2021-07-14T21:39:25,844 Created temporary directory: /tmp/pip-ephem-wheel-cache-tf2tyggz 2021-07-14T21:39:25,874 Created temporary directory: /tmp/pip-req-tracker-a8zg145g 2021-07-14T21:39:25,874 Initialized build tracking at /tmp/pip-req-tracker-a8zg145g 2021-07-14T21:39:25,874 Created build tracker: /tmp/pip-req-tracker-a8zg145g 2021-07-14T21:39:25,875 Entered build tracker: /tmp/pip-req-tracker-a8zg145g 2021-07-14T21:39:25,876 Created temporary directory: /tmp/pip-wheel-3es52fdl 2021-07-14T21:39:25,929 1 location(s) to search for versions of mdanalysis: 2021-07-14T21:39:25,929 * https://pypi.org/simple/mdanalysis/ 2021-07-14T21:39:25,930 Fetching project page and analyzing links: https://pypi.org/simple/mdanalysis/ 2021-07-14T21:39:25,931 Getting page https://pypi.org/simple/mdanalysis/ 2021-07-14T21:39:25,934 Found index url https://pypi.org/simple 2021-07-14T21:39:26,223 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 2021-07-14T21:39:26,224 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 2021-07-14T21:39:26,225 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 2021-07-14T21:39:26,225 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 2021-07-14T21:39:26,226 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 2021-07-14T21:39:26,227 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 2021-07-14T21:39:26,228 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 2021-07-14T21:39:26,229 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 2021-07-14T21:39:26,229 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 2021-07-14T21:39:26,230 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 2021-07-14T21:39:26,231 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 2021-07-14T21:39:26,242 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 2021-07-14T21:39:26,243 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 2021-07-14T21:39:26,244 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 2021-07-14T21:39:26,245 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 2021-07-14T21:39:26,246 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 2021-07-14T21:39:26,247 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 2021-07-14T21:39:26,248 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 2021-07-14T21:39:26,249 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 2021-07-14T21:39:26,250 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 2021-07-14T21:39:26,251 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 2021-07-14T21:39:26,262 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 2021-07-14T21:39:26,263 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 2021-07-14T21:39:26,263 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 2021-07-14T21:39:26,264 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 2021-07-14T21:39:26,265 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 2021-07-14T21:39:26,266 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 2021-07-14T21:39:26,269 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) 2021-07-14T21:39:26,271 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) 2021-07-14T21:39:26,283 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) 2021-07-14T21:39:26,284 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 2021-07-14T21:39:26,285 Skipping link: not a file: https://pypi.org/simple/mdanalysis/ 2021-07-14T21:39:26,339 Given no hashes to check 1 links for project 'mdanalysis': discarding no candidates 2021-07-14T21:39:26,373 Collecting mdanalysis==0.20.0 2021-07-14T21:39:26,376 Created temporary directory: /tmp/pip-unpack-jik3c960 2021-07-14T21:39:27,553 Downloading MDAnalysis-0.20.0.tar.gz (3.7 MB) 2021-07-14T21:39:31,351 Added mdanalysis==0.20.0 from https://files.pythonhosted.org/packages/b8/49/a0470dda3837aa4c42a7d2e69a4aaa1646ce2aeffe686f6887666f265b43/MDAnalysis-0.20.0.tar.gz#sha256=03938fc6c25bc16af7a2f5030118e6fb3d95b47a40ac70e887ba08048d87b33f to build tracker '/tmp/pip-req-tracker-a8zg145g' 2021-07-14T21:39:31,353 Running setup.py (path:/tmp/pip-wheel-3es52fdl/mdanalysis_f3ae0e92245340f6ae3a1b00162b180a/setup.py) egg_info for package mdanalysis 2021-07-14T21:39:31,354 Created temporary directory: /tmp/pip-pip-egg-info-6c2hvopn 2021-07-14T21:39:31,355 Running command python setup.py egg_info 2021-07-14T21:39:34,653 /tmp/pip-wheel-3es52fdl/mdanalysis_f3ae0e92245340f6ae3a1b00162b180a/setup.py:125: DeprecationWarning: The SafeConfigParser class has been renamed to ConfigParser in Python 3.2. This alias will be removed in future versions. Use ConfigParser directly instead. 2021-07-14T21:39:34,655 self.config = configparser.SafeConfigParser() 2021-07-14T21:39:36,236 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2021-07-14T21:39:36,237 Will not attempt to use Cython. 2021-07-14T21:39:36,237 running egg_info 2021-07-14T21:39:36,242 creating /tmp/pip-pip-egg-info-6c2hvopn/MDAnalysis.egg-info 2021-07-14T21:39:36,244 writing /tmp/pip-pip-egg-info-6c2hvopn/MDAnalysis.egg-info/PKG-INFO 2021-07-14T21:39:36,250 writing dependency_links to /tmp/pip-pip-egg-info-6c2hvopn/MDAnalysis.egg-info/dependency_links.txt 2021-07-14T21:39:36,255 writing requirements to /tmp/pip-pip-egg-info-6c2hvopn/MDAnalysis.egg-info/requires.txt 2021-07-14T21:39:36,257 writing top-level names to /tmp/pip-pip-egg-info-6c2hvopn/MDAnalysis.egg-info/top_level.txt 2021-07-14T21:39:36,261 writing manifest file '/tmp/pip-pip-egg-info-6c2hvopn/MDAnalysis.egg-info/SOURCES.txt' 2021-07-14T21:39:36,943 reading manifest file '/tmp/pip-pip-egg-info-6c2hvopn/MDAnalysis.egg-info/SOURCES.txt' 2021-07-14T21:39:36,946 reading manifest template 'MANIFEST.in' 2021-07-14T21:39:37,142 warning: no files found matching 'MDAnalysis/coordinates/xdrfile/src/*' 2021-07-14T21:39:37,142 warning: no files found matching 'MDAnalysis/lib/src/pyqcprot/*' 2021-07-14T21:39:37,323 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2021-07-14T21:39:37,325 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2021-07-14T21:39:37,326 warning: no previously-included files matching '*.pyd' found anywhere in distribution 2021-07-14T21:39:37,328 warning: no previously-included files matching '*~' found anywhere in distribution 2021-07-14T21:39:37,329 adding license file 'LICENSE' 2021-07-14T21:39:37,329 adding license file 'AUTHORS' 2021-07-14T21:39:37,366 writing manifest file '/tmp/pip-pip-egg-info-6c2hvopn/MDAnalysis.egg-info/SOURCES.txt' 2021-07-14T21:39:37,621 Source in /tmp/pip-wheel-3es52fdl/mdanalysis_f3ae0e92245340f6ae3a1b00162b180a has version 0.20.0, which satisfies requirement mdanalysis==0.20.0 from https://files.pythonhosted.org/packages/b8/49/a0470dda3837aa4c42a7d2e69a4aaa1646ce2aeffe686f6887666f265b43/MDAnalysis-0.20.0.tar.gz#sha256=03938fc6c25bc16af7a2f5030118e6fb3d95b47a40ac70e887ba08048d87b33f 2021-07-14T21:39:37,628 Removed mdanalysis==0.20.0 from https://files.pythonhosted.org/packages/b8/49/a0470dda3837aa4c42a7d2e69a4aaa1646ce2aeffe686f6887666f265b43/MDAnalysis-0.20.0.tar.gz#sha256=03938fc6c25bc16af7a2f5030118e6fb3d95b47a40ac70e887ba08048d87b33f from build tracker '/tmp/pip-req-tracker-a8zg145g' 2021-07-14T21:39:37,646 Created temporary directory: /tmp/pip-unpack-o32ztlfw 2021-07-14T21:39:37,646 Building wheels for collected packages: mdanalysis 2021-07-14T21:39:37,652 Created temporary directory: /tmp/pip-wheel-slfn07tb 2021-07-14T21:39:37,653 Building wheel for mdanalysis (setup.py): started 2021-07-14T21:39:37,654 Destination directory: /tmp/pip-wheel-slfn07tb 2021-07-14T21:39:37,655 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-3es52fdl/mdanalysis_f3ae0e92245340f6ae3a1b00162b180a/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-3es52fdl/mdanalysis_f3ae0e92245340f6ae3a1b00162b180a/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-slfn07tb 2021-07-14T21:39:40,948 /tmp/pip-wheel-3es52fdl/mdanalysis_f3ae0e92245340f6ae3a1b00162b180a/setup.py:125: DeprecationWarning: The SafeConfigParser class has been renamed to ConfigParser in Python 3.2. This alias will be removed in future versions. Use ConfigParser directly instead. 2021-07-14T21:39:40,949 self.config = configparser.SafeConfigParser() 2021-07-14T21:39:41,448 Attempting to autodetect OpenMP support... Compiler supports OpenMP 2021-07-14T21:39:41,448 Will not attempt to use Cython. 2021-07-14T21:39:42,207 running bdist_wheel 2021-07-14T21:39:42,211 The [wheel] section is deprecated. Use [bdist_wheel] instead. 2021-07-14T21:39:42,215 running build 2021-07-14T21:39:42,216 running build_py 2021-07-14T21:39:42,455 creating build 2021-07-14T21:39:42,456 creating build/lib.linux-armv7l-3.9 2021-07-14T21:39:42,457 creating build/lib.linux-armv7l-3.9/MDAnalysis 2021-07-14T21:39:42,458 copying MDAnalysis/version.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-07-14T21:39:42,461 copying MDAnalysis/KDTree.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-07-14T21:39:42,464 copying MDAnalysis/exceptions.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-07-14T21:39:42,467 copying MDAnalysis/due.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-07-14T21:39:42,470 copying MDAnalysis/authors.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-07-14T21:39:42,473 copying MDAnalysis/units.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-07-14T21:39:42,476 copying MDAnalysis/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis 2021-07-14T21:39:42,480 creating build/lib.linux-armv7l-3.9/MDAnalysis/migration 2021-07-14T21:39:42,481 copying MDAnalysis/migration/ten2eleven.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration 2021-07-14T21:39:42,484 copying MDAnalysis/migration/test_dummy_old_MDA_code.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration 2021-07-14T21:39:42,488 copying MDAnalysis/migration/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration 2021-07-14T21:39:42,490 copying MDAnalysis/migration/test_dummy_torsion.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration 2021-07-14T21:39:42,494 creating build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,496 copying MDAnalysis/core/groups.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,505 copying MDAnalysis/core/topologyobjects.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,508 copying MDAnalysis/core/universe.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,513 copying MDAnalysis/core/parallel.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,516 copying MDAnalysis/core/util.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,518 copying MDAnalysis/core/AtomGroup.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,521 copying MDAnalysis/core/transformations.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,523 copying MDAnalysis/core/topology.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,527 copying MDAnalysis/core/topologyattrs.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,532 copying MDAnalysis/core/units.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,534 copying MDAnalysis/core/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,537 copying MDAnalysis/core/qcprot.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,539 copying MDAnalysis/core/log.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,542 copying MDAnalysis/core/_get_readers.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,545 copying MDAnalysis/core/selection.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,549 copying MDAnalysis/core/distances.py -> build/lib.linux-armv7l-3.9/MDAnalysis/core 2021-07-14T21:39:42,552 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,554 copying MDAnalysis/analysis/gnm.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,557 copying MDAnalysis/analysis/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,561 copying MDAnalysis/analysis/waterdynamics.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,565 copying MDAnalysis/analysis/diffusionmap.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,568 copying MDAnalysis/analysis/psa.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,573 copying MDAnalysis/analysis/x3dna.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,575 copying MDAnalysis/analysis/align.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,580 copying MDAnalysis/analysis/lineardensity.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,587 copying MDAnalysis/analysis/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,591 copying MDAnalysis/analysis/rms.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,592 copying MDAnalysis/analysis/nuclinfo.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,597 copying MDAnalysis/analysis/pca.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,601 copying MDAnalysis/analysis/polymer.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,604 copying MDAnalysis/analysis/contacts.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,608 copying MDAnalysis/analysis/density.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,617 copying MDAnalysis/analysis/rdf.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,621 copying MDAnalysis/analysis/distances.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,625 copying MDAnalysis/analysis/dihedrals.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,629 copying MDAnalysis/analysis/hole.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,642 copying MDAnalysis/analysis/leaflet.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,655 copying MDAnalysis/analysis/helanal.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:39:42,660 creating build/lib.linux-armv7l-3.9/MDAnalysis/tests 2021-07-14T21:39:42,662 copying MDAnalysis/tests/datafiles.py -> build/lib.linux-armv7l-3.9/MDAnalysis/tests 2021-07-14T21:39:42,665 copying MDAnalysis/tests/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/tests 2021-07-14T21:39:42,682 creating build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:42,684 copying MDAnalysis/lib/mdamath.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:42,688 copying MDAnalysis/lib/util.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:42,693 copying MDAnalysis/lib/transformations.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:42,698 copying MDAnalysis/lib/pkdtree.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:42,702 copying MDAnalysis/lib/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:42,705 copying MDAnalysis/lib/log.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:42,709 copying MDAnalysis/lib/NeighborSearch.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:42,714 copying MDAnalysis/lib/distances.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:42,722 creating build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,742 copying MDAnalysis/coordinates/null.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,746 copying MDAnalysis/coordinates/DCD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,750 copying MDAnalysis/coordinates/XTC.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,754 copying MDAnalysis/coordinates/TRR.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,758 copying MDAnalysis/coordinates/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,763 copying MDAnalysis/coordinates/TRJ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,767 copying MDAnalysis/coordinates/PDB.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,786 copying MDAnalysis/coordinates/CRD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,790 copying MDAnalysis/coordinates/XDR.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,793 copying MDAnalysis/coordinates/PDBQT.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,797 copying MDAnalysis/coordinates/MMTF.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,800 copying MDAnalysis/coordinates/memory.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,805 copying MDAnalysis/coordinates/TRZ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,825 copying MDAnalysis/coordinates/PQR.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,829 copying MDAnalysis/coordinates/TXYZ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,834 copying MDAnalysis/coordinates/GSD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,837 copying MDAnalysis/coordinates/DLPoly.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,841 copying MDAnalysis/coordinates/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,845 copying MDAnalysis/coordinates/chain.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,862 copying MDAnalysis/coordinates/XYZ.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,866 copying MDAnalysis/coordinates/GMS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,869 copying MDAnalysis/coordinates/GRO.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,874 copying MDAnalysis/coordinates/INPCRD.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,877 copying MDAnalysis/coordinates/LAMMPS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,882 copying MDAnalysis/coordinates/MOL2.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,913 copying MDAnalysis/coordinates/core.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,917 copying MDAnalysis/coordinates/DMS.py -> build/lib.linux-armv7l-3.9/MDAnalysis/coordinates 2021-07-14T21:39:42,921 creating build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-07-14T21:39:42,923 copying MDAnalysis/selections/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-07-14T21:39:42,927 copying MDAnalysis/selections/gromacs.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-07-14T21:39:42,942 copying MDAnalysis/selections/jmol.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-07-14T21:39:42,945 copying MDAnalysis/selections/vmd.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-07-14T21:39:42,948 copying MDAnalysis/selections/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-07-14T21:39:42,962 copying MDAnalysis/selections/charmm.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-07-14T21:39:42,965 copying MDAnalysis/selections/pymol.py -> build/lib.linux-armv7l-3.9/MDAnalysis/selections 2021-07-14T21:39:42,969 creating build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-07-14T21:39:42,970 copying MDAnalysis/auxiliary/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-07-14T21:39:42,974 copying MDAnalysis/auxiliary/XVG.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-07-14T21:39:42,978 copying MDAnalysis/auxiliary/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-07-14T21:39:42,982 copying MDAnalysis/auxiliary/core.py -> build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary 2021-07-14T21:39:43,002 creating build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2021-07-14T21:39:43,012 copying MDAnalysis/visualization/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2021-07-14T21:39:43,016 copying MDAnalysis/visualization/streamlines_3D.py -> build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2021-07-14T21:39:43,021 copying MDAnalysis/visualization/streamlines.py -> build/lib.linux-armv7l-3.9/MDAnalysis/visualization 2021-07-14T21:39:43,026 creating build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,042 copying MDAnalysis/topology/GROParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,046 copying MDAnalysis/topology/_elements.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,049 copying MDAnalysis/topology/TPRParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,053 copying MDAnalysis/topology/base.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,056 copying MDAnalysis/topology/TXYZParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,059 copying MDAnalysis/topology/MinimalParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,062 copying MDAnalysis/topology/GSDParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,072 copying MDAnalysis/topology/TOPParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,078 copying MDAnalysis/topology/guessers.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,084 copying MDAnalysis/topology/GMSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,088 copying MDAnalysis/topology/PSFParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,094 copying MDAnalysis/topology/HoomdXMLParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,098 copying MDAnalysis/topology/tables.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,103 copying MDAnalysis/topology/DLPolyParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,107 copying MDAnalysis/topology/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,113 copying MDAnalysis/topology/DMSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,118 copying MDAnalysis/topology/PDBParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,123 copying MDAnalysis/topology/CRDParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,128 copying MDAnalysis/topology/MOL2Parser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,132 copying MDAnalysis/topology/PDBQTParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,136 copying MDAnalysis/topology/PQRParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,140 copying MDAnalysis/topology/ExtendedPDBParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,144 copying MDAnalysis/topology/core.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,148 copying MDAnalysis/topology/MMTFParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,154 copying MDAnalysis/topology/XYZParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,158 copying MDAnalysis/topology/LAMMPSParser.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology 2021-07-14T21:39:43,163 creating build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-07-14T21:39:43,165 copying MDAnalysis/transformations/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-07-14T21:39:43,169 copying MDAnalysis/transformations/rotate.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-07-14T21:39:43,174 copying MDAnalysis/transformations/translate.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-07-14T21:39:43,179 copying MDAnalysis/transformations/fit.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-07-14T21:39:43,184 copying MDAnalysis/transformations/positionaveraging.py -> build/lib.linux-armv7l-3.9/MDAnalysis/transformations 2021-07-14T21:39:43,190 creating build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,193 copying MDAnalysis/migration/fixes/fix_framenumberingzerobased2.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,198 copying MDAnalysis/migration/fixes/fix_torsionclasses.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,201 copying MDAnalysis/migration/fixes/fix_calctorsions.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,205 copying MDAnalysis/migration/fixes/fix_framenumberingzerobased.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,209 copying MDAnalysis/migration/fixes/fix_mdaimports.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,213 copying MDAnalysis/migration/fixes/fix_agsetterpluralization.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,218 copying MDAnalysis/migration/fixes/fix_torsions.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,222 copying MDAnalysis/migration/fixes/fix_selectatoms.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,225 copying MDAnalysis/migration/fixes/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,229 copying MDAnalysis/migration/fixes/fix_agmethods2.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,234 copying MDAnalysis/migration/fixes/fix_agcountmethods.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,238 copying MDAnalysis/migration/fixes/fix_writer.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,242 copying MDAnalysis/migration/fixes/fix_camelcase.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,246 copying MDAnalysis/migration/fixes/fix_agmethods.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,251 copying MDAnalysis/migration/fixes/fix_numframes.py -> build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes 2021-07-14T21:39:43,255 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-07-14T21:39:43,257 copying MDAnalysis/analysis/encore/similarity.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-07-14T21:39:43,264 copying MDAnalysis/analysis/encore/confdistmatrix.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-07-14T21:39:43,269 copying MDAnalysis/analysis/encore/bootstrap.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-07-14T21:39:43,274 copying MDAnalysis/analysis/encore/utils.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-07-14T21:39:43,278 copying MDAnalysis/analysis/encore/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-07-14T21:39:43,282 copying MDAnalysis/analysis/encore/covariance.