2021-08-22T05:01:30,392 Created temporary directory: /tmp/pip-ephem-wheel-cache-q0c9odzb 2021-08-22T05:01:30,396 Created temporary directory: /tmp/pip-req-tracker-c25bdd9a 2021-08-22T05:01:30,396 Initialized build tracking at /tmp/pip-req-tracker-c25bdd9a 2021-08-22T05:01:30,396 Created build tracker: /tmp/pip-req-tracker-c25bdd9a 2021-08-22T05:01:30,397 Entered build tracker: /tmp/pip-req-tracker-c25bdd9a 2021-08-22T05:01:30,397 Created temporary directory: /tmp/pip-wheel-bc45vo69 2021-08-22T05:01:30,432 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2021-08-22T05:01:30,434 2 location(s) to search for versions of mdanalysis: 2021-08-22T05:01:30,434 * https://pypi.org/simple/mdanalysis/ 2021-08-22T05:01:30,434 * https://www.piwheels.org/simple/mdanalysis/ 2021-08-22T05:01:30,435 Fetching project page and analyzing links: https://pypi.org/simple/mdanalysis/ 2021-08-22T05:01:30,435 Getting page https://pypi.org/simple/mdanalysis/ 2021-08-22T05:01:30,437 Found index url https://pypi.org/simple 2021-08-22T05:01:30,542 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 2021-08-22T05:01:30,543 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 2021-08-22T05:01:30,543 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 2021-08-22T05:01:30,543 Found link https://files.pythonhosted.org/packages/35/04/425a87220983514ef06f87cd98f54db0a84eed5bec9dfd4b27b6799ae99e/MDAnalysis-0.8.0.tar.gz#sha256=8ef4eb5e71c749bdf9ee5c8d5f0d93200f0999c3306c31812bf1a164a60e728f (from https://pypi.org/simple/mdanalysis/), version: 0.8.0 2021-08-22T05:01:30,544 Found link https://files.pythonhosted.org/packages/7d/39/0afea6f9c2cb10259479800c3b8496c59ecdab8019d5c0cf868729db4c91/MDAnalysis-0.8.1rc1.tar.gz#sha256=8026cc164a14044d57eab6976af0629c522d41cb412233b4d0c0d42d54c90664 (from https://pypi.org/simple/mdanalysis/), version: 0.8.1rc1 2021-08-22T05:01:30,544 Found link https://files.pythonhosted.org/packages/9b/45/5cfc731f70af562c860d5b79329980b8b380dd8e283847c950c1f7af8d4c/MDAnalysis-0.8.1.tar.gz#sha256=115c640433ef64b8e85abdc13b2d8754ce328fc7b597707c921ad1f8f8e6e364 (from https://pypi.org/simple/mdanalysis/), version: 0.8.1 2021-08-22T05:01:30,544 Found link https://files.pythonhosted.org/packages/b5/f0/a3d1acd3fedafd4b56f3cc8f880acb7f7f0f1c68c46121b4c180975435bb/MDAnalysis-0.9.0-dev.tar.gz#sha256=bff57b3363da5b2b8000a2ac7af6a942704f8f76d26fdef68b402f6869e40dbd (from https://pypi.org/simple/mdanalysis/), version: 0.9.0-dev 2021-08-22T05:01:30,544 Found link https://files.pythonhosted.org/packages/3b/1a/3bd08be00e453a29b6bcbb3320bb91619539eef69ab5ddef46e4b477b34d/MDAnalysis-0.9.0.tar.gz#sha256=0a02b28f1cdbecd45f02a916f196b92289b0979451288bec8589b1694b81952b (from https://pypi.org/simple/mdanalysis/), version: 0.9.0 2021-08-22T05:01:30,545 Found link https://files.pythonhosted.org/packages/e5/28/dcafeb58175edede7e4393d5ccfeafc77c3ca8eac6dd2f14d3919e9d4c0c/MDAnalysis-0.9.1.tar.gz#sha256=c0cc40fc6d8326d227f02af5315b768cf20ed3348af8104d488b6327368b944b (from https://pypi.org/simple/mdanalysis/), version: 0.9.1 2021-08-22T05:01:30,545 Found link https://files.pythonhosted.org/packages/4e/59/72545bc442ee0f6a45cafbd3b0e99add0aca51cbbbe3a882cc930f993306/MDAnalysis-0.9.2.tar.gz#sha256=2632e77bd30f6a088d59b599bb16269bf5c6ad02559e45fb630a08190c611800 (from https://pypi.org/simple/mdanalysis/), version: 0.9.2 2021-08-22T05:01:30,545 Found link https://files.pythonhosted.org/packages/82/db/8d468530d1a4834031166fcd9fb754a13e3fd5cc65ee09970ec57c9948cb/MDAnalysis-0.10.0.tar.gz#sha256=f0d1b79c75208ad40621aa8f9d999edb5129362d27c942fea11e4f14c9f4af72 (from https://pypi.org/simple/mdanalysis/), version: 0.10.0 2021-08-22T05:01:30,545 Found link https://files.pythonhosted.org/packages/18/80/e6a5502a43f2ce2c432e08a9b404febc46fd403fb5e4b13ddc429f676fd7/MDAnalysis-0.11.0.tar.gz#sha256=4ceff8a3d8bfc32b42d6500d04a3f0c75e186d6811505b78eea3dacb5c368bb0 (from https://pypi.org/simple/mdanalysis/), version: 0.11.0 2021-08-22T05:01:30,546 Found link https://files.pythonhosted.org/packages/66/77/d666034a559dc75a0cc485345f3058b45b8b067a858adb009b6fae0bcefc/MDAnalysis-0.12.1.tar.gz#sha256=a7d0f28cbc2fa566af664057360c0d7466aba719342fdfccfe8c46380466a4b5 (from https://pypi.org/simple/mdanalysis/), version: 0.12.1 2021-08-22T05:01:30,546 Found link https://files.pythonhosted.org/packages/78/33/704a708797267b35bfe27cc40e83eedabad62c7bb143babbc728ee285082/MDAnalysis-0.13.0.tar.gz#sha256=bdf5a15842bd4e4635fcb60297978252c55c5828c9b7003d810c9e19a4fffbe6 (from https://pypi.org/simple/mdanalysis/), version: 0.13.0 2021-08-22T05:01:30,546 Found link https://files.pythonhosted.org/packages/11/4c/1b683b1448f14e73f8a45981e27689ca694d5f1106e0453145f8619ffc0c/MDAnalysis-0.14.0.tar.gz#sha256=3006cc0479b63e31ce6681f4db1f4e94f786aef2ec431670bc10f715c6dfec05 (from https://pypi.org/simple/mdanalysis/), version: 0.14.0 2021-08-22T05:01:30,547 Found link https://files.pythonhosted.org/packages/9f/56/a4cae14e45aa893a3578905a97e17a325d663e424736366adbc134e72dce/MDAnalysis-0.15.0.tar.gz#sha256=9088786048b47339cba1f8a586977bbb3bb04ae1bcd0462b59e45bda37e25533 (from https://pypi.org/simple/mdanalysis/), version: 0.15.0 2021-08-22T05:01:30,547 Found link https://files.pythonhosted.org/packages/55/bb/32c3dbd8e92b661a98839a50bd3185d29949afe4618fc1a846e42bad0ebf/MDAnalysis-0.16.0.tar.gz#sha256=c4824fa1fddd336daa39371436187ebb023366885fb250c2827ed7fce2546bd4 (from https://pypi.org/simple/mdanalysis/), version: 0.16.0 2021-08-22T05:01:30,547 Found link https://files.pythonhosted.org/packages/5f/68/7e7ce717700411e25821100a3bc3d31866ef7abee7e282736f9e0635fef7/MDAnalysis-0.16.1.tar.gz#sha256=3dc8f5d639ab3a0d152cbd7259ae9372ec8a9bac0f8cb7d3b80ce5adc1e3ee57 (from https://pypi.org/simple/mdanalysis/), version: 0.16.1 2021-08-22T05:01:30,547 Found link 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 2021-08-22T05:01:30,548 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 2021-08-22T05:01:30,548 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 2021-08-22T05:01:30,548 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 2021-08-22T05:01:30,548 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 2021-08-22T05:01:30,549 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 2021-08-22T05:01:30,549 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 2021-08-22T05:01:30,549 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 2021-08-22T05:01:30,550 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 2021-08-22T05:01:30,551 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) 2021-08-22T05:01:30,552 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) 2021-08-22T05:01:30,553 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) 2021-08-22T05:01:30,553 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 2021-08-22T05:01:30,554 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 2021-08-22T05:01:30,554 Fetching project page and analyzing links: https://www.piwheels.org/simple/mdanalysis/ 2021-08-22T05:01:30,554 Getting page https://www.piwheels.org/simple/mdanalysis/ 2021-08-22T05:01:30,555 Found index url https://www.piwheels.org/simple 2021-08-22T05:01:30,734 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/) 2021-08-22T05:01:30,735 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/) 2021-08-22T05:01:30,735 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/) 2021-08-22T05:01:30,735 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/) 2021-08-22T05:01:30,735 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/) 2021-08-22T05:01:30,736 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/) 2021-08-22T05:01:30,736 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/) 2021-08-22T05:01:30,736 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/) 2021-08-22T05:01:30,736 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/) 2021-08-22T05:01:30,736 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/) 2021-08-22T05:01:30,737 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/) 2021-08-22T05:01:30,737 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/) 2021-08-22T05:01:30,737 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/) 2021-08-22T05:01:30,737 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/) 2021-08-22T05:01:30,737 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/) 2021-08-22T05:01:30,738 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/) 2021-08-22T05:01:30,738 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/) 2021-08-22T05:01:30,738 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/) 2021-08-22T05:01:30,738 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/) 2021-08-22T05:01:30,738 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/) 2021-08-22T05:01:30,739 Skipping link: No binaries permitted for mdanalysis: 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https://www.piwheels.org/simple/mdanalysis/MDAnalysis-0.20.1-cp35-cp35m-linux_armv7l.whl#sha256=dafe9f34f8fc19527a5e2ebbe3080bfa1e89a5ceb160e8a52bf3ca2a9dce6442 (from https://www.piwheels.org/simple/mdanalysis/) 2021-08-22T05:01:30,748 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/) 2021-08-22T05:01:30,749 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/) 2021-08-22T05:01:30,749 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/) 2021-08-22T05:01:30,749 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/) 2021-08-22T05:01:30,749 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/) 2021-08-22T05:01:30,749 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/) 2021-08-22T05:01:30,750 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/) 2021-08-22T05:01:30,750 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/) 2021-08-22T05:01:30,750 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/) 2021-08-22T05:01:30,750 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/) 2021-08-22T05:01:30,750 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/) 2021-08-22T05:01:30,751 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/) 2021-08-22T05:01:30,751 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) 2021-08-22T05:01:30,751 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) 2021-08-22T05:01:30,751 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) 2021-08-22T05:01:30,751 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) 2021-08-22T05:01:30,751 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) 2021-08-22T05:01:30,752 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) 2021-08-22T05:01:30,752 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) 2021-08-22T05:01:30,752 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) 2021-08-22T05:01:30,752 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/) 2021-08-22T05:01:30,752 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/) 2021-08-22T05:01:30,753 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/) 2021-08-22T05:01:30,753 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/) 2021-08-22T05:01:30,753 Skipping link: not a file: https://www.piwheels.org/simple/mdanalysis/ 2021-08-22T05:01:30,753 Skipping link: not a file: https://pypi.org/simple/mdanalysis/ 2021-08-22T05:01:30,774 Given no hashes to check 1 links for project 'mdanalysis': discarding no candidates 2021-08-22T05:01:30,793 Collecting mdanalysis==2.0.0 2021-08-22T05:01:30,794 Created temporary directory: /tmp/pip-unpack-4pv0rqex 2021-08-22T05:01:30,837 Downloading MDAnalysis-2.0.0.tar.gz (3.4 MB) 2021-08-22T05:01:32,946 Added mdanalysis==2.0.0 from https://files.pythonhosted.org/packages/bf/a2/5371b04ff9009b7c33e2e211bd622f961d30ccc47cb45b579f314572dfee/MDAnalysis-2.0.0.tar.gz#sha256=aa3079d1a82305eba58cf567fac8fc231940184ed88f9a4451be8433f4a06d3e to build tracker '/tmp/pip-req-tracker-c25bdd9a' 2021-08-22T05:01:32,947 Running setup.py (path:/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/setup.py) egg_info for package mdanalysis 2021-08-22T05:01:32,948 Created temporary directory: /tmp/pip-pip-egg-info-zk9zajwq 2021-08-22T05:01:32,948 Running command python setup.py egg_info 2021-08-22T05:01:35,875 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2021-08-22T05:01:35,875 Will attempt to use Cython. 2021-08-22T05:01:36,153 running egg_info 2021-08-22T05:01:36,156 creating /tmp/pip-pip-egg-info-zk9zajwq/MDAnalysis.egg-info 2021-08-22T05:01:36,157 writing /tmp/pip-pip-egg-info-zk9zajwq/MDAnalysis.egg-info/PKG-INFO 2021-08-22T05:01:36,159 writing dependency_links to /tmp/pip-pip-egg-info-zk9zajwq/MDAnalysis.egg-info/dependency_links.txt 2021-08-22T05:01:36,161 writing requirements to /tmp/pip-pip-egg-info-zk9zajwq/MDAnalysis.egg-info/requires.txt 2021-08-22T05:01:36,162 writing top-level names to /tmp/pip-pip-egg-info-zk9zajwq/MDAnalysis.egg-info/top_level.txt 2021-08-22T05:01:36,164 writing manifest file '/tmp/pip-pip-egg-info-zk9zajwq/MDAnalysis.egg-info/SOURCES.txt' 2021-08-22T05:01:36,351 reading manifest file '/tmp/pip-pip-egg-info-zk9zajwq/MDAnalysis.egg-info/SOURCES.txt' 2021-08-22T05:01:36,353 reading manifest template 'MANIFEST.in' 2021-08-22T05:01:36,527 warning: no previously-included files matching 'doc/html/html' found anywhere in distribution 2021-08-22T05:01:36,529 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2021-08-22T05:01:36,530 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2021-08-22T05:01:36,532 warning: no previously-included files matching '*.pyd' found anywhere in distribution 2021-08-22T05:01:36,533 warning: no previously-included files matching '*~' found anywhere in distribution 2021-08-22T05:01:36,534 warning: no previously-included files matching '.git' found anywhere in distribution 2021-08-22T05:01:36,535 adding license file 'LICENSE' 2021-08-22T05:01:36,535 adding license file 'AUTHORS' 2021-08-22T05:01:36,553 writing manifest file '/tmp/pip-pip-egg-info-zk9zajwq/MDAnalysis.egg-info/SOURCES.txt' 2021-08-22T05:01:36,698 Source in /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e has version 2.0.0, which satisfies requirement mdanalysis==2.0.0 from https://files.pythonhosted.org/packages/bf/a2/5371b04ff9009b7c33e2e211bd622f961d30ccc47cb45b579f314572dfee/MDAnalysis-2.0.0.tar.gz#sha256=aa3079d1a82305eba58cf567fac8fc231940184ed88f9a4451be8433f4a06d3e 2021-08-22T05:01:36,699 Removed mdanalysis==2.0.0 from https://files.pythonhosted.org/packages/bf/a2/5371b04ff9009b7c33e2e211bd622f961d30ccc47cb45b579f314572dfee/MDAnalysis-2.0.0.tar.gz#sha256=aa3079d1a82305eba58cf567fac8fc231940184ed88f9a4451be8433f4a06d3e from build tracker '/tmp/pip-req-tracker-c25bdd9a' 2021-08-22T05:01:36,705 Created temporary directory: /tmp/pip-unpack-qv4fvwcz 2021-08-22T05:01:36,705 Building wheels for collected packages: mdanalysis 2021-08-22T05:01:36,710 Created temporary directory: /tmp/pip-wheel-fccnvvvf 2021-08-22T05:01:36,710 Building wheel for mdanalysis (setup.py): started 2021-08-22T05:01:36,711 Destination directory: /tmp/pip-wheel-fccnvvvf 2021-08-22T05:01:36,711 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-fccnvvvf 2021-08-22T05:01:37,831 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2021-08-22T05:01:37,832 Will attempt to use Cython. 