2021-02-04T23:33:12,139 Created temporary directory: /tmp/pip-ephem-wheel-cache-cx5kp0rv 2021-02-04T23:33:12,142 Created temporary directory: /tmp/pip-req-tracker-h28x7dvz 2021-02-04T23:33:12,142 Initialized build tracking at /tmp/pip-req-tracker-h28x7dvz 2021-02-04T23:33:12,143 Created build tracker: /tmp/pip-req-tracker-h28x7dvz 2021-02-04T23:33:12,143 Entered build tracker: /tmp/pip-req-tracker-h28x7dvz 2021-02-04T23:33:12,144 Created temporary directory: /tmp/pip-wheel-4qxf2498 2021-02-04T23:33:12,179 1 location(s) to search for versions of chemfiles: 2021-02-04T23:33:12,179 * https://pypi.org/simple/chemfiles/ 2021-02-04T23:33:12,180 Fetching project page and analyzing links: https://pypi.org/simple/chemfiles/ 2021-02-04T23:33:12,180 Getting page https://pypi.org/simple/chemfiles/ 2021-02-04T23:33:12,182 Found index url https://pypi.org/simple 2021-02-04T23:33:12,296 Skipping link: none of the wheel's tags match: py2-none-macosx_10_9_x86_64, py3-none-macosx_10_9_x86_64: https://files.pythonhosted.org/packages/1b/58/d020b8b69e71ddc3e70873095649b454737981f53d3897a32579371e4151/chemfiles-0.8.0-py2.py3-none-macosx_10_9_x86_64.whl#sha256=77fe98200da60e50d56909c1fe170ba0f9bbbba81dc12cf1d1726a7419921593 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,297 Skipping link: none of the wheel's tags match: py2-none-manylinux1_i686, py3-none-manylinux1_i686: https://files.pythonhosted.org/packages/a6/09/a4c8eabb339b23ab54148077ea09df35656733979169a5dc50d98253f769/chemfiles-0.8.0-py2.py3-none-manylinux1_i686.whl#sha256=036cac2d88100dfb768f0ab5e26914038956e1de901e86810fe6b6a5f28f979c (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,297 Skipping link: none of the wheel's tags match: py2-none-manylinux1_x86_64, py3-none-manylinux1_x86_64: https://files.pythonhosted.org/packages/66/35/f669f1d2155a8397a1553ac0ba831dd64a5968567f8f102b57cb32e5442b/chemfiles-0.8.0-py2.py3-none-manylinux1_x86_64.whl#sha256=7c963c53440c3f190376f19cde99b89ba65a9eab129c901750d92cc8e953ddf5 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,298 Skipping link: none of the wheel's tags match: py2-none-win32, py3-none-win32: https://files.pythonhosted.org/packages/24/ac/b661e2ace2cef025931de46b24603be4f3a5d336275d3057e99d1f0ad044/chemfiles-0.8.0-py2.py3-none-win32.whl#sha256=7484e664716181da3faa376777c7ff10d19b87dabf7799d207870b9ff2321028 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,298 Skipping link: none of the wheel's tags match: py2-none-win_amd64, py3-none-win_amd64: https://files.pythonhosted.org/packages/9b/f9/8b07c1ed29ee19c490c78be60711ccc097483954224729d1d7eb67aa9bf1/chemfiles-0.8.0-py2.py3-none-win_amd64.whl#sha256=1b793a3dc963b3be454a6b321ba914b9825cc61afba123d180e71cfeefcda1ed (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,299 Found link https://files.pythonhosted.org/packages/0e/f4/055cefcc4fdbe34b7ba42eadce2f1f107bd646f1d0be258cdf94bc609bc6/chemfiles-0.8.0.tar.gz#sha256=a211f93e165a24473a6e2770db81d99f883c78a14341ab356d1d210b6e045599 (from https://pypi.org/simple/chemfiles/), version: 0.8.0 2021-02-04T23:33:12,299 Skipping link: none of the wheel's tags match: py2-none-macosx_10_9_x86_64, py3-none-macosx_10_9_x86_64: https://files.pythonhosted.org/packages/80/49/629e83a3fff73c41a08317f27ad0c24c4e22862940a53fc4532dfae9a895/chemfiles-0.9.1-py2.py3-none-macosx_10_9_x86_64.whl#sha256=a6c478003451282e2d1f8b0e6cf40b7fa88f612535a5f2be3a135d28219f5127 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,299 