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-07-14T21:39:43,287 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-07-14T21:39:43,289 copying MDAnalysis/analysis/data/filenames.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-07-14T21:39:43,293 copying MDAnalysis/analysis/data/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-07-14T21:39:43,298 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2021-07-14T21:39:43,301 copying MDAnalysis/analysis/hbonds/hbond_analysis.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2021-07-14T21:39:43,307 copying MDAnalysis/analysis/hbonds/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2021-07-14T21:39:43,312 copying MDAnalysis/analysis/hbonds/wbridge_analysis.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2021-07-14T21:39:43,319 copying MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds 2021-07-14T21:39:43,324 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy 2021-07-14T21:39:43,327 copying MDAnalysis/analysis/legacy/x3dna.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy 2021-07-14T21:39:43,332 copying MDAnalysis/analysis/legacy/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy 2021-07-14T21:39:43,339 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-07-14T21:39:43,342 copying MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-07-14T21:39:43,348 copying MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-07-14T21:39:43,353 copying MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-07-14T21:39:43,358 creating build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-07-14T21:39:43,361 copying MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-07-14T21:39:43,376 copying MDAnalysis/analysis/encore/clustering/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-07-14T21:39:43,381 copying MDAnalysis/analysis/encore/clustering/cluster.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-07-14T21:39:43,386 copying MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-07-14T21:39:43,392 creating build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats 2021-07-14T21:39:43,395 copying MDAnalysis/lib/formats/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats 2021-07-14T21:39:43,401 creating build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-07-14T21:39:43,403 copying MDAnalysis/topology/tpr/setting.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-07-14T21:39:43,408 copying MDAnalysis/topology/tpr/obj.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-07-14T21:39:43,413 copying MDAnalysis/topology/tpr/utils.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-07-14T21:39:43,419 copying MDAnalysis/topology/tpr/__init__.py -> build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr 2021-07-14T21:39:43,429 copying MDAnalysis/analysis/data/rama_ref_data.npy -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-07-14T21:39:43,436 copying MDAnalysis/analysis/data/janin_ref_data.npy -> build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data 2021-07-14T21:39:43,475 running build_ext 2021-07-14T21:39:43,481 building 'MDAnalysis.lib.formats.libdcd' extension 2021-07-14T21:39:44,038 creating build/temp.linux-armv7l-3.9 2021-07-14T21:39:44,039 creating build/temp.linux-armv7l-3.9/MDAnalysis 2021-07-14T21:39:44,041 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib 2021-07-14T21:39:44,043 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats 2021-07-14T21:39:44,045 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/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 2021-07-14T21:39:45,048 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:39:45,049 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:39:45,049 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:39:45,050 from MDAnalysis/lib/formats/libdcd.c:627: 2021-07-14T21:39:45,051 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:39:45,052 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:39:45,052 | ^~~~~~~ 2021-07-14T21:39:45,237 In file included from MDAnalysis/lib/formats/libdcd.c:633: 2021-07-14T21:39:45,238 MDAnalysis/lib/formats/include/readdcd.h: In function ‘read_dcdstep’: 2021-07-14T21:39:45,238 MDAnalysis/lib/formats/include/readdcd.h:562:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T21:39:45,239 562 | if (tmpbuf[i] != sizeof(float)*N) return DCD_BADFORMAT; 2021-07-14T21:39:45,240 | ^~ 2021-07-14T21:39:45,249 MDAnalysis/lib/formats/include/readdcd.h: In function ‘write_dcdheader’: 2021-07-14T21:39:45,249 MDAnalysis/lib/formats/include/readdcd.h:698:14: warning: unused variable ‘tmbuf’ [-Wunused-variable] 2021-07-14T21:39:45,250 698 | struct tm *tmbuf; 2021-07-14T21:39:45,250 | ^~~~~ 2021-07-14T21:39:45,251 MDAnalysis/lib/formats/include/readdcd.h:697:10: warning: unused variable ‘cur_time’ [-Wunused-variable] 2021-07-14T21:39:45,252 697 | time_t cur_time; 2021-07-14T21:39:45,252 | ^~~~~~~~ 2021-07-14T21:39:46,777 MDAnalysis/lib/formats/libdcd.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-14T21:39:46,812 MDAnalysis/lib/formats/libdcd.c:28948:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:46,813 28948 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:46,814 | ^ 2021-07-14T21:39:46,816 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:46,817 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:46,817 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:46,818 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:39:46,819 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:39:46,819 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:46,864 MDAnalysis/lib/formats/libdcd.c:28948:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:46,864 28948 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:46,865 | ^ 2021-07-14T21:39:46,865 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:46,866 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:46,866 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:46,866 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:39:46,867 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:39:46,867 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:46,908 MDAnalysis/lib/formats/libdcd.c:28948:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:46,909 28948 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:46,909 | ^ 2021-07-14T21:39:46,910 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:46,910 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:46,911 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:46,911 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:39:46,911 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:39:46,912 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:46,932 MDAnalysis/lib/formats/libdcd.c:28948:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:46,933 28948 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:46,933 | ^ 2021-07-14T21:39:46,934 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:46,935 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:46,935 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:46,936 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:39:46,936 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:39:46,936 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:46,955 MDAnalysis/lib/formats/libdcd.c:28948:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:46,956 28948 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:46,956 | ^ 2021-07-14T21:39:46,957 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:46,958 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:46,958 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:46,958 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:39:46,959 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:39:46,959 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:46,979 MDAnalysis/lib/formats/libdcd.c:28948:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:46,979 28948 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:46,980 | ^ 2021-07-14T21:39:46,980 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:46,980 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:46,981 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:46,981 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:39:46,981 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:39:46,982 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:47,028 MDAnalysis/lib/formats/libdcd.c:28964:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:47,028 28964 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:47,029 | ^ 2021-07-14T21:39:47,030 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:47,030 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:47,031 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:47,031 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:39:47,032 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:39:47,033 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:47,066 MDAnalysis/lib/formats/libdcd.c:28964:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:47,066 28964 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:47,067 | ^ 2021-07-14T21:39:47,068 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:47,068 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:47,068 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:47,069 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:39:47,069 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:39:47,069 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:47,102 MDAnalysis/lib/formats/libdcd.c:28964:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:47,102 28964 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:47,103 | ^ 2021-07-14T21:39:47,104 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:47,104 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:47,104 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:47,104 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:39:47,105 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:39:47,105 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:47,139 MDAnalysis/lib/formats/libdcd.c:28964:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:47,139 28964 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:47,140 | ^ 2021-07-14T21:39:47,140 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:47,141 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:47,141 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:47,142 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:39:47,142 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:39:47,142 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:47,176 MDAnalysis/lib/formats/libdcd.c:28964:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:47,176 28964 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:47,176 | ^ 2021-07-14T21:39:47,177 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:47,177 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:47,178 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:47,178 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:39:47,179 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:39:47,179 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:47,199 MDAnalysis/lib/formats/libdcd.c:28964:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:47,199 28964 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:39:47,199 | ^ 2021-07-14T21:39:47,200 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:47,200 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:47,200 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:47,201 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:39:47,201 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:39:47,201 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:48,281 MDAnalysis/lib/formats/libdcd.c: In function ‘__Pyx_decode_c_string’: 2021-07-14T21:39:48,302 MDAnalysis/lib/formats/libdcd.c:31209:9: warning: ‘PyUnicode_FromUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:39:48,303 31209 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-14T21:39:48,303 | ^~~~~~ 2021-07-14T21:39:48,304 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:39:48,304 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:39:48,305 from MDAnalysis/lib/formats/libdcd.c:33: 2021-07-14T21:39:48,305 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-14T21:39:48,305 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-14T21:39:48,306 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:39:50,199 In file included from MDAnalysis/lib/formats/include/readdcd.h:25, 2021-07-14T21:39:50,200 from MDAnalysis/lib/formats/libdcd.c:633: 2021-07-14T21:39:50,201 At top level: 2021-07-14T21:39:50,207 MDAnalysis/lib/formats/include/endianswap.h:96:13: warning: ‘swap2_aligned’ defined but not used [-Wunused-function] 2021-07-14T21:39:50,209 96 | static void swap2_aligned(void *v, long ndata) { 2021-07-14T21:39:50,209 | ^~~~~~~~~~~~~ 2021-07-14T21:39:50,210 MDAnalysis/lib/formats/include/endianswap.h:32:13: warning: ‘swap2_unaligned’ defined but not used [-Wunused-function] 2021-07-14T21:39:50,211 32 | static void swap2_unaligned(void *v, long ndata) { 2021-07-14T21:39:50,211 | ^~~~~~~~~~~~~~~ 2021-07-14T21:39:50,212 In file included from MDAnalysis/lib/formats/libdcd.c:632: 2021-07-14T21:39:50,212 MDAnalysis/lib/formats/include/fastio.h:453:12: warning: ‘fio_write_str’ defined but not used [-Wunused-function] 2021-07-14T21:39:50,213 453 | static int fio_write_str(fio_fd fd, const char *str) { 2021-07-14T21:39:50,213 | ^~~~~~~~~~~~~ 2021-07-14T21:39:50,214 MDAnalysis/lib/formats/include/fastio.h:449:12: warning: ‘fio_read_int32’ defined but not used [-Wunused-function] 2021-07-14T21:39:50,214 449 | static int fio_read_int32(fio_fd fd, int *i) { 2021-07-14T21:39:50,215 | ^~~~~~~~~~~~~~ 2021-07-14T21:41:07,035 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 2021-07-14T21:41:07,422 building 'MDAnalysis.lib.c_distances' extension 2021-07-14T21:41:07,423 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/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 2021-07-14T21:41:08,185 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:41:08,185 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:41:08,186 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:41:08,187 from MDAnalysis/lib/c_distances.c:628: 2021-07-14T21:41:08,187 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:41:08,188 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:41:08,189 | ^~~~~~~ 2021-07-14T21:41:09,339 MDAnalysis/lib/c_distances.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-14T21:41:09,360 MDAnalysis/lib/c_distances.c:23529:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,361 23529 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,362 | ^ 2021-07-14T21:41:09,363 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,364 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,364 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,365 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:41:09,365 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:41:09,365 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,390 MDAnalysis/lib/c_distances.c:23529:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,390 23529 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,391 | ^ 2021-07-14T21:41:09,391 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,392 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,392 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,392 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:41:09,393 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:41:09,393 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,416 MDAnalysis/lib/c_distances.c:23529:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,417 23529 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,418 | ^ 2021-07-14T21:41:09,419 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,419 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,420 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,420 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:41:09,421 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:41:09,421 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,444 MDAnalysis/lib/c_distances.c:23529:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,445 23529 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,445 | ^ 2021-07-14T21:41:09,446 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,447 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,448 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,448 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:41:09,449 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:41:09,449 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,472 MDAnalysis/lib/c_distances.c:23529:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,473 23529 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,474 | ^ 2021-07-14T21:41:09,475 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,475 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,476 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,477 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:41:09,477 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:41:09,478 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,501 MDAnalysis/lib/c_distances.c:23529:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,502 23529 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,502 | ^ 2021-07-14T21:41:09,503 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,504 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,505 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,505 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:41:09,506 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:41:09,507 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,535 MDAnalysis/lib/c_distances.c:23545:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,536 23545 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,537 | ^ 2021-07-14T21:41:09,538 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,538 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,539 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,540 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:41:09,540 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:41:09,541 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,563 MDAnalysis/lib/c_distances.c:23545:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,564 23545 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,565 | ^ 2021-07-14T21:41:09,566 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,567 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,567 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,568 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:41:09,568 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:41:09,569 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,589 MDAnalysis/lib/c_distances.c:23545:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,590 23545 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,590 | ^ 2021-07-14T21:41:09,591 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,591 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,592 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,592 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:41:09,593 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:41:09,594 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,618 MDAnalysis/lib/c_distances.c:23545:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,619 23545 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,619 | ^ 2021-07-14T21:41:09,620 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,621 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,622 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,622 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:41:09,623 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:41:09,624 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,650 MDAnalysis/lib/c_distances.c:23545:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,651 23545 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,652 | ^ 2021-07-14T21:41:09,652 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,653 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,654 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,654 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:41:09,655 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:41:09,655 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:09,679 MDAnalysis/lib/c_distances.c:23545:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:09,680 23545 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:41:09,680 | ^ 2021-07-14T21:41:09,681 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:09,681 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:09,682 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:09,682 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:41:09,683 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:41:09,684 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:41:10,040 MDAnalysis/lib/c_distances.c: In function ‘__Pyx_decode_c_string’: 2021-07-14T21:41:10,059 MDAnalysis/lib/c_distances.c:24772:9: warning: ‘PyUnicode_FromUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:41:10,060 24772 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-14T21:41:10,061 | ^~~~~~ 2021-07-14T21:41:10,062 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:41:10,063 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:41:10,063 from MDAnalysis/lib/c_distances.c:34: 2021-07-14T21:41:10,064 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-14T21:41:10,064 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-14T21:41:10,065 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:07,677 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 2021-07-14T21:42:08,062 building 'MDAnalysis.lib.c_distances_openmp' extension 2021-07-14T21:42:08,062 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/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 2021-07-14T21:42:08,951 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:42:08,951 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:42:08,952 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:42:08,952 from MDAnalysis/lib/c_distances_openmp.c:639: 2021-07-14T21:42:08,952 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:42:08,953 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:42:08,953 | ^~~~~~~ 2021-07-14T21:42:09,355 MDAnalysis/lib/c_distances_openmp.