2021-08-22T05:01:39,008 running bdist_wheel 2021-08-22T05:01:39,010 The [wheel] section is deprecated. Use [bdist_wheel] instead. 2021-08-22T05:01:39,013 running build 2021-08-22T05:01:39,013 running build_py 2021-08-22T05:01:39,149 creating build 2021-08-22T05:01:39,150 creating build/lib.linux-armv7l-3.9 2021-08-22T05:01:39,150 creating build/lib.linux-armv7l-3.9/MDAnalysis 2021-08-22T05:01:39,151 copying MDAnalysis/version.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-08-22T05:01:39,153 copying MDAnalysis/exceptions.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-08-22T05:01:39,155 copying MDAnalysis/authors.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-08-22T05:01:39,157 copying MDAnalysis/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-08-22T05:01:39,159 copying MDAnalysis/due.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-08-22T05:01:39,161 copying MDAnalysis/units.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-08-22T05:01:39,165 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,166 copying MDAnalysis/analysis/rms.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,169 copying MDAnalysis/analysis/nuclinfo.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,172 copying MDAnalysis/analysis/waterdynamics.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,175 copying MDAnalysis/analysis/lineardensity.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,178 copying MDAnalysis/analysis/gnm.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,181 copying MDAnalysis/analysis/rdf.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,184 copying MDAnalysis/analysis/dihedrals.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,187 copying MDAnalysis/analysis/helix_analysis.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,189 copying MDAnalysis/analysis/distances.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,192 copying MDAnalysis/analysis/bat.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,194 copying MDAnalysis/analysis/pca.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,198 copying MDAnalysis/analysis/contacts.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,200 copying MDAnalysis/analysis/polymer.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,203 copying MDAnalysis/analysis/density.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,206 copying MDAnalysis/analysis/diffusionmap.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,209 copying MDAnalysis/analysis/msd.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,212 copying MDAnalysis/analysis/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,214 copying MDAnalysis/analysis/leaflet.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,216 copying MDAnalysis/analysis/psa.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,221 copying MDAnalysis/analysis/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,224 copying MDAnalysis/analysis/align.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:01:39,229 creating build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2021-08-22T05:01:39,230 copying MDAnalysis/visualization/streamlines.py -> build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2021-08-22T05:01:39,233 copying MDAnalysis/visualization/streamlines_3D.py -> build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2021-08-22T05:01:39,236 copying MDAnalysis/visualization/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2021-08-22T05:01:39,239 creating build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,240 copying MDAnalysis/core/accessors.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,242 copying MDAnalysis/core/topologyattrs.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,247 copying MDAnalysis/core/topology.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,250 copying MDAnalysis/core/_get_readers.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,253 copying MDAnalysis/core/universe.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,257 copying MDAnalysis/core/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,259 copying MDAnalysis/core/topologyobjects.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,262 copying MDAnalysis/core/selection.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,266 copying MDAnalysis/core/groups.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-08-22T05:01:39,274 creating build/lib.linux-armv7l-3.9/MDAnalysis/converters 2021-08-22T05:01:39,275 copying MDAnalysis/converters/OpenMM.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2021-08-22T05:01:39,277 copying MDAnalysis/converters/RDKitParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2021-08-22T05:01:39,280 copying MDAnalysis/converters/RDKit.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2021-08-22T05:01:39,284 copying MDAnalysis/converters/ParmEd.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2021-08-22T05:01:39,286 copying MDAnalysis/converters/OpenMMParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2021-08-22T05:01:39,289 copying MDAnalysis/converters/ParmEdParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2021-08-22T05:01:39,292 copying MDAnalysis/converters/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/converters 2021-08-22T05:01:39,294 creating build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-08-22T05:01:39,295 copying MDAnalysis/transformations/translate.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-08-22T05:01:39,298 copying MDAnalysis/transformations/boxdimensions.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-08-22T05:01:39,300 copying MDAnalysis/transformations/rotate.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-08-22T05:01:39,302 copying MDAnalysis/transformations/wrap.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-08-22T05:01:39,305 copying MDAnalysis/transformations/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-08-22T05:01:39,308 copying MDAnalysis/transformations/positionaveraging.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-08-22T05:01:39,310 copying MDAnalysis/transformations/fit.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-08-22T05:01:39,313 copying MDAnalysis/transformations/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-08-22T05:01:39,316 creating build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,317 copying MDAnalysis/lib/util.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,322 copying MDAnalysis/lib/picklable_file_io.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,325 copying MDAnalysis/lib/mdamath.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,327 copying MDAnalysis/lib/distances.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,332 copying MDAnalysis/lib/log.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,335 copying MDAnalysis/lib/correlations.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,338 copying MDAnalysis/lib/transformations.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,343 copying MDAnalysis/lib/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,345 copying MDAnalysis/lib/pkdtree.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,348 copying MDAnalysis/lib/NeighborSearch.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,353 creating build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,354 copying MDAnalysis/topology/GSDParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,356 copying MDAnalysis/topology/HoomdXMLParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,359 copying MDAnalysis/topology/TXYZParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,361 copying MDAnalysis/topology/PDBQTParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,363 copying MDAnalysis/topology/GROParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,366 copying MDAnalysis/topology/FHIAIMSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,368 copying MDAnalysis/topology/CRDParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,370 copying MDAnalysis/topology/guessers.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,373 copying MDAnalysis/topology/PDBParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,376 copying MDAnalysis/topology/MMTFParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,379 copying MDAnalysis/topology/LAMMPSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,381 copying MDAnalysis/topology/tables.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,384 copying MDAnalysis/topology/ExtendedPDBParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,386 copying MDAnalysis/topology/TOPParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,389 copying MDAnalysis/topology/TPRParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,392 copying MDAnalysis/topology/MOL2Parser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,395 copying MDAnalysis/topology/XYZParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,397 copying MDAnalysis/topology/ParmEdParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,399 copying MDAnalysis/topology/ITPParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,402 copying MDAnalysis/topology/DMSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,405 copying MDAnalysis/topology/core.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,407 copying MDAnalysis/topology/DLPolyParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,410 copying MDAnalysis/topology/PQRParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,412 copying MDAnalysis/topology/GMSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,414 copying MDAnalysis/topology/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,417 copying MDAnalysis/topology/MinimalParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,419 copying MDAnalysis/topology/PSFParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,422 copying MDAnalysis/topology/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-08-22T05:01:39,425 creating build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-08-22T05:01:39,426 copying MDAnalysis/selections/charmm.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-08-22T05:01:39,428 copying MDAnalysis/selections/jmol.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-08-22T05:01:39,430 copying MDAnalysis/selections/gromacs.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-08-22T05:01:39,432 copying MDAnalysis/selections/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-08-22T05:01:39,434 copying MDAnalysis/selections/pymol.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-08-22T05:01:39,436 copying MDAnalysis/selections/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-08-22T05:01:39,439 copying MDAnalysis/selections/vmd.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-08-22T05:01:39,442 creating build/lib.linux-armv7l-3.9/MDAnalysis/tests 2021-08-22T05:01:39,442 copying MDAnalysis/tests/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/tests 2021-08-22T05:01:39,445 copying MDAnalysis/tests/datafiles.py -> build/lib.linux-armv7l-3.9/MDAnalysis/tests 2021-08-22T05:01:39,449 creating build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,450 copying MDAnalysis/coordinates/TXYZ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,453 copying MDAnalysis/coordinates/MOL2.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,455 copying MDAnalysis/coordinates/H5MD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,459 copying MDAnalysis/coordinates/TRZ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,462 copying MDAnalysis/coordinates/chemfiles.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,465 copying MDAnalysis/coordinates/DLPoly.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,468 copying MDAnalysis/coordinates/PDB.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,471 copying MDAnalysis/coordinates/MMTF.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,473 copying MDAnalysis/coordinates/GMS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,476 copying MDAnalysis/coordinates/DMS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,478 copying MDAnalysis/coordinates/TRJ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,482 copying MDAnalysis/coordinates/FHIAIMS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,484 copying MDAnalysis/coordinates/ParmEd.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,486 copying MDAnalysis/coordinates/LAMMPS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,489 copying MDAnalysis/coordinates/core.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,491 copying MDAnalysis/coordinates/GSD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,494 copying MDAnalysis/coordinates/TRR.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,497 copying MDAnalysis/coordinates/CRD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,499 copying MDAnalysis/coordinates/GRO.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,502 copying MDAnalysis/coordinates/DCD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,505 copying MDAnalysis/coordinates/chain.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,509 copying MDAnalysis/coordinates/XTC.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,512 copying MDAnalysis/coordinates/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,515 copying MDAnalysis/coordinates/INPCRD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,517 copying MDAnalysis/coordinates/XDR.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,519 copying MDAnalysis/coordinates/PQR.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,522 copying MDAnalysis/coordinates/memory.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,525 copying MDAnalysis/coordinates/NAMDBIN.