2021-07-09T20:15:35,987 Created temporary directory: /tmp/pip-ephem-wheel-cache-zuwvx065 2021-07-09T20:15:35,989 Created temporary directory: /tmp/pip-req-tracker-vc4jscmw 2021-07-09T20:15:35,990 Initialized build tracking at /tmp/pip-req-tracker-vc4jscmw 2021-07-09T20:15:35,990 Created build tracker: /tmp/pip-req-tracker-vc4jscmw 2021-07-09T20:15:35,990 Entered build tracker: /tmp/pip-req-tracker-vc4jscmw 2021-07-09T20:15:35,991 Created temporary directory: /tmp/pip-wheel-e44vwlt7 2021-07-09T20:15:36,024 1 location(s) to search for versions of mdtraj: 2021-07-09T20:15:36,024 * https://pypi.org/simple/mdtraj/ 2021-07-09T20:15:36,024 Fetching project page and analyzing links: https://pypi.org/simple/mdtraj/ 2021-07-09T20:15:36,025 Getting page https://pypi.org/simple/mdtraj/ 2021-07-09T20:15:36,026 Found index url https://pypi.org/simple 2021-07-09T20:15:36,149 Found link https://files.pythonhosted.org/packages/cb/82/93ced2a2e5d37f36330fe3e74081fdd4ce8f933ebd16b4fab14cb5c6c29c/mdtraj-0.3.tar.gz#sha256=4cbd8bbeebacd0fae186244b817edd5dfd7546426fbe7bc2a80002644baa9b8a (from https://pypi.org/simple/mdtraj/), version: 0.3 2021-07-09T20:15:36,150 Found link https://files.pythonhosted.org/packages/bb/79/e0703632501b528c6d4fb87e672aa68e431579e61ddf15b9178554e45a8e/mdtraj-0.3.1.tar.gz#sha256=86d8b14ea7e8757475f32e346a05e7d8bb0e374d6c7b89a7d7fa9ba7f76acd09 (from https://pypi.org/simple/mdtraj/), version: 0.3.1 2021-07-09T20:15:36,150 Skipping link: unsupported archive format: .exe: https://files.pythonhosted.org/packages/76/8f/0e6b0243ec53f87b024e84b26b0ced2ca716dd347ac459ef5c65e887fd02/mdtraj-0.3.1.win-amd64-py2.7.exe#sha256=a1a15f2f5a5d840e5c790e28339c060839926ee18079567f90273c8f1f3ae064 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,150 Found link https://files.pythonhosted.org/packages/6e/2c/5e68a951b1d038ce32d5e0e128f56ee7ff0ea0ce933e7c05a2b9a2c56b9d/mdtraj-0.4.0.tar.gz#sha256=8eb89b88c3e900e0594ebbaff55c07a59959411a69c7e436933b899e81d7d3e4 (from https://pypi.org/simple/mdtraj/), version: 0.4.0 2021-07-09T20:15:36,151 Found link https://files.pythonhosted.org/packages/83/4d/820da3023ad7d89e3dfcdfca11a298ded20d99383f43ce2bdef30c120d8e/mdtraj-0.4.1.tar.gz#sha256=0b0e6c28aa596e442ea3763c7ffdcc6f714152c330b9b799b088f5c4bd8bd553 (from https://pypi.org/simple/mdtraj/), version: 0.4.1 2021-07-09T20:15:36,151 Found link https://files.pythonhosted.org/packages/c3/6d/3c211650aacc169d271d86de954d08f96b835e7f0d08de472cf7fe5b41b3/mdtraj-0.4.3.tar.gz#sha256=52699d9bc832ee42da60fdb7dc1348937339e75a56ebb384dc31b1f64c57b455 (from https://pypi.org/simple/mdtraj/), version: 0.4.3 2021-07-09T20:15:36,151 Skipping link: unsupported archive format: .msi: https://files.pythonhosted.org/packages/d7/ad/6610b9029c85be5fe896b9a6d0bd6a7e960db1ec751ff7e6a36594eebd05/mdtraj-0.4.3.win32-py2.6.msi#sha256=fa4828c68e0bad725f4f82dce6fda7ea482307b6a3e2dc57365320973b3b4ec7 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,151 Skipping link: unsupported archive format: .msi: https://files.pythonhosted.org/packages/f2/d0/2ea0d56c38693e121a8b646a688cbb3f7d1d5d5dc3a89893e358e70cf4e3/mdtraj-0.4.3.win32-py2.7.msi#sha256=c382d9baff2c2bbcc7368b85729643016efcb990dee7ab46c9124895d10a6c0f (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,151 Skipping link: unsupported archive format: .msi: https://files.pythonhosted.org/packages/c5/fa/7f4579a0eb11ea6eab4cf94a0b10ca9bebdeeee53e022ad7a66d7a3c5dfb/mdtraj-0.4.3.win32-py3.2.msi#sha256=c61705d67927947a286ba9c7c39a3f82ea24ecbee5ab52a2f75adb6dd2dfd0a5 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,152 Skipping link: unsupported archive format: .msi: https://files.pythonhosted.org/packages/28/e5/cb27f0a2b7a3c604704fe9fa92d8b3f5e82bd3a5a50f17548d79875618d7/mdtraj-0.4.3.win32-py3.3.msi#sha256=0b2a969e3ccf22825fceeaaf2acedc7b1ab0efd44f88b3262feae66bb246e6d4 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,152 Found link https://files.pythonhosted.org/packages/e5/88/d95a7bf9ab9f170c4a765b24aef3249f8b48419eb8200c0e6e0cefb8df27/mdtraj-0.4.3.zip#sha256=183b42cb33c97ffc8321eea42a8f9bf1dc8daf70fcd77ed1a2f010ceb1aa6ddc (from https://pypi.org/simple/mdtraj/), version: 0.4.3 2021-07-09T20:15:36,152 Found link https://files.pythonhosted.org/packages/d7/77/493f388512cb4e90e787ed60e206b053c4999f59ea8e473f182c041e7bb5/mdtraj-0.5.0.tar.gz#sha256=067baaef07eccfc5d5b4d0cd4bb18f92fb23bf405b42a650443fe32c1b24ed7b (from https://pypi.org/simple/mdtraj/), version: 0.5.0 2021-07-09T20:15:36,152 Skipping link: unsupported archive format: .msi: https://files.pythonhosted.org/packages/0e/5a/a74bf3100d9fa5ff67cf6b271c8ad0254402f96f68da5b4015bdd62313fd/mdtraj-0.5.0.win32-py2.7.msi#sha256=c339f8245f776be3e62e1ce480afc14757c371137c127e3658bd0f4eba4176e3 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,153 Skipping link: unsupported archive format: .msi: https://files.pythonhosted.org/packages/58/b4/71dae8ecfac23b90e0bbcbcb21bc3770277d42717e7476cc6502b07a2b35/mdtraj-0.5.0.win32-py3.2.msi#sha256=b65fe9caef8a65d1431bf14b0440eff07b53ecec00908a2254050778e2a69f1c (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,153 Skipping link: unsupported archive format: .msi: https://files.pythonhosted.org/packages/16/bc/e7b082171abfe965d04cfafd5851541644c0cb831a6a2a24167986cd1fe1/mdtraj-0.5.0.win32-py3.3.msi#sha256=5f9af92b3f1cd50e8cbeb5ede2f35175d8e66f081b0dccc9f828209e2c649ece (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,153 Found link https://files.pythonhosted.org/packages/f3/91/344c3301a96d586b7280b9fcc70c59a804df499219f0fbb750c8b2bfb818/mdtraj-0.5.0.zip#sha256=7f675810a15632557b6974402b52c2a317f65e4aefb21cc4fb9e5f59c2a6a035 (from https://pypi.org/simple/mdtraj/), version: 0.5.0 2021-07-09T20:15:36,153 Found link https://files.pythonhosted.org/packages/0f/d3/df89fa19d0572c58f82e17d57a1409cefb7525b0c96930876f42563bc937/mdtraj-0.5.1.tar.gz#sha256=bbfe583ffc3026d8125a99776aafaccc64af6f2b11d26372c025cc33dc5266ec (from https://pypi.org/simple/mdtraj/), version: 0.5.1 2021-07-09T20:15:36,154 Found link https://files.pythonhosted.org/packages/07/17/04c7422cc1092ca74b51da1f9ba4f76e38b53ef6f35bf4ad4bb65301c316/mdtraj-0.5.1.zip#sha256=258a81b7b500493e36ea590f7222ae06df4782a6d5de4d04a3569a831a98584b (from https://pypi.org/simple/mdtraj/), version: 0.5.1 2021-07-09T20:15:36,154 Found link https://files.pythonhosted.org/packages/59/41/0768b99fcb72f568950c767a0866b92d9a328f9b3c848e3f0f6426c49bc7/mdtraj-0.6.0.tar.gz#sha256=e5b41177be9a6f3527b6af210dc70e36607dde8cd525cd40ebe1c002d69c98a5 (from https://pypi.org/simple/mdtraj/), version: 0.6.0 2021-07-09T20:15:36,154 Found link https://files.pythonhosted.org/packages/85/33/c0708f41cc090a886342325cb99db876b555a181ee18a3a1086b1b87dfd1/mdtraj-0.6.0.zip#sha256=7ebfc1a1249d973f203f6e141211cdb1c5fa8a43f7058f19304d0269378edccc (from https://pypi.org/simple/mdtraj/), version: 0.6.0 2021-07-09T20:15:36,154 Found link https://files.pythonhosted.org/packages/b1/b4/6219cf2656a223f06d3e40d5098fa186aba73ac5d3cbb08348fa73bf0c7e/mdtraj-0.6.1.tar.gz#sha256=e38d3b2c742c01014e57f83d3f6ddfe00e8dac95730d3335f3f3a715c8f9188a (from https://pypi.org/simple/mdtraj/), version: 0.6.1 2021-07-09T20:15:36,155 Found