Skipping link: none of the wheel's tags match: py2-none-manylinux1_i686, py3-none-manylinux1_i686: https://files.pythonhosted.org/packages/3a/57/6cdb9a0de141e9bdb930dac58d6538e63b4eab81578398c2e086ee0cb6bf/chemfiles-0.9.1-py2.py3-none-manylinux1_i686.whl#sha256=f69ea3c4805e9439619f5ceac5f3c9925c7447d863f4ea9fdadcd065d68665c7 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,300 Skipping link: none of the wheel's tags match: py2-none-manylinux1_x86_64, py3-none-manylinux1_x86_64: https://files.pythonhosted.org/packages/86/e6/236cf566fd37ad3d9671198d0ab25be13299e0728ea9c96ce87de4b76045/chemfiles-0.9.1-py2.py3-none-manylinux1_x86_64.whl#sha256=cc59e1aac87440fed4bcf443d2df3a9385220080c33ba7c31b97602aa565c55d (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,300 Skipping link: none of the wheel's tags match: py2-none-win32, py3-none-win32: https://files.pythonhosted.org/packages/0e/e4/823f1d0121170e2ef87db22de3aa6ec56aa12dff95bad6ff882788801f6f/chemfiles-0.9.1-py2.py3-none-win32.whl#sha256=709b3f369d196e1e812e7ecfb89abb34de3cc97ef1562a1383f83c66d16975e4 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,301 Skipping link: none of the wheel's tags match: py2-none-win_amd64, py3-none-win_amd64: https://files.pythonhosted.org/packages/de/f3/9f283db2e7e46b119e14d3afc96d493e4b9ce11f3b5c5631841a80abf416/chemfiles-0.9.1-py2.py3-none-win_amd64.whl#sha256=f71215bc26a6c2f828cf463c6b606ff30bc9f18a5ee9329e11e8b613d83b66b8 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,301 Found link https://files.pythonhosted.org/packages/6b/17/6206cf78a997a67208ed920fa296acba1cb58f5b81d20280e3b2671f57a4/chemfiles-0.9.1.tar.gz#sha256=602567a8ebfd75e7ba017a9f95e6f7d7a8e070532bd71bf1f576202c7bcad230 (from https://pypi.org/simple/chemfiles/), version: 0.9.1 2021-02-04T23:33:12,301 Skipping link: none of the wheel's tags match: py2-none-macosx_10_9_x86_64, py3-none-macosx_10_9_x86_64: https://files.pythonhosted.org/packages/04/4d/171aa08aca4f0082a19fc433aea614fc7bf08cf29b5af3ac65790a56bc08/chemfiles-0.9.2-py2.py3-none-macosx_10_9_x86_64.whl#sha256=40441eed225bfa08a9f1beedf2a056ed145fdff4d59ae6d26e0053dbb16ed618 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,302 Skipping link: none of the wheel's tags match: py2-none-manylinux1_i686, py3-none-manylinux1_i686: https://files.pythonhosted.org/packages/a5/93/7d9e4b8bfc572f98102f8c2b42f01d8faa777c080fd0dc04724833e8a6f3/chemfiles-0.9.2-py2.py3-none-manylinux1_i686.whl#sha256=49ea873e68e4f033b4757c8a3529f5df90a89a5949187b7cecd261501497fc70 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,302 Skipping link: none of the wheel's tags match: py2-none-manylinux1_x86_64, py3-none-manylinux1_x86_64: https://files.pythonhosted.org/packages/52/4b/9e5187e2bedd6833aff6b3b722e019523977deecb360693c81d417f6c888/chemfiles-0.9.2-py2.py3-none-manylinux1_x86_64.whl#sha256=a4451dbb898af4f0d50e8f03f107887413dbc2139570eb432577a82e69ddea3e (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,303 Skipping link: none of the wheel's tags match: py2-none-win32, py3-none-win32: https://files.pythonhosted.org/packages/04/14/a55de824dee9d5c38748229f69001a715039c8915b24fabf9c2946581c81/chemfiles-0.9.2-py2.py3-none-win32.whl#sha256=92b5c1b504127431c67ab6539725995f788849e1bf0a0c106a9eaabcfeccaeb8 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,303 Skipping link: none of the wheel's tags match: py2-none-win_amd64, py3-none-win_amd64: https://files.pythonhosted.org/packages/24/39/2cae9a642255077d30172fb73212ddb629b96ce1ac03372ae35e1d742fc6/chemfiles-0.9.2-py2.py3-none-win_amd64.whl#sha256=dde92d6884738b3d590efe04c4824b424b5e82f45f6a8ffc108c136548b5e22f (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,303 Found link https://files.pythonhosted.org/packages/37/fc/8cadfb904b448c40f4098a926ec5cb087e97bbdb3f82f127c567c46d19e4/chemfiles-0.9.2.tar.gz#sha256=3078cc37cf1830c59df47616bc11090fde5393be54043d4fedbe302c163be8d4 (from https://pypi.org/simple/chemfiles/), version: 0.9.2 2021-02-04T23:33:12,304 Skipping link: none of the wheel's tags match: py2-none-macosx_10_9_x86_64, py3-none-macosx_10_9_x86_64: https://files.pythonhosted.org/packages/13/01/a1f9984db57f847e62fe5afaa3d3b561782ef5dd9e63f73f15778ada3325/chemfiles-0.9.3-py2.py3-none-macosx_10_9_x86_64.whl#sha256=009b535ceaf0e03d9e7e96856af4610832adefa42b76db1a57915a279d42a99d (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,304 Skipping link: none of the wheel's tags match: py2-none-manylinux1_i686, py3-none-manylinux1_i686: https://files.pythonhosted.org/packages/7a/46/b5aa0b991d7ae1a020f21387a4f18759be771e2bee4d570edc5e341bd554/chemfiles-0.9.3-py2.py3-none-manylinux1_i686.whl#sha256=bbc6c5980429ff586ed43b64c89e0f2124ac79198b558b362e1df470bbf9647d (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,305 Skipping link: none of the wheel's tags match: py2-none-manylinux1_x86_64, py3-none-manylinux1_x86_64: https://files.pythonhosted.org/packages/49/9c/e7c0b25f27e407bdae65326979bd6896e7a298443ef12460a03c83c1fef5/chemfiles-0.9.3-py2.py3-none-manylinux1_x86_64.whl#sha256=a4dcb49d7175dd191ec0cd18e5477faaa6620b53043334de9c0f13f4cdf06900 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,305 Skipping link: none of the wheel's tags match: py2-none-win32, py3-none-win32: https://files.pythonhosted.org/packages/de/3f/a60c3dc355f3a57af230665e5f51b9eea48d0a8befccf04c453e4e7215bd/chemfiles-0.9.3-py2.py3-none-win32.whl#sha256=8078f0922f6afa809a56edf9750674aeece360b3ee35e55b1c7c257e04f74a7b (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,305 Skipping link: none of the wheel's tags match: py2-none-win_amd64, py3-none-win_amd64: https://files.pythonhosted.org/packages/bf/be/3bb599844b26c9d715536b5b739e8236743e0f5364d456b6877ca40846f4/chemfiles-0.9.3-py2.py3-none-win_amd64.whl#sha256=6bd02207bf1cd03b38a4118c4ba828b7cfa853d15f0d324d0554c6802df19499 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,306 Found link https://files.pythonhosted.org/packages/83/eb/01da9325299b56b02859c5738a344f4c5f487b0a8bb604c48dae3925a550/chemfiles-0.9.3.tar.gz#sha256=fadbea3ac0253f7aef4820042cc4c68d94666ee543a620d21950458df3572e41 (from https://pypi.org/simple/chemfiles/), version: 0.9.3 2021-02-04T23:33:12,306 Skipping link: none of the wheel's tags match: py2-none-macosx_10_9_x86_64, py3-none-macosx_10_9_x86_64: https://files.pythonhosted.org/packages/1c/00/c407ab8f71a9235f914e78172d53b3183a21db1b7b906bfa4db1bab925d8/chemfiles-0.10.0-py2.py3-none-macosx_10_9_x86_64.whl#sha256=d0bbe5a630f62544c19396fb5d222ea61385dc25808ee027a2309a7de0eb84e2 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,307 Skipping link: none of the wheel's tags match: py2-none-manylinux1_i686, py3-none-manylinux1_i686: https://files.pythonhosted.org/packages/9f/42/b454e9fa56cedfd8b35b0f0a67de09df7bc5502c49205a80ac45cb7f4b35/chemfiles-0.10.0-py2.py3-none-manylinux1_i686.whl#sha256=2e359fb0dd9f35925c472bf584319beadf2b60de83576de32e8e7086708910c5 (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,307 Skipping link: none of the wheel's tags match: py2-none-manylinux1_x86_64, py3-none-manylinux1_x86_64: https://files.pythonhosted.org/packages/8c/74/5564f6222f328a3e7fd27d08c87542ac76cbf1a8619ea29e828309b61a0c/chemfiles-0.10.0-py2.py3-none-manylinux1_x86_64.whl#sha256=c52bb10f89512ff0d1068f4f281d7b1bf58848c6fc4e29159073a7ca8672cc5c (from https://pypi.org/simple/chemfiles/) 2021-02-04T23:33:12,307 Found link https://files.pythonhosted.org/packages/5b/a4/2a5eb0da89fc0d0b25c021182239dc528145de474273c1a9e15cc96ca301/chemfiles-0.10.0.tar.gz#sha256=b52bc19ac7967935a2acc896b1b9738bd904444a1fc09589ed6ada7658a02bf4 (from https://pypi.org/simple/chemfiles/), version: 0.10.0 2021-02-04T23:33:12,308 Given no hashes to check 1 links for project 'chemfiles': discarding no candidates 2021-02-04T23:33:12,323 Collecting chemfiles==0.10.0 2021-02-04T23:33:12,325 Created temporary directory: /tmp/pip-unpack-rq60gqbp 2021-02-04T23:33:12,379 Downloading chemfiles-0.10.0.tar.gz (4.4 MB) 2021-02-04T23:33:13,481 Added chemfiles==0.10.0 from https://files.pythonhosted.org/packages/5b/a4/2a5eb0da89fc0d0b25c021182239dc528145de474273c1a9e15cc96ca301/chemfiles-0.10.0.tar.gz#sha256=b52bc19ac7967935a2acc896b1b9738bd904444a1fc09589ed6ada7658a02bf4 to build tracker '/tmp/pip-req-tracker-h28x7dvz' 2021-02-04T23:33:13,482 Running setup.py (path:/tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/setup.py) egg_info for package chemfiles 2021-02-04T23:33:13,483 Created temporary directory: /tmp/pip-pip-egg-info-qakl1fyu 2021-02-04T23:33:13,484 Running command python setup.py egg_info 2021-02-04T23:33:15,162 running egg_info 2021-02-04T23:33:15,164 creating /tmp/pip-pip-egg-info-qakl1fyu/chemfiles.egg-info 2021-02-04T23:33:15,165 writing /tmp/pip-pip-egg-info-qakl1fyu/chemfiles.egg-info/PKG-INFO 2021-02-04T23:33:15,169 writing dependency_links to /tmp/pip-pip-egg-info-qakl1fyu/chemfiles.egg-info/dependency_links.txt 2021-02-04T23:33:15,172 writing requirements to /tmp/pip-pip-egg-info-qakl1fyu/chemfiles.egg-info/requires.txt 2021-02-04T23:33:15,173 writing top-level names to /tmp/pip-pip-egg-info-qakl1fyu/chemfiles.egg-info/top_level.txt 2021-02-04T23:33:15,175 writing manifest file '/tmp/pip-pip-egg-info-qakl1fyu/chemfiles.egg-info/SOURCES.txt' 2021-02-04T23:33:15,184 reading manifest file '/tmp/pip-pip-egg-info-qakl1fyu/chemfiles.egg-info/SOURCES.txt' 2021-02-04T23:33:15,189 writing manifest file '/tmp/pip-pip-egg-info-qakl1fyu/chemfiles.egg-info/SOURCES.txt' 2021-02-04T23:33:15,276 Source in /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c has version 0.10.0, which satisfies requirement chemfiles==0.10.0 from https://files.pythonhosted.org/packages/5b/a4/2a5eb0da89fc0d0b25c021182239dc528145de474273c1a9e15cc96ca301/chemfiles-0.10.0.tar.gz#sha256=b52bc19ac7967935a2acc896b1b9738bd904444a1fc09589ed6ada7658a02bf4 2021-02-04T23:33:15,277 Removed chemfiles==0.10.0 from https://files.pythonhosted.org/packages/5b/a4/2a5eb0da89fc0d0b25c021182239dc528145de474273c1a9e15cc96ca301/chemfiles-0.10.0.tar.gz#sha256=b52bc19ac7967935a2acc896b1b9738bd904444a1fc09589ed6ada7658a02bf4 from build tracker '/tmp/pip-req-tracker-h28x7dvz' 2021-02-04T23:33:15,281 Created temporary directory: /tmp/pip-unpack-8t0_lotm 2021-02-04T23:33:15,282 Building wheels for collected packages: chemfiles 2021-02-04T23:33:15,286 Created temporary directory: /tmp/pip-wheel-0qxjqkzw 2021-02-04T23:33:15,287 Building wheel for chemfiles (setup.py): started 2021-02-04T23:33:15,287 Destination directory: /tmp/pip-wheel-0qxjqkzw 2021-02-04T23:33:15,287 Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-0qxjqkzw 2021-02-04T23:33:16,742 -------------------------------------------------------------------------------- 2021-02-04T23:33:16,742 -- Trying "Ninja" generator 2021-02-04T23:33:16,743 -------------------------------- 2021-02-04T23:33:16,743 --------------------------- 2021-02-04T23:33:16,743 ---------------------- 2021-02-04T23:33:16,743 ----------------- 2021-02-04T23:33:16,743 ------------ 2021-02-04T23:33:16,744 ------- 2021-02-04T23:33:16,744 -- 2021-02-04T23:33:16,805 Not searching for unused variables given on the command line. 2021-02-04T23:33:16,849 CMake Error: CMake was unable to find a build program corresponding to "Ninja". CMAKE_MAKE_PROGRAM is not set. You probably need to select a different build tool. 2021-02-04T23:33:16,851 -- Configuring incomplete, errors occurred! 2021-02-04T23:33:16,851 See also "/tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/_cmake_test_compile/build/CMakeFiles/CMakeOutput.log". 2021-02-04T23:33:16,860 -- 2021-02-04T23:33:16,861 ------- 2021-02-04T23:33:16,861 ------------ 2021-02-04T23:33:16,861 ----------------- 2021-02-04T23:33:16,862 ---------------------- 2021-02-04T23:33:16,862 --------------------------- 2021-02-04T23:33:16,863 -------------------------------- 2021-02-04T23:33:16,863 -- Trying "Ninja" generator - failure 2021-02-04T23:33:16,863 -------------------------------------------------------------------------------- 2021-02-04T23:33:16,865 -------------------------------------------------------------------------------- 2021-02-04T23:33:16,865 -- Trying "Unix Makefiles" generator 2021-02-04T23:33:16,865 -------------------------------- 2021-02-04T23:33:16,865 --------------------------- 2021-02-04T23:33:16,866 ---------------------- 2021-02-04T23:33:16,866 ----------------- 2021-02-04T23:33:16,866 ------------ 2021-02-04T23:33:16,866 ------- 2021-02-04T23:33:16,867 -- 2021-02-04T23:33:16,934 Not searching for unused variables given on the command line. 2021-02-04T23:33:17,291 -- The C compiler identification is GNU 8.3.0 2021-02-04T23:33:17,322 -- Check for working C compiler: /usr/bin/cc 2021-02-04T23:33:17,805 -- Check for working C compiler: /usr/bin/cc -- works 2021-02-04T23:33:17,811 -- Detecting C compiler ABI info 2021-02-04T23:33:18,296 -- Detecting C compiler ABI info - done 2021-02-04T23:33:18,332 -- Detecting C compile features 2021-02-04T23:33:22,050 -- Detecting C compile features - done 2021-02-04T23:33:22,486 -- The CXX compiler identification is GNU 8.3.0 2021-02-04T23:33:22,514 -- Check for working CXX compiler: /usr/bin/c++ 2021-02-04T23:33:23,119 -- Check for working CXX compiler: /usr/bin/c++ -- works 2021-02-04T23:33:23,124 -- Detecting CXX compiler ABI info 2021-02-04T23:33:23,730 -- Detecting CXX compiler ABI info - done 2021-02-04T23:33:23,759 -- Detecting CXX compile features 2021-02-04T23:33:27,477 -- Detecting CXX compile features - done 2021-02-04T23:33:27,490 -- Configuring done 2021-02-04T23:33:27,505 -- Generating done 2021-02-04T23:33:27,516 -- Build files have been written to: /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/_cmake_test_compile/build 2021-02-04T23:33:27,524 -- 2021-02-04T23:33:27,525 ------- 2021-02-04T23:33:27,525 