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-14T21:42:09,361 MDAnalysis/lib/c_distances_openmp.c:7760:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,361 7760 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,362 | ^ 2021-07-14T21:42:09,363 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,363 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,364 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,364 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:09,364 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:09,365 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,372 MDAnalysis/lib/c_distances_openmp.c:7760:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,372 7760 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,372 | ^ 2021-07-14T21:42:09,373 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,373 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,374 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,374 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:09,374 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:09,375 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,381 MDAnalysis/lib/c_distances_openmp.c:7760:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,382 7760 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,382 | ^ 2021-07-14T21:42:09,383 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,383 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,384 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,384 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:09,384 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:09,385 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,391 MDAnalysis/lib/c_distances_openmp.c:7760:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,392 7760 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,392 | ^ 2021-07-14T21:42:09,393 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,393 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,393 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,394 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:09,394 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:09,394 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,401 MDAnalysis/lib/c_distances_openmp.c:7760:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,401 7760 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,402 | ^ 2021-07-14T21:42:09,402 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,403 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,403 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,403 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:09,404 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:09,404 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,411 MDAnalysis/lib/c_distances_openmp.c:7760:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,411 7760 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,412 | ^ 2021-07-14T21:42:09,412 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,413 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,413 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,413 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:09,414 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:09,414 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,429 MDAnalysis/lib/c_distances_openmp.c:7776:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,430 7776 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,430 | ^ 2021-07-14T21:42:09,442 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,442 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,442 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,443 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:09,443 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:09,444 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,450 MDAnalysis/lib/c_distances_openmp.c:7776:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,451 7776 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,451 | ^ 2021-07-14T21:42:09,452 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,452 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,453 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,453 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:09,453 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:09,454 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,460 MDAnalysis/lib/c_distances_openmp.c:7776:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,461 7776 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,461 | ^ 2021-07-14T21:42:09,472 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,472 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,473 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,473 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:09,473 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:09,474 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,481 MDAnalysis/lib/c_distances_openmp.c:7776:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,481 7776 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,481 | ^ 2021-07-14T21:42:09,492 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,492 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,492 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,493 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:09,493 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:09,494 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,500 MDAnalysis/lib/c_distances_openmp.c:7776:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,501 7776 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,501 | ^ 2021-07-14T21:42:09,502 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,502 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,503 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,503 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:09,504 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:09,504 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:09,511 MDAnalysis/lib/c_distances_openmp.c:7776:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:09,511 7776 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:09,512 | ^ 2021-07-14T21:42:09,522 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:09,522 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:09,523 from MDAnalysis/lib/c_distances_openmp.c:45: 2021-07-14T21:42:09,523 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:09,523 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:09,524 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:23,130 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 2021-07-14T21:42:23,441 building 'MDAnalysis.lib.qcprot' extension 2021-07-14T21:42:23,441 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/home/piwheels/.local/lib/python3.9/site-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 2021-07-14T21:42:24,656 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:42:24,656 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:42:24,657 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:42:24,657 from MDAnalysis/lib/qcprot.c:592: 2021-07-14T21:42:24,657 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:42:24,658 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:42:24,658 | ^~~~~~~ 2021-07-14T21:42:24,859 MDAnalysis/lib/qcprot.c: In function ‘__pyx_pf_10MDAnalysis_3lib_6qcprot_InnerProduct’: 2021-07-14T21:42:24,860 MDAnalysis/lib/qcprot.c:2204:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T21:42:24,860 2204 | for (__pyx_t_14 = 0; __pyx_t_14 < __pyx_t_13; __pyx_t_14+=1) { 2021-07-14T21:42:24,861 | ^ 2021-07-14T21:42:24,875 MDAnalysis/lib/qcprot.c:2412:37: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T21:42:24,876 2412 | for (__pyx_t_14 = 0; __pyx_t_14 < __pyx_t_13; __pyx_t_14+=1) { 2021-07-14T21:42:24,876 | ^ 2021-07-14T21:42:25,297 MDAnalysis/lib/qcprot.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-14T21:42:25,301 MDAnalysis/lib/qcprot.c:8432:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,301 8432 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,302 | ^ 2021-07-14T21:42:25,312 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,312 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,313 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,313 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:25,313 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:25,314 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,317 MDAnalysis/lib/qcprot.c:8432:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,317 8432 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,318 | ^ 2021-07-14T21:42:25,318 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,319 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,319 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,319 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:25,320 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:25,320 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,332 MDAnalysis/lib/qcprot.c:8432:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,333 8432 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,333 | ^ 2021-07-14T21:42:25,333 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,334 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,334 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,334 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:25,335 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:25,335 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,337 MDAnalysis/lib/qcprot.c:8432:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,338 8432 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,338 | ^ 2021-07-14T21:42:25,339 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,339 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,339 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,340 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:25,340 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:25,340 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,353 MDAnalysis/lib/qcprot.c:8432:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,353 8432 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,353 | ^ 2021-07-14T21:42:25,354 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,354 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,354 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,355 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:25,355 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:25,355 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,358 MDAnalysis/lib/qcprot.c:8432:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,358 8432 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,359 | ^ 2021-07-14T21:42:25,359 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,359 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,360 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,360 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:25,360 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:25,361 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,374 MDAnalysis/lib/qcprot.c:8448:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,375 8448 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,375 | ^ 2021-07-14T21:42:25,376 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,376 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,376 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,377 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:25,377 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:25,377 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,379 MDAnalysis/lib/qcprot.c:8448:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,380 8448 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,380 | ^ 2021-07-14T21:42:25,381 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,381 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,381 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,382 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:25,382 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:25,383 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,395 MDAnalysis/lib/qcprot.c:8448:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,395 8448 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,395 | ^ 2021-07-14T21:42:25,396 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,396 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,397 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,397 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:25,397 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:25,398 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,400 MDAnalysis/lib/qcprot.c:8448:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,400 8448 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,401 | ^ 2021-07-14T21:42:25,401 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,401 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,402 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,402 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:25,403 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:25,403 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,415 MDAnalysis/lib/qcprot.c:8448:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,415 8448 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,415 | ^ 2021-07-14T21:42:25,416 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,416 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,417 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,417 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:25,417 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:25,417 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:25,420 MDAnalysis/lib/qcprot.c:8448:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:25,420 8448 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:25,421 | ^ 2021-07-14T21:42:25,421 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:25,421 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:25,422 from MDAnalysis/lib/qcprot.c:29: 2021-07-14T21:42:25,422 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:25,423 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:25,423 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:39,141 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 2021-07-14T21:42:39,327 building 'MDAnalysis.lib._transformations' extension 2021-07-14T21:42:39,328 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/src 2021-07-14T21:42:39,329 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/src/transformations 2021-07-14T21:42:39,330 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/src/transformations/transformations.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/src/transformations/transformations.o -std=c99 -ffast-math -O3 -funroll-loops 2021-07-14T21:42:40,092 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:42:40,092 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:42:40,092 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:42:40,093 from MDAnalysis/lib/src/transformations/transformations.c:73: 2021-07-14T21:42:40,093 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:42:40,094 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:42:40,094 | ^~~~~~~ 2021-07-14T21:42:40,324 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_superimposition_matrix’: 2021-07-14T21:42:40,327 MDAnalysis/lib/src/transformations/transformations.c:1845: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-07-14T21:42:40,327 1845 | #pragma vector always 2021-07-14T21:42:40,327 | 2021-07-14T21:42:40,338 MDAnalysis/lib/src/transformations/transformations.c:1962: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-07-14T21:42:40,338 1962 | #pragma vector always 2021-07-14T21:42:40,339 | 2021-07-14T21:42:40,347 MDAnalysis/lib/src/transformations/transformations.c:1986: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-07-14T21:42:40,347 1986 | #pragma vector always 2021-07-14T21:42:40,348 | 2021-07-14T21:42:40,356 MDAnalysis/lib/src/transformations/transformations.c: In function ‘axis2tuple’: 2021-07-14T21:42:40,362 MDAnalysis/lib/src/transformations/transformations.c:2122:5: warning: ‘PyUnicode_GetSize’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:40,363 2122 | if (PyUnicode_Check(axes) && (PyUnicode_GetSize(axes) == 4)) { 2021-07-14T21:42:40,363 | ^~ 2021-07-14T21:42:40,367 In file included from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:40,367 from MDAnalysis/lib/src/transformations/transformations.c:68: 2021-07-14T21:42:40,367 /usr/include/python3.9/unicodeobject.h:177:43: note: declared here 2021-07-14T21:42:40,368 177 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_ssize_t) PyUnicode_GetSize( 2021-07-14T21:42:40,368 | ^~~~~~~~~~~~~~~~~ 2021-07-14T21:42:40,485 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_vector_norm’: 2021-07-14T21:42:40,487 MDAnalysis/lib/src/transformations/transformations.c:3427: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-07-14T21:42:40,488 3427 | #pragma vector always 2021-07-14T21:42:40,488 | 2021-07-14T21:42:40,496 MDAnalysis/lib/src/transformations/transformations.c:3508: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-07-14T21:42:40,497 3508 | #pragma vector always 2021-07-14T21:42:40,497 | 2021-07-14T21:42:40,515 MDAnalysis/lib/src/transformations/transformations.c: In function ‘py_unit_vector’: 2021-07-14T21:42:40,518 MDAnalysis/lib/src/transformations/transformations.c:3610: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-07-14T21:42:40,518 3610 | #pragma vector always 2021-07-14T21:42:40,519 | 2021-07-14T21:42:40,524 MDAnalysis/lib/src/transformations/transformations.c:3615: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-07-14T21:42:40,524 3615 | #pragma vector always 2021-07-14T21:42:40,525 | 2021-07-14T21:42:40,543 MDAnalysis/lib/src/transformations/transformations.c:3679: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-07-14T21:42:40,543 3679 | #pragma vector always 2021-07-14T21:42:40,543 | 2021-07-14T21:42:40,549 MDAnalysis/lib/src/transformations/transformations.c:3684: warning: ignoring ‘#pragma vector always’ [-Wunknown-pragmas] 2021-07-14T21:42:40,549 3684 | #pragma vector always 2021-07-14T21:42:40,550 | 2021-07-14T21:42:40,785 At top level: 2021-07-14T21:42:40,788 MDAnalysis/lib/src/transformations/transformations.c:910:1: warning: ‘PyConverter_DoubleVector4Copy’ defined but not used [-Wunused-function] 2021-07-14T21:42:40,789 910 | PyConverter_DoubleVector4Copy( 2021-07-14T21:42:40,789 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:40,792 MDAnalysis/lib/src/transformations/transformations.c:804:1: warning: ‘PyConverter_DoubleArrayOrNone’ defined but not used [-Wunused-function] 2021-07-14T21:42:40,792 804 | PyConverter_DoubleArrayOrNone( 2021-07-14T21:42:40,793 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:40,795 MDAnalysis/lib/src/transformations/transformations.c:774:1: warning: ‘PyConverter_DoubleArray’ defined but not used [-Wunused-function] 2021-07-14T21:42:40,796 774 | PyConverter_DoubleArray( 2021-07-14T21:42:40,796 | ^~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:54,205 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 2021-07-14T21:42:54,552 building 'MDAnalysis.lib.formats.libmdaxdr' extension 2021-07-14T21:42:54,554 creating build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/src 2021-07-14T21:42:54,556 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/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 2021-07-14T21:42:55,476 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:42:55,476 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:42:55,477 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:42:55,477 from MDAnalysis/lib/formats/libmdaxdr.c:649: 2021-07-14T21:42:55,477 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:42:55,478 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:42:55,478 | ^~~~~~~ 2021-07-14T21:42:55,522 In file included from MDAnalysis/lib/formats/libmdaxdr.c:652: 2021-07-14T21:42:55,523 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:42:55,523 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:42:55,523 | 2021-07-14T21:42:55,524 In file included from MDAnalysis/lib/formats/libmdaxdr.c:653: 2021-07-14T21:42:55,525 MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:42:55,525 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:42:55,526 | 2021-07-14T21:42:55,526 In file included from MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2021-07-14T21:42:55,526 from MDAnalysis/lib/formats/libmdaxdr.c:653: 2021-07-14T21:42:55,526 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:42:55,527 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:42:55,527 | 2021-07-14T21:42:55,528 In file included from MDAnalysis/lib/formats/libmdaxdr.c:654: 2021-07-14T21:42:55,528 MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:42:55,528 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:42:55,528 | 2021-07-14T21:42:56,879 MDAnalysis/lib/formats/libmdaxdr.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-14T21:42:56,894 MDAnalysis/lib/formats/libmdaxdr.c:28080:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:56,895 28080 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:56,895 | ^ 2021-07-14T21:42:56,895 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:56,896 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:56,896 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:56,896 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:56,897 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:56,897 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:56,943 MDAnalysis/lib/formats/libmdaxdr.c:28080:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:56,944 28080 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:56,944 | ^ 2021-07-14T21:42:56,945 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:56,945 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:56,945 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:56,945 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:56,946 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:56,946 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:56,970 MDAnalysis/lib/formats/libmdaxdr.c:28080:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:56,971 28080 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:56,971 | ^ 2021-07-14T21:42:56,972 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:56,972 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:56,973 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:56,973 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:56,974 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:56,974 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,032 MDAnalysis/lib/formats/libmdaxdr.c:28080:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,032 28080 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:57,032 | ^ 2021-07-14T21:42:57,033 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,033 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,033 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,034 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:57,034 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:57,034 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,067 MDAnalysis/lib/formats/libmdaxdr.c:28080:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,067 28080 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:57,068 | ^ 2021-07-14T21:42:57,068 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,069 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,069 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,069 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:57,070 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:57,070 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,119 MDAnalysis/lib/formats/libmdaxdr.c:28080:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,119 28080 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:57,120 | ^ 2021-07-14T21:42:57,122 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,122 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,123 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,123 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:57,124 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:57,124 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,154 MDAnalysis/lib/formats/libmdaxdr.c:28096:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,154 28096 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:57,155 | ^ 2021-07-14T21:42:57,155 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,156 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,156 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,156 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:57,157 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:57,157 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,175 MDAnalysis/lib/formats/libmdaxdr.c:28096:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,175 28096 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:57,176 | ^ 2021-07-14T21:42:57,176 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,177 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,177 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,177 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:57,178 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:57,178 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,196 MDAnalysis/lib/formats/libmdaxdr.c:28096:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,196 28096 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:57,196 | ^ 2021-07-14T21:42:57,197 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,197 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,198 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,198 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:57,198 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:57,198 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,216 MDAnalysis/lib/formats/libmdaxdr.c:28096:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,216 28096 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:57,217 | ^ 