link https://files.pythonhosted.org/packages/59/3e/3184bc16bbf5f14ea3148552ae43ebfb28e3abc6ea08a76e3e31b81f938a/mdtraj-0.6.1.zip#sha256=49bb8956ce3bc8f43dfb7fdf0897217a2e170cb7180311951c323af62aee3388 (from https://pypi.org/simple/mdtraj/), version: 0.6.1 2021-07-09T20:15:36,155 Found link https://files.pythonhosted.org/packages/2d/7b/67e57aeabcd1383fac5d169f866836e00410a41f6311d4c3e1d809a9c9e8/mdtraj-0.7.0.tar.gz#sha256=3a2ba2cf422c636ad743f6e1d6b2b75c7830788f78d37e0749a49ef311919c55 (from https://pypi.org/simple/mdtraj/), version: 0.7.0 2021-07-09T20:15:36,155 Found link https://files.pythonhosted.org/packages/bb/31/a472847da32caa824a73c3794f5816005b2a213f6c35df20dc55d1d07be8/mdtraj-0.7.0.zip#sha256=b45210e1d7eabdb9ff30338bcbbbc6d7624720ddd7d76c9ceb88f2baaaa5289f (from https://pypi.org/simple/mdtraj/), version: 0.7.0 2021-07-09T20:15:36,156 Found link https://files.pythonhosted.org/packages/3a/f1/de324881e0c838b8eda4222a02ac5b0595e52c40225046a67e845db5fb35/mdtraj-0.8.0.tar.gz#sha256=1d931c45e0bb258211d820b222ea0be23f03339f6057e1b9d5845283a406c1f3 (from https://pypi.org/simple/mdtraj/), version: 0.8.0 2021-07-09T20:15:36,156 Found link https://files.pythonhosted.org/packages/d8/87/01f61e5cabbf391ed20ec15854454f7bd76d752413be983654c2de738292/mdtraj-0.8.0.zip#sha256=d255f9f0509205109aa08a853fdb004cac9e8075b5ba370d17903519ff7c0f39 (from https://pypi.org/simple/mdtraj/), version: 0.8.0 2021-07-09T20:15:36,156 Found link https://files.pythonhosted.org/packages/77/72/4f559e05820f485e2f1542154660ed9746e4822a097022ab79a5afba53a1/mdtraj-0.9.0.tar.gz#sha256=cf0603b650e5564a0ec885f19c5c112aeedb2f9918260d39e49ddc52558d2085 (from https://pypi.org/simple/mdtraj/), version: 0.9.0 2021-07-09T20:15:36,156 Skipping link: unsupported archive format: .msi: https://files.pythonhosted.org/packages/48/71/d6bf7c8e7fa50e826a16c89bf00aa636953aa6efa462d01f04543f51536d/mdtraj-0.9.0.win32-py2.7.msi#sha256=cdd6201437a8c06dc75844af7710c26fc2ebe1984bb80448bafec946ca744599 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,157 Found link https://files.pythonhosted.org/packages/5a/a4/ab877500acc0e0b953d8ffa8de21719fcbb78749c2fd682f82601a0f3a3d/mdtraj-0.9.0.zip#sha256=dcc380dbcea821f50bceb6f3492d46122a6b15336a12cb50cd49d31d9700e687 (from https://pypi.org/simple/mdtraj/), version: 0.9.0 2021-07-09T20:15:36,157 Found link https://files.pythonhosted.org/packages/de/4b/cb27df1a4b50e52cbbd33d8e123d3f252e108a263a8389a8297e5810b453/mdtraj-1.0.0.tar.gz#sha256=13ad540294bab66f794a16e4c703297e3c0a35b5ea6a62d569d69ce98e25341f (from https://pypi.org/simple/mdtraj/), version: 1.0.0 2021-07-09T20:15:36,157 Found link https://files.pythonhosted.org/packages/8e/36/9fd92ca45c2b84384f78020524edb9dfd2d4cefc0595472cc60b64af62ed/mdtraj-1.0.0.zip#sha256=8aa8e04038453b3201d906e1ecb01cb4261f0e9230d72e62786255f68e09d86d (from https://pypi.org/simple/mdtraj/), version: 1.0.0 2021-07-09T20:15:36,157 Found link https://files.pythonhosted.org/packages/dd/e2/b7a137d7bff0dba7347d3ad2462e811bdcfc8de0bc3f6b78f93c2af78a58/mdtraj-1.1.0.tar.gz#sha256=ff1b089b9231b17de27f1f4d1eb6298129351269eca290381fdc06977edee37a (from https://pypi.org/simple/mdtraj/), version: 1.1.0 2021-07-09T20:15:36,158 Found link https://files.pythonhosted.org/packages/13/c2/b758f772bbf35fe8069509d59c701de491f2cf3c9b63658e4ddc3cfcf468/mdtraj-1.1.0.zip#sha256=fc842a7adf741036580c82afae83dab547578bd6dd59d3e93956d8a0fd5e07ad (from https://pypi.org/simple/mdtraj/), version: 1.1.0 2021-07-09T20:15:36,174 Skipping link: none of the wheel's tags (cp27-none-win32) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/1e/bc/4d4fd31a09fbed9d2e1e6a90fa0657e5c22f40b9ae542f932854b20b867a/mdtraj-1.2.0-cp27-none-win32.whl#sha256=43ea879b8772eed171d7244a9feb5f04da3e7c902e8a7d1aac12a3de67a9df89 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,174 Skipping link: none of the wheel's tags (cp33-none-win32) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/59/d7/f4809991e14a568656957523111763cd3105ad3f63d53b470643f3c391c7/mdtraj-1.2.0-cp33-none-win32.whl#sha256=af120862f79ea4bebcbf3f246a0336ebe23f0ecda7a484f52db999a86eb0091e (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,175 Skipping link: none of the wheel's tags (cp34-none-win32) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/47/ec/0da56abb0793e6c03ca647bb66a01e175e9cd80623b77cc3eee7aa4b0169/mdtraj-1.2.0-cp34-none-win32.whl#sha256=e4fbe22ffbcebc9f7695b0cbab441cc04ad6c998ac3232bb1156c45934b89bfa (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,175 Found link https://files.pythonhosted.org/packages/b9/7d/a2878b6c3da5e04ad15f906235bbf6507d5b801465b6a7626cd7f6e33289/mdtraj-1.2.0.tar.gz#sha256=7dff42a449a4858ab5db9b7f1528ae314b0d98c6ebd432307de4f14be6f446e0 (from https://pypi.org/simple/mdtraj/), version: 1.2.0 2021-07-09T20:15:36,175 Found link https://files.pythonhosted.org/packages/ad/60/131151a1dacdf1fb8aa2afb20d2f7865802ee8a654f5c46bf0990cd44b77/mdtraj-1.2.0.zip#sha256=b6e930608c366b86ff6523485264788caf12b7f5c8be369bbc98ee31d569551e (from https://pypi.org/simple/mdtraj/), version: 1.2.0 2021-07-09T20:15:36,176 Found link https://files.pythonhosted.org/packages/19/43/14b0d39a19b9bf7129c1d1c00fb3ef6b201dd6ca26d4b5d82e06d5523931/mdtraj-1.3.0.tar.gz#sha256=233089791c6fbe00f6208ca412a09c1353a755866311ca3e663a1193ecbfe342 (from https://pypi.org/simple/mdtraj/), version: 1.3.0 2021-07-09T20:15:36,176 Found link https://files.pythonhosted.org/packages/52/1c/5241b6d7eedc4d1c17a5b87665216f5781efdd7b3ad742fec151ca5db5f8/mdtraj-1.3.0.zip#sha256=7be7a99823c08ef93f01483815774c0ac9aefd8c3790d0f9069fe6685bf3a45b (from https://pypi.org/simple/mdtraj/), version: 1.3.0 2021-07-09T20:15:36,176 Found link https://files.pythonhosted.org/packages/97/1c/bce6eb773069063889ddf3969cdbd547697cca8909de4a285721bd4b936c/mdtraj-1.4.0.tar.gz#sha256=26fc6c481cb472e66238542f6071d53fba45ff7fd542914b53fea2bb28c8f272 (from https://pypi.org/simple/mdtraj/), version: 1.4.0 2021-07-09T20:15:36,176 Found link https://files.pythonhosted.org/packages/20/4d/0fdff16d6d1b9a1e1e0d6f0391226c2a0791810e07772fa7e3b6713e5c9a/mdtraj-1.4.0.zip#sha256=6337fe3cc50c9ad1c745019e84175dd3c56b108b7f3000e1296549969c6916de (from https://pypi.org/simple/mdtraj/), version: 1.4.0 2021-07-09T20:15:36,177 Found link https://files.pythonhosted.org/packages/37/bb/c7261dd1fc35105898af6de578719e8eb18aa33f70dd38a4257ff68118c4/mdtraj-1.4.1.tar.gz#sha256=8ada69d633ef93baf2dbfd572881343e7373616720087dd2d7767e4c371c17ac (from https://pypi.org/simple/mdtraj/), version: 1.4.1 2021-07-09T20:15:36,177 Found link https://files.pythonhosted.org/packages/eb/b4/4fd2c5d63e4a1f10047df8a3f83071d41ba9203abf1a86d381f2c16cef94/mdtraj-1.4.1.zip#sha256=b58cb4ff9cc191871b06d71768128584753a8136d09cd8ff5445da333bc283c9 (from https://pypi.org/simple/mdtraj/), version: 1.4.1 2021-07-09T20:15:36,177 Found link https://files.pythonhosted.org/packages/af/43/7594de45f455b32c5a057bc323336461a7f4299a5e93dfb57038e0c7c99c/mdtraj-1.4.2.tar.gz#sha256=7a1fa2ba877193f7d99d8c2fd9b0200fb124c8a2fbcbfa4e701a8b52718fa6a0 (from https://pypi.org/simple/mdtraj/), version: 1.4.2 2021-07-09T20:15:36,178 Found link