,961 78 | if (slen != strlen(version) + 1) 2022-03-08T11:34:19,962 | ^~ 2022-03-08T11:34:19,962 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] 2022-03-08T11:34:19,962 86 | if (xdrfile_write_string(version, xd) != (strlen(version) + 1)) 2022-03-08T11:34:19,963 | ^~ 2022-03-08T11:34:20,000 MDAnalysis/lib/formats/src/xdrfile_trr.c: In function ‘write_trr’: 2022-03-08T11:34:20,000 MDAnalysis/lib/formats/src/xdrfile_trr.c:408:10: warning: ‘plcholder’ is used uninitialized in this function [-Wuninitialized] 2022-03-08T11:34:20,000 408 | return do_trn(xd, 0, &step, &t, &lambda, box, &natoms, x, v, f, plcholder); 2022-03-08T11:34:20,001 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:34:22,572 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-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/xdrfile_xtc.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/xdrfile_xtc.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:34:22,624 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:34:22,681 In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:30: 2022-03-08T11:34:22,682 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:22,682 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:22,682 | 2022-03-08T11:34:22,707 In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:31: 2022-03-08T11:34:22,708 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:22,708 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:22,708 | 2022-03-08T11:34:22,709 In file included from /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2022-03-08T11:34:22,709 from MDAnalysis/lib/formats/src/xdrfile_xtc.c:31: 2022-03-08T11:34:22,709 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:22,710 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:22,710 | 2022-03-08T11:34:22,993 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-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats -I/usr/include/python3.9 -c MDAnalysis/lib/formats/src/xtc_seek.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/xtc_seek.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:34:23,046 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:34:23,101 In file included from MDAnalysis/lib/formats/src/xtc_seek.c:25: 2022-03-08T11:34:23,102 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:23,102 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:23,102 | 2022-03-08T11:34:23,127 In file included from MDAnalysis/lib/formats/src/xtc_seek.c:26: 2022-03-08T11:34:23,127 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:23,127 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:23,128 | 2022-03-08T11:34:23,128 In file included from /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2022-03-08T11:34:23,128 from MDAnalysis/lib/formats/src/xtc_seek.c:26: 2022-03-08T11:34:23,129 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-03-08T11:34:23,129 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-03-08T11:34:23,129 | 2022-03-08T11:34:23,501 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/libmdaxdr.o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/trr_seek.o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/xdrfile.o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/xdrfile_trr.o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/xdrfile_xtc.o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src/xtc_seek.o -L/usr/lib -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/libmdaxdr.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:34:24,019 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/formats/cython_util.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/cython_util.o -std=c99 -ffast-math -O3 -funroll-loops -fsigned-zeros 2022-03-08T11:34:24,080 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:34:24,772 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:34:24,772 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:34:24,773 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:34:24,773 from MDAnalysis/lib/formats/cython_util.c:716: 2022-03-08T11:34:24,773 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:34:24,774 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:34:24,774 | ^~~~~~~ 2022-03-08T11:35:03,805 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/cython_util.o -L/usr/lib -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/cython_util.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:35:04,159 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis 2022-03-08T11:35:04,160 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore 2022-03-08T11:35:04,162 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/analysis/encore/cutils.c -o build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/cutils.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-03-08T11:35:04,218 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:35:04,890 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:35:04,890 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:35:04,891 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:35:04,891 from MDAnalysis/analysis/encore/cutils.c:716: 2022-03-08T11:35:04,892 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:35:04,892 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:35:04,892 | ^~~~~~~ 2022-03-08T11:35:10,799 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/cutils.o -L/usr/lib -o build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/cutils.