2021-07-14T21:42:57,217 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,218 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,218 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,218 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:57,219 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:57,219 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,246 MDAnalysis/lib/formats/libmdaxdr.c:28096:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,246 28096 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:57,247 | ^ 2021-07-14T21:42:57,247 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,248 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,248 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,248 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:42:57,249 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:42:57,249 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,267 MDAnalysis/lib/formats/libmdaxdr.c:28096:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,267 28096 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:42:57,267 | ^ 2021-07-14T21:42:57,268 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,268 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,269 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,269 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:42:57,269 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:42:57,270 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:42:57,638 MDAnalysis/lib/formats/libmdaxdr.c: In function ‘__Pyx_decode_c_string’: 2021-07-14T21:42:57,674 MDAnalysis/lib/formats/libmdaxdr.c:29610:9: warning: ‘PyUnicode_FromUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:42:57,675 29610 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-14T21:42:57,675 | ^~~~~~ 2021-07-14T21:42:57,676 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:42:57,676 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:42:57,676 from MDAnalysis/lib/formats/libmdaxdr.c:55: 2021-07-14T21:42:57,677 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-14T21:42:57,677 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-14T21:42:57,677 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:11,566 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/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 2021-07-14T21:44:11,715 In file included from MDAnalysis/lib/formats/src/trr_seek.c:30: 2021-07-14T21:44:11,716 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:11,716 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:11,717 | 2021-07-14T21:44:11,726 In file included from MDAnalysis/lib/formats/src/trr_seek.c:31: 2021-07-14T21:44:11,727 MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:11,727 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:11,728 | 2021-07-14T21:44:11,729 In file included from MDAnalysis/lib/formats/include/xdrfile_trr.h:42, 2021-07-14T21:44:11,730 from MDAnalysis/lib/formats/src/trr_seek.c:31: 2021-07-14T21:44:11,730 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:11,731 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:11,732 | 2021-07-14T21:44:11,737 MDAnalysis/lib/formats/src/trr_seek.c: In function ‘read_trr_n_frames’: 2021-07-14T21:44:11,738 MDAnalysis/lib/formats/src/trr_seek.c:39:27: warning: unused variable ‘totalframebytes’ [-Wunused-variable] 2021-07-14T21:44:11,738 39 | int result, framebytes, totalframebytes; 2021-07-14T21:44:11,739 | ^~~~~~~~~~~~~~~ 2021-07-14T21:44:11,739 MDAnalysis/lib/formats/src/trr_seek.c:38:15: warning: unused variable ‘lambda’ [-Wunused-variable] 2021-07-14T21:44:11,740 38 | float time, lambda; 2021-07-14T21:44:11,740 | ^~~~~~ 2021-07-14T21:44:11,741 MDAnalysis/lib/formats/src/trr_seek.c:38:9: warning: unused variable ‘time’ [-Wunused-variable] 2021-07-14T21:44:11,741 38 | float time, lambda; 2021-07-14T21:44:11,742 | ^~~~ 2021-07-14T21:44:11,927 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/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 2021-07-14T21:44:12,198 In file included from MDAnalysis/lib/formats/src/xdrfile.c:62: 2021-07-14T21:44:12,198 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:12,199 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:12,200 | 2021-07-14T21:44:12,218 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘sizeofint’: 2021-07-14T21:44:12,218 MDAnalysis/lib/formats/src/xdrfile.c:501:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T21:44:12,219 501 | while (size >= num && num_of_bits < 32) 2021-07-14T21:44:12,219 | ^~ 2021-07-14T21:44:12,220 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘sizeofints’: 2021-07-14T21:44:12,221 MDAnalysis/lib/formats/src/xdrfile.c:547:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T21:44:12,221 547 | while (bytes[num_of_bytes] >= num) 2021-07-14T21:44:12,222 | ^~ 2021-07-14T21:44:12,225 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘encodeints’: 2021-07-14T21:44:12,227 MDAnalysis/lib/formats/src/xdrfile.c:656:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T21:44:12,227 656 | if (num_of_bits >= num_of_bytes * 8) 2021-07-14T21:44:12,228 | ^~ 2021-07-14T21:44:12,229 MDAnalysis/lib/formats/src/xdrfile.c:658:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T21:44:12,230 658 | for (i = 0; i < num_of_bytes; i++) 2021-07-14T21:44:12,230 | ^ 2021-07-14T21:44:12,232 MDAnalysis/lib/formats/src/xdrfile.c:666:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T21:44:12,232 666 | for (i = 0; i < num_of_bytes-1; i++) 2021-07-14T21:44:12,233 | ^ 2021-07-14T21:44:12,235 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘decodebits’: 2021-07-14T21:44:12,236 MDAnalysis/lib/formats/src/xdrfile.c:706:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T21:44:12,237 706 | if (lastbits < num_of_bits) 2021-07-14T21:44:12,238 | ^ 2021-07-14T21:44:12,241 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2021-07-14T21:44:12,242 MDAnalysis/lib/formats/src/xdrfile.c:816:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T21:44:12,242 816 | if(size3>xfp->buf1size) 2021-07-14T21:44:12,243 | ^ 2021-07-14T21:44:12,247 MDAnalysis/lib/formats/src/xdrfile.c:868:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T21:44:12,247 868 | maxidx = (LASTIDXxfp->buf1size) 2021-07-14T21:44:12,259 | ^ 2021-07-14T21:44:12,268 MDAnalysis/lib/formats/src/xdrfile.c:1135:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T21:44:12,269 1135 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2021-07-14T21:44:12,269 | ^ 2021-07-14T21:44:12,271 MDAnalysis/lib/formats/src/xdrfile.c:1141:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T21:44:12,272 1141 | maxidx = (LASTIDXxfp->buf1size) 2021-07-14T21:44:12,290 | ^ 2021-07-14T21:44:12,294 MDAnalysis/lib/formats/src/xdrfile.c:1368:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T21:44:12,294 1368 | maxidx = (LASTIDXxfp->buf1size) { 2021-07-14T21:44:12,308 | ^ 2021-07-14T21:44:12,320 MDAnalysis/lib/formats/src/xdrfile.c:1619:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T21:44:12,320 1619 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2021-07-14T21:44:12,320 | ^ 2021-07-14T21:44:12,322 MDAnalysis/lib/formats/src/xdrfile.c:1624:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2021-07-14T21:44:12,323 1624 | maxidx = (LASTIDX maxsize) 2021-07-14T21:44:15,430 | ^ 2021-07-14T21:44:15,432 MDAnalysis/lib/formats/src/xdrfile.c:2335:15: note: ‘size’ was declared here 2021-07-14T21:44:15,432 2335 | unsigned int size; 2021-07-14T21:44:15,433 | ^~~~ 2021-07-14T21:44:16,262 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_compress_coord_float’: 2021-07-14T21:44:16,264 MDAnalysis/lib/formats/src/xdrfile.c:1157:21: warning: ‘prevcoord[2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-07-14T21:44:16,264 1157 | abs(thiscoord[2] - prevcoord[2]) < larger) { 2021-07-14T21:44:16,265 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-07-14T21:44:16,266 MDAnalysis/lib/formats/src/xdrfile.c:1156:21: warning: ‘prevcoord[1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-07-14T21:44:16,267 1156 | abs(thiscoord[1] - prevcoord[1]) < larger && 2021-07-14T21:44:16,268 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-07-14T21:44:16,269 MDAnalysis/lib/formats/src/xdrfile.c:1155:21: warning: ‘prevcoord[0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-07-14T21:44:16,270 1155 | abs(thiscoord[0] - prevcoord[0]) < larger && 2021-07-14T21:44:16,271 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-07-14T21:44:17,704 MDAnalysis/lib/formats/src/xdrfile.c: In function ‘xdrfile_compress_coord_double’: 2021-07-14T21:44:17,705 MDAnalysis/lib/formats/src/xdrfile.c:1639:21: warning: ‘prevcoord[2]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-07-14T21:44:17,706 1639 | abs(thiscoord[2] - prevcoord[2]) < larger) { 2021-07-14T21:44:17,706 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-07-14T21:44:17,707 MDAnalysis/lib/formats/src/xdrfile.c:1638:21: warning: ‘prevcoord[1]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-07-14T21:44:17,708 1638 | abs(thiscoord[1] - prevcoord[1]) < larger && 2021-07-14T21:44:17,708 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-07-14T21:44:17,710 MDAnalysis/lib/formats/src/xdrfile.c:1637:21: warning: ‘prevcoord[0]’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2021-07-14T21:44:17,710 1637 | abs(thiscoord[0] - prevcoord[0]) < larger && 2021-07-14T21:44:17,710 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~ 2021-07-14T21:44:19,551 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/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 2021-07-14T21:44:19,826 In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:38: 2021-07-14T21:44:19,827 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:19,827 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:19,828 | 2021-07-14T21:44:19,833 In file included from MDAnalysis/lib/formats/src/xdrfile_trr.c:39: 2021-07-14T21:44:19,833 MDAnalysis/lib/formats/include/xdrfile_trr.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:19,833 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:19,834 | 2021-07-14T21:44:19,834 In file included from MDAnalysis/lib/formats/include/xdrfile_trr.h:42, 2021-07-14T21:44:19,834 from MDAnalysis/lib/formats/src/xdrfile_trr.c:39: 2021-07-14T21:44:19,835 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:19,835 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:19,835 | 2021-07-14T21:44:19,853 MDAnalysis/lib/formats/src/xdrfile_trr.c: In function ‘do_trnheader’: 2021-07-14T21:44:19,853 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] 2021-07-14T21:44:19,854 78 | if (slen != strlen(version) + 1) 2021-07-14T21:44:19,854 | ^~ 2021-07-14T21:44:19,855 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] 2021-07-14T21:44:19,855 86 | if (xdrfile_write_string(version, xd) != (strlen(version) + 1)) 2021-07-14T21:44:19,856 | ^~ 2021-07-14T21:44:19,877 MDAnalysis/lib/formats/src/xdrfile_trr.c: In function ‘write_trr’: 2021-07-14T21:44:19,878 MDAnalysis/lib/formats/src/xdrfile_trr.c:408:10: warning: ‘plcholder’ is used uninitialized in this function [-Wuninitialized] 2021-07-14T21:44:19,878 408 | return do_trn(xd, 0, &step, &t, &lambda, box, &natoms, x, v, f, plcholder); 2021-07-14T21:44:19,879 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:22,571 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/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 2021-07-14T21:44:22,637 In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:30: 2021-07-14T21:44:22,637 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:22,638 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:22,638 | 2021-07-14T21:44:22,653 In file included from MDAnalysis/lib/formats/src/xdrfile_xtc.c:31: 2021-07-14T21:44:22,653 MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:22,654 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:22,654 | 2021-07-14T21:44:22,655 In file included from MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2021-07-14T21:44:22,655 from MDAnalysis/lib/formats/src/xdrfile_xtc.c:31: 2021-07-14T21:44:22,656 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:22,656 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:22,657 | 2021-07-14T21:44:22,839 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/lib/formats/include -IMDAnalysis/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 2021-07-14T21:44:22,890 In file included from MDAnalysis/lib/formats/src/xtc_seek.c:25: 2021-07-14T21:44:22,890 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:22,891 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:22,891 | 2021-07-14T21:44:22,905 In file included from MDAnalysis/lib/formats/src/xtc_seek.c:26: 2021-07-14T21:44:22,905 MDAnalysis/lib/formats/include/xdrfile_xtc.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:22,906 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:22,906 | 2021-07-14T21:44:22,906 In file included from MDAnalysis/lib/formats/include/xdrfile_xtc.h:43, 2021-07-14T21:44:22,907 from MDAnalysis/lib/formats/src/xtc_seek.c:26: 2021-07-14T21:44:22,907 MDAnalysis/lib/formats/include/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2021-07-14T21:44:22,907 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2021-07-14T21:44:22,908 | 2021-07-14T21:44:23,152 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 2021-07-14T21:44:23,470 building 'MDAnalysis.lib.formats.cython_util' extension 2021-07-14T21:44:23,471 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c MDAnalysis/lib/formats/cython_util.c -o build/temp.linux-armv7l-3.9/MDAnalysis/lib/formats/cython_util.o -std=c99 -ffast-math -O3 -funroll-loops 2021-07-14T21:44:24,301 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:44:24,301 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:44:24,302 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:44:24,303 from MDAnalysis/lib/formats/cython_util.c:623: 2021-07-14T21:44:24,303 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:44:24,304 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:44:24,304 | ^~~~~~~ 2021-07-14T21:44:25,697 MDAnalysis/lib/formats/cython_util.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-14T21:44:25,722 MDAnalysis/lib/formats/cython_util.c:20986:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,723 20986 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,723 | ^ 2021-07-14T21:44:25,724 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,725 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,725 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,726 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:44:25,726 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:44:25,727 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,753 MDAnalysis/lib/formats/cython_util.c:20986:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,753 20986 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,754 | ^ 2021-07-14T21:44:25,754 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,754 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,755 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,755 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:44:25,755 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:44:25,756 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,790 MDAnalysis/lib/formats/cython_util.c:20986:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,790 20986 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,791 | ^ 2021-07-14T21:44:25,791 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,791 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,792 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,792 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:44:25,792 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:44:25,793 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,821 MDAnalysis/lib/formats/cython_util.c:20986:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,822 20986 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,822 | ^ 2021-07-14T21:44:25,823 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,823 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,824 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,824 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:44:25,825 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:44:25,825 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,849 MDAnalysis/lib/formats/cython_util.c:20986:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,849 20986 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,849 | ^ 2021-07-14T21:44:25,850 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,850 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,850 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,851 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:44:25,851 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:44:25,851 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,861 MDAnalysis/lib/formats/cython_util.c:20986:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,862 20986 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,862 | ^ 2021-07-14T21:44:25,862 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,862 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,863 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,863 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:44:25,863 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:44:25,863 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,888 MDAnalysis/lib/formats/cython_util.c:21002:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,889 21002 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,889 | ^ 2021-07-14T21:44:25,890 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,890 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,890 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,890 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:44:25,891 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:44:25,891 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,901 MDAnalysis/lib/formats/cython_util.c:21002:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,901 21002 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,902 | ^ 2021-07-14T21:44:25,902 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,903 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,903 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,904 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:44:25,904 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:44:25,904 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,926 MDAnalysis/lib/formats/cython_util.c:21002:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,926 21002 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,926 | ^ 2021-07-14T21:44:25,927 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,927 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,928 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,928 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:44:25,928 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:44:25,929 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,950 MDAnalysis/lib/formats/cython_util.c:21002:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,950 21002 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,951 | ^ 2021-07-14T21:44:25,951 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,951 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,952 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,952 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:44:25,952 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:44:25,952 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:25,965 MDAnalysis/lib/formats/cython_util.c:21002:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:25,965 21002 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:25,966 | ^ 2021-07-14T21:44:25,967 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:25,967 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:25,968 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:25,968 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:44:25,968 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:44:25,969 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:26,005 MDAnalysis/lib/formats/cython_util.c:21002:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:26,005 21002 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:44:26,005 | ^ 2021-07-14T21:44:26,006 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:26,006 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:26,006 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:26,007 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:44:26,007 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:44:26,007 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:44:26,125 MDAnalysis/lib/formats/cython_util.c: In function ‘__Pyx_decode_c_string’: 2021-07-14T21:44:26,137 MDAnalysis/lib/formats/cython_util.c:21399:9: warning: ‘PyUnicode_FromUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:44:26,138 21399 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-14T21:44:26,138 | ^~~~~~ 2021-07-14T21:44:26,139 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:44:26,139 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:44:26,140 from MDAnalysis/lib/formats/cython_util.c:29: 2021-07-14T21:44:26,140 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-14T21:44:26,141 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-14T21:44:26,141 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:06,142 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 2021-07-14T21:45:06,509 building 'MDAnalysis.analysis.encore.cutils' extension 2021-07-14T21:45:06,510 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis 2021-07-14T21:45:06,511 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore 2021-07-14T21:45:06,513 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/home/piwheels/.local/lib/python3.9/site-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 -O3 -funroll-loops 2021-07-14T21:45:07,378 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:45:07,378 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:45:07,379 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:45:07,379 from MDAnalysis/analysis/encore/cutils.c:623: 2021-07-14T21:45:07,380 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:45:07,381 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:45:07,381 | ^~~~~~~ 2021-07-14T21:45:07,569 MDAnalysis/analysis/encore/cutils.