https://files.pythonhosted.org/packages/79/d7/7ec8477e4293f027acd7695ae8d493eb7985aec5666ce3d117d48794fa5c/mdtraj-1.4.2.zip#sha256=dc1c31b956ad5e88590048abaaaa33bad58887262e94e2921c070d9e6d5fd5df (from https://pypi.org/simple/mdtraj/), version: 1.4.2 2021-07-09T20:15:36,178 Found link https://files.pythonhosted.org/packages/f8/36/a0a83efc5f48db485bdefd15a7ade8a80876bbe178318cfa14ced3cb0c87/mdtraj-1.5.0.tar.gz#sha256=08a9af719ecd4754f12e41031485c5820bf4a51371909e4f0060d96e4998c265 (from https://pypi.org/simple/mdtraj/), version: 1.5.0 2021-07-09T20:15:36,178 Found link https://files.pythonhosted.org/packages/b2/2c/1cfc1f7879ea82293afca1edd595f3ca39e25f8411627175e88ea6819f83/mdtraj-1.5.0.zip#sha256=e56dcf4b7be97c007692b6c6758f8fc8b84811e666de1c3836631e697dab9394 (from https://pypi.org/simple/mdtraj/), version: 1.5.0 2021-07-09T20:15:36,179 Skipping link: none of the wheel's tags (cp27-none-macosx_10_5_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/a8/24/4c267bc9753b3d1218b1d9c9220d3811d71eea2cfba590f512bcbb2a9c3b/mdtraj-1.5.1-cp27-none-macosx_10_5_x86_64.whl#sha256=0f9e97389fcf01c60984b7a33b04529ea440d5a79bad90ee8781de33c27fb9a0 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,179 Skipping link: none of the wheel's tags (cp34-cp34m-macosx_10_5_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/5e/07/f6d8703864e39672cb420701e6a8ef0c2d3000e9b0bcc25777d29d526350/mdtraj-1.5.1-cp34-cp34m-macosx_10_5_x86_64.whl#sha256=9554b9bcb0729d9dbc10b9ccc74506544a2c2e37d4a478f83fd8d1cba081b2d7 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,180 Skipping link: none of the wheel's tags (cp35-cp35m-macosx_10_5_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/2b/6e/a791501a9a60b3cb2063fc3db8d4d9b1a27cfa4432261b98f804f9bf34e1/mdtraj-1.5.1-cp35-cp35m-macosx_10_5_x86_64.whl#sha256=a8e1eafa532abd1165e5e15636faf0c0858ab03239dbf8264ad23ac1bd820f13 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,180 Found link https://files.pythonhosted.org/packages/dc/6c/2173608f090cf361b8c858e7db974757a8ec9c639ce69b100e9a4608875e/mdtraj-1.5.1.tar.gz#sha256=15d57e229e5be9ba2b4a78d004bf57ae63ba5e86079b47643654751faf41e014 (from https://pypi.org/simple/mdtraj/), version: 1.5.1 2021-07-09T20:15:36,180 Found link https://files.pythonhosted.org/packages/78/ae/82df7eca71fa9e71ad4638f8c222164ccc3583874cb4a6875a04586312bc/mdtraj-1.5.1.zip#sha256=d97591eebf1e9ae04c2b2e144340a959ed359fe33037c647b174f017bab482c3 (from https://pypi.org/simple/mdtraj/), version: 1.5.1 2021-07-09T20:15:36,181 Found link https://files.pythonhosted.org/packages/40/21/40aeb64c81f480e07b1e1c31c6b3b332bc38df08d5fd30210fc235acdb3d/mdtraj-1.6.0.tar.gz#sha256=6da885f0f3bad7baa27adf6f7cac62282e02e58b319144f1fefeaa6d3ca8fe7a (from https://pypi.org/simple/mdtraj/), version: 1.6.0 2021-07-09T20:15:36,181 Found link https://files.pythonhosted.org/packages/8f/9e/cf5814ce6a29a474dc2b61492ed36dde1397b1707e63248bafe495529c29/mdtraj-1.6.0.zip#sha256=9d281e43cbc7133615dc0b81e63f64e79e39e3d25098103798301f3c06383c0b (from https://pypi.org/simple/mdtraj/), version: 1.6.0 2021-07-09T20:15:36,181 Found link https://files.pythonhosted.org/packages/a7/09/abb145901e09665d3a7931527e34a160049cebf4eba3506a69db2093f5f9/mdtraj-1.6.1.tar.gz#sha256=1d390acb7bbe09c7a2b1c639c641c47eef09c37bd525cd83c201addda37074c8 (from https://pypi.org/simple/mdtraj/), version: 1.6.1 2021-07-09T20:15:36,181 Found link https://files.pythonhosted.org/packages/38/44/179f101e32ab7ceb52864fb4ef2955c0807b9f548c087f39f2cfd18cb498/mdtraj-1.6.1.zip#sha256=bca98c6339d04b36934b37857eae9f42fb667e1745d4d7dc29ebfd4e3c653365 (from https://pypi.org/simple/mdtraj/), version: 1.6.1 2021-07-09T20:15:36,182 Found link https://files.pythonhosted.org/packages/bf/81/6f611041374bd7d2d49a15040d999cc52eed1a44e856a4a8d9c02370ac37/mdtraj-1.7.2.tar.gz#sha256=1bc9fb06e84f6562e51e040946dae0b940eaca4760f78f3ac451f4a89b132a9a (from https://pypi.org/simple/mdtraj/), version: 1.7.2 2021-07-09T20:15:36,182 Found link https://files.pythonhosted.org/packages/ff/b2/8785a8c9c7119e1a7c4e64072ccf428f75a3b0a9782a7ac25e5402b0a59d/mdtraj-1.7.2.zip#sha256=3158176cd2c21d2abdff5b2cbd9cac323f337b831123d5201bbb7d3fbe69e714 (from https://pypi.org/simple/mdtraj/), version: 1.7.2 2021-07-09T20:15:36,182 Found link https://files.pythonhosted.org/packages/cd/9f/027fa58d4e93dd3d700e22d5766961c970f6882c2bffd33daef55219d078/mdtraj-1.8.0.tar.gz#sha256=480fa4c280146e91db0ab7811f6fba5da29e89452b071d366a8e68247a88ffea (from https://pypi.org/simple/mdtraj/), version: 1.8.0 2021-07-09T20:15:36,182 Found link https://files.pythonhosted.org/packages/4a/2e/5bb01aaa8cd2ea9d75dd2ac12fd9f04f7137a8c996bde0138ad1b5e54ecb/mdtraj-1.8.0.zip#sha256=867325cb206dca4a605de4877e17e5e1983f2e778a6ef64594bd4250142561a8 (from https://pypi.org/simple/mdtraj/), version: 1.8.0 2021-07-09T20:15:36,183 Found link https://files.pythonhosted.org/packages/af/93/8ad08f58668db6e3bf85e402c9c753fa4425c249de276b55f20c08e3fff7/mdtraj-1.9.1.tar.gz#sha256=ca1ae07c5f5ce59940a48388ac9b098f8e22743b5f3ed3f46d5e3d1317b06282 (from https://pypi.org/simple/mdtraj/), version: 1.9.1 2021-07-09T20:15:36,183 Found link https://files.pythonhosted.org/packages/e0/9e/857f613eae8af3fb8cc73904b3edf622c58de3884c5989e4466973c3c9ee/mdtraj-1.9.2.tar.gz#sha256=cdd926f19c007955f0f768d36d696f3e77b4c8030289a2b40eb97a91cebacd0f (from https://pypi.org/simple/mdtraj/), version: 1.9.2 2021-07-09T20:15:36,183 Found link https://files.pythonhosted.org/packages/72/68/1efc74927df6fdaaa4816556a2534f4560cb69ed573ccac728e4fb8e3e09/mdtraj-1.9.3.tar.gz#sha256=5d95e045b1dd093a26bf6fea9895c3c6b52955d8f7fceee867a519ccf29640b3 (from https://pypi.org/simple/mdtraj/), version: 1.9.3 2021-07-09T20:15:36,184 Found link https://files.pythonhosted.org/packages/50/1d/581a080a1900f61bb1c0388e29517a54d4034faa094d40d794e1f96597d9/mdtraj-1.9.4.tar.gz#sha256=d5d28be24dd5f38e8b272c3a445a6cdbffc374b30e891c5535f65bb20f7e8b24 (from https://pypi.org/simple/mdtraj/), version: 1.9.4 2021-07-09T20:15:36,184 Skipping link: none of the wheel's tags (cp36-cp36m-manylinux1_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/1b/77/3ac1597812fc28964662587d405f85986206192623b434f7d0fa1b4a6a5b/mdtraj-1.9.5-cp36-cp36m-manylinux1_x86_64.whl#sha256=c02a9a589acc98dd3cc4db9b0cb21725f5e2cb9484c14cc4fa032a4663c7a1e9 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,184 Skipping link: none of the wheel's tags (cp37-cp37m-manylinux1_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/af/da/271e93bb98bc93ccac17bc1f31f814be4f9e7024ac19bf31af892a462030/mdtraj-1.9.5-cp37-cp37m-manylinux1_x86_64.whl#sha256=8816f9a91826e46a413fd1a5ffd663b4076cf4c3b8930bb2046814d1438a88ee (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,185 Skipping link: none of the wheel's tags (cp38-cp38-manylinux1_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/3b/fd/4ffba665d0b0346072f61d0e8ef7ab281202db445d99136c717c89169a97/mdtraj-1.9.5-cp38-cp38-manylinux1_x86_64.whl#sha256=84bb3ced0ff61c4b3b38a36d71837599f50c8723c5d9e555dced51d0d09e10a1 (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,185 Skipping link: none of the wheel's tags (cp39-cp39-manylinux1_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/68/53/2f666107565f4735abd859b6af6867353eb08d0e9728d90fb0abc12d578e/mdtraj-1.9.5-cp39-cp39-manylinux1_x86_64.whl#sha256=7eae1adc6aa876396c9797d80db3f71da831601fb1739da731e1de9ca8ac96ab (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,186 Found link https://files.pythonhosted.org/packages/d8/cb/5dcc31c7e2c4485bd2aea66233def28954f2dc530607f5c43fefab71a963/mdtraj-1.9.5.tar.gz#sha256=f22c28c9dd51aa0f8692078dd3c2c7a338a7ca27cbd9aaeb669a60361e95adc4 (from https://pypi.org/simple/mdtraj/), version: 1.9.5 2021-07-09T20:15:36,186 Skipping link: none of the wheel's tags (cp36-cp36m-manylinux1_x86_64, cp36-cp36m-manylinux_2_5_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/fe/a7/2a1392fe56ddd22a9cf5dcff7d684bdd7ce146d5c32839080dd8de7122dd/mdtraj-1.9.6-cp36-cp36m-manylinux_2_5_x86_64.manylinux1_x86_64.whl#sha256=8d437742ec45ff619c7a50afacf16f3a791d604cd0be74b5b74d90b0dc3f577a (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,187 Skipping link: none of the wheel's tags (cp37-cp37m-manylinux1_x86_64, cp37-cp37m-manylinux_2_5_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/ce/ee/2015ff88cacb7c75b5e1cf6a57e8a089549b0e76bcd9474a08845f7ef12f/mdtraj-1.9.6-cp37-cp37m-manylinux_2_5_x86_64.manylinux1_x86_64.whl#sha256=49f4251f83a7fdea4a8122369ef47f213bb1c1cfc38b91177e98985484fb63bf (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,187 Skipping link: none of the wheel's tags (cp38-cp38-manylinux1_x86_64, cp38-cp38-manylinux_2_5_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/c0/61/2fb002b9b2ab90567eb1a837ed510152ddadd5b8358ac800b591e37675e0/mdtraj-1.9.6-cp38-cp38-manylinux_2_5_x86_64.manylinux1_x86_64.whl#sha256=84bf863729d435df0dd1f86c3023cbe85b8940b102f9d6ef6ce00dcb9130883c (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,187 Skipping link: none of the wheel's tags (cp39-cp39-manylinux1_x86_64, cp39-cp39-manylinux_2_5_x86_64) are compatible (run pip debug --verbose to show compatible tags): https://files.pythonhosted.org/packages/09/49/85dc22a3c28108dfd0bce8a4268ae3937167b18fac531a0d801505cad7d9/mdtraj-1.9.6-cp39-cp39-manylinux_2_5_x86_64.manylinux1_x86_64.whl#sha256=44fcc435df4057126c123585e36a8a4563e24588ad438c916751e2e01501e2ff (from https://pypi.org/simple/mdtraj/) 2021-07-09T20:15:36,188 Found link https://files.pythonhosted.org/packages/12/72/af80a9be1a0b8086cff7572c72b7a06e917cc128719a70b087e77e23736c/mdtraj-1.9.6.tar.gz#sha256=5b7c9b98dd0a1c1a2ddd6c1690fba6096a63314da2e79e05a8a1402b8949ad3c (from https://pypi.org/simple/mdtraj/), version: 1.9.6 2021-07-09T20:15:36,188 Skipping link: not a file: https://pypi.org/simple/mdtraj/ 2021-07-09T20:15:36,196 Given no hashes to check 2 links for project 'mdtraj': discarding no candidates 2021-07-09T20:15:36,214 Collecting mdtraj==0.6.0 2021-07-09T20:15:36,216 Created temporary directory: /tmp/pip-unpack-g5objuoz 2021-07-09T20:15:37,332 Downloading mdtraj-0.6.0.zip (2.6 MB) 2021-07-09T20:15:38,277 Added mdtraj==0.6.0 from https://files.pythonhosted.org/packages/85/33/c0708f41cc090a886342325cb99db876b555a181ee18a3a1086b1b87dfd1/mdtraj-0.6.0.zip#sha256=7ebfc1a1249d973f203f6e141211cdb1c5fa8a43f7058f19304d0269378edccc to build tracker '/tmp/pip-req-tracker-vc4jscmw' 2021-07-09T20:15:38,278 Running setup.py (path:/tmp/pip-wheel-e44vwlt7/mdtraj_3b8897ad565f40a585be434d3cde330c/setup.py) egg_info for package mdtraj 2021-07-09T20:15:38,279 Created temporary directory: /tmp/pip-pip-egg-info-9bmmra9k 2021-07-09T20:15:38,280 Running command python setup.py egg_info 2021-07-09T20:15:39,919 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2021-07-09T20:15:39,920 running egg_info 2021-07-09T20:15:39,921 creating /tmp/pip-pip-egg-info-9bmmra9k/mdtraj.egg-info 2021-07-09T20:15:39,922 writing /tmp/pip-pip-egg-info-9bmmra9k/mdtraj.egg-info/PKG-INFO 2021-07-09T20:15:39,925 writing dependency_links to /tmp/pip-pip-egg-info-9bmmra9k/mdtraj.egg-info/dependency_links.txt 2021-07-09T20:15:39,927 writing entry points to /tmp/pip-pip-egg-info-9bmmra9k/mdtraj.egg-info/entry_points.txt 2021-07-09T20:15:39,928 writing requirements to /tmp/pip-pip-egg-info-9bmmra9k/mdtraj.egg-info/requires.txt 2021-07-09T20:15:39,929 writing top-level names to /tmp/pip-pip-egg-info-9bmmra9k/mdtraj.egg-info/top_level.txt 2021-07-09T20:15:39,930 writing manifest file '/tmp/pip-pip-egg-info-9bmmra9k/mdtraj.egg-info/SOURCES.txt' 2021-07-09T20:15:40,089 reading manifest file '/tmp/pip-pip-egg-info-9bmmra9k/mdtraj.egg-info/SOURCES.txt' 2021-07-09T20:15:40,091 reading manifest template 'MANIFEST.in' 2021-07-09T20:15:40,119 writing manifest file '/tmp/pip-pip-egg-info-9bmmra9k/mdtraj.egg-info/SOURCES.txt' 2021-07-09T20:15:40,221 Source in /tmp/pip-wheel-e44vwlt7/mdtraj_3b8897ad565f40a585be434d3cde330c has version 0.6.0, which satisfies requirement mdtraj==0.6.0 from https://files.pythonhosted.org/packages/85/33/c0708f41cc090a886342325cb99db876b555a181ee18a3a1086b1b87dfd1/mdtraj-0.6.0.zip#sha256=7ebfc1a1249d973f203f6e141211cdb1c5fa8a43f7058f19304d0269378edccc 2021-07-09T20:15:40,222 Removed mdtraj==0.6.0 from https://files.pythonhosted.org/packages/85/33/c0708f41cc090a886342325cb99db876b555a181ee18a3a1086b1b87dfd1/mdtraj-0.6.0.zip#sha256=7ebfc1a1249d973f203f6e141211cdb1c5fa8a43f7058f19304d0269378edccc from build tracker '/tmp/pip-req-tracker-vc4jscmw' 2021-07-09T20:15:40,226 Created temporary directory: /tmp/pip-unpack-5qe60xt3 2021-07-09T20:15:40,226 Building wheels for collected packages: mdtraj 2021-07-09T20:15:40,230 Created temporary directory: /tmp/pip-wheel-50662jmn 2021-07-09T20:15:40,231 Building wheel for mdtraj (setup.py): started 2021-07-09T20:15:40,231 Destination directory: /tmp/pip-wheel-50662jmn 2021-07-09T20:15:40,231 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-e44vwlt7/mdtraj_3b8897ad565f40a585be434d3cde330c/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-e44vwlt7/mdtraj_3b8897ad565f40a585be434d3cde330c/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-50662jmn 2021-07-09T20:15:41,639 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2021-07-09T20:15:41,851 running bdist_wheel 2021-07-09T20:15:41,855 running build 2021-07-09T20:15:41,855 running build_py 2021-07-09T20:15:41,988 creating build 2021-07-09T20:15:41,988 creating build/lib.linux-armv7l-3.9 2021-07-09T20:15:41,989 creating build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:41,990 copying MDTraj/netcdf.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:41,993 copying MDTraj/trajectory.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:41,996 copying MDTraj/__init__.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:41,998 copying MDTraj/hdf5.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:42,001 copying MDTraj/topology.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:42,003 copying MDTraj/arc.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:42,005 copying MDTraj/io.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:42,007 copying MDTraj/mdcrd.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:42,010 copying MDTraj/openmmxml.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:42,011 copying MDTraj/lh5.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:42,014 copying MDTraj/registry.