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:35:11,044 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2022-03-08T11:35:11,047 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/src 2022-03-08T11:35:11,049 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 -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/analysis/encore/clustering/include -I/usr/include/python3.9 -c MDAnalysis/analysis/encore/clustering/affinityprop.c -o build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/affinityprop.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-03-08T11:35:11,111 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:35:11,811 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:35:11,811 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:35:11,812 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:35:11,812 from MDAnalysis/analysis/encore/clustering/affinityprop.c:722: 2022-03-08T11:35:11,813 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:35:11,813 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:35:11,813 | ^~~~~~~ 2022-03-08T11:35:35,453 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/analysis/encore/clustering/include -I/usr/include/python3.9 -c MDAnalysis/analysis/encore/clustering/src/ap.c -o build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/src/ap.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-03-08T11:35:35,498 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:35:37,857 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/affinityprop.o build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/src/ap.o -L/usr/lib -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/affinityprop.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:35:38,157 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2022-03-08T11:35:38,157 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/src 2022-03-08T11:35:38,160 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/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-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-03-08T11:35:38,212 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:35:39,817 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/analysis/encore/dimensionality_reduction/include -I/usr/include/python3.9 -c MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c -o build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.o -std=c99 -ffast-math -funroll-loops -fsigned-zeros -O3 2022-03-08T11:35:39,874 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:35:40,563 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:35:40,563 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:35:40,564 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:35:40,564 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:722: 2022-03-08T11:35:40,564 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:35:40,564 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:35:40,565 | ^~~~~~~ 2022-03-08T11:35:50,568 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/src/spe.o build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.o -L/usr/lib -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:35:50,844 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include -I/usr/include/python3.9 -c MDAnalysis/lib/_cutil.cpp -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/_cutil.o -ffast-math -O3 -funroll-loops -fsigned-zeros -std=c++11 2022-03-08T11:35:50,909 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:35:51,440 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:35:51,440 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:35:51,440 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:35:51,441 from MDAnalysis/lib/_cutil.cpp:736: 2022-03-08T11:35:51,441 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:35:51,441 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:35:51,442 | ^~~~~~~ 2022-03-08T11:35:58,099 In file included from MDAnalysis/lib/_cutil.cpp:765: 2022-03-08T11:35:58,099 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:856:13: warning: ‘void _calc_dihedral_triclinic(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,100 856 | static void _calc_dihedral_triclinic(coordinate* atom1, coordinate* atom2, 2022-03-08T11:35:58,100 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,101 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:820:13: warning: ‘void _calc_dihedral_ortho(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,101 820 | static void _calc_dihedral_ortho(coordinate* atom1, coordinate* atom2, 2022-03-08T11:35:58,101 | ^~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,102 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:792:13: warning: ‘void _calc_dihedral(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,102 792 | static void _calc_dihedral(coordinate* atom1, coordinate* atom2, 2022-03-08T11:35:58,102 | ^~~~~~~~~~~~~~ 2022-03-08T11:35:58,103 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:715:13: warning: ‘void _calc_angle_triclinic(float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,103 715 | static void _calc_angle_triclinic(coordinate* atom1, coordinate* atom2, 2022-03-08T11:35:58,104 | ^~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,104 