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-14T21:45:07,572 MDAnalysis/analysis/encore/cutils.c:5113:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,572 5113 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,573 | ^ 2021-07-14T21:45:07,574 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,575 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,575 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,575 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:07,576 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:07,576 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,579 MDAnalysis/analysis/encore/cutils.c:5113:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,580 5113 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,580 | ^ 2021-07-14T21:45:07,580 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,581 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,581 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,582 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:07,582 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:07,582 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,586 MDAnalysis/analysis/encore/cutils.c:5113:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,586 5113 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,587 | ^ 2021-07-14T21:45:07,588 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,588 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,588 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,589 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:07,589 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:07,589 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,593 MDAnalysis/analysis/encore/cutils.c:5113:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,594 5113 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,594 | ^ 2021-07-14T21:45:07,595 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,596 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,596 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,596 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:07,597 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:07,597 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,601 MDAnalysis/analysis/encore/cutils.c:5113:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,602 5113 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,602 | ^ 2021-07-14T21:45:07,603 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,603 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,604 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,604 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:07,604 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:07,605 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,608 MDAnalysis/analysis/encore/cutils.c:5113:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,609 5113 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,609 | ^ 2021-07-14T21:45:07,610 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,610 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,611 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,611 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:07,612 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:07,612 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,617 MDAnalysis/analysis/encore/cutils.c:5129:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,617 5129 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,617 | ^ 2021-07-14T21:45:07,618 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,618 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,619 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,619 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:07,620 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:07,620 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,624 MDAnalysis/analysis/encore/cutils.c:5129:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,624 5129 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,625 | ^ 2021-07-14T21:45:07,625 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,626 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,626 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,627 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:07,627 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:07,627 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,631 MDAnalysis/analysis/encore/cutils.c:5129:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,631 5129 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,632 | ^ 2021-07-14T21:45:07,632 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,633 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,633 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,634 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:07,634 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:07,634 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,639 MDAnalysis/analysis/encore/cutils.c:5129:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,640 5129 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,641 | ^ 2021-07-14T21:45:07,641 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,642 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,642 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,643 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:07,643 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:07,644 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,648 MDAnalysis/analysis/encore/cutils.c:5129:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,648 5129 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,649 | ^ 2021-07-14T21:45:07,662 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,662 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,662 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,663 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:07,663 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:07,663 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:07,664 MDAnalysis/analysis/encore/cutils.c:5129:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:07,664 5129 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:07,665 | ^ 2021-07-14T21:45:07,665 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:07,665 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:07,666 from MDAnalysis/analysis/encore/cutils.c:29: 2021-07-14T21:45:07,666 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:07,666 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:07,667 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:12,664 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 2021-07-14T21:45:12,878 building 'MDAnalysis.analysis.encore.clustering.affinityprop' extension 2021-07-14T21:45:12,879 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering 2021-07-14T21:45:12,880 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/src 2021-07-14T21:45:12,880 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/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 -O3 -funroll-loops 2021-07-14T21:45:13,756 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:45:13,756 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:45:13,757 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:45:13,757 from MDAnalysis/analysis/encore/clustering/affinityprop.c:629: 2021-07-14T21:45:13,758 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:45:13,758 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:45:13,759 | ^~~~~~~ 2021-07-14T21:45:14,069 MDAnalysis/analysis/encore/clustering/affinityprop.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-14T21:45:14,075 MDAnalysis/analysis/encore/clustering/affinityprop.c:6753:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,076 6753 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,076 | ^ 2021-07-14T21:45:14,078 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,078 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,078 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,079 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:14,079 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:14,079 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,086 MDAnalysis/analysis/encore/clustering/affinityprop.c:6753:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,086 6753 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,086 | ^ 2021-07-14T21:45:14,087 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,088 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,088 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,088 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:14,088 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:14,089 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,095 MDAnalysis/analysis/encore/clustering/affinityprop.c:6753:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,096 6753 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,096 | ^ 2021-07-14T21:45:14,097 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,097 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,098 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,098 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:14,099 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:14,099 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,106 MDAnalysis/analysis/encore/clustering/affinityprop.c:6753:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,107 6753 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,107 | ^ 2021-07-14T21:45:14,108 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,108 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,109 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,109 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:14,110 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:14,110 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,117 MDAnalysis/analysis/encore/clustering/affinityprop.c:6753:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,117 6753 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,118 | ^ 2021-07-14T21:45:14,118 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,119 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,119 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,120 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:14,120 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:14,121 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,127 MDAnalysis/analysis/encore/clustering/affinityprop.c:6753:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,128 6753 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,128 | ^ 2021-07-14T21:45:14,129 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,129 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,130 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,130 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:14,131 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:14,131 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,139 MDAnalysis/analysis/encore/clustering/affinityprop.c:6769:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,140 6769 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,140 | ^ 2021-07-14T21:45:14,141 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,141 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,141 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,142 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:14,142 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:14,142 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,147 MDAnalysis/analysis/encore/clustering/affinityprop.c:6769:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,148 6769 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,148 | ^ 2021-07-14T21:45:14,148 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,148 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,149 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,149 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:14,149 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:14,149 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,157 MDAnalysis/analysis/encore/clustering/affinityprop.c:6769:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,157 6769 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,158 | ^ 2021-07-14T21:45:14,158 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,159 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,159 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,160 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:14,160 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:14,160 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,172 MDAnalysis/analysis/encore/clustering/affinityprop.c:6769:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,173 6769 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,173 | ^ 2021-07-14T21:45:14,173 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,173 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,174 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,174 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:14,174 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:14,174 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,178 MDAnalysis/analysis/encore/clustering/affinityprop.c:6769:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,178 6769 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,179 | ^ 2021-07-14T21:45:14,179 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,179 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,179 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,180 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:14,180 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:14,180 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:14,189 MDAnalysis/analysis/encore/clustering/affinityprop.c:6769:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:14,189 6769 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:14,190 | ^ 2021-07-14T21:45:14,190 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:14,191 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:14,191 from MDAnalysis/analysis/encore/clustering/affinityprop.c:35: 2021-07-14T21:45:14,191 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:14,192 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:14,192 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:34,517 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/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 -O3 -funroll-loops 2021-07-14T21:45:36,301 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 2021-07-14T21:45:36,530 building 'MDAnalysis.analysis.encore.dimensionality_reduction.stochasticproxembed' extension 2021-07-14T21:45:36,533 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction 2021-07-14T21:45:36,534 creating build/temp.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/src 2021-07-14T21:45:36,537 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/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 -O3 -funroll-loops 2021-07-14T21:45:38,276 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/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 -O3 -funroll-loops 2021-07-14T21:45:39,053 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:45:39,053 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:45:39,054 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:45:39,054 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:629: 2021-07-14T21:45:39,054 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:45:39,055 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:45:39,055 | ^~~~~~~ 2021-07-14T21:45:39,281 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c: In function ‘__Pyx_ParseOptionalKeywords’: 2021-07-14T21:45:39,283 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5339:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,284 5339 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,284 | ^ 2021-07-14T21:45:39,286 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,286 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,287 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,287 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:39,287 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:39,287 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,289 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5339:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,290 5339 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,290 | ^ 2021-07-14T21:45:39,290 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,291 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,291 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,291 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:39,291 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:39,292 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,293 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5339:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,293 5339 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,293 | ^ 2021-07-14T21:45:39,294 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,294 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,294 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,294 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:39,295 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:39,295 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,296 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5339:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,297 5339 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,297 | ^ 2021-07-14T21:45:39,297 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,298 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,298 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,299 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:39,299 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:39,299 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,300 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5339:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,300 5339 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,300 | ^ 2021-07-14T21:45:39,301 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,301 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,301 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,301 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:39,302 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:39,302 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,303 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5339:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,304 5339 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,304 | ^ 2021-07-14T21:45:39,321 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,322 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,322 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,323 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:39,323 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:39,324 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,324 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5355:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,325 5355 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,325 | ^ 2021-07-14T21:45:39,326 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,326 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,327 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,327 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:39,328 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:39,328 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,329 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5355:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,330 5355 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,330 | ^ 2021-07-14T21:45:39,330 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,331 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,331 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,331 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:39,332 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:39,332 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,333 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5355:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,333 5355 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,334 | ^ 2021-07-14T21:45:39,334 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,334 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,335 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,335 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:39,336 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:39,336 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,337 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5355:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,337 5355 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,337 | ^ 2021-07-14T21:45:39,338 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,338 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,338 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,339 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:39,339 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:39,339 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,352 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5355:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,352 5355 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,352 | ^ 2021-07-14T21:45:39,353 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,353 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,353 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,354 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:39,354 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:39,355 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:39,355 MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:5355:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:39,355 5355 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:39,356 | ^ 2021-07-14T21:45:39,356 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:39,357 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:39,357 from MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.c:35: 2021-07-14T21:45:39,357 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:39,358 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:39,358 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:50,259 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 2021-07-14T21:45:50,504 building 'MDAnalysis.lib._cutil' extension 2021-07-14T21:45:50,509 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include -IMDAnalysis/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 -std=c++11 2021-07-14T21:45:51,091 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:45:51,091 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:45:51,092 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:45:51,092 from MDAnalysis/lib/_cutil.cpp:643: 2021-07-14T21:45:51,093 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:45:51,093 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:45:51,094 | ^~~~~~~ 2021-07-14T21:45:55,858 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:55,858 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:55,858 from MDAnalysis/lib/_cutil.cpp:35: 2021-07-14T21:45:55,859 MDAnalysis/lib/_cutil.cpp: In function ‘int __Pyx_ParseOptionalKeywords(PyObject*, PyObject***, PyObject*, PyObject**, Py_ssize_t, const char*)’: 2021-07-14T21:45:55,859 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,859 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:45:55,860 | ^ 2021-07-14T21:45:55,860 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:45:55,860 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:45:55,861 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,861 MDAnalysis/lib/_cutil.cpp:24123:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,861 24123 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,862 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,862 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:55,862 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:55,863 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,863 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,863 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:45:55,864 | ^ 2021-07-14T21:45:55,864 MDAnalysis/lib/_cutil.cpp:24123:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,864 24123 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,865 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,865 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:55,865 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:55,866 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,866 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,866 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:45:55,867 | ^ 2021-07-14T21:45:55,867 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:45:55,867 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:45:55,867 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,868 MDAnalysis/lib/_cutil.cpp:24123:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,868 24123 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,868 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,869 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:55,869 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:55,869 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,870 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,870 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:45:55,870 | ^ 2021-07-14T21:45:55,871 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:45:55,871 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:45:55,871 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,882 MDAnalysis/lib/_cutil.cpp:24123:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,883 24123 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,883 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,883 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:55,883 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:55,884 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,884 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,884 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:45:55,885 | ^ 2021-07-14T21:45:55,885 MDAnalysis/lib/_cutil.cpp:24123:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,885 