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:42,016 copying MDTraj/version.py -> build/lib.linux-armv7l-3.9/mdtraj 2021-07-09T20:15:42,018 creating build/lib.linux-armv7l-3.9/mdtraj/pdb 2021-07-09T20:15:42,019 copying MDTraj/pdb/__init__.py -> build/lib.linux-armv7l-3.9/mdtraj/pdb 2021-07-09T20:15:42,021 copying MDTraj/pdb/element.py -> build/lib.linux-armv7l-3.9/mdtraj/pdb 2021-07-09T20:15:42,024 copying MDTraj/pdb/test_pdb.py -> build/lib.linux-armv7l-3.9/mdtraj/pdb 2021-07-09T20:15:42,026 copying MDTraj/pdb/pdbfile.py -> build/lib.linux-armv7l-3.9/mdtraj/pdb 2021-07-09T20:15:42,028 copying MDTraj/pdb/pdbstructure.py -> build/lib.linux-armv7l-3.9/mdtraj/pdb 2021-07-09T20:15:42,033 creating build/lib.linux-armv7l-3.9/mdtraj/testing 2021-07-09T20:15:42,033 copying MDTraj/testing/testing.py -> build/lib.linux-armv7l-3.9/mdtraj/testing 2021-07-09T20:15:42,036 copying MDTraj/testing/__init__.py -> build/lib.linux-armv7l-3.9/mdtraj/testing 2021-07-09T20:15:42,038 copying MDTraj/testing/docstrings.py -> build/lib.linux-armv7l-3.9/mdtraj/testing 2021-07-09T20:15:42,040 copying MDTraj/testing/docscrape.py -> build/lib.linux-armv7l-3.9/mdtraj/testing 2021-07-09T20:15:42,043 copying MDTraj/testing/nosetester.py -> build/lib.linux-armv7l-3.9/mdtraj/testing 2021-07-09T20:15:42,045 creating build/lib.linux-armv7l-3.9/mdtraj/utils 2021-07-09T20:15:42,046 copying MDTraj/utils/ffi.py -> build/lib.linux-armv7l-3.9/mdtraj/utils 2021-07-09T20:15:42,048 copying MDTraj/utils/unit.py -> build/lib.linux-armv7l-3.9/mdtraj/utils 2021-07-09T20:15:42,051 copying MDTraj/utils/__init__.py -> build/lib.linux-armv7l-3.9/mdtraj/utils 2021-07-09T20:15:42,053 copying MDTraj/utils/test.py -> build/lib.linux-armv7l-3.9/mdtraj/utils 2021-07-09T20:15:42,055 copying MDTraj/utils/unitcell.py -> build/lib.linux-armv7l-3.9/mdtraj/utils 2021-07-09T20:15:42,057 copying MDTraj/utils/arrays.py -> build/lib.linux-armv7l-3.9/mdtraj/utils 2021-07-09T20:15:42,059 copying MDTraj/utils/six.py -> build/lib.linux-armv7l-3.9/mdtraj/utils 2021-07-09T20:15:42,062 copying MDTraj/utils/delay_import.py -> build/lib.linux-armv7l-3.9/mdtraj/utils 2021-07-09T20:15:42,065 creating build/lib.linux-armv7l-3.9/mdtraj/reporters 2021-07-09T20:15:42,066 copying MDTraj/reporters/netcdfreporter.py -> build/lib.linux-armv7l-3.9/mdtraj/reporters 2021-07-09T20:15:42,068 copying MDTraj/reporters/__init__.py -> build/lib.linux-armv7l-3.9/mdtraj/reporters 2021-07-09T20:15:42,070 copying MDTraj/reporters/dcdreporter.py -> build/lib.linux-armv7l-3.9/mdtraj/reporters 2021-07-09T20:15:42,072 copying MDTraj/reporters/basereporter.py -> build/lib.linux-armv7l-3.9/mdtraj/reporters 2021-07-09T20:15:42,074 copying MDTraj/reporters/hdf5reporter.py -> build/lib.linux-armv7l-3.9/mdtraj/reporters 2021-07-09T20:15:42,077 creating build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,078 copying MDTraj/geometry/__init__.py -> build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,080 copying MDTraj/geometry/hbond.py -> build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,082 copying MDTraj/geometry/dihedral.py -> build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,084 copying MDTraj/geometry/alignment.py -> build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,087 copying MDTraj/geometry/angle.py -> build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,089 copying MDTraj/geometry/sasa.py -> build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,091 copying MDTraj/geometry/internal.py -> build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,095 copying MDTraj/geometry/rg.py -> build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,097 copying MDTraj/geometry/distance.py -> build/lib.linux-armv7l-3.9/mdtraj/geometry 2021-07-09T20:15:42,100 creating build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,101 copying MDTraj/tests/test_xml.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,103 copying MDTraj/tests/test_trr.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,105 copying MDTraj/tests/__init__.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,107 copying MDTraj/tests/test_dcd.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,109 copying MDTraj/tests/test_lh5.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,111 copying MDTraj/tests/test_netcdf.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,113 copying MDTraj/tests/test_rmsd.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,115 copying MDTraj/tests/test_trajectory.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,118 copying MDTraj/tests/test_io.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,120 copying MDTraj/tests/test_mdconvert.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,122 copying MDTraj/tests/test_reporter.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,125 copying MDTraj/tests/test_topology.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,127 copying MDTraj/tests/test_arc.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,129 copying MDTraj/tests/test_mdcrd.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,130 copying MDTraj/tests/test_xtc.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,133 copying MDTraj/tests/test_binpos.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,135 copying MDTraj/tests/test_hdf5.py -> build/lib.linux-armv7l-3.9/mdtraj/tests 2021-07-09T20:15:42,138 creating build/lib.linux-armv7l-3.9/mdtraj/scripts 2021-07-09T20:15:42,139 copying scripts/mdconvert.py -> build/lib.linux-armv7l-3.9/mdtraj/scripts 2021-07-09T20:15:42,142 copying scripts/__init__.py -> build/lib.linux-armv7l-3.9/mdtraj/scripts 2021-07-09T20:15:42,143 copying scripts/mdinspect.py -> build/lib.linux-armv7l-3.9/mdtraj/scripts 2021-07-09T20:15:42,151 creating build/lib.linux-armv7l-3.9/mdtraj/pdb/data 2021-07-09T20:15:42,152 copying MDTraj/pdb/data/pdbNames.xml -> build/lib.linux-armv7l-3.9/mdtraj/pdb/data 2021-07-09T20:15:42,155 copying MDTraj/pdb/data/residues.xml -> build/lib.linux-armv7l-3.9/mdtraj/pdb/data 2021-07-09T20:15:42,159 creating build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,160 copying MDTraj/testing/reference/bpti.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,164 copying MDTraj/testing/reference/native.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,166 copying MDTraj/testing/reference/mdcrd.nc -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,175 copying MDTraj/testing/reference/frame0.xtc.h5 -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,180 copying MDTraj/testing/reference/2EQQ.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,198 copying MDTraj/testing/reference/4waters.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,200 copying MDTraj/testing/reference/multiframe.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,202 copying MDTraj/testing/reference/4waters.arc -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,204 copying MDTraj/testing/reference/frame0.h5 -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,209 copying MDTraj/testing/reference/frame0.