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:672:13: warning: ‘void _calc_angle_ortho(float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,104 672 | static void _calc_angle_ortho(coordinate* atom1, coordinate* atom2, 2022-03-08T11:35:58,105 | ^~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,105 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:641:13: warning: ‘void _calc_angle(float (*)[3], float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,106 641 | static void _calc_angle(coordinate* atom1, coordinate* atom2, 2022-03-08T11:35:58,106 | ^~~~~~~~~~~ 2022-03-08T11:35:58,106 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:616:13: warning: ‘void _calc_bond_distance_triclinic(float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,107 616 | static void _calc_bond_distance_triclinic(coordinate* atom1, coordinate* atom2, 2022-03-08T11:35:58,107 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,107 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:591:13: warning: ‘void _calc_bond_distance_ortho(float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,108 591 | static void _calc_bond_distance_ortho(coordinate* atom1, coordinate* atom2, 2022-03-08T11:35:58,108 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,109 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:572:13: warning: ‘void _calc_bond_distance(float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,109 572 | static void _calc_bond_distance(coordinate* atom1, coordinate* atom2, 2022-03-08T11:35:58,109 | ^~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,110 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:517:13: warning: ‘void _calc_self_distance_array_triclinic(float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,110 517 | static void _calc_self_distance_array_triclinic(coordinate* ref, uint64_t numref, 2022-03-08T11:35:58,110 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,111 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:484:13: warning: ‘void _calc_self_distance_array_ortho(float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,111 484 | static void _calc_self_distance_array_ortho(coordinate* ref, uint64_t numref, 2022-03-08T11:35:58,111 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,112 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:457:13: warning: ‘void _calc_self_distance_array(float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,112 457 | static void _calc_self_distance_array(coordinate* ref, uint64_t numref, 2022-03-08T11:35:58,112 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,113 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:430:13: warning: ‘void _calc_distance_array_triclinic(float (*)[3], uint64_t, float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,113 430 | static void _calc_distance_array_triclinic(coordinate* ref, uint64_t numref, 2022-03-08T11:35:58,113 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,114 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:403:13: warning: ‘void _calc_distance_array_ortho(float (*)[3], uint64_t, float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,114 403 | static void _calc_distance_array_ortho(coordinate* ref, uint64_t numref, coordinate* conf, 2022-03-08T11:35:58,114 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,115 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:382:13: warning: ‘void _calc_distance_array(float (*)[3], uint64_t, float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,115 382 | static void _calc_distance_array(coordinate* ref, uint64_t numref, coordinate* conf, 2022-03-08T11:35:58,115 | ^~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:35:58,116 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:111:13: warning: ‘void _ortho_pbc(float (*)[3], uint64_t, float*)’ defined but not used [-Wunused-function] 2022-03-08T11:35:58,116 111 | static void _ortho_pbc(coordinate* coords, uint64_t numcoords, float* box) 2022-03-08T11:35:58,116 | ^~~~~~~~~~ 2022-03-08T11:36:58,763 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/_cutil.o -L/usr/lib -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/_cutil.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:36:59,548 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/_augment.cpp -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/_augment.o -ffast-math -O3 -funroll-loops -fsigned-zeros -std=c++11 2022-03-08T11:36:59,618 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:37:00,182 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1960, 2022-03-08T11:37:00,183 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2022-03-08T11:37:00,183 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:5, 2022-03-08T11:37:00,183 from MDAnalysis/lib/_augment.cpp:731: 2022-03-08T11:37:00,184 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2022-03-08T11:37:00,184 17 | #warning "Using deprecated NumPy API, disable it with " \ 2022-03-08T11:37:00,184 | ^~~~~~~ 2022-03-08T11:37:58,335 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/_augment.o -L/usr/lib -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/_augment.