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,527 copying MDAnalysis/coordinates/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,532 copying MDAnalysis/coordinates/PDBQT.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,535 copying MDAnalysis/coordinates/XYZ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,538 copying MDAnalysis/coordinates/null.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-08-22T05:01:39,541 creating build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-08-22T05:01:39,541 copying MDAnalysis/auxiliary/XVG.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-08-22T05:01:39,544 copying MDAnalysis/auxiliary/core.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-08-22T05:01:39,546 copying MDAnalysis/auxiliary/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-08-22T05:01:39,549 copying MDAnalysis/auxiliary/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-08-22T05:01:39,553 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy 2021-08-22T05:01:39,554 copying MDAnalysis/analysis/legacy/x3dna.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy 2021-08-22T05:01:39,558 copying MDAnalysis/analysis/legacy/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy 2021-08-22T05:01:39,560 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2021-08-22T05:01:39,561 copying MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2021-08-22T05:01:39,564 copying MDAnalysis/analysis/hbonds/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2021-08-22T05:01:39,566 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2021-08-22T05:01:39,567 copying MDAnalysis/analysis/hole2/utils.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2021-08-22T05:01:39,570 copying MDAnalysis/analysis/hole2/hole.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2021-08-22T05:01:39,574 copying MDAnalysis/analysis/hole2/templates.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2021-08-22T05:01:39,576 copying MDAnalysis/analysis/hole2/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2 2021-08-22T05:01:39,579 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:01:39,580 copying MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:01:39,583 copying MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:01:39,586 copying MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:01:39,591 copying MDAnalysis/analysis/hydrogenbonds/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:01:39,593 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-08-22T05:01:39,594 copying MDAnalysis/analysis/data/filenames.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-08-22T05:01:39,596 copying MDAnalysis/analysis/data/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-08-22T05:01:39,598 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-08-22T05:01:39,599 copying MDAnalysis/analysis/encore/covariance.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-08-22T05:01:39,602 copying MDAnalysis/analysis/encore/utils.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-08-22T05:01:39,604 copying MDAnalysis/analysis/encore/confdistmatrix.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-08-22T05:01:39,607 copying MDAnalysis/analysis/encore/bootstrap.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-08-22T05:01:39,610 copying MDAnalysis/analysis/encore/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-08-22T05:01:39,612 copying MDAnalysis/analysis/encore/similarity.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-08-22T05:01:39,617 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-08-22T05:01:39,618 copying MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-08-22T05:01:39,621 copying MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-08-22T05:01:39,623 copying MDAnalysis/analysis/encore/clustering/cluster.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-08-22T05:01:39,625 copying MDAnalysis/analysis/encore/clustering/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-08-22T05:01:39,628 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:01:39,629 copying MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:01:39,632 copying MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:01:39,634 copying MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:01:39,637 creating build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats 2021-08-22T05:01:39,637 copying MDAnalysis/lib/formats/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats 2021-08-22T05:01:39,640 creating build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-08-22T05:01:39,641 copying MDAnalysis/topology/tpr/obj.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-08-22T05:01:39,644 copying MDAnalysis/topology/tpr/utils.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-08-22T05:01:39,647 copying MDAnalysis/topology/tpr/setting.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-08-22T05:01:39,649 copying MDAnalysis/topology/tpr/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-08-22T05:01:39,654 copying MDAnalysis/analysis/data/rama_ref_data.npy -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-08-22T05:01:39,658 copying MDAnalysis/analysis/data/janin_ref_data.npy -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-08-22T05:01:39,681 running build_ext 2021-08-22T05:01:39,684 building 'MDAnalysis.lib.formats.libdcd' extension 2021-08-22T05:01:39,684 creating build/temp.linux-armv7l-3.9 2021-08-22T05:01:39,685 creating build/temp.linux-armv7l-3.9/MDAnalysis 2021-08-22T05:01:39,685 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib 2021-08-22T05:01:39,686 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats 2021-08-22T05:01:39,687 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:01:39,719 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:01:40,504 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:01:40,504 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:01:40,504 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:01:40,504 from MDAnalysis/lib/formats/libdcd.c:650: 2021-08-22T05:01:40,504 /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] 2021-08-22T05:01:40,505 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:01:40,505 | ^~~~~~~ 2021-08-22T05:01:40,635 In file included from MDAnalysis/lib/formats/libdcd.c:659: 2021-08-22T05:01:40,635 MDAnalysis/lib/formats/include/readdcd.h: In function ‘read_dcdstep’: 2021-08-22T05:01:40,636 MDAnalysis/lib/formats/include/readdcd.h:562:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-08-22T05:01:40,636 562 | if (tmpbuf[i] != sizeof(float)*N) return DCD_BADFORMAT; 2021-08-22T05:01:40,636 | ^~ 2021-08-22T05:01:40,639 MDAnalysis/lib/formats/include/readdcd.h: In function ‘write_dcdheader’: 2021-08-22T05:01:40,639 MDAnalysis/lib/formats/include/readdcd.h:698:14: warning: unused variable ‘tmbuf’ [-Wunused-variable] 2021-08-22T05:01:40,640 698 | struct tm *tmbuf; 2021-08-22T05:01:40,640 | ^~~~~ 2021-08-22T05:01:40,640 MDAnalysis/lib/formats/include/readdcd.h:697:10: warning: unused variable ‘cur_time’ [-Wunused-variable] 2021-08-22T05:01:40,640 697 | time_t cur_time; 2021-08-22T05:01:40,640 | ^~~~~~~~ 2021-08-22T05:01:42,497 In file included from MDAnalysis/lib/formats/include/readdcd.h:25, 2021-08-22T05:01:42,497 from MDAnalysis/lib/formats/libdcd.c:659: 2021-08-22T05:01:42,497 At top level: 2021-08-22T05:01:42,498 MDAnalysis/lib/formats/include/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function] 2021-08-22T05:01:42,498 96 | static void swap2_aligned(void *v, long ndata) { 2021-08-22T05:01:42,498 | ^~~~~~~~~~~~~ 2021-08-22T05:01:42,498 MDAnalysis/lib/formats/include/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function] 2021-08-22T05:01:42,498 32 | static void swap2_unaligned(void *v, long ndata) { 2021-08-22T05:01:42,499 | ^~~~~~~~~~~~~~~ 2021-08-22T05:01:42,499 In file included from MDAnalysis/lib/formats/libdcd.c:658: 2021-08-22T05:01:42,499 MDAnalysis/lib/formats/include/fastio.h:453:12: warning: ‘fio_write_str’ defined but not used [-Wunused-function] 2021-08-22T05:01:42,499 453 | static int fio_write_str(fio_fd fd, const char *str) { 2021-08-22T05:01:42,499 | ^~~~~~~~~~~~~ 2021-08-22T05:01:42,499 MDAnalysis/lib/formats/include/fastio.h:449:12: warning: ‘fio_read_int32’ defined but not used [-Wunused-function] 2021-08-22T05:01:42,499 449 | static int fio_read_int32(fio_fd fd, int *i) { 2021-08-22T05:01:42,500 | ^~~~~~~~~~~~~~ 2021-08-22T05:02:15,390 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/libdcd.o -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/libdcd.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:02:15,626 building 'MDAnalysis.lib.c_distances' extension 2021-08-22T05:02:15,627 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:02:15,658 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:02:16,016 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:02:16,016 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:02:16,017 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:02:16,017 from MDAnalysis/lib/c_distances.c:651: 2021-08-22T05:02:16,017 /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] 2021-08-22T05:02:16,017 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:02:16,017 | ^~~~~~~ 2021-08-22T05:02:38,577 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/c_distances.o -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/c_distances.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:02:38,788 building 'MDAnalysis.lib.c_distances_openmp' extension 2021-08-22T05:02:38,789 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DPARALLEL -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:02:38,819 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:02:39,174 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:02:39,174 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:02:39,174 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:02:39,174 from MDAnalysis/lib/c_distances_openmp.c:662: 2021-08-22T05:02:39,175 /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] 2021-08-22T05:02:39,175 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:02:39,175 | ^~~~~~~ 2021-08-22T05:02:44,220 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/c_distances_openmp.o -lm -lgomp -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/c_distances_openmp.cpython-39-arm-linux-gnueabihf.so -fopenmp 2021-08-22T05:02:44,425 building 'MDAnalysis.lib.qcprot' extension 2021-08-22T05:02:44,425 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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 2021-08-22T05:02:44,454 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:02:44,803 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:02:44,804 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:02:44,804 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:02:44,804 from MDAnalysis/lib/qcprot.c:646: 2021-08-22T05:02:44,804 /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] 2021-08-22T05:02:44,804 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:02:44,804 | ^~~~~~~ 2021-08-22T05:02:44,859 MDAnalysis/lib/qcprot.c: In function ‘__pyx_pf_10MDAnalysis_3lib_6qcprot_InnerProduct’: 2021-08-22T05:02:44,860 MDAnalysis/lib/qcprot.c:2233:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-08-22T05:02:44,860 2233 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2021-08-22T05:02:44,860 | ^ 2021-08-22T05:02:44,863 MDAnalysis/lib/qcprot.c:2441:35: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-08-22T05:02:44,863 2441 | for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { 2021-08-22T05:02:44,864 | ^ 2021-08-22T05:02:50,157 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/qcprot.o -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/qcprot.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:02:50,288 building 'MDAnalysis.lib._transformations' extension 2021-08-22T05:02:50,289 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/src 2021-08-22T05:02:50,289 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/src/transformations 2021-08-22T05:02:50,290 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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 2021-08-22T05:02:50,316 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:02:50,665 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:02:50,666 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:02:50,666 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:02:50,666 from MDAnalysis/lib/src/transformations/transformations.c:73: 2021-08-22T05:02:50,666 /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] 2021-08-22T05:02:50,666 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:02:50,667 | ^~~~~~~ 2021-08-22T05:02:50,732 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_superimposition_matrix’: 2021-08-22T05:02:50,732 MDAnalysis/lib/src/transformations/transformations.c:1845: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-08-22T05:02:50,733 1845 | #pragma vector always 2021-08-22T05:02:50,733 | 2021-08-22T05:02:50,736 MDAnalysis/lib/src/transformations/transformations.c:1962: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-08-22T05:02:50,736 1962 | #pragma vector always 2021-08-22T05:02:50,736 | 2021-08-22T05:02:50,736 MDAnalysis/lib/src/transformations/transformations.c:1986: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-08-22T05:02:50,736 1986 | #pragma vector always 2021-08-22T05:02:50,736 | 2021-08-22T05:02:50,740 MDAnalysis/lib/src/transformations/transformations.c: In function ‘axis2tuple’: 2021-08-22T05:02:50,741 MDAnalysis/lib/src/transformations/transformations.c:2122:5: warning: ‘PyUnicode_GetSize’ is deprecated [-Wdeprecated-declarations] 2021-08-22T05:02:50,741 2122 | if (PyUnicode_Check(axes) && (PyUnicode_GetSize(axes) == 4)) { 2021-08-22T05:02:50,741 | ^~ 2021-08-22T05:02:50,741 In file included from /usr/include/python3.9/Python.h:97, 2021-08-22T05:02:50,741 from MDAnalysis/lib/src/transformations/transformations.c:68: 2021-08-22T05:02:50,741 /usr/include/python3.9/unicodeobject.h:177:43: note: declared here 2021-08-22T05:02:50,742 177 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_ssize_t) PyUnicode_GetSize( 2021-08-22T05:02:50,742 | ^~~~~~~~~~~~~~~~~ 2021-08-22T05:02:50,776 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_vector_norm’: 2021-08-22T05:02:50,776 MDAnalysis/lib/src/transformations/transformations.c:3427: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-08-22T05:02:50,776 3427 | #pragma vector always 2021-08-22T05:02:50,776 | 2021-08-22T05:02:50,779 MDAnalysis/lib/src/transformations/transformations.c:3508: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-08-22T05:02:50,779 3508 | #pragma vector always 2021-08-22T05:02:50,779 | 2021-08-22T05:02:50,784 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_unit_vector’: 2021-08-22T05:02:50,784 MDAnalysis/lib/src/transformations/transformations.c:3610: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-08-22T05:02:50,784 3610 | #pragma vector always 2021-08-22T05:02:50,785 | 2021-08-22T05:02:50,785 MDAnalysis/lib/src/transformations/transformations.c:3615: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-08-22T05:02:50,785 3615 | #pragma vector always 2021-08-22T05:02:50,785 | 2021-08-22T05:02:50,790 MDAnalysis/lib/src/transformations/transformations.c:3679: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-08-22T05:02:50,790 3679 | #pragma vector always 2021-08-22T05:02:50,790 | 2021-08-22T05:02:50,790 MDAnalysis/lib/src/transformations/transformations.c:3684: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-08-22T05:02:50,790 3684 | #pragma vector always 2021-08-22T05:02:50,791 | 2021-08-22T05:02:50,859 At top level: 2021-08-22T05:02:50,860 MDAnalysis/lib/src/transformations/transformations.c:910:1: warning: ‘PyConverter_DoubleVector4Copy’ defined but not used [-Wunused-function] 2021-08-22T05:02:50,860 910 | PyConverter_DoubleVector4Copy( 2021-08-22T05:02:50,860 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:02:50,860 MDAnalysis/lib/src/transformations/transformations.c:804:1: warning: ‘PyConverter_DoubleArrayOrNone’ defined but not used [-Wunused-function] 2021-08-22T05:02:50,860 804 | PyConverter_DoubleArrayOrNone( 2021-08-22T05:02:50,860 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:02:50,861 MDAnalysis/lib/src/transformations/transformations.c:774:1: warning: ‘PyConverter_DoubleArray’ defined but not used [-Wunused-function] 2021-08-22T05:02:50,861 774 | PyConverter_DoubleArray( 2021-08-22T05:02:50,861 | ^~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:02:56,641 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/src/transformations/transformations.o -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/_transformations.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:02:56,781 building 'MDAnalysis.lib.formats.libmdaxdr' extension 2021-08-22T05:02:56,782 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src 2021-08-22T05:02:56,783 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:02:56,818 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:02:57,177 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:02:57,177 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:02:57,177 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:02:57,177 from MDAnalysis/lib/formats/libmdaxdr.c:673: 2021-08-22T05:02:57,178 /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] 2021-08-22T05:02:57,178 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:02:57,178 | ^~~~~~~ 2021-08-22T05:02:57,211 In file included from MDAnalysis/lib/formats/libmdaxdr.c:679: 2021-08-22T05:02:57,211 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:02:57,212 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:02:57,212 | 2021-08-22T05:02:57,213 In file included from MDAnalysis/lib/formats/libmdaxdr.c:680: 2021-08-22T05:02:57,213 MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:02:57,213 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:02:57,213 | 2021-08-22T05:02:57,214 In file included from MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2021-08-22T05:02:57,214 from MDAnalysis/lib/formats/libmdaxdr.c:680: 2021-08-22T05:02:57,214 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:02:57,214 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:02:57,214 | 2021-08-22T05:02:57,215 In file included from MDAnalysis/lib/formats/libmdaxdr.c:681: 2021-08-22T05:02:57,215 MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:02:57,215 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:02:57,215 | 2021-08-22T05:03:28,440 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:03:28,473 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:03:28,541 In file included from MDAnalysis/lib/formats/src/trr_seek.c:30: 2021-08-22T05:03:28,542 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:28,542 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:28,542 | 2021-08-22T05:03:28,547 In file included from MDAnalysis/lib/formats/src/trr_seek.c:31: 2021-08-22T05:03:28,547 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:28,547 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:28,547 | 2021-08-22T05:03:28,548 In file included from /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile_trr.h:42, 2021-08-22T05:03:28,548 from MDAnalysis/lib/formats/src/trr_seek.c:31: 2021-08-22T05:03:28,548 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:28,548 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:28,548 | 2021-08-22T05:03:28,551 MDAnalysis/lib/formats/src/trr_seek.c: In function ‘read_trr_n_frames’: 2021-08-22T05:03:28,552 MDAnalysis/lib/formats/src/trr_seek.c:39:27: warning: unused variable ‘totalframebytes’ [-Wunused-variable] 2021-08-22T05:03:28,552 39 | int result, framebytes, totalframebytes; 2021-08-22T05:03:28,552 | ^~~~~~~~~~~~~~~ 2021-08-22T05:03:28,552 MDAnalysis/lib/formats/src/trr_seek.c:38:15: warning: unused variable ‘lambda’ [-Wunused-variable] 2021-08-22T05:03:28,553 38 | float time, lambda; 2021-08-22T05:03:28,553 | ^~~~~~ 2021-08-22T05:03:28,553 MDAnalysis/lib/formats/src/trr_seek.c:38:9: warning: unused variable ‘time’ [-Wunused-variable] 2021-08-22T05:03:28,553 38 | float time, lambda; 2021-08-22T05:03:28,553 | ^~~~ 2021-08-22T05:03:28,661 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:03:28,689 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:03:28,805 In file included from MDAnalysis/lib/formats/src/xdrfile.c:62: 2021-08-22T05:03:28,805 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:28,805 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:28,805 | 2021-08-22T05:03:28,814 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘sizeofint’: 2021-08-22T05:03:28,814 MDAnalysis/lib/formats/src/xdrfile.c:501:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-08-22T05:03:28,815 501 | while (size >= num && num_of_bits < 32) 2021-08-22T05:03:28,815 | ^~ 2021-08-22T05:03:28,815 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘sizeofints’: 2021-08-22T05:03:28,815 MDAnalysis/lib/formats/src/xdrfile.c:547:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-08-22T05:03:28,815 547 | while (bytes[num_of_bytes] >= num) 2021-08-22T05:03:28,815 | ^~ 2021-08-22T05:03:28,816 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘encodeints’: 2021-08-22T05:03:28,816 MDAnalysis/lib/formats/src/xdrfile.c:656:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-08-22T05:03:28,816 656 | if (num_of_bits >= num_of_bytes * 8) 2021-08-22T05:03:28,816 | ^~ 2021-08-22T05:03:28,817 MDAnalysis/lib/formats/src/xdrfile.c:658:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-08-22T05:03:28,817 658 | for (i = 0; i < num_of_bytes; i++) 2021-08-22T05:03:28,817 | ^ 2021-08-22T05:03:28,817 MDAnalysis/lib/formats/src/xdrfile.c:666:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-08-22T05:03:28,817 666 | for (i = 0; i < num_of_bytes-1; i++) 2021-08-22T05:03:28,817 | ^ 2021-08-22T05:03:28,818 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘decodebits’: 2021-08-22T05:03:28,818 MDAnalysis/lib/formats/src/xdrfile.c:706:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-08-22T05:03:28,818 706 | if (lastbits < num_of_bits) 2021-08-22T05:03:28,818 | ^ 2021-08-22T05:03:28,819 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2021-08-22T05:03:28,820 MDAnalysis/lib/formats/src/xdrfile.c:816:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-08-22T05:03:28,820 816 | if(size3>xfp->buf1size) 2021-08-22T05:03:28,820 | ^ 2021-08-22T05:03:28,821 MDAnalysis/lib/formats/src/xdrfile.c:868:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-08-22T05:03:28,821 868 | maxidx = (LASTIDXxfp->buf1size) 2021-08-22T05:03:28,826 | ^ 2021-08-22T05:03:28,830 MDAnalysis/lib/formats/src/xdrfile.c:1135:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-08-22T05:03:28,830 1135 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2021-08-22T05:03:28,830 | ^ 2021-08-22T05:03:28,830 MDAnalysis/lib/formats/src/xdrfile.c:1141:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-08-22T05:03:28,831 1141 | maxidx = (LASTIDXxfp->buf1size) 2021-08-22T05:03:28,837 | ^ 2021-08-22T05:03:28,838 MDAnalysis/lib/formats/src/xdrfile.c:1368:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-08-22T05:03:28,839 1368 | maxidx = (LASTIDXxfp->buf1size) { 2021-08-22T05:03:28,844 | ^ 2021-08-22T05:03:28,850 MDAnalysis/lib/formats/src/xdrfile.c:1619:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-08-22T05:03:28,851 1619 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2021-08-22T05:03:28,851 | ^ 2021-08-22T05:03:28,851 MDAnalysis/lib/formats/src/xdrfile.c:1624:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-08-22T05:03:28,851 1624 | maxidx = (LASTIDX maxsize) 2021-08-22T05:03:30,526 | ^ 2021-08-22T05:03:30,527 MDAnalysis/lib/formats/src/xdrfile.c:2335:15: note: ‘size’ was declared here 2021-08-22T05:03:30,527 2335 | unsigned int size; 2021-08-22T05:03:30,527 | ^~~~ 2021-08-22T05:03:30,963 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_compress_coord_float’: 2021-08-22T05:03:30,963 MDAnalysis/lib/formats/src/xdrfile.c:1157:21: warning: ‘prevcoord[2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-08-22T05:03:30,963 1157 | abs(thiscoord[2] - prevcoord[2]) < larger) { 2021-08-22T05:03:30,963 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-08-22T05:03:30,964 MDAnalysis/lib/formats/src/xdrfile.c:1156:21: warning: ‘prevcoord[1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-08-22T05:03:30,964 1156 | abs(thiscoord[1] - prevcoord[1]) < larger && 2021-08-22T05:03:30,964 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-08-22T05:03:30,964 MDAnalysis/lib/formats/src/xdrfile.c:1155:21: warning: ‘prevcoord[0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-08-22T05:03:30,964 1155 | abs(thiscoord[0] - prevcoord[0]) < larger && 2021-08-22T05:03:30,965 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-08-22T05:03:31,722 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_compress_coord_double’: 2021-08-22T05:03:31,723 MDAnalysis/lib/formats/src/xdrfile.c:1639:21: warning: ‘prevcoord[2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-08-22T05:03:31,723 1639 | abs(thiscoord[2] - prevcoord[2]) < larger) { 2021-08-22T05:03:31,723 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-08-22T05:03:31,724 MDAnalysis/lib/formats/src/xdrfile.c:1638:21: warning: ‘prevcoord[1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-08-22T05:03:31,724 1638 | abs(thiscoord[1] - prevcoord[1]) < larger && 2021-08-22T05:03:31,724 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-08-22T05:03:31,724 MDAnalysis/lib/formats/src/xdrfile.c:1637:21: warning: ‘prevcoord[0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-08-22T05:03:31,725 1637 | abs(thiscoord[0] - prevcoord[0]) < larger && 2021-08-22T05:03:31,725 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-08-22T05:03:32,756 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:03:32,782 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:03:32,851 In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:38: 2021-08-22T05:03:32,851 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:32,851 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:32,851 | 2021-08-22T05:03:32,856 In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:39: 2021-08-22T05:03:32,856 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:32,856 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:32,856 | 2021-08-22T05:03:32,856 In file included from /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile_trr.h:42, 2021-08-22T05:03:32,857 from MDAnalysis/lib/formats/src/xdrfile_trr.c:39: 2021-08-22T05:03:32,857 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:32,857 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:32,857 | 2021-08-22T05:03:32,858 MDAnalysis/lib/formats/src/xdrfile_trr.c: In function ‘do_trnheader’: 2021-08-22T05:03:32,858 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] 2021-08-22T05:03:32,859 78 | if (slen != strlen(version) + 1) 2021-08-22T05:03:32,859 | ^~ 2021-08-22T05:03:32,859 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] 2021-08-22T05:03:32,859 86 | if (xdrfile_write_string(version, xd) != (strlen(version) + 1)) 2021-08-22T05:03:32,859 | ^~ 2021-08-22T05:03:32,875 MDAnalysis/lib/formats/src/xdrfile_trr.c: In function ‘write_trr’: 2021-08-22T05:03:32,875 MDAnalysis/lib/formats/src/xdrfile_trr.c:408:10: warning: ‘plcholder’ is used uninitialized in this function [-Wuninitialized] 2021-08-22T05:03:32,876 408 | return do_trn(xd, 0, &step, &t, &lambda, box, &natoms, x, v, f, plcholder); 2021-08-22T05:03:32,876 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:03:33,964 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:03:33,991 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:03:34,019 In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:30: 2021-08-22T05:03:34,019 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:34,020 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:34,020 | 2021-08-22T05:03:34,032 In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:31: 2021-08-22T05:03:34,033 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:34,033 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:34,033 | 2021-08-22T05:03:34,033 In file included from /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2021-08-22T05:03:34,033 from MDAnalysis/lib/formats/src/xdrfile_xtc.c:31: 2021-08-22T05:03:34,033 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:34,033 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:34,034 | 2021-08-22T05:03:34,173 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:03:34,199 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:03:34,228 In file included from MDAnalysis/lib/formats/src/xtc_seek.c:25: 2021-08-22T05:03:34,228 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:34,228 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:34,228 | 2021-08-22T05:03:34,239 In file included from MDAnalysis/lib/formats/src/xtc_seek.c:26: 2021-08-22T05:03:34,240 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:34,240 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:34,240 | 2021-08-22T05:03:34,240 In file included from /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2021-08-22T05:03:34,240 from MDAnalysis/lib/formats/src/xtc_seek.c:26: 2021-08-22T05:03:34,241 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-08-22T05:03:34,241 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-08-22T05:03:34,241 | 2021-08-22T05:03:34,414 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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 -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/libmdaxdr.