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,229 copying MDTraj/testing/reference/frame0.mdcrd -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,244 copying MDTraj/testing/reference/frame0.trr -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,260 copying MDTraj/testing/reference/frame0.nc -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,266 copying MDTraj/testing/reference/traj.h5 -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,270 copying MDTraj/testing/reference/native2.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,273 copying MDTraj/testing/reference/native2.xml -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,275 copying MDTraj/testing/reference/frame0.dcd -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,282 copying MDTraj/testing/reference/atom_pairs.dat -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,284 copying MDTraj/testing/reference/frame0.mdcrdbox -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,299 copying MDTraj/testing/reference/4K6Q.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,308 copying MDTraj/testing/reference/g_sas_ref.dat -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,317 copying MDTraj/testing/reference/legacy_msmbuilder_trj0.lh5 -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,322 copying MDTraj/testing/reference/nonconsecutive_resSeq.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,324 copying MDTraj/testing/reference/1bpi.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,327 copying MDTraj/testing/reference/frame0.binpos -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,334 copying MDTraj/testing/reference/1vii_sustiva_water.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,377 copying MDTraj/testing/reference/frame0.xtc -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,380 copying MDTraj/testing/reference/frame0.binpos.h5 -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,385 copying MDTraj/testing/reference/Rg_traj_ref.dat -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,387 copying MDTraj/testing/reference/frame0.dcd.h5 -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,392 copying MDTraj/testing/reference/atom_distances_traj_ref.dat -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,394 copying MDTraj/testing/reference/GG-tip4pew.pdb -> build/lib.linux-armv7l-3.9/mdtraj/testing/reference 2021-07-09T20:15:42,410 running build_ext 2021-07-09T20:15:42,473 skipping 'MDTraj/xtc/xtc.c' Cython extension (up-to-date) 2021-07-09T20:15:42,473 skipping 'MDTraj/xtc/trr.c' Cython extension (up-to-date) 2021-07-09T20:15:42,473 skipping 'MDTraj/dcd/dcd.c' Cython extension (up-to-date) 2021-07-09T20:15:42,474 skipping 'MDTraj/binpos/binpos.c' Cython extension (up-to-date) 2021-07-09T20:15:42,474 skipping 'MDTraj/rmsd/_rmsd.c' Cython extension (up-to-date) 2021-07-09T20:15:42,475 building 'mdtraj.xtc' extension 2021-07-09T20:15:42,475 creating build/temp.linux-armv7l-3.9 2021-07-09T20:15:42,476 creating build/temp.linux-armv7l-3.9/MDTraj 2021-07-09T20:15:42,476 creating build/temp.linux-armv7l-3.9/MDTraj/xtc 2021-07-09T20:15:42,477 creating build/temp.linux-armv7l-3.9/MDTraj/xtc/src 2021-07-09T20:15:42,477 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 -IMDTraj/xtc/include/ -IMDTraj/xtc/ -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c MDTraj/xtc/src/xdrfile.c -o build/temp.linux-armv7l-3.9/MDTraj/xtc/src/xdrfile.o 2021-07-09T20:15:42,646 MDTraj/xtc/src/xdrfile.c: In function ‘sizeofint’: 2021-07-09T20:15:42,646 MDTraj/xtc/src/xdrfile.c:478:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-09T20:15:42,646 478 | while (size >= num && num_of_bits < 32) 2021-07-09T20:15:42,647 | ^~ 2021-07-09T20:15:42,647 MDTraj/xtc/src/xdrfile.c: In function ‘sizeofints’: 2021-07-09T20:15:42,647 MDTraj/xtc/src/xdrfile.c:524:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-09T20:15:42,647 524 | while (bytes[num_of_bytes] >= num) 2021-07-09T20:15:42,647 | ^~ 2021-07-09T20:15:42,648 MDTraj/xtc/src/xdrfile.c: In function ‘encodeints’: 2021-07-09T20:15:42,648 MDTraj/xtc/src/xdrfile.c:633:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-09T20:15:42,648 633 | if (num_of_bits >= num_of_bytes * 8) 2021-07-09T20:15:42,648 | ^~ 2021-07-09T20:15:42,648 MDTraj/xtc/src/xdrfile.c:635:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-09T20:15:42,648 635 | for (i = 0; i < num_of_bytes; i++) 2021-07-09T20:15:42,649 | ^ 2021-07-09T20:15:42,649 MDTraj/xtc/src/xdrfile.c:643:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-09T20:15:42,649 643 | for (i = 0; i < num_of_bytes-1; i++) 2021-07-09T20:15:42,649 | ^ 2021-07-09T20:15:42,649 MDTraj/xtc/src/xdrfile.c: In function ‘decodebits’: 2021-07-09T20:15:42,649 MDTraj/xtc/src/xdrfile.c:683:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-09T20:15:42,650 683 | if (lastbits < num_of_bits) 2021-07-09T20:15:42,650 | ^ 2021-07-09T20:15:42,651 MDTraj/xtc/src/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2021-07-09T20:15:42,651 MDTraj/xtc/src/xdrfile.c:797:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-09T20:15:42,651 797 | if(size3>xfp->buf1size) 2021-07-09T20:15:42,651 | ^ 2021-07-09T20:15:42,652 MDTraj/xtc/src/xdrfile.c:851:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-09T20:15:42,653 851 | maxidx = (LASTIDXxfp->buf1size) 2021-07-09T20:15:42,657 | ^ 2021-07-09T20:15:42,661 MDTraj/xtc/src/xdrfile.c:1122:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-09T20:15:42,661 1122 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2021-07-09T20:15:42,661 | ^ 2021-07-09T20:15:42,662 MDTraj/xtc/src/xdrfile.c:1128:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-09T20:15:42,662 1128 | maxidx = (LASTIDXxfp->buf1size) 2021-07-09T20:15:42,668 | ^ 2021-07-09T20:15:42,670 MDTraj/xtc/src/xdrfile.c:1355:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-09T20:15:42,670 1355 | maxidx = (LASTIDXxfp->buf1size) { 2021-07-09T20:15:42,676 | ^ 2021-07-09T20:15:42,681 MDTraj/xtc/src/xdrfile.c:1606:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-09T20:15:42,682 1606 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2021-07-09T20:15:42,682 | ^ 2021-07-09T20:15:42,682 MDTraj/xtc/src/xdrfile.c:1611:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-09T20:15:42,682 1611 | maxidx = (LASTIDXn_frames == -1) != 0); 2021-07-09T20:15:45,752 | ^~ 2021-07-09T20:15:45,767 MDTraj/xtc/xtc.c:7610:5: warning: implicit declaration of function ‘read_xtc_nframes’; did you mean ‘read_xtc_natoms’? [-Wimplicit-function-declaration] 2021-07-09T20:15:45,767 7610 | read_xtc_nframes(__pyx_t_4, (&__pyx_v_self->n_frames)); 2021-07-09T20:15:45,767 | ^~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,767 | read_xtc_natoms 2021-07-09T20:15:45,831 MDTraj/xtc/xtc.