24123 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,886 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,886 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:55,886 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:55,887 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,887 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,887 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:45:55,888 | ^ 2021-07-14T21:45:55,888 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:45:55,888 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:45:55,888 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,889 MDAnalysis/lib/_cutil.cpp:24123:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,889 24123 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,889 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,890 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:55,890 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:55,890 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,890 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,891 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:45:55,891 | ^ 2021-07-14T21:45:55,912 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:45:55,912 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:45:55,913 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,913 MDAnalysis/lib/_cutil.cpp:24139:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,913 24139 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,913 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,914 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:55,914 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:55,914 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,914 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,915 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:45:55,915 | ^ 2021-07-14T21:45:55,915 MDAnalysis/lib/_cutil.cpp:24139:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,915 24139 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,916 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,916 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:55,916 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:55,916 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,917 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,917 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:45:55,917 | ^ 2021-07-14T21:45:55,917 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:45:55,918 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:45:55,918 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,918 MDAnalysis/lib/_cutil.cpp:24139:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,918 24139 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,919 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,919 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:55,919 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:55,919 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,920 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,920 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:45:55,920 | ^ 2021-07-14T21:45:55,921 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:45:55,921 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:45:55,921 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,937 MDAnalysis/lib/_cutil.cpp:24139:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,938 24139 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,938 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,938 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:55,939 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:55,939 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,939 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,940 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:45:55,940 | ^ 2021-07-14T21:45:55,940 MDAnalysis/lib/_cutil.cpp:24139:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,941 24139 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,941 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,953 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:45:55,956 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:45:55,958 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,960 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,962 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:45:55,962 | ^ 2021-07-14T21:45:55,963 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:45:55,963 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:45:55,963 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,964 MDAnalysis/lib/_cutil.cpp:24139:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:45:55,964 24139 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:45:55,964 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,965 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:45:55,965 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:45:55,965 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:55,967 MDAnalysis/lib/_cutil.cpp: In function ‘PyObject* __Pyx_decode_c_string(const char*, Py_ssize_t, Py_ssize_t, const char*, const char*, PyObject* (*)(const char*, Py_ssize_t, const char*))’: 2021-07-14T21:45:55,969 MDAnalysis/lib/_cutil.cpp:25219:45: warning: ‘PyObject* PyUnicode_FromUnicode(const Py_UNICODE*, Py_ssize_t)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:45:55,972 25219 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-14T21:45:55,974 | ^ 2021-07-14T21:45:55,975 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:45:55,975 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:45:55,976 from MDAnalysis/lib/_cutil.cpp:35: 2021-07-14T21:45:55,976 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-14T21:45:55,976 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-14T21:45:55,977 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,872 In file included from MDAnalysis/lib/_cutil.cpp:654: 2021-07-14T21:45:57,872 MDAnalysis/lib/include/calc_distances.h: At global scope: 2021-07-14T21:45:57,873 MDAnalysis/lib/include/calc_distances.h:833:13: warning: ‘void _calc_dihedral_triclinic(float (*)[3], float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,873 833 | static void _calc_dihedral_triclinic(coordinate* atom1, coordinate* atom2, 2021-07-14T21:45:57,873 | ^~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,874 MDAnalysis/lib/include/calc_distances.h:797:13: warning: ‘void _calc_dihedral_ortho(float (*)[3], float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,874 797 | static void _calc_dihedral_ortho(coordinate* atom1, coordinate* atom2, 2021-07-14T21:45:57,874 | ^~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,875 MDAnalysis/lib/include/calc_distances.h:769:13: warning: ‘void _calc_dihedral(float (*)[3], float (*)[3], float (*)[3], float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,875 769 | static void _calc_dihedral(coordinate* atom1, coordinate* atom2, 2021-07-14T21:45:57,876 | ^~~~~~~~~~~~~~ 2021-07-14T21:45:57,877 MDAnalysis/lib/include/calc_distances.h:692:13: warning: ‘void _calc_angle_triclinic(float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,877 692 | static void _calc_angle_triclinic(coordinate* atom1, coordinate* atom2, 2021-07-14T21:45:57,878 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,882 MDAnalysis/lib/include/calc_distances.h:649:13: warning: ‘void _calc_angle_ortho(float (*)[3], float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,882 649 | static void _calc_angle_ortho(coordinate* atom1, coordinate* atom2, 2021-07-14T21:45:57,882 | ^~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,883 MDAnalysis/lib/include/calc_distances.h:618:13: warning: ‘void _calc_angle(float (*)[3], float (*)[3], float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,883 618 | static void _calc_angle(coordinate* atom1, coordinate* atom2, 2021-07-14T21:45:57,883 | ^~~~~~~~~~~ 2021-07-14T21:45:57,883 MDAnalysis/lib/include/calc_distances.h:593:13: warning: ‘void _calc_bond_distance_triclinic(float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,884 593 | static void _calc_bond_distance_triclinic(coordinate* atom1, coordinate* atom2, 2021-07-14T21:45:57,884 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,884 MDAnalysis/lib/include/calc_distances.h:568:13: warning: ‘void _calc_bond_distance_ortho(float (*)[3], float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,885 568 | static void _calc_bond_distance_ortho(coordinate* atom1, coordinate* atom2, 2021-07-14T21:45:57,885 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,885 MDAnalysis/lib/include/calc_distances.h:549:13: warning: ‘void _calc_bond_distance(float (*)[3], float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,885 549 | static void _calc_bond_distance(coordinate* atom1, coordinate* atom2, 2021-07-14T21:45:57,886 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,886 MDAnalysis/lib/include/calc_distances.h:494:13: warning: ‘void _calc_self_distance_array_triclinic(float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,886 494 | static void _calc_self_distance_array_triclinic(coordinate* ref, int numref, 2021-07-14T21:45:57,887 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,887 MDAnalysis/lib/include/calc_distances.h:461:13: warning: ‘void _calc_self_distance_array_ortho(float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,887 461 | static void _calc_self_distance_array_ortho(coordinate* ref, int numref, 2021-07-14T21:45:57,887 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,888 MDAnalysis/lib/include/calc_distances.h:434:13: warning: ‘void _calc_self_distance_array(float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,888 434 | static void _calc_self_distance_array(coordinate* ref, int numref, 2021-07-14T21:45:57,888 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,889 MDAnalysis/lib/include/calc_distances.h:407:13: warning: ‘void _calc_distance_array_triclinic(float (*)[3], int, float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,889 407 | static void _calc_distance_array_triclinic(coordinate* ref, int numref, 2021-07-14T21:45:57,889 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,889 MDAnalysis/lib/include/calc_distances.h:380:13: warning: ‘void _calc_distance_array_ortho(float (*)[3], int, float (*)[3], int, float*, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,890 380 | static void _calc_distance_array_ortho(coordinate* ref, int numref, coordinate* conf, 2021-07-14T21:45:57,890 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,890 MDAnalysis/lib/include/calc_distances.h:359:13: warning: ‘void _calc_distance_array(float (*)[3], int, float (*)[3], int, double*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,891 359 | static void _calc_distance_array(coordinate* ref, int numref, coordinate* conf, 2021-07-14T21:45:57,891 | ^~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:45:57,891 MDAnalysis/lib/include/calc_distances.h:90:13: warning: ‘void _ortho_pbc(float (*)[3], int, float*)’ defined but not used [-Wunused-function] 2021-07-14T21:45:57,910 90 | static void _ortho_pbc(coordinate* coords, int numcoords, float* box) 2021-07-14T21:45:57,912 | ^~~~~~~~~~ 2021-07-14T21:47:01,095 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 2021-07-14T21:47:02,166 building 'MDAnalysis.lib._augment' extension 2021-07-14T21:47:02,167 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/home/piwheels/.local/lib/python3.9/site-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 -std=c++11 2021-07-14T21:47:02,743 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:47:02,743 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:47:02,744 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:47:02,744 from MDAnalysis/lib/_augment.cpp:638: 2021-07-14T21:47:02,745 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:47:02,745 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:47:02,745 | ^~~~~~~ 2021-07-14T21:47:07,052 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:47:07,052 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:47:07,053 from MDAnalysis/lib/_augment.cpp:30: 2021-07-14T21:47:07,053 MDAnalysis/lib/_augment.cpp: In function ‘int __Pyx_ParseOptionalKeywords(PyObject*, PyObject***, PyObject*, PyObject**, Py_ssize_t, const char*)’: 2021-07-14T21:47:07,054 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,054 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:47:07,054 | ^ 2021-07-14T21:47:07,055 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:47:07,055 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:47:07,056 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,056 MDAnalysis/lib/_augment.cpp:22962:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,057 22962 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,057 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,058 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:47:07,058 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:47:07,059 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,060 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,060 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:47:07,060 | ^ 2021-07-14T21:47:07,061 MDAnalysis/lib/_augment.cpp:22962:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,071 22962 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,072 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,072 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:47:07,073 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:47:07,074 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,074 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,075 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:47:07,075 | ^ 2021-07-14T21:47:07,076 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:47:07,077 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:47:07,077 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,078 MDAnalysis/lib/_augment.cpp:22962:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,078 22962 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,079 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,080 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:47:07,080 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:47:07,081 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,101 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,102 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:47:07,102 | ^ 2021-07-14T21:47:07,103 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:47:07,103 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:47:07,103 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,104 MDAnalysis/lib/_augment.cpp:22962:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,104 22962 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,104 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,105 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:47:07,105 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:47:07,105 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,106 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,106 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:47:07,107 | ^ 2021-07-14T21:47:07,107 MDAnalysis/lib/_augment.cpp:22962:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,107 22962 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,108 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,108 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:47:07,108 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:47:07,108 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,109 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,122 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:47:07,123 | ^ 2021-07-14T21:47:07,123 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:47:07,124 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:47:07,124 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,125 MDAnalysis/lib/_augment.cpp:22962:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,126 22962 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,126 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,127 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:47:07,127 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:47:07,127 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,128 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,128 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:47:07,128 | ^ 2021-07-14T21:47:07,129 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:47:07,129 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:47:07,129 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,130 MDAnalysis/lib/_augment.cpp:22978:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,130 22978 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,131 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,131 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:47:07,131 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:47:07,154 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,154 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,155 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:47:07,155 | ^ 2021-07-14T21:47:07,155 MDAnalysis/lib/_augment.cpp:22978:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,156 22978 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,156 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,156 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:47:07,157 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:47:07,157 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,157 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,158 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:47:07,158 | ^ 2021-07-14T21:47:07,158 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:47:07,159 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:47:07,159 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,159 MDAnalysis/lib/_augment.cpp:22978:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,160 22978 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,160 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,161 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:47:07,161 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:47:07,184 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,192 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,193 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:47:07,193 | ^ 2021-07-14T21:47:07,193 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:47:07,193 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:47:07,194 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,194 MDAnalysis/lib/_augment.cpp:22978:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,194 22978 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,195 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,195 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:47:07,196 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:47:07,196 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,197 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,197 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:47:07,198 | ^ 2021-07-14T21:47:07,198 MDAnalysis/lib/_augment.cpp:22978:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,198 22978 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,198 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,199 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:47:07,199 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:47:07,199 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,200 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,200 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:47:07,200 | ^ 2021-07-14T21:47:07,201 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:47:07,201 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:47:07,202 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,202 MDAnalysis/lib/_augment.cpp:22978:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:47:07,202 22978 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:47:07,202 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,203 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:47:07,203 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:47:07,203 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:47:07,204 MDAnalysis/lib/_augment.cpp: In function ‘PyObject* __Pyx_decode_c_string(const char*, Py_ssize_t, Py_ssize_t, const char*, const char*, PyObject* (*)(const char*, Py_ssize_t, const char*))’: 2021-07-14T21:47:07,204 MDAnalysis/lib/_augment.cpp:24185:45: warning: ‘PyObject* PyUnicode_FromUnicode(const Py_UNICODE*, Py_ssize_t)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:47:07,205 24185 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-14T21:47:07,205 | ^ 2021-07-14T21:47:07,205 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:47:07,206 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:47:07,206 from MDAnalysis/lib/_augment.cpp:30: 2021-07-14T21:47:07,206 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-14T21:47:07,206 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-14T21:47:07,207 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:06,513 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 2021-07-14T21:48:07,097 building 'MDAnalysis.lib.nsgrid' extension 2021-07-14T21:48:07,097 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/home/piwheels/.local/lib/python3.9/site-packages/numpy/core/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 -std=c++11 2021-07-14T21:48:08,283 In file included from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-14T21:48:08,283 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-14T21:48:08,284 from /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-14T21:48:08,284 from MDAnalysis/lib/nsgrid.cpp:644: 2021-07-14T21:48:08,285 /home/piwheels/.local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-14T21:48:08,285 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-14T21:48:08,285 | ^~~~~~~ 2021-07-14T21:48:12,826 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:48:12,827 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:48:12,827 from MDAnalysis/lib/nsgrid.cpp:30: 2021-07-14T21:48:12,827 MDAnalysis/lib/nsgrid.cpp: In function ‘int __Pyx_ParseOptionalKeywords(PyObject*, PyObject***, PyObject*, PyObject**, Py_ssize_t, const char*)’: 2021-07-14T21:48:12,828 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,828 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:48:12,828 | ^ 2021-07-14T21:48:12,829 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:48:12,829 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:48:12,829 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,830 MDAnalysis/lib/nsgrid.cpp:29022:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,830 29022 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,830 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,831 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:48:12,831 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:48:12,831 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,832 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,832 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:48:12,832 | ^ 2021-07-14T21:48:12,833 MDAnalysis/lib/nsgrid.cpp:29022:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,833 29022 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,833 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,834 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:48:12,834 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:48:12,834 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,835 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,835 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:48:12,835 | ^ 2021-07-14T21:48:12,836 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:48:12,836 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:48:12,836 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,837 MDAnalysis/lib/nsgrid.cpp:29022:22: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,837 29022 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,837 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,838 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:48:12,838 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:48:12,839 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,839 