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:03:34,652 building 'MDAnalysis.lib.formats.cython_util' extension 2021-08-22T05:03:34,653 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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 2021-08-22T05:03:34,682 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:03:35,028 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:03:35,028 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:03:35,029 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:03:35,029 from MDAnalysis/lib/formats/cython_util.c:646: 2021-08-22T05:03:35,029 /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] 2021-08-22T05:03:35,029 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:03:35,029 | ^~~~~~~ 2021-08-22T05:03:51,701 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/cython_util.o -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/cython_util.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:03:51,869 building 'MDAnalysis.analysis.encore.cutils' extension 2021-08-22T05:03:51,870 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis 2021-08-22T05:03:51,870 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-08-22T05:03:51,871 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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 2021-08-22T05:03:51,902 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:03:52,249 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:03:52,249 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:03:52,249 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:03:52,250 from MDAnalysis/analysis/encore/cutils.c:646: 2021-08-22T05:03:52,250 /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] 2021-08-22T05:03:52,250 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:03:52,250 | ^~~~~~~ 2021-08-22T05:03:54,327 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/cutils.o -o build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/cutils.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:03:54,444 building 'MDAnalysis.analysis.encore.clustering.affinityprop' extension 2021-08-22T05:03:54,445 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-08-22T05:03:54,446 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/src 2021-08-22T05:03:54,446 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:03:54,476 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:03:54,828 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:03:54,829 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:03:54,829 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:03:54,829 from MDAnalysis/analysis/encore/clustering/affinityprop.c:652: 2021-08-22T05:03:54,829 /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] 2021-08-22T05:03:54,829 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:03:54,829 | ^~~~~~~ 2021-08-22T05:04:04,958 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:04:04,982 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:04:06,023 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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 -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/affinityprop.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:04:06,167 building 'MDAnalysis.analysis.encore.dimensionality_reduction.stochasticproxembed' extension 2021-08-22T05:04:06,168 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:04:06,168 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/src 2021-08-22T05:04:06,169 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:04:06,196 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:04:06,909 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:04:06,935 cc1: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:04:07,309 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:04:07,309 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:04:07,309 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:04:07,309 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:652: 2021-08-22T05:04:07,309 /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] 2021-08-22T05:04:07,310 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:04:07,310 | ^~~~~~~ 2021-08-22T05:04:11,231 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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 -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:04:11,364 building 'MDAnalysis.lib._cutil' extension 2021-08-22T05:04:11,365 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:04:11,400 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:04:11,660 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:04:11,660 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:04:11,660 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:04:11,660 from MDAnalysis/lib/_cutil.cpp:666: 2021-08-22T05:04:11,661 /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] 2021-08-22T05:04:11,661 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:04:11,661 | ^~~~~~~ 2021-08-22T05:04:14,649 In file included from MDAnalysis/lib/_cutil.cpp:691: 2021-08-22T05:04:14,649 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:854:13: warning: ‘void _calc_dihedral_triclinic(float (*)[3], float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,649 854 | static void _calc_dihedral_triclinic(coordinate* atom1, coordinate* atom2, 2021-08-22T05:04:14,649 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,649 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:818:13: warning: ‘void _calc_dihedral_ortho(float (*)[3], float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,650 818 | static void _calc_dihedral_ortho(coordinate* atom1, coordinate* atom2, 2021-08-22T05:04:14,650 | ^~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,650 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:790:13: warning: ‘void _calc_dihedral(float (*)[3], float (*)[3], float (*)[3], float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,650 790 | static void _calc_dihedral(coordinate* atom1, coordinate* atom2, 2021-08-22T05:04:14,650 | ^~~~~~~~~~~~~~ 2021-08-22T05:04:14,650 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:713:13: warning: ‘void _calc_angle_triclinic(float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,650 713 | static void _calc_angle_triclinic(coordinate* atom1, coordinate* atom2, 2021-08-22T05:04:14,651 | ^~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,651 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:670:13: warning: ‘void _calc_angle_ortho(float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,651 670 | static void _calc_angle_ortho(coordinate* atom1, coordinate* atom2, 2021-08-22T05:04:14,651 | ^~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,651 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:639:13: warning: ‘void _calc_angle(float (*)[3], float (*)[3], float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,651 639 | static void _calc_angle(coordinate* atom1, coordinate* atom2, 2021-08-22T05:04:14,652 | ^~~~~~~~~~~ 2021-08-22T05:04:14,652 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:614:13: warning: ‘void _calc_bond_distance_triclinic(float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,652 614 | static void _calc_bond_distance_triclinic(coordinate* atom1, coordinate* atom2, 2021-08-22T05:04:14,652 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,652 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:589:13: warning: ‘void _calc_bond_distance_ortho(float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,652 589 | static void _calc_bond_distance_ortho(coordinate* atom1, coordinate* atom2, 2021-08-22T05:04:14,653 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,653 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:570:13: warning: ‘void _calc_bond_distance(float (*)[3], float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,653 570 | static void _calc_bond_distance(coordinate* atom1, coordinate* atom2, 2021-08-22T05:04:14,653 | ^~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,653 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:515:13: warning: ‘void _calc_self_distance_array_triclinic(float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,653 515 | static void _calc_self_distance_array_triclinic(coordinate* ref, int numref, 2021-08-22T05:04:14,653 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,654 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:482:13: warning: ‘void _calc_self_distance_array_ortho(float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,654 482 | static void _calc_self_distance_array_ortho(coordinate* ref, int numref, 2021-08-22T05:04:14,654 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,654 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:455:13: warning: ‘void _calc_self_distance_array(float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,654 455 | static void _calc_self_distance_array(coordinate* ref, int numref, 2021-08-22T05:04:14,654 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,654 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:428:13: warning: ‘void _calc_distance_array_triclinic(float (*)[3], int, float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,654 428 | static void _calc_distance_array_triclinic(coordinate* ref, int numref, 2021-08-22T05:04:14,655 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,655 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:401:13: warning: ‘void _calc_distance_array_ortho(float (*)[3], int, float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,655 401 | static void _calc_distance_array_ortho(coordinate* ref, int numref, coordinate* conf, 2021-08-22T05:04:14,655 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,655 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:380:13: warning: ‘void _calc_distance_array(float (*)[3], int, float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,655 380 | static void _calc_distance_array(coordinate* ref, int numref, coordinate* conf, 2021-08-22T05:04:14,655 | ^~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:04:14,656 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:111:13: warning: ‘void _ortho_pbc(float (*)[3], int, float*)’ defined but not used [-Wunused-function] 2021-08-22T05:04:14,656 111 | static void _ortho_pbc(coordinate* coords, int numcoords, float* box) 2021-08-22T05:04:14,656 | ^~~~~~~~~~ 2021-08-22T05:04:41,200 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/_cutil.o -lm -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/_cutil.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:04:41,592 building 'MDAnalysis.lib._augment' extension 2021-08-22T05:04:41,592 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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 2021-08-22T05:04:41,629 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:04:41,886 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-08-22T05:04:41,886 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-08-22T05:04:41,886 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-08-22T05:04:41,886 from MDAnalysis/lib/_augment.cpp:661: 2021-08-22T05:04:41,886 /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] 2021-08-22T05:04:41,886 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-08-22T05:04:41,887 | ^~~~~~~ 2021-08-22T05:05:07,448 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/_augment.o -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/_augment.