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:37:59,028 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/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include -I/usr/include/python3.9 -c MDAnalysis/lib/nsgrid.cpp -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/nsgrid.o -ffast-math -O3 -funroll-loops -fsigned-zeros -std=c++11 2022-03-08T11:37:59,094 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2022-03-08T11:38:04,681 In file included from MDAnalysis/lib/nsgrid.cpp:732: 2022-03-08T11:38:04,682 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:856:13: warning: ‘void _calc_dihedral_triclinic(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,682 856 | static void _calc_dihedral_triclinic(coordinate* atom1, coordinate* atom2, 2022-03-08T11:38:04,682 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,683 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:820:13: warning: ‘void _calc_dihedral_ortho(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,683 820 | static void _calc_dihedral_ortho(coordinate* atom1, coordinate* atom2, 2022-03-08T11:38:04,684 | ^~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,684 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:792:13: warning: ‘void _calc_dihedral(float (*)[3], float (*)[3], float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,685 792 | static void _calc_dihedral(coordinate* atom1, coordinate* atom2, 2022-03-08T11:38:04,685 | ^~~~~~~~~~~~~~ 2022-03-08T11:38:04,686 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:715:13: warning: ‘void _calc_angle_triclinic(float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,686 715 | static void _calc_angle_triclinic(coordinate* atom1, coordinate* atom2, 2022-03-08T11:38:04,686 | ^~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,687 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:672:13: warning: ‘void _calc_angle_ortho(float (*)[3], float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,687 672 | static void _calc_angle_ortho(coordinate* atom1, coordinate* atom2, 2022-03-08T11:38:04,687 | ^~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,688 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:641:13: warning: ‘void _calc_angle(float (*)[3], float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,688 641 | static void _calc_angle(coordinate* atom1, coordinate* atom2, 2022-03-08T11:38:04,688 | ^~~~~~~~~~~ 2022-03-08T11:38:04,689 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:616:13: warning: ‘void _calc_bond_distance_triclinic(float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,689 616 | static void _calc_bond_distance_triclinic(coordinate* atom1, coordinate* atom2, 2022-03-08T11:38:04,689 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,690 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:591:13: warning: ‘void _calc_bond_distance_ortho(float (*)[3], float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,690 591 | static void _calc_bond_distance_ortho(coordinate* atom1, coordinate* atom2, 2022-03-08T11:38:04,690 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,691 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:572:13: warning: ‘void _calc_bond_distance(float (*)[3], float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,691 572 | static void _calc_bond_distance(coordinate* atom1, coordinate* atom2, 2022-03-08T11:38:04,691 | ^~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,692 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:517:13: warning: ‘void _calc_self_distance_array_triclinic(float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,692 517 | static void _calc_self_distance_array_triclinic(coordinate* ref, uint64_t numref, 2022-03-08T11:38:04,692 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,693 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:484:13: warning: ‘void _calc_self_distance_array_ortho(float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,693 484 | static void _calc_self_distance_array_ortho(coordinate* ref, uint64_t numref, 2022-03-08T11:38:04,693 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,694 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:457:13: warning: ‘void _calc_self_distance_array(float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,694 457 | static void _calc_self_distance_array(coordinate* ref, uint64_t numref, 2022-03-08T11:38:04,694 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,695 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:430:13: warning: ‘void _calc_distance_array_triclinic(float (*)[3], uint64_t, float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,695 430 | static void _calc_distance_array_triclinic(coordinate* ref, uint64_t numref, 2022-03-08T11:38:04,695 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,696 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:403:13: warning: ‘void _calc_distance_array_ortho(float (*)[3], uint64_t, float (*)[3], uint64_t, float*, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,696 403 | static void _calc_distance_array_ortho(coordinate* ref, uint64_t numref, coordinate* conf, 2022-03-08T11:38:04,696 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:04,697 /tmp/pip-wheel-hu1m7vye/mdanalysis_80c1e76bd8564564974c86b47bbd230a/MDAnalysis/lib/include/calc_distances.h:382:13: warning: ‘void _calc_distance_array(float (*)[3], uint64_t, float (*)[3], uint64_t, double*)’ defined but not used [-Wunused-function] 2022-03-08T11:38:04,697 382 | static void _calc_distance_array(coordinate* ref, uint64_t