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,840 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:48:12,840 | ^ 2021-07-14T21:48:12,840 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:48:12,841 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:48:12,841 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,851 MDAnalysis/lib/nsgrid.cpp:29022:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,852 29022 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,852 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,853 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:48:12,853 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:48:12,853 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,854 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,854 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:48:12,854 | ^ 2021-07-14T21:48:12,855 MDAnalysis/lib/nsgrid.cpp:29022:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,855 29022 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,855 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,856 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:48:12,856 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:48:12,856 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,857 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,857 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:48:12,857 | ^ 2021-07-14T21:48:12,858 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:48:12,858 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:48:12,858 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,859 MDAnalysis/lib/nsgrid.cpp:29022:52: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,859 29022 | (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,859 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,860 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:48:12,860 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:48:12,860 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,861 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,861 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:48:12,871 | ^ 2021-07-14T21:48:12,872 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:48:12,872 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:48:12,873 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,873 MDAnalysis/lib/nsgrid.cpp:29038:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,873 29038 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,874 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,874 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:48:12,874 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:48:12,875 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,875 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,875 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:48:12,876 | ^ 2021-07-14T21:48:12,876 MDAnalysis/lib/nsgrid.cpp:29038:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,876 29038 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,877 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,877 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:48:12,877 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:48:12,878 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,878 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,878 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:48:12,879 | ^ 2021-07-14T21:48:12,879 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:48:12,879 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:48:12,880 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,880 MDAnalysis/lib/nsgrid.cpp:29038:26: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,880 29038 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,881 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,881 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:48:12,892 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:48:12,892 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,892 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,893 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:48:12,893 | ^ 2021-07-14T21:48:12,894 /usr/include/python3.9/cpython/unicodeobject.h:261:7: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:48:12,894 261 | PyUnicode_WSTR_LENGTH(op) : \ 2021-07-14T21:48:12,894 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,895 MDAnalysis/lib/nsgrid.cpp:29038:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,895 29038 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,895 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,896 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:48:12,896 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:48:12,896 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,897 /usr/include/python3.9/cpython/unicodeobject.h:262:52: warning: ‘Py_UNICODE* PyUnicode_AsUnicode(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,897 262 | ((void)PyUnicode_AsUnicode(_PyObject_CAST(op)),\ 2021-07-14T21:48:12,897 | ^ 2021-07-14T21:48:12,898 MDAnalysis/lib/nsgrid.cpp:29038:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,898 29038 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,898 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,899 /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here 2021-07-14T21:48:12,899 580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode( 2021-07-14T21:48:12,899 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,900 /usr/include/python3.9/cpython/unicodeobject.h:451:75: warning: ‘Py_ssize_t _PyUnicode_get_wstr_length(PyObject*)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,900 451 | #define PyUnicode_WSTR_LENGTH(op) _PyUnicode_get_wstr_length((PyObject*)op) 2021-07-14T21:48:12,900 | ^ 2021-07-14T21:48:12,901 /usr/include/python3.9/cpython/unicodeobject.h:264:8: note: in expansion of macro ‘PyUnicode_WSTR_LENGTH’ 2021-07-14T21:48:12,901 264 | PyUnicode_WSTR_LENGTH(op))) 2021-07-14T21:48:12,912 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,912 MDAnalysis/lib/nsgrid.cpp:29038:59: note: in expansion of macro ‘PyUnicode_GET_SIZE’ 2021-07-14T21:48:12,913 29038 | (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : 2021-07-14T21:48:12,913 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,913 /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here 2021-07-14T21:48:12,914 446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) { 2021-07-14T21:48:12,914 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:48:12,925 MDAnalysis/lib/nsgrid.cpp: In function ‘PyObject* __Pyx_decode_c_string(const char*, Py_ssize_t, Py_ssize_t, const char*, const char*, PyObject* (*)(const char*, Py_ssize_t, const char*))’: 2021-07-14T21:48:12,925 MDAnalysis/lib/nsgrid.cpp:30555:45: warning: ‘PyObject* PyUnicode_FromUnicode(const Py_UNICODE*, Py_ssize_t)’ is deprecated [-Wdeprecated-declarations] 2021-07-14T21:48:12,925 30555 | return PyUnicode_FromUnicode(NULL, 0); 2021-07-14T21:48:12,926 | ^ 2021-07-14T21:48:12,932 In file included from /usr/include/python3.9/unicodeobject.h:1026, 2021-07-14T21:48:12,932 from /usr/include/python3.9/Python.h:97, 2021-07-14T21:48:12,933 from MDAnalysis/lib/nsgrid.cpp:30: 2021-07-14T21:48:12,933 /usr/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here 2021-07-14T21:48:12,933 551 | Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode( 2021-07-14T21:48:12,934 | ^~~~~~~~~~~~~~~~~~~~~ 2021-07-14T21:49:19,555 In file included from /usr/include/c++/10/vector:72, 2021-07-14T21:49:19,556 from MDAnalysis/lib/nsgrid.cpp:641: 2021-07-14T21:49:19,556 /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]’: 2021-07-14T21:49:19,556 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T21:49:19,557 426 | vector<_Tp, _Alloc>:: 2021-07-14T21:49:19,557 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T21:49:19,668 In file included from /usr/include/c++/10/vector:67, 2021-07-14T21:49:19,668 from MDAnalysis/lib/nsgrid.cpp:641: 2021-07-14T21:49:19,668 /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*, __pyx_t_10MDAnalysis_3lib_6nsgrid_ns_int, __pyx_t_10MDAnalysis_3lib_6nsgrid_ns_int, __pyx_t_10MDAnalysis_3lib_6nsgrid_dreal)’: 2021-07-14T21:49:19,669 /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 2021-07-14T21:49:19,669 1198 | _M_realloc_insert(end(), __x); 2021-07-14T21:49:19,669 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T21:49:22,246 /usr/include/c++/10/bits/stl_vector.h: In function ‘void __pyx_f_10MDAnalysis_3lib_6nsgrid_9NSResults_create_buffers(__pyx_obj_10MDAnalysis_3lib_6nsgrid_NSResults*)’: 2021-07-14T21:49:22,246 /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 2021-07-14T21:49:22,247 1198 | _M_realloc_insert(end(), __x); 2021-07-14T21:49:22,247 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T21:49:36,403 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 2021-07-14T21:49:37,224 installing to build/bdist.linux-armv7l/wheel 2021-07-14T21:49:37,224 running install 2021-07-14T21:49:37,226 running install_lib 2021-07-14T21:49:37,250 creating build/bdist.linux-armv7l 2021-07-14T21:49:37,251 creating build/bdist.linux-armv7l/wheel 2021-07-14T21:49:37,256 creating build/bdist.linux-armv7l/wheel/MDAnalysis 2021-07-14T21:49:37,260 creating build/bdist.linux-armv7l/wheel/MDAnalysis/migration 2021-07-14T21:49:37,262 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/ten2eleven.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration 2021-07-14T21:49:37,267 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/test_dummy_old_MDA_code.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration 2021-07-14T21:49:37,272 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration 2021-07-14T21:49:37,278 creating build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,279 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_framenumberingzerobased2.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,284 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_torsionclasses.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,287 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_calctorsions.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,291 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_framenumberingzerobased.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,295 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_mdaimports.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,301 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_agsetterpluralization.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,304 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_torsions.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,308 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_selectatoms.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,311 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,322 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_agmethods2.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,329 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_agcountmethods.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,332 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_writer.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,337 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_camelcase.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,341 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_agmethods.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,353 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/fixes/fix_numframes.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration/fixes 2021-07-14T21:49:37,357 copying build/lib.linux-armv7l-3.9/MDAnalysis/migration/test_dummy_torsion.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/migration 2021-07-14T21:49:37,361 copying build/lib.linux-armv7l-3.9/MDAnalysis/version.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-07-14T21:49:37,364 copying build/lib.linux-armv7l-3.9/MDAnalysis/KDTree.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-07-14T21:49:37,368 copying build/lib.linux-armv7l-3.9/MDAnalysis/exceptions.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-07-14T21:49:37,375 copying build/lib.linux-armv7l-3.9/MDAnalysis/due.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-07-14T21:49:37,380 creating build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,387 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/groups.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,398 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/topologyobjects.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,405 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/universe.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,414 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/parallel.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,418 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/util.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,422 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/AtomGroup.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,425 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/transformations.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,428 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/topology.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,433 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/topologyattrs.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,440 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/units.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,444 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,448 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/qcprot.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,452 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/log.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,456 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/_get_readers.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,460 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/selection.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,466 copying build/lib.linux-armv7l-3.9/MDAnalysis/core/distances.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/core 2021-07-14T21:49:37,471 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,473 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/gnm.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,479 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,484 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/waterdynamics.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,490 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/diffusionmap.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,503 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-07-14T21:49:37,505 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/similarity.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-07-14T21:49:37,512 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 2021-07-14T21:49:37,530 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/confdistmatrix.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-07-14T21:49:37,534 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/bootstrap.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-07-14T21:49:37,538 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/utils.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-07-14T21:49:37,543 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-07-14T21:49:37,546 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/covariance.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore 2021-07-14T21:49:37,552 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2021-07-14T21:49:37,554 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 2021-07-14T21:49:37,566 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2021-07-14T21:49:37,571 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/dimensionality_reduction 2021-07-14T21:49:37,575 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 2021-07-14T21:49:37,589 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-07-14T21:49:37,591 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 2021-07-14T21:49:37,609 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/ClusterCollection.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-07-14T21:49:37,616 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-07-14T21:49:37,620 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/cluster.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-07-14T21:49:37,627 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/encore/clustering/ClusteringMethod.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/encore/clustering 2021-07-14T21:49:37,633 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-07-14T21:49:37,635 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data/rama_ref_data.npy -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-07-14T21:49:37,642 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data/filenames.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-07-14T21:49:37,646 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data/janin_ref_data.npy -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-07-14T21:49:37,652 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/data/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/data 2021-07-14T21:49:37,656 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2021-07-14T21:49:37,658 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds/hbond_analysis.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2021-07-14T21:49:37,665 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2021-07-14T21:49:37,670 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds/wbridge_analysis.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2021-07-14T21:49:37,686 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hbonds/hbond_autocorrel.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/hbonds 2021-07-14T21:49:37,699 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/psa.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,707 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/x3dna.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,713 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/align.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,720 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/lineardensity.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,736 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,744 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/rms.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,750 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/nuclinfo.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,759 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/pca.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,769 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/polymer.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,775 creating build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2021-07-14T21:49:37,777 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy/x3dna.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2021-07-14T21:49:37,784 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/legacy/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis/legacy 2021-07-14T21:49:37,789 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/contacts.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,798 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/density.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,807 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/rdf.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,812 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/distances.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,816 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/dihedrals.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,827 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/hole.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,833 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/leaflet.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,838 copying build/lib.linux-armv7l-3.9/MDAnalysis/analysis/helanal.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/analysis 2021-07-14T21:49:37,853 copying build/lib.linux-armv7l-3.9/MDAnalysis/authors.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-07-14T21:49:37,856 copying build/lib.linux-armv7l-3.9/MDAnalysis/units.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-07-14T21:49:37,861 copying build/lib.linux-armv7l-3.9/MDAnalysis/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis 2021-07-14T21:49:37,867 creating build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2021-07-14T21:49:37,868 copying build/lib.linux-armv7l-3.9/MDAnalysis/tests/datafiles.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2021-07-14T21:49:37,874 copying build/lib.linux-armv7l-3.9/MDAnalysis/tests/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/tests 2021-07-14T21:49:37,885 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:37,887 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/_cutil.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:37,943 creating build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2021-07-14T21:49:37,947 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 2021-07-14T21:49:38,014 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/formats/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib/formats 2021-07-14T21:49:38,028 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 2021-07-14T21:49:38,084 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 2021-07-14T21:49:38,183 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/mdamath.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,187 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/_transformations.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,198 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/util.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,204 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/nsgrid.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,264 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/qcprot.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,276 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/transformations.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,282 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/pkdtree.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,286 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,288 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/_augment.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,343 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/log.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,348 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/NeighborSearch.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,353 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/distances.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,358 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 2021-07-14T21:49:38,369 copying build/lib.linux-armv7l-3.9/MDAnalysis/lib/c_distances.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MDAnalysis/lib 2021-07-14T21:49:38,414 creating build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,416 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/null.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,419 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/DCD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,422 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/XTC.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,425 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/TRR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,428 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,432 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/TRJ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,436 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/PDB.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,440 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/CRD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,443 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/XDR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,447 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/PDBQT.