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:05:07,787 building 'MDAnalysis.lib.nsgrid' extension 2021-08-22T05:05:07,789 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 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/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 2021-08-22T05:05:07,827 cc1plus: warning: ‘-fassociative-math’ disabled; other options take precedence 2021-08-22T05:05:10,276 In file included from MDAnalysis/lib/nsgrid.cpp:665: 2021-08-22T05:05:10,276 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:854:13: warning: ‘void _calc_dihedral_triclinic(float (*)[3], float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,276 854 | static void _calc_dihedral_triclinic(coordinate* atom1, coordinate* atom2, 2021-08-22T05:05:10,276 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,276 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:818:13: warning: ‘void _calc_dihedral_ortho(float (*)[3], float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,277 818 | static void _calc_dihedral_ortho(coordinate* atom1, coordinate* atom2, 2021-08-22T05:05:10,277 | ^~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,277 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:790:13: warning: ‘void _calc_dihedral(float (*)[3], float (*)[3], float (*)[3], float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,277 790 | static void _calc_dihedral(coordinate* atom1, coordinate* atom2, 2021-08-22T05:05:10,277 | ^~~~~~~~~~~~~~ 2021-08-22T05:05:10,278 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:713:13: warning: ‘void _calc_angle_triclinic(float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,278 713 | static void _calc_angle_triclinic(coordinate* atom1, coordinate* atom2, 2021-08-22T05:05:10,278 | ^~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,278 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:670:13: warning: ‘void _calc_angle_ortho(float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,278 670 | static void _calc_angle_ortho(coordinate* atom1, coordinate* atom2, 2021-08-22T05:05:10,278 | ^~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,279 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:639:13: warning: ‘void _calc_angle(float (*)[3], float (*)[3], float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,279 639 | static void _calc_angle(coordinate* atom1, coordinate* atom2, 2021-08-22T05:05:10,279 | ^~~~~~~~~~~ 2021-08-22T05:05:10,279 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:614:13: warning: ‘void _calc_bond_distance_triclinic(float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,279 614 | static void _calc_bond_distance_triclinic(coordinate* atom1, coordinate* atom2, 2021-08-22T05:05:10,279 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,279 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:589:13: warning: ‘void _calc_bond_distance_ortho(float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,280 589 | static void _calc_bond_distance_ortho(coordinate* atom1, coordinate* atom2, 2021-08-22T05:05:10,280 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,280 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:570:13: warning: ‘void _calc_bond_distance(float (*)[3], float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,280 570 | static void _calc_bond_distance(coordinate* atom1, coordinate* atom2, 2021-08-22T05:05:10,280 | ^~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,280 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:515:13: warning: ‘void _calc_self_distance_array_triclinic(float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,280 515 | static void _calc_self_distance_array_triclinic(coordinate* ref, int numref, 2021-08-22T05:05:10,280 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,281 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:482:13: warning: ‘void _calc_self_distance_array_ortho(float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,281 482 | static void _calc_self_distance_array_ortho(coordinate* ref, int numref, 2021-08-22T05:05:10,281 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,281 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:455:13: warning: ‘void _calc_self_distance_array(float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,281 455 | static void _calc_self_distance_array(coordinate* ref, int numref, 2021-08-22T05:05:10,281 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,281 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:428:13: warning: ‘void _calc_distance_array_triclinic(float (*)[3], int, float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,281 428 | static void _calc_distance_array_triclinic(coordinate* ref, int numref, 2021-08-22T05:05:10,282 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,282 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:401:13: warning: ‘void _calc_distance_array_ortho(float (*)[3], int, float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,282 401 | static void _calc_distance_array_ortho(coordinate* ref, int numref, coordinate* conf, 2021-08-22T05:05:10,282 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:10,282 /tmp/pip-wheel-bc45vo69/mdanalysis_e67ccfa1243b41c5b3397dfe1218330e/MDAnalysis/lib/include/calc_distances.h:380:13: warning: ‘void _calc_distance_array(float (*)[3], int, float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-08-22T05:05:10,282 380 | static void _calc_distance_array(coordinate* ref, int numref, coordinate* conf, 2021-08-22T05:05:10,282 | ^~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:32,721 In file included from /usr/include/c++/10/vector:72, 2021-08-22T05:05:32,721 from MDAnalysis/lib/nsgrid.cpp:663: 2021-08-22T05:05:32,721 /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]’: 2021-08-22T05:05:32,721 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-08-22T05:05:32,722 426 | vector<_Tp, _Alloc>:: 2021-08-22T05:05:32,722 | ^~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:32,757 In file included from /usr/include/c++/10/vector:67, 2021-08-22T05:05:32,758 from MDAnalysis/lib/nsgrid.cpp:663: 2021-08-22T05:05:32,758 /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)’: 2021-08-22T05:05:32,758 /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 2021-08-22T05:05:32,758 1198 | _M_realloc_insert(end(), __x); 2021-08-22T05:05:32,758 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-08-22T05:05:32,795 In file included from /usr/include/c++/10/vector:72, 2021-08-22T05:05:32,795 from MDAnalysis/lib/nsgrid.cpp:663: 2021-08-22T05:05:32,795 /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]’: 2021-08-22T05:05:32,795 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-08-22T05:05:32,796 426 | vector<_Tp, _Alloc>:: 2021-08-22T05:05:32,796 | ^~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:33,047 /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*)’: 2021-08-22T05:05:33,047 /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 2021-08-22T05:05:33,047 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-08-22T05:05:33,047 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-08-22T05:05:36,355 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/MDAnalysis/lib/nsgrid.o -o build/lib.linux-armv7l-3.9/MDAnalysis/lib/nsgrid.cpython-39-arm-linux-gnueabihf.so 2021-08-22T05:05:36,743 installing to build/bdist.linux-armv7l/wheel 2021-08-22T05:05:36,743 running install 2021-08-22T05:05:36,745 running install_lib 2021-08-22T05:05:36,749 creating build/bdist.linux-armv7l 2021-08-22T05:05:36,750 creating build/bdist.linux-armv7l/wheel 2021-08-22T05:05:36,752 creating build/bdist.linux-armv7l/wheel/MDAnalysis 2021-08-22T05:05:36,754 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,755 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/rms.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,759 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2021-08-22T05:05:36,760 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy/x3dna.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2021-08-22T05:05:36,763 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2021-08-22T05:05:36,766 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2021-08-22T05:05:36,767 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2021-08-22T05:05:36,769 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2021-08-22T05:05:36,771 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/nuclinfo.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,774 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/waterdynamics.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,778 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/lineardensity.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,781 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/gnm.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,784 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/rdf.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,788 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/dihedrals.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,791 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/helix_analysis.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,795 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2021-08-22T05:05:36,796 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2/utils.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2021-08-22T05:05:36,799 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2/hole.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2021-08-22T05:05:36,804 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2/templates.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2021-08-22T05:05:36,807 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole2/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hole2 2021-08-22T05:05:36,809 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/distances.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,812 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:05:36,813 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:05:36,817 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:05:36,821 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:05:36,826 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hydrogenbonds/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hydrogenbonds 2021-08-22T05:05:36,828 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/bat.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,831 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/pca.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,835 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/contacts.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,839 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-08-22T05:05:36,840 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data/filenames.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-08-22T05:05:36,843 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data/rama_ref_data.npy -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-08-22T05:05:36,847 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-08-22T05:05:36,849 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data/janin_ref_data.npy -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-08-22T05:05:36,852 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/polymer.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,855 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/density.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,859 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/diffusionmap.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,862 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/msd.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,864 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,867 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/leaflet.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,869 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/psa.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,875 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,879 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-08-22T05:05:36,880 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/covariance.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-08-22T05:05:36,882 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/utils.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-08-22T05:05:36,885 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/confdistmatrix.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-08-22T05:05:36,888 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/bootstrap.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-08-22T05:05:36,891 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/cutils.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-08-22T05:05:36,898 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-08-22T05:05:36,901 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-08-22T05:05:36,902 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-08-22T05:05:36,905 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-08-22T05:05:36,908 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/cluster.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-08-22T05:05:36,911 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/affinityprop.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-08-22T05:05:36,927 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-08-22T05:05:36,930 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:05:36,930 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:05:36,933 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:05:36,936 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:05:36,938 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2021-08-22T05:05:36,948 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/similarity.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-08-22T05:05:36,953 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/align.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-08-22T05:05:36,958 creating build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2021-08-22T05:05:36,962 copying build/lib.linux-armv7l-3.9/MDAnalysis/visualization/streamlines.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2021-08-22T05:05:36,963 copying build/lib.linux-armv7l-3.9/MDAnalysis/visualization/streamlines_3D.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2021-08-22T05:05:36,966 copying build/lib.linux-armv7l-3.9/MDAnalysis/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2021-08-22T05:05:36,969 creating build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:36,970 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/accessors.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:36,973 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/topologyattrs.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:36,978 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/topology.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:36,982 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/_get_readers.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:36,985 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/universe.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:36,990 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:36,992 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/topologyobjects.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:36,996 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/selection.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:37,000 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/groups.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-08-22T05:05:37,008 creating build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2021-08-22T05:05:37,009 copying build/lib.linux-armv7l-3.9/MDAnalysis/converters/OpenMM.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2021-08-22T05:05:37,012 copying build/lib.linux-armv7l-3.9/MDAnalysis/converters/RDKitParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2021-08-22T05:05:37,014 copying build/lib.linux-armv7l-3.9/MDAnalysis/converters/RDKit.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2021-08-22T05:05:37,018 copying build/lib.linux-armv7l-3.9/MDAnalysis/converters/ParmEd.