numref, coordinate* conf, 2022-03-08T11:38:04,697 | ^~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:57,071 In file included from /usr/include/c++/10/vector:72, 2022-03-08T11:38:57,071 from MDAnalysis/lib/nsgrid.cpp:730: 2022-03-08T11:38:57,072 /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]’: 2022-03-08T11:38:57,072 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-03-08T11:38:57,073 426 | vector<_Tp, _Alloc>:: 2022-03-08T11:38:57,073 | ^~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:57,158 In file included from /usr/include/c++/10/vector:67, 2022-03-08T11:38:57,159 from MDAnalysis/lib/nsgrid.cpp:730: 2022-03-08T11:38:57,159 /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)’: 2022-03-08T11:38:57,160 /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 2022-03-08T11:38:57,160 1198 | _M_realloc_insert(end(), __x); 2022-03-08T11:38:57,160 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2022-03-08T11:38:57,247 In file included from /usr/include/c++/10/vector:72, 2022-03-08T11:38:57,248 from MDAnalysis/lib/nsgrid.cpp:730: 2022-03-08T11:38:57,248 /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]’: 2022-03-08T11:38:57,248 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2022-03-08T11:38:57,249 426 | vector<_Tp, _Alloc>:: 2022-03-08T11:38:57,249 | ^~~~~~~~~~~~~~~~~~~ 2022-03-08T11:38:57,838 /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*)’: 2022-03-08T11:38:57,838 /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 2022-03-08T11:38:57,839 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2022-03-08T11:38:57,839 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2022-03-08T11:39:05,209 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/nsgrid.o -L/usr/lib -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/nsgrid.cpython-39-arm-linux-gnueabihf.so 2022-03-08T11:39:05,992 running install 2022-03-08T11:39:06,057 running install_lib 2022-03-08T11:39:06,065 creating build/bdist.linux-armv7l 2022-03-08T11:39:06,066 creating build/bdist.linux-armv7l/wheel 2022-03-08T11:39:06,069 creating build/bdist.linux-armv7l/wheel/MDAnalysis 2022-03-08T11:39:06,072 creating build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2022-03-08T11:39:06,093 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2022-03-08T11:39:06,477 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2022-03-08T11:39:06,853 creating build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2022-03-08T11:39:06,863 creating build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2022-03-08T11:39:07,032 creating build/bdist.linux-armv7l/wheel/MDAnalysis/core 2022-03-08T11:39:07,111 creating build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2022-03-08T11:39:07,161 creating build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2022-03-08T11:39:07,247 creating build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2022-03-08T11:39:07,273 creating build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2022-03-08T11:39:07,295 creating build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2022-03-08T11:39:07,331 creating build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2022-03-08T11:39:07,371 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2022-03-08T11:39:07,378 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2022-03-08T11:39:07,408 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2022-03-08T11:39:07,457 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2022-03-08T11:39:07,508 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2022-03-08T11:39:07,520 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2022-03-08T11:39:07,542 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2022-03-08T11:39:07,610 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2022-03-08T11:39:07,652 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2022-03-08T11:39:07,701 running install_egg_info 2022-03-08T11:39:07,751 running egg_info 2022-03-08T11:39:08,430 warning: no previously-included files matching 'doc/html/html' found anywhere in distribution 2022-03-08T11:39:08,436 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2022-03-08T11:39:08,441 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2022-03-08T11:39:08,447 warning: no previously-included files matching '*.pyd' found anywhere in distribution 2022-03-08T11:39:08,452 warning: no previously-included files matching '*~' found anywhere in distribution 2022-03-08T11:39:08,456 warning: no previously-included files matching '.git' found anywhere in distribution 2022-03-08T11:39:08,512 writing manifest file 'MDAnalysis.egg-info/SOURCES.txt' 2022-03-08T11:39:08,516 Copying MDAnalysis.egg-info to build/bdist.linux-armv7l/wheel/MDAnalysis-2.1.0-py3.9.egg-info 2022-03-08T11:39:08,541 running install_scripts 2022-03-08T11:39:17,415 Building wheel for mdanalysis (pyproject.toml): finished with status 'done' 2022-03-08T11:39:17,789 Created wheel for mdanalysis: filename=MDAnalysis-2.1.0-cp39-cp39-linux_armv7l.whl size=5859836 sha256=d9556ba8add30ef268b271c12910975221cca955af752f664094b594c5290f82 2022-03-08T11:39:17,791 Stored in directory: /tmp/pip-ephem-wheel-cache-6lkx4mpj/wheels/ea/f7/45/514b1f6e6288e059b26f0482260538b0594c0e16dce70d2705 2022-03-08T11:39:17,837 Successfully built mdanalysis 2022-03-08T11:39:18,273 Removed build tracker: '/tmp/pip-req-tracker-rvd16opl'