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-09T20:15:45,837 MDTraj/xtc/xtc.c:10875:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,837 10875 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,837 | ^ 2021-07-09T20:15:45,838 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,838 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,838 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,838 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:45,838 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:45,838 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,845 MDTraj/xtc/xtc.c:10875:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,845 10875 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,845 | ^ 2021-07-09T20:15:45,845 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,845 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,845 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,845 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-09T20:15:45,846 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-09T20:15:45,846 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,851 MDTraj/xtc/xtc.c:10875:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,852 10875 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,852 | ^ 2021-07-09T20:15:45,852 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,852 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,852 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,852 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:45,852 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:45,853 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,858 MDTraj/xtc/xtc.c:10875:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,859 10875 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,859 | ^ 2021-07-09T20:15:45,859 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,859 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,859 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,859 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:45,859 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:45,860 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,865 MDTraj/xtc/xtc.c:10875:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,865 10875 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,866 | ^ 2021-07-09T20:15:45,866 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,866 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,866 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,866 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-09T20:15:45,866 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-09T20:15:45,866 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,872 MDTraj/xtc/xtc.c:10875:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,872 10875 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,873 | ^ 2021-07-09T20:15:45,873 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,873 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,873 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,873 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:45,873 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:45,873 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,881 MDTraj/xtc/xtc.c:10891:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,881 10891 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,881 | ^ 2021-07-09T20:15:45,881 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,881 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,881 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,882 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:45,882 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:45,882 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,888 MDTraj/xtc/xtc.c:10891:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,888 10891 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,888 | ^ 2021-07-09T20:15:45,888 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,888 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,888 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,888 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-09T20:15:45,889 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-09T20:15:45,889 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,894 MDTraj/xtc/xtc.c:10891:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,895 10891 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,895 | ^ 2021-07-09T20:15:45,895 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,895 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,895 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,895 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:45,895 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:45,895 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,901 MDTraj/xtc/xtc.c:10891:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,902 10891 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,902 | ^ 2021-07-09T20:15:45,902 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,902 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,902 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,902 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:45,902 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:45,902 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,908 MDTraj/xtc/xtc.c:10891:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,908 10891 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,908 | ^ 2021-07-09T20:15:45,909 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,909 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,909 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,909 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-09T20:15:45,909 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-09T20:15:45,909 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,915 MDTraj/xtc/xtc.c:10891:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,915 10891 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-09T20:15:45,915 | ^ 2021-07-09T20:15:45,916 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:45,916 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:45,916 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,916 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:45,916 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:45,916 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,936 MDTraj/xtc/xtc.c: In function ‘__Pyx_Raise’: 2021-07-09T20:15:45,941 MDTraj/xtc/xtc.c:11093:9: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:45,942 11093 | owned_instance = PyEval_CallObject(type, args); 2021-07-09T20:15:45,942 | ^~~~~~~~~~~~~~ 2021-07-09T20:15:45,942 In file included from /usr/include/python3.9/Python.h:145, 2021-07-09T20:15:45,942 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:45,942 /usr/include/python3.9/ceval.h:17:43: note: declared here 2021-07-09T20:15:45,942 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( 2021-07-09T20:15:45,942 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:45,956 MDTraj/xtc/xtc.c: In function ‘__Pyx_GetException’: 2021-07-09T20:15:45,966 MDTraj/xtc/xtc.c:11254:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-09T20:15:45,966 11254 | tmp_type = tstate->exc_type; 2021-07-09T20:15:45,967 | ^~~~~~~~ 2021-07-09T20:15:45,967 | curexc_type 2021-07-09T20:15:45,977 MDTraj/xtc/xtc.c:11255:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-09T20:15:45,977 11255 | tmp_value = tstate->exc_value; 2021-07-09T20:15:45,977 | ^~~~~~~~~ 2021-07-09T20:15:45,977 | curexc_value 2021-07-09T20:15:45,987 MDTraj/xtc/xtc.c:11256:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-09T20:15:45,988 11256 | tmp_tb = tstate->exc_traceback; 2021-07-09T20:15:45,988 | ^~~~~~~~~~~~~ 2021-07-09T20:15:45,988 | curexc_traceback 2021-07-09T20:15:45,998 MDTraj/xtc/xtc.c:11257:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-09T20:15:45,998 11257 | tstate->exc_type = local_type; 2021-07-09T20:15:45,998 | ^~~~~~~~ 2021-07-09T20:15:45,998 | curexc_type 2021-07-09T20:15:46,008 MDTraj/xtc/xtc.c:11258:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-09T20:15:46,008 11258 | tstate->exc_value = local_value; 2021-07-09T20:15:46,009 | ^~~~~~~~~ 2021-07-09T20:15:46,009 | curexc_value 2021-07-09T20:15:46,019 MDTraj/xtc/xtc.c:11259:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-09T20:15:46,019 11259 | tstate->exc_traceback = local_tb; 2021-07-09T20:15:46,019 | ^~~~~~~~~~~~~ 2021-07-09T20:15:46,019 | curexc_traceback 2021-07-09T20:15:46,109 MDTraj/xtc/xtc.c: In function ‘__Pyx_ExceptionSave’: 2021-07-09T20:15:46,121 MDTraj/xtc/xtc.c:12095:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-09T20:15:46,121 12095 | *type = tstate->exc_type; 2021-07-09T20:15:46,121 | ^~~~~~~~ 2021-07-09T20:15:46,121 | curexc_type 2021-07-09T20:15:46,132 MDTraj/xtc/xtc.c:12096:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-09T20:15:46,132 12096 | *value = tstate->exc_value; 2021-07-09T20:15:46,132 | ^~~~~~~~~ 2021-07-09T20:15:46,132 | curexc_value 2021-07-09T20:15:46,143 MDTraj/xtc/xtc.c:12097:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-09T20:15:46,143 12097 | *tb = tstate->exc_traceback; 2021-07-09T20:15:46,144 | ^~~~~~~~~~~~~ 2021-07-09T20:15:46,144 | curexc_traceback 2021-07-09T20:15:46,144 MDTraj/xtc/xtc.c: In function ‘__Pyx_ExceptionReset’: 2021-07-09T20:15:46,155 MDTraj/xtc/xtc.c:12109:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-09T20:15:46,155 12109 | tmp_type = tstate->exc_type; 2021-07-09T20:15:46,155 | ^~~~~~~~ 2021-07-09T20:15:46,155 | curexc_type 2021-07-09T20:15:46,166 MDTraj/xtc/xtc.c:12110:25: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-09T20:15:46,166 12110 | tmp_value = tstate->exc_value; 2021-07-09T20:15:46,166 | ^~~~~~~~~ 2021-07-09T20:15:46,166 | curexc_value 2021-07-09T20:15:46,177 MDTraj/xtc/xtc.c:12111:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-09T20:15:46,178 12111 | tmp_tb = tstate->exc_traceback; 2021-07-09T20:15:46,178 | ^~~~~~~~~~~~~ 2021-07-09T20:15:46,178 | curexc_traceback 2021-07-09T20:15:46,189 MDTraj/xtc/xtc.c:12112:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘curexc_type’? 2021-07-09T20:15:46,189 12112 | tstate->exc_type = type; 2021-07-09T20:15:46,189 | ^~~~~~~~ 2021-07-09T20:15:46,189 | curexc_type 2021-07-09T20:15:46,200 MDTraj/xtc/xtc.c:12113:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’; did you mean ‘curexc_value’? 2021-07-09T20:15:46,200 12113 | tstate->exc_value = value; 2021-07-09T20:15:46,200 | ^~~~~~~~~ 2021-07-09T20:15:46,200 | curexc_value 2021-07-09T20:15:46,211 MDTraj/xtc/xtc.c:12114:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’; did you mean ‘curexc_traceback’? 2021-07-09T20:15:46,211 12114 | tstate->exc_traceback = tb; 2021-07-09T20:15:46,212 | ^~~~~~~~~~~~~ 2021-07-09T20:15:46,212 | curexc_traceback 2021-07-09T20:15:46,289 MDTraj/xtc/xtc.c: In function ‘__Pyx_PyObject_AsStringAndSize’: 2021-07-09T20:15:46,296 MDTraj/xtc/xtc.c:13399:13: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:46,297 13399 | *length = PyUnicode_GET_DATA_SIZE(o); 2021-07-09T20:15:46,297 | ^ 2021-07-09T20:15:46,297 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:46,297 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:46,297 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:46,297 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:46,297 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:46,297 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:46,305 MDTraj/xtc/xtc.c:13399:13: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:46,305 13399 | *length = PyUnicode_GET_DATA_SIZE(o); 2021-07-09T20:15:46,305 | ^ 2021-07-09T20:15:46,305 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:46,305 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:46,305 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:46,306 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-09T20:15:46,306 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-09T20:15:46,306 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:46,313 MDTraj/xtc/xtc.c:13399:13: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-09T20:15:46,313 13399 | *length = PyUnicode_GET_DATA_SIZE(o); 2021-07-09T20:15:46,313 | ^ 2021-07-09T20:15:46,314 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-09T20:15:46,314 from /usr/include/python3.9/Python.h:97, 2021-07-09T20:15:46,314 from MDTraj/xtc/xtc.c:16: 2021-07-09T20:15:46,314 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-09T20:15:46,314 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-09T20:15:46,314 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:46,320 MDTraj/xtc/xtc.c:13400:20: warning: return discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2021-07-09T20:15:46,321 13400 | return PyUnicode_AsUTF8(o); 2021-07-09T20:15:46,321 | ^~~~~~~~~~~~~~~~~~~ 2021-07-09T20:15:46,451 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2021-07-09T20:15:46,564 Building wheel for mdtraj (setup.py): finished with status 'error' 2021-07-09T20:15:46,565 ERROR: Failed building wheel for mdtraj 2021-07-09T20:15:46,566 Running setup.py clean for mdtraj 2021-07-09T20:15:46,566 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-e44vwlt7/mdtraj_3b8897ad565f40a585be434d3cde330c/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-e44vwlt7/mdtraj_3b8897ad565f40a585be434d3cde330c/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'"'"'))' clean --all 2021-07-09T20:15:47,971 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2021-07-09T20:15:48,162 running clean 2021-07-09T20:15:48,163 removing 'build/temp.linux-armv7l-3.9' (and everything under it) 2021-07-09T20:15:48,167 removing 'build/lib.linux-armv7l-3.9' (and everything under it) 2021-07-09T20:15:48,211 'build/bdist.linux-armv7l' does not exist -- can't clean it 2021-07-09T20:15:48,212 'build/scripts-3.9' does not exist -- can't clean it 2021-07-09T20:15:48,212 removing 'build' 2021-07-09T20:15:48,309 Failed to build mdtraj 2021-07-09T20:15:48,309 ERROR: Failed to build one or more wheels 2021-07-09T20:15:48,310 Exception information: 2021-07-09T20:15:48,310 Traceback (most recent call last): 2021-07-09T20:15:48,310 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-07-09T20:15:48,310 status = self.run(options, args) 2021-07-09T20:15:48,310 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-07-09T20:15:48,310 return func(self, options, args) 2021-07-09T20:15:48,310 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-07-09T20:15:48,310 raise CommandError( 2021-07-09T20:15:48,310 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-07-09T20:15:48,313 Removed build tracker: '/tmp/pip-req-tracker-vc4jscmw'