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2021-08-22T05:05:37,021 copying build/lib.linux-armv7l-3.9/MDAnalysis/converters/OpenMMParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2021-08-22T05:05:37,023 copying build/lib.linux-armv7l-3.9/MDAnalysis/converters/ParmEdParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2021-08-22T05:05:37,026 copying build/lib.linux-armv7l-3.9/MDAnalysis/converters/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/converters 2021-08-22T05:05:37,029 creating build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-08-22T05:05:37,030 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/translate.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-08-22T05:05:37,033 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/boxdimensions.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-08-22T05:05:37,035 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/rotate.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-08-22T05:05:37,038 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/wrap.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-08-22T05:05:37,040 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-08-22T05:05:37,043 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/positionaveraging.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-08-22T05:05:37,046 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/fit.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-08-22T05:05:37,048 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-08-22T05:05:37,052 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,053 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/_cutil.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,096 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/c_distances_openmp.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,103 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/util.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,107 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/picklable_file_io.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,110 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/mdamath.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,112 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/_augment.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,146 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/distances.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,150 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/log.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,153 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/correlations.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,155 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/transformations.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,159 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/nsgrid.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,194 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,197 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2021-08-22T05:05:37,198 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/cython_util.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2021-08-22T05:05:37,224 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/libmdaxdr.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2021-08-22T05:05:37,266 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/libdcd.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2021-08-22T05:05:37,313 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2021-08-22T05:05:37,315 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/pkdtree.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,317 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/NeighborSearch.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,319 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/c_distances.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,344 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/_transformations.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,353 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/qcprot.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-08-22T05:05:37,362 copying build/lib.linux-armv7l-3.9/MDAnalysis/version.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-08-22T05:05:37,365 creating build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,366 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/GSDParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,370 creating build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-08-22T05:05:37,370 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr/obj.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-08-22T05:05:37,373 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr/utils.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-08-22T05:05:37,376 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr/setting.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-08-22T05:05:37,379 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-08-22T05:05:37,381 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/HoomdXMLParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,383 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/TXYZParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,385 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/PDBQTParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,388 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/GROParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,390 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/FHIAIMSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,392 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/CRDParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,395 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/guessers.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,398 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/PDBParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,401 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/MMTFParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,403 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/LAMMPSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,406 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tables.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,408 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/ExtendedPDBParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,410 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/TOPParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,413 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/TPRParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,416 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/MOL2Parser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,418 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/XYZParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,420 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/ParmEdParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,422 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/ITPParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,425 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/DMSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,428 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/core.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,430 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/DLPolyParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,432 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/PQRParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,435 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/GMSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,437 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,440 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/MinimalParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,442 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/PSFParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,445 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-08-22T05:05:37,448 copying build/lib.linux-armv7l-3.9/MDAnalysis/exceptions.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-08-22T05:05:37,451 creating build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-08-22T05:05:37,451 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/charmm.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-08-22T05:05:37,454 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/jmol.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-08-22T05:05:37,456 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/gromacs.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-08-22T05:05:37,458 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-08-22T05:05:37,460 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/pymol.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-08-22T05:05:37,462 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-08-22T05:05:37,465 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/vmd.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-08-22T05:05:37,467 copying build/lib.linux-armv7l-3.9/MDAnalysis/authors.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-08-22T05:05:37,469 creating build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2021-08-22T05:05:37,470 copying build/lib.linux-armv7l-3.9/MDAnalysis/tests/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2021-08-22T05:05:37,472 copying build/lib.linux-armv7l-3.9/MDAnalysis/tests/datafiles.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2021-08-22T05:05:37,474 copying build/lib.linux-armv7l-3.9/MDAnalysis/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-08-22T05:05:37,477 copying build/lib.linux-armv7l-3.9/MDAnalysis/due.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-08-22T05:05:37,480 creating build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,481 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/TXYZ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,484 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/MOL2.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,487 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/H5MD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,491 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/TRZ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,494 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/chemfiles.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,497 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/DLPoly.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,500 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/PDB.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,504 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/MMTF.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,506 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/GMS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,509 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/DMS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,511 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/TRJ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,515 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/FHIAIMS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,518 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/ParmEd.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,520 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/LAMMPS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,524 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/core.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,526 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/GSD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,529 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/TRR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,533 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/CRD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,536 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/GRO.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,541 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/DCD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,544 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/chain.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,549 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/XTC.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,552 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,556 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/INPCRD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,559 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/XDR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,562 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/PQR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,565 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/memory.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,569 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/NAMDBIN.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,571 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,576 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/PDBQT.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,579 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/XYZ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,582 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/null.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-08-22T05:05:37,585 creating build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-08-22T05:05:37,586 copying build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary/XVG.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-08-22T05:05:37,589 copying build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary/core.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-08-22T05:05:37,592 copying build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-08-22T05:05:37,595 copying build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-08-22T05:05:37,599 copying build/lib.linux-armv7l-3.9/MDAnalysis/units.