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,451 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/MMTF.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,454 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/memory.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,458 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/TRZ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,463 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/PQR.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,467 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/TXYZ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,470 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/GSD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,474 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/DLPoly.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,486 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,504 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/chain.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,508 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/XYZ.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,512 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/GMS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,516 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/GRO.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,521 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/INPCRD.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,524 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/LAMMPS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,528 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/MOL2.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,532 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/core.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,536 copying build/lib.linux-armv7l-3.9/MDAnalysis/coordinates/DMS.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/coordinates 2021-07-14T21:49:38,541 creating build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-07-14T21:49:38,543 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-07-14T21:49:38,547 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/gromacs.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-07-14T21:49:38,550 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/jmol.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-07-14T21:49:38,553 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/vmd.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-07-14T21:49:38,556 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-07-14T21:49:38,561 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/charmm.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-07-14T21:49:38,567 copying build/lib.linux-armv7l-3.9/MDAnalysis/selections/pymol.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/selections 2021-07-14T21:49:38,572 creating build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-07-14T21:49:38,573 copying build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-07-14T21:49:38,578 copying build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary/XVG.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-07-14T21:49:38,582 copying build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-07-14T21:49:38,585 copying build/lib.linux-armv7l-3.9/MDAnalysis/auxiliary/core.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/auxiliary 2021-07-14T21:49:38,589 creating build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2021-07-14T21:49:38,591 copying build/lib.linux-armv7l-3.9/MDAnalysis/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2021-07-14T21:49:38,595 copying build/lib.linux-armv7l-3.9/MDAnalysis/visualization/streamlines_3D.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2021-07-14T21:49:38,600 copying build/lib.linux-armv7l-3.9/MDAnalysis/visualization/streamlines.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/visualization 2021-07-14T21:49:38,606 creating build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,608 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/GROParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,612 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/_elements.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,615 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/TPRParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,619 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/base.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,623 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/TXYZParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,627 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/MinimalParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,630 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/GSDParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,633 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/TOPParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,639 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/guessers.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,643 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/GMSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,646 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/PSFParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,650 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/HoomdXMLParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,654 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tables.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,659 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/DLPolyParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,663 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,667 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/DMSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,671 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/PDBParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,678 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/CRDParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,683 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/MOL2Parser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,687 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/PDBQTParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,690 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/PQRParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,693 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/ExtendedPDBParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,698 creating build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-07-14T21:49:38,700 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr/setting.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-07-14T21:49:38,703 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr/obj.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-07-14T21:49:38,712 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr/utils.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-07-14T21:49:38,719 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/tpr/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology/tpr 2021-07-14T21:49:38,724 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/core.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,732 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/MMTFParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,756 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/XYZParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,759 copying build/lib.linux-armv7l-3.9/MDAnalysis/topology/LAMMPSParser.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/topology 2021-07-14T21:49:38,766 creating build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-07-14T21:49:38,768 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/__init__.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-07-14T21:49:38,773 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/rotate.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-07-14T21:49:38,777 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/translate.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-07-14T21:49:38,781 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/fit.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-07-14T21:49:38,786 copying build/lib.linux-armv7l-3.9/MDAnalysis/transformations/positionaveraging.py -> build/bdist.linux-armv7l/wheel/MDAnalysis/transformations 2021-07-14T21:49:38,794 running install_egg_info 2021-07-14T21:49:38,842 running egg_info 2021-07-14T21:49:38,843 writing MDAnalysis.egg-info/PKG-INFO 2021-07-14T21:49:38,847 writing dependency_links to MDAnalysis.egg-info/dependency_links.txt 2021-07-14T21:49:38,850 writing requirements to MDAnalysis.egg-info/requires.txt 2021-07-14T21:49:38,852 writing top-level names to MDAnalysis.egg-info/top_level.txt 2021-07-14T21:49:38,996 reading manifest file 'MDAnalysis.egg-info/SOURCES.txt' 2021-07-14T21:49:39,079 reading manifest template 'MANIFEST.in' 2021-07-14T21:49:39,548 warning: no files found matching 'MDAnalysis/coordinates/xdrfile/src/*' 2021-07-14T21:49:39,548 warning: no files found matching 'MDAnalysis/lib/src/pyqcprot/*' 2021-07-14T21:49:39,801 warning: no previously-included files matching '*.pyc' found anywhere in distribution 2021-07-14T21:49:39,815 warning: no previously-included files matching '*.pyo' found anywhere in distribution 2021-07-14T21:49:39,817 warning: no previously-included files matching '*.pyd' found anywhere in distribution 2021-07-14T21:49:39,820 warning: no previously-included files matching '*~' found anywhere in distribution 2021-07-14T21:49:39,820 adding license file 'LICENSE' 2021-07-14T21:49:39,821 adding license file 'AUTHORS' 2021-07-14T21:49:39,877 writing manifest file 'MDAnalysis.egg-info/SOURCES.txt' 2021-07-14T21:49:39,894 Copying MDAnalysis.egg-info to build/bdist.linux-armv7l/wheel/MDAnalysis-0.20.0-py3.9.egg-info 2021-07-14T21:49:39,932 running install_scripts 2021-07-14T21:49:40,272 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2021-07-14T21:49:40,276 adding license file "AUTHORS" (matched pattern "AUTHORS*") 2021-07-14T21:49:40,292 creating build/bdist.linux-armv7l/wheel/MDAnalysis-0.20.0.dist-info/WHEEL 2021-07-14T21:49:40,300 creating '/tmp/pip-wheel-slfn07tb/MDAnalysis-0.20.0-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-14T21:49:40,306 adding 'MDAnalysis/KDTree.py' 2021-07-14T21:49:40,310 adding 'MDAnalysis/__init__.py' 2021-07-14T21:49:40,314 adding 'MDAnalysis/authors.py' 2021-07-14T21:49:40,318 adding 'MDAnalysis/due.py' 2021-07-14T21:49:40,323 adding 'MDAnalysis/exceptions.py' 2021-07-14T21:49:40,329 adding 'MDAnalysis/units.py' 2021-07-14T21:49:40,337 adding 'MDAnalysis/version.py' 2021-07-14T21:49:40,343 adding 'MDAnalysis/analysis/__init__.py' 2021-07-14T21:49:40,365 adding 'MDAnalysis/analysis/align.py' 2021-07-14T21:49:40,371 adding 'MDAnalysis/analysis/base.py' 2021-07-14T21:49:40,379 adding 'MDAnalysis/analysis/contacts.py' 2021-07-14T21:49:40,404 adding 'MDAnalysis/analysis/density.py' 2021-07-14T21:49:40,410 adding 'MDAnalysis/analysis/diffusionmap.py' 2021-07-14T21:49:40,419 adding 'MDAnalysis/analysis/dihedrals.py' 2021-07-14T21:49:40,426 adding 'MDAnalysis/analysis/distances.py' 2021-07-14T21:49:40,431 adding 'MDAnalysis/analysis/gnm.py' 2021-07-14T21:49:40,447 adding 'MDAnalysis/analysis/helanal.py' 2021-07-14T21:49:40,462 adding 'MDAnalysis/analysis/hole.py' 2021-07-14T21:49:40,479 adding 'MDAnalysis/analysis/leaflet.py' 2021-07-14T21:49:40,483 adding 'MDAnalysis/analysis/lineardensity.py' 2021-07-14T21:49:40,491 adding 'MDAnalysis/analysis/nuclinfo.py' 2021-07-14T21:49:40,500 adding 'MDAnalysis/analysis/pca.py' 2021-07-14T21:49:40,508 adding 'MDAnalysis/analysis/polymer.py' 2021-07-14T21:49:40,541 adding 'MDAnalysis/analysis/psa.py' 2021-07-14T21:49:40,549 adding 'MDAnalysis/analysis/rdf.py' 2021-07-14T21:49:40,561 adding 'MDAnalysis/analysis/rms.py' 2021-07-14T21:49:40,580 adding 'MDAnalysis/analysis/waterdynamics.py' 2021-07-14T21:49:40,591 adding 'MDAnalysis/analysis/x3dna.py' 2021-07-14T21:49:40,596 adding 'MDAnalysis/analysis/data/__init__.py' 2021-07-14T21:49:40,600 adding 'MDAnalysis/analysis/data/filenames.py' 2021-07-14T21:49:40,607 adding 'MDAnalysis/analysis/data/janin_ref_data.npy' 2021-07-14T21:49:40,620 adding 'MDAnalysis/analysis/data/rama_ref_data.npy' 2021-07-14T21:49:40,633 adding 'MDAnalysis/analysis/encore/__init__.py' 2021-07-14T21:49:40,637 adding 'MDAnalysis/analysis/encore/bootstrap.py' 2021-07-14T21:49:40,644 adding 'MDAnalysis/analysis/encore/confdistmatrix.py' 2021-07-14T21:49:40,649 adding 'MDAnalysis/analysis/encore/covariance.py' 2021-07-14T21:49:40,731 adding 'MDAnalysis/analysis/encore/cutils.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:40,760 adding 'MDAnalysis/analysis/encore/similarity.py' 2021-07-14T21:49:40,776 adding 'MDAnalysis/analysis/encore/utils.py' 2021-07-14T21:49:40,780 adding 'MDAnalysis/analysis/encore/clustering/ClusterCollection.py' 2021-07-14T21:49:40,785 adding 'MDAnalysis/analysis/encore/clustering/ClusteringMethod.py' 2021-07-14T21:49:40,803 adding 'MDAnalysis/analysis/encore/clustering/__init__.py' 2021-07-14T21:49:41,006 adding 'MDAnalysis/analysis/encore/clustering/affinityprop.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:41,013 adding 'MDAnalysis/analysis/encore/clustering/cluster.py' 2021-07-14T21:49:41,017 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/DimensionalityReductionMethod.py' 2021-07-14T21:49:41,019 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/__init__.py' 2021-07-14T21:49:41,022 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/reduce_dimensionality.py' 2021-07-14T21:49:41,136 adding 'MDAnalysis/analysis/encore/dimensionality_reduction/stochasticproxembed.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:41,141 adding 'MDAnalysis/analysis/hbonds/__init__.py' 2021-07-14T21:49:41,151 adding 'MDAnalysis/analysis/hbonds/hbond_analysis.py' 2021-07-14T21:49:41,156 adding 'MDAnalysis/analysis/hbonds/hbond_autocorrel.py' 2021-07-14T21:49:41,169 adding 'MDAnalysis/analysis/hbonds/wbridge_analysis.py' 2021-07-14T21:49:41,173 adding 'MDAnalysis/analysis/legacy/__init__.py' 2021-07-14T21:49:41,178 adding 'MDAnalysis/analysis/legacy/x3dna.py' 2021-07-14T21:49:41,182 adding 'MDAnalysis/auxiliary/XVG.py' 2021-07-14T21:49:41,186 adding 'MDAnalysis/auxiliary/__init__.py' 2021-07-14T21:49:41,193 adding 'MDAnalysis/auxiliary/base.py' 2021-07-14T21:49:41,196 adding 'MDAnalysis/auxiliary/core.py' 2021-07-14T21:49:41,199 adding 'MDAnalysis/coordinates/CRD.py' 2021-07-14T21:49:41,203 adding 'MDAnalysis/coordinates/DCD.py' 2021-07-14T21:49:41,206 adding 'MDAnalysis/coordinates/DLPoly.py' 2021-07-14T21:49:41,208 adding 'MDAnalysis/coordinates/DMS.py' 2021-07-14T21:49:41,211 adding 'MDAnalysis/coordinates/GMS.py' 2021-07-14T21:49:41,225 adding 'MDAnalysis/coordinates/GRO.py' 2021-07-14T21:49:41,228 adding 'MDAnalysis/coordinates/GSD.py' 2021-07-14T21:49:41,233 adding 'MDAnalysis/coordinates/INPCRD.py' 2021-07-14T21:49:41,238 adding 'MDAnalysis/coordinates/LAMMPS.py' 2021-07-14T21:49:41,253 adding 'MDAnalysis/coordinates/MMTF.py' 2021-07-14T21:49:41,257 adding 'MDAnalysis/coordinates/MOL2.py' 2021-07-14T21:49:41,275 adding 'MDAnalysis/coordinates/PDB.py' 2021-07-14T21:49:41,284 adding 'MDAnalysis/coordinates/PDBQT.py' 2021-07-14T21:49:41,288 adding 'MDAnalysis/coordinates/PQR.py' 2021-07-14T21:49:41,299 adding 'MDAnalysis/coordinates/TRJ.py' 2021-07-14T21:49:41,314 adding 'MDAnalysis/coordinates/TRR.py' 2021-07-14T21:49:41,317 adding 'MDAnalysis/coordinates/TRZ.py' 2021-07-14T21:49:41,323 adding 'MDAnalysis/coordinates/TXYZ.py' 2021-07-14T21:49:41,327 adding 'MDAnalysis/coordinates/XDR.py' 2021-07-14T21:49:41,333 adding 'MDAnalysis/coordinates/XTC.py' 2021-07-14T21:49:41,337 adding 'MDAnalysis/coordinates/XYZ.py' 2021-07-14T21:49:41,346 adding 'MDAnalysis/coordinates/__init__.py' 2021-07-14T21:49:41,370 adding 'MDAnalysis/coordinates/base.py' 2021-07-14T21:49:41,384 adding 'MDAnalysis/coordinates/chain.py' 2021-07-14T21:49:41,403 adding 'MDAnalysis/coordinates/core.py' 2021-07-14T21:49:41,408 adding 'MDAnalysis/coordinates/memory.py' 2021-07-14T21:49:41,411 adding 'MDAnalysis/coordinates/null.py' 2021-07-14T21:49:41,413 adding 'MDAnalysis/core/AtomGroup.py' 2021-07-14T21:49:41,417 adding 'MDAnalysis/core/__init__.py' 2021-07-14T21:49:41,421 adding 'MDAnalysis/core/_get_readers.py' 2021-07-14T21:49:41,423 adding 'MDAnalysis/core/distances.py' 2021-07-14T21:49:41,449 adding 'MDAnalysis/core/groups.py' 2021-07-14T21:49:41,452 adding 'MDAnalysis/core/log.py' 2021-07-14T21:49:41,455 adding 'MDAnalysis/core/parallel.py' 2021-07-14T21:49:41,457 adding 'MDAnalysis/core/qcprot.py' 2021-07-14T21:49:41,465 adding 'MDAnalysis/core/selection.py' 2021-07-14T21:49:41,469 adding 'MDAnalysis/core/topology.py' 2021-07-14T21:49:41,479 adding 'MDAnalysis/core/topologyattrs.py' 2021-07-14T21:49:41,486 adding 'MDAnalysis/core/topologyobjects.py' 2021-07-14T21:49:41,489 adding 'MDAnalysis/core/transformations.py' 2021-07-14T21:49:41,491 adding 'MDAnalysis/core/units.py' 2021-07-14T21:49:41,502 adding 'MDAnalysis/core/universe.py' 2021-07-14T21:49:41,504 adding 'MDAnalysis/core/util.py' 2021-07-14T21:49:41,507 adding 'MDAnalysis/lib/NeighborSearch.py' 2021-07-14T21:49:41,509 adding 'MDAnalysis/lib/__init__.py' 2021-07-14T21:49:42,199 adding 'MDAnalysis/lib/_augment.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:42,955 adding 'MDAnalysis/lib/_cutil.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:43,123 adding 'MDAnalysis/lib/_transformations.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:43,525 adding 'MDAnalysis/lib/c_distances.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:43,608 adding 'MDAnalysis/lib/c_distances_openmp.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:43,619 adding 'MDAnalysis/lib/distances.py' 2021-07-14T21:49:43,623 adding 'MDAnalysis/lib/log.py' 2021-07-14T21:49:43,627 adding 'MDAnalysis/lib/mdamath.py' 2021-07-14T21:49:44,261 adding 'MDAnalysis/lib/nsgrid.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:44,283 adding 'MDAnalysis/lib/pkdtree.py' 2021-07-14T21:49:44,439 adding 'MDAnalysis/lib/qcprot.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:44,480 adding 'MDAnalysis/lib/transformations.py' 2021-07-14T21:49:44,516 adding 'MDAnalysis/lib/util.py' 2021-07-14T21:49:44,528 adding 'MDAnalysis/lib/formats/__init__.py' 2021-07-14T21:49:45,032 adding 'MDAnalysis/lib/formats/cython_util.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:45,893 adding 'MDAnalysis/lib/formats/libdcd.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:46,770 adding 'MDAnalysis/lib/formats/libmdaxdr.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T21:49:46,823 adding 'MDAnalysis/migration/__init__.py' 2021-07-14T21:49:46,825 adding 'MDAnalysis/migration/ten2eleven.py' 2021-07-14T21:49:46,827 adding 'MDAnalysis/migration/test_dummy_old_MDA_code.py' 2021-07-14T21:49:46,829 adding 'MDAnalysis/migration/test_dummy_torsion.py' 2021-07-14T21:49:46,844 adding 'MDAnalysis/migration/fixes/__init__.py' 2021-07-14T21:49:46,846 adding 'MDAnalysis/migration/fixes/fix_agcountmethods.py' 2021-07-14T21:49:46,848 adding 'MDAnalysis/migration/fixes/fix_agmethods.py' 2021-07-14T21:49:46,851 adding 'MDAnalysis/migration/fixes/fix_agmethods2.py' 2021-07-14T21:49:46,853 adding 'MDAnalysis/migration/fixes/fix_agsetterpluralization.py' 2021-07-14T21:49:46,863 adding 'MDAnalysis/migration/fixes/fix_calctorsions.py' 2021-07-14T21:49:46,865 adding 'MDAnalysis/migration/fixes/fix_camelcase.py' 2021-07-14T21:49:46,867 adding 'MDAnalysis/migration/fixes/fix_framenumberingzerobased.py' 2021-07-14T21:49:46,869 adding 'MDAnalysis/migration/fixes/fix_framenumberingzerobased2.py' 2021-07-14T21:49:46,871 adding 'MDAnalysis/migration/fixes/fix_mdaimports.py' 2021-07-14T21:49:46,883 adding 'MDAnalysis/migration/fixes/fix_numframes.py' 2021-07-14T21:49:46,886 adding 'MDAnalysis/migration/fixes/fix_selectatoms.py' 2021-07-14T21:49:46,888 adding 'MDAnalysis/migration/fixes/fix_torsionclasses.py' 2021-07-14T21:49:46,890 adding 'MDAnalysis/migration/fixes/fix_torsions.py' 2021-07-14T21:49:46,892 adding 'MDAnalysis/migration/fixes/fix_writer.py' 2021-07-14T21:49:46,905 adding 'MDAnalysis/selections/__init__.py' 2021-07-14T21:49:46,908 adding 'MDAnalysis/selections/base.py' 2021-07-14T21:49:46,911 adding 'MDAnalysis/selections/charmm.py' 2021-07-14T21:49:46,913 adding 'MDAnalysis/selections/gromacs.py' 2021-07-14T21:49:46,923 adding 'MDAnalysis/selections/jmol.py' 2021-07-14T21:49:46,925 adding 'MDAnalysis/selections/pymol.py' 2021-07-14T21:49:46,928 adding 'MDAnalysis/selections/vmd.py' 2021-07-14T21:49:46,931 adding 'MDAnalysis/tests/__init__.py' 2021-07-14T21:49:46,933 adding 'MDAnalysis/tests/datafiles.py' 2021-07-14T21:49:46,944 adding 'MDAnalysis/topology/CRDParser.py' 2021-07-14T21:49:46,946 adding 'MDAnalysis/topology/DLPolyParser.py' 2021-07-14T21:49:46,949 adding 'MDAnalysis/topology/DMSParser.py' 2021-07-14T21:49:46,951 adding 'MDAnalysis/topology/ExtendedPDBParser.py' 2021-07-14T21:49:46,964 adding 'MDAnalysis/topology/GMSParser.py' 2021-07-14T21:49:46,967 adding 'MDAnalysis/topology/GROParser.py' 2021-07-14T21:49:46,969 adding 'MDAnalysis/topology/GSDParser.py' 2021-07-14T21:49:46,972 adding 'MDAnalysis/topology/HoomdXMLParser.py' 2021-07-14T21:49:46,986 adding 'MDAnalysis/topology/LAMMPSParser.py' 2021-07-14T21:49:46,989 adding 'MDAnalysis/topology/MMTFParser.py' 2021-07-14T21:49:47,004 adding 'MDAnalysis/topology/MOL2Parser.py' 2021-07-14T21:49:47,007 adding 'MDAnalysis/topology/MinimalParser.py' 2021-07-14T21:49:47,010 adding 'MDAnalysis/topology/PDBParser.py' 2021-07-14T21:49:47,023 adding 'MDAnalysis/topology/PDBQTParser.py' 2021-07-14T21:49:47,026 adding 'MDAnalysis/topology/PQRParser.py' 2021-07-14T21:49:47,030 adding 'MDAnalysis/topology/PSFParser.py' 2021-07-14T21:49:47,035 adding 'MDAnalysis/topology/TOPParser.py' 2021-07-14T21:49:47,044 adding 'MDAnalysis/topology/TPRParser.py' 2021-07-14T21:49:47,047 adding 'MDAnalysis/topology/TXYZParser.py' 2021-07-14T21:49:47,053 adding 'MDAnalysis/topology/XYZParser.py' 2021-07-14T21:49:47,064 adding 'MDAnalysis/topology/__init__.py' 2021-07-14T21:49:47,067 adding 'MDAnalysis/topology/_elements.py' 2021-07-14T21:49:47,070 adding 'MDAnalysis/topology/base.py' 2021-07-14T21:49:47,073 adding 'MDAnalysis/topology/core.py' 2021-07-14T21:49:47,084 adding 'MDAnalysis/topology/guessers.py' 2021-07-14T21:49:47,087 adding 'MDAnalysis/topology/tables.py' 2021-07-14T21:49:47,089 adding 'MDAnalysis/topology/tpr/__init__.py' 2021-07-14T21:49:47,092 adding 'MDAnalysis/topology/tpr/obj.py' 2021-07-14T21:49:47,104 adding 'MDAnalysis/topology/tpr/setting.py' 2021-07-14T21:49:47,109 adding 'MDAnalysis/topology/tpr/utils.py' 2021-07-14T21:49:47,123 adding 'MDAnalysis/transformations/__init__.py' 2021-07-14T21:49:47,126 adding 'MDAnalysis/transformations/fit.py' 2021-07-14T21:49:47,129 adding 'MDAnalysis/transformations/positionaveraging.py' 2021-07-14T21:49:47,132 adding 'MDAnalysis/transformations/rotate.py' 2021-07-14T21:49:47,144 adding 'MDAnalysis/transformations/translate.py' 2021-07-14T21:49:47,146 adding 'MDAnalysis/visualization/__init__.py' 2021-07-14T21:49:47,150 adding 'MDAnalysis/visualization/streamlines.py' 2021-07-14T21:49:47,154 adding 'MDAnalysis/visualization/streamlines_3D.py' 2021-07-14T21:49:47,165 adding 'MDAnalysis-0.20.0.dist-info/AUTHORS' 2021-07-14T21:49:47,169 adding 'MDAnalysis-0.20.0.dist-info/LICENSE' 2021-07-14T21:49:47,183 adding 'MDAnalysis-0.20.0.dist-info/METADATA' 2021-07-14T21:49:47,185 adding 'MDAnalysis-0.20.0.dist-info/WHEEL' 2021-07-14T21:49:47,186 adding 'MDAnalysis-0.20.0.dist-info/top_level.txt' 2021-07-14T21:49:47,190 adding 'MDAnalysis-0.20.0.dist-info/RECORD' 2021-07-14T21:49:47,296 removing build/bdist.linux-armv7l/wheel 2021-07-14T21:49:47,763 Building wheel for mdanalysis (setup.py): finished with status 'done' 2021-07-14T21:49:47,925 Created wheel for mdanalysis: filename=MDAnalysis-0.20.0-cp39-cp39-linux_armv7l.whl size=5826233 sha256=71f4f4953090bbbbafab4e8e5f1af9286acd1dbe6863f95771e62ca51d6772be 2021-07-14T21:49:47,925 Stored in directory: /tmp/pip-ephem-wheel-cache-tf2tyggz/wheels/95/17/58/1954fe8adf08158b1e7a35dc2ebff19b302e873600dbe860bf 2021-07-14T21:49:47,980 Successfully built mdanalysis 2021-07-14T21:49:48,219 Removed build tracker: '/tmp/pip-req-tracker-a8zg145g'