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-08-22T05:05:37,602 running install_egg_info 2021-08-22T05:05:37,629 running egg_info 2021-08-22T05:05:37,629 writing MDAnalysis.egg-info/PKG-INFO 2021-08-22T05:05:37,631 writing dependency_links to MDAnalysis.egg-info/dependency_links.txt 2021-08-22T05:05:37,633 writing requirements to MDAnalysis.egg-info/requires.txt 2021-08-22T05:05:37,634 writing top-level names to MDAnalysis.egg-info/top_level.txt 2021-08-22T05:05:37,716 reading manifest file 'MDAnalysis.egg-info/SOURCES.txt' 2021-08-22T05:05:37,767 reading manifest template 'MANIFEST.in' 2021-08-22T05:05:38,011 warning: no previously-included files matching 'doc/html/html' found anywhere in distribution 2021-08-22T05:05:38,014 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2021-08-22T05:05:38,017 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2021-08-22T05:05:38,019 warning: no previously-included files matching '*.pyd' found anywhere in distribution 2021-08-22T05:05:38,022 warning: no previously-included files matching '*~' found anywhere in distribution 2021-08-22T05:05:38,024 warning: no previously-included files matching '.git' found anywhere in distribution 2021-08-22T05:05:38,024 adding license file 'LICENSE' 2021-08-22T05:05:38,024 adding license file 'AUTHORS' 2021-08-22T05:05:38,048 writing manifest file 'MDAnalysis.egg-info/SOURCES.txt' 2021-08-22T05:05:38,050 Copying MDAnalysis.egg-info to build/bdist.linux-armv7l/wheel/MDAnalysis-2.0.0-py3.9.egg-info 2021-08-22T05:05:38,064 running install_scripts 2021-08-22T05:05:38,130 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2021-08-22T05:05:38,131 adding license file "AUTHORS" (matched pattern "AUTHORS*") 2021-08-22T05:05:38,137 creating build/bdist.linux-armv7l/wheel/MDAnalysis-2.0.0.dist-info/WHEEL 2021-08-22T05:05:38,140 creating '/tmp/pip-wheel-fccnvvvf/MDAnalysis-2.0.0-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-08-22T05:05:38,143 adding 'MDAnalysis/__init__.py' 2021-08-22T05:05:38,145 adding 'MDAnalysis/authors.py' 2021-08-22T05:05:38,146 adding 'MDAnalysis/due.py' 2021-08-22T05:05:38,147 adding 'MDAnalysis/exceptions.py' 2021-08-22T05:05:38,150 adding 'MDAnalysis/units.py' 2021-08-22T05:05:38,151 adding 'MDAnalysis/version.py' 2021-08-22T05:05:38,153 adding 'MDAnalysis/analysis/__init__.py' 2021-08-22T05:05:38,163 adding 'MDAnalysis/analysis/align.py' 2021-08-22T05:05:38,165 adding 'MDAnalysis/analysis/base.py' 2021-08-22T05:05:38,169 adding 'MDAnalysis/analysis/bat.py' 2021-08-22T05:05:38,172 adding 'MDAnalysis/analysis/contacts.py' 2021-08-22T05:05:38,177 adding 'MDAnalysis/analysis/density.py' 2021-08-22T05:05:38,180 adding 'MDAnalysis/analysis/diffusionmap.py' 2021-08-22T05:05:38,183 adding 'MDAnalysis/analysis/dihedrals.py' 2021-08-22T05:05:38,185 adding 'MDAnalysis/analysis/distances.py' 2021-08-22T05:05:38,187 adding 'MDAnalysis/analysis/gnm.py' 2021-08-22T05:05:38,190 adding 'MDAnalysis/analysis/helix_analysis.py' 2021-08-22T05:05:38,192 adding 'MDAnalysis/analysis/leaflet.py' 2021-08-22T05:05:38,194 adding 'MDAnalysis/analysis/lineardensity.py' 2021-08-22T05:05:38,196 adding 'MDAnalysis/analysis/msd.py' 2021-08-22T05:05:38,199 adding 'MDAnalysis/analysis/nuclinfo.py' 2021-08-22T05:05:38,202 adding 'MDAnalysis/analysis/pca.py' 2021-08-22T05:05:38,204 adding 'MDAnalysis/analysis/polymer.py' 2021-08-22T05:05:38,215 adding 'MDAnalysis/analysis/psa.py' 2021-08-22T05:05:38,218 adding 'MDAnalysis/analysis/rdf.py' 2021-08-22T05:05:38,223 adding 'MDAnalysis/analysis/rms.py' 2021-08-22T05:05:38,228 adding 'MDAnalysis/analysis/waterdynamics.py' 2021-08-22T05:05:38,230 adding 'MDAnalysis/analysis/data/__init__.py' 2021-08-22T05:05:38,231 adding 'MDAnalysis/analysis/data/filenames.py' 2021-08-22T05:05:38,235 adding 'MDAnalysis/analysis/data/janin_ref_data.npy' 2021-08-22T05:05:38,240 adding 'MDAnalysis/analysis/data/rama_ref_data.npy' 2021-08-22T05:05:38,242 adding 'MDAnalysis/analysis/encore/__init__.py' 2021-08-22T05:05:38,244 adding 'MDAnalysis/analysis/encore/bootstrap.py' 2021-08-22T05:05:38,246 adding 'MDAnalysis/analysis/encore/confdistmatrix.py' 2021-08-22T05:05:38,248 adding 'MDAnalysis/analysis/encore/covariance.py' 2021-08-22T05:05:38,277 adding 'MDAnalysis/analysis/encore/cutils.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:38,285 adding 'MDAnalysis/analysis/encore/similarity.py' 2021-08-22T05:05:38,287 adding 'MDAnalysis/analysis/encore/utils.py' 2021-08-22T05:05:38,289 adding 'MDAnalysis/analysis/encore/clustering/ClusterCollection.py' 2021-08-22T05:05:38,292 adding 'MDAnalysis/analysis/encore/clustering/ClusteringMethod.py' 2021-08-22T05:05:38,293 adding 'MDAnalysis/analysis/encore/clustering/__init__.py' 2021-08-22T05:05:38,394 adding 'MDAnalysis/analysis/encore/clustering/affinityprop.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:38,400 adding 'MDAnalysis/analysis/encore/clustering/cluster.py' 2021-08-22T05:05:38,402 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py' 2021-08-22T05:05:38,403 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py' 2021-08-22T05:05:38,405 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py' 2021-08-22T05:05:38,465 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:38,469 adding 'MDAnalysis/analysis/hbonds/__init__.py' 2021-08-22T05:05:38,470 adding 'MDAnalysis/analysis/hbonds/hbond_autocorrel.py' 2021-08-22T05:05:38,472 adding 'MDAnalysis/analysis/hole2/__init__.py' 2021-08-22T05:05:38,478 adding 'MDAnalysis/analysis/hole2/hole.py' 2021-08-22T05:05:38,480 adding 'MDAnalysis/analysis/hole2/templates.py' 2021-08-22T05:05:38,483 adding 'MDAnalysis/analysis/hole2/utils.py' 2021-08-22T05:05:38,484 adding 'MDAnalysis/analysis/hydrogenbonds/__init__.py' 2021-08-22T05:05:38,489 adding 'MDAnalysis/analysis/hydrogenbonds/hbond_analysis.py' 2021-08-22T05:05:38,492 adding 'MDAnalysis/analysis/hydrogenbonds/hbond_autocorrel.py' 2021-08-22T05:05:38,502 adding 'MDAnalysis/analysis/hydrogenbonds/wbridge_analysis.py' 2021-08-22T05:05:38,505 adding 'MDAnalysis/analysis/legacy/__init__.py' 2021-08-22T05:05:38,509 adding 'MDAnalysis/analysis/legacy/x3dna.py' 2021-08-22T05:05:38,511 adding 'MDAnalysis/auxiliary/XVG.py' 2021-08-22T05:05:38,514 adding 'MDAnalysis/auxiliary/__init__.py' 2021-08-22T05:05:38,519 adding 'MDAnalysis/auxiliary/base.py' 2021-08-22T05:05:38,521 adding 'MDAnalysis/auxiliary/core.py' 2021-08-22T05:05:38,522 adding 'MDAnalysis/converters/OpenMM.py' 2021-08-22T05:05:38,524 adding 'MDAnalysis/converters/OpenMMParser.py' 2021-08-22T05:05:38,526 adding 'MDAnalysis/converters/ParmEd.py' 2021-08-22T05:05:38,528 adding 'MDAnalysis/converters/ParmEdParser.py' 2021-08-22T05:05:38,533 adding 'MDAnalysis/converters/RDKit.py' 2021-08-22T05:05:38,535 adding 'MDAnalysis/converters/RDKitParser.py' 2021-08-22T05:05:38,536 adding 'MDAnalysis/converters/__init__.py' 2021-08-22T05:05:38,539 adding 'MDAnalysis/coordinates/CRD.py' 2021-08-22T05:05:38,541 adding 'MDAnalysis/coordinates/DCD.py' 2021-08-22T05:05:38,543 adding 'MDAnalysis/coordinates/DLPoly.py' 2021-08-22T05:05:38,544 adding 'MDAnalysis/coordinates/DMS.py' 2021-08-22T05:05:38,546 adding 'MDAnalysis/coordinates/FHIAIMS.py' 2021-08-22T05:05:38,548 adding 'MDAnalysis/coordinates/GMS.py' 2021-08-22T05:05:38,551 adding 'MDAnalysis/coordinates/GRO.py' 2021-08-22T05:05:38,553 adding 'MDAnalysis/coordinates/GSD.py' 2021-08-22T05:05:38,561 adding 'MDAnalysis/coordinates/H5MD.py' 2021-08-22T05:05:38,563 adding 'MDAnalysis/coordinates/INPCRD.py' 2021-08-22T05:05:38,566 adding 'MDAnalysis/coordinates/LAMMPS.py' 2021-08-22T05:05:38,568 adding 'MDAnalysis/coordinates/MMTF.py' 2021-08-22T05:05:38,570 adding 'MDAnalysis/coordinates/MOL2.py' 2021-08-22T05:05:38,572 adding 'MDAnalysis/coordinates/NAMDBIN.py' 2021-08-22T05:05:38,579 adding 'MDAnalysis/coordinates/PDB.py' 2021-08-22T05:05:38,581 adding 'MDAnalysis/coordinates/PDBQT.py' 2021-08-22T05:05:38,584 adding 'MDAnalysis/coordinates/PQR.py' 2021-08-22T05:05:38,585 adding 'MDAnalysis/coordinates/ParmEd.py' 2021-08-22T05:05:38,592 adding 'MDAnalysis/coordinates/TRJ.py' 2021-08-22T05:05:38,594 adding 'MDAnalysis/coordinates/TRR.py' 2021-08-22T05:05:38,597 adding 'MDAnalysis/coordinates/TRZ.py' 2021-08-22T05:05:38,598 adding 'MDAnalysis/coordinates/TXYZ.py' 2021-08-22T05:05:38,600 adding 'MDAnalysis/coordinates/XDR.py' 2021-08-22T05:05:38,602 adding 'MDAnalysis/coordinates/XTC.py' 2021-08-22T05:05:38,605 adding 'MDAnalysis/coordinates/XYZ.py' 2021-08-22T05:05:38,609 adding 'MDAnalysis/coordinates/__init__.py' 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'MDAnalysis/lib/NeighborSearch.py' 2021-08-22T05:05:38,697 adding 'MDAnalysis/lib/__init__.py' 2021-08-22T05:05:38,964 adding 'MDAnalysis/lib/_augment.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:39,320 adding 'MDAnalysis/lib/_cutil.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:39,389 adding 'MDAnalysis/lib/_transformations.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:39,640 adding 'MDAnalysis/lib/c_distances.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:39,704 adding 'MDAnalysis/lib/c_distances_openmp.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:39,708 adding 'MDAnalysis/lib/correlations.py' 2021-08-22T05:05:39,713 adding 'MDAnalysis/lib/distances.py' 2021-08-22T05:05:39,716 adding 'MDAnalysis/lib/log.py' 2021-08-22T05:05:39,718 adding 'MDAnalysis/lib/mdamath.py' 2021-08-22T05:05:40,052 adding 'MDAnalysis/lib/nsgrid.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:40,068 adding 'MDAnalysis/lib/picklable_file_io.py' 2021-08-22T05:05:40,070 adding 'MDAnalysis/lib/pkdtree.py' 2021-08-22T05:05:40,136 adding 'MDAnalysis/lib/qcprot.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:40,146 adding 'MDAnalysis/lib/transformations.py' 2021-08-22T05:05:40,157 adding 'MDAnalysis/lib/util.py' 2021-08-22T05:05:40,159 adding 'MDAnalysis/lib/formats/__init__.py' 2021-08-22T05:05:40,367 adding 'MDAnalysis/lib/formats/cython_util.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:40,773 adding 'MDAnalysis/lib/formats/libdcd.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:41,196 adding 'MDAnalysis/lib/formats/libmdaxdr.cpython-39-arm-linux-gnueabihf.so' 2021-08-22T05:05:41,215 adding 'MDAnalysis/selections/__init__.py' 2021-08-22T05:05:41,217 adding 'MDAnalysis/selections/base.py' 2021-08-22T05:05:41,218 adding 'MDAnalysis/selections/charmm.py' 2021-08-22T05:05:41,220 adding 'MDAnalysis/selections/gromacs.py' 2021-08-22T05:05:41,221 adding 'MDAnalysis/selections/jmol.py' 2021-08-22T05:05:41,223 adding 'MDAnalysis/selections/pymol.py' 2021-08-22T05:05:41,224 adding 'MDAnalysis/selections/vmd.py' 2021-08-22T05:05:41,226 adding 'MDAnalysis/tests/__init__.py' 2021-08-22T05:05:41,228 adding 'MDAnalysis/tests/datafiles.py' 2021-08-22T05:05:41,230 adding 'MDAnalysis/topology/CRDParser.py' 2021-08-22T05:05:41,231 adding 'MDAnalysis/topology/DLPolyParser.py' 2021-08-22T05:05:41,233 adding 'MDAnalysis/topology/DMSParser.py' 2021-08-22T05:05:41,235 adding 'MDAnalysis/topology/ExtendedPDBParser.py' 2021-08-22T05:05:41,236 adding 'MDAnalysis/topology/FHIAIMSParser.py' 2021-08-22T05:05:41,238 adding 'MDAnalysis/topology/GMSParser.py' 2021-08-22T05:05:41,240 adding 'MDAnalysis/topology/GROParser.py' 2021-08-22T05:05:41,242 adding 'MDAnalysis/topology/GSDParser.py' 2021-08-22T05:05:41,243 adding 'MDAnalysis/topology/HoomdXMLParser.py' 2021-08-22T05:05:41,247 adding 'MDAnalysis/topology/ITPParser.py' 2021-08-22T05:05:41,250 adding 'MDAnalysis/topology/LAMMPSParser.py' 2021-08-22T05:05:41,253 adding 'MDAnalysis/topology/MMTFParser.py' 2021-08-22T05:05:41,255 adding 'MDAnalysis/topology/MOL2Parser.py' 2021-08-22T05:05:41,256 adding 'MDAnalysis/topology/MinimalParser.py' 2021-08-22T05:05:41,259 adding 'MDAnalysis/topology/PDBParser.py' 2021-08-22T05:05:41,261 adding 'MDAnalysis/topology/PDBQTParser.py' 2021-08-22T05:05:41,263 adding 'MDAnalysis/topology/PQRParser.py' 2021-08-22T05:05:41,265 adding 'MDAnalysis/topology/PSFParser.py' 2021-08-22T05:05:41,267 adding 'MDAnalysis/topology/ParmEdParser.py' 2021-08-22T05:05:41,270 adding 'MDAnalysis/topology/TOPParser.py' 2021-08-22T05:05:41,272 adding 'MDAnalysis/topology/TPRParser.py' 2021-08-22T05:05:41,274 adding 'MDAnalysis/topology/TXYZParser.py' 2021-08-22T05:05:41,275 adding 'MDAnalysis/topology/XYZParser.py' 2021-08-22T05:05:41,278 adding 'MDAnalysis/topology/__init__.py' 2021-08-22T05:05:41,280 adding 'MDAnalysis/topology/base.py' 2021-08-22T05:05:41,281 adding 'MDAnalysis/topology/core.py' 2021-08-22T05:05:41,284 adding 'MDAnalysis/topology/guessers.py' 2021-08-22T05:05:41,287 adding 'MDAnalysis/topology/tables.py' 2021-08-22T05:05:41,288 adding 'MDAnalysis/topology/tpr/__init__.py' 2021-08-22T05:05:41,290 adding 'MDAnalysis/topology/tpr/obj.py' 2021-08-22T05:05:41,292 adding 'MDAnalysis/topology/tpr/setting.py' 2021-08-22T05:05:41,297 adding 'MDAnalysis/topology/tpr/utils.py' 2021-08-22T05:05:41,300 adding 'MDAnalysis/transformations/__init__.py' 2021-08-22T05:05:41,301 adding 'MDAnalysis/transformations/base.py' 2021-08-22T05:05:41,303 adding 'MDAnalysis/transformations/boxdimensions.py' 2021-08-22T05:05:41,305 adding 'MDAnalysis/transformations/fit.py' 2021-08-22T05:05:41,307 adding 'MDAnalysis/transformations/positionaveraging.py' 2021-08-22T05:05:41,309 adding 'MDAnalysis/transformations/rotate.py' 2021-08-22T05:05:41,311 adding 'MDAnalysis/transformations/translate.py' 2021-08-22T05:05:41,312 adding 'MDAnalysis/transformations/wrap.py' 2021-08-22T05:05:41,314 adding 'MDAnalysis/visualization/__init__.py' 2021-08-22T05:05:41,317 adding 'MDAnalysis/visualization/streamlines.py' 2021-08-22T05:05:41,321 adding 'MDAnalysis/visualization/streamlines_3D.py' 2021-08-22T05:05:41,324 adding 'MDAnalysis-2.0.0.dist-info/AUTHORS' 2021-08-22T05:05:41,328 adding 'MDAnalysis-2.0.0.dist-info/LICENSE' 2021-08-22T05:05:41,329 adding 'MDAnalysis-2.0.0.dist-info/METADATA' 2021-08-22T05:05:41,330 adding 'MDAnalysis-2.0.0.dist-info/WHEEL' 2021-08-22T05:05:41,331 adding 'MDAnalysis-2.0.0.dist-info/top_level.txt' 2021-08-22T05:05:41,334 adding 'MDAnalysis-2.0.0.dist-info/RECORD' 2021-08-22T05:05:41,400 removing build/bdist.linux-armv7l/wheel 2021-08-22T05:05:41,621 Building wheel for mdanalysis (setup.py): finished with status 'done' 2021-08-22T05:05:41,693 Created wheel for mdanalysis: filename=MDAnalysis-2.0.0-cp39-cp39-linux_armv7l.whl size=5663276 sha256=565f74ce6e9dd72729736ca534c18c243dfa384a984c24dd759f1a263cd3c98c 2021-08-22T05:05:41,694 Stored in directory: /tmp/pip-ephem-wheel-cache-q0c9odzb/wheels/03/26/95/47769287dbb765e2bbac1d9dd3fec7ca2ccb5a51906322c3d4 2021-08-22T05:05:41,713 Successfully built mdanalysis 2021-08-22T05:05:41,880 Removed build tracker: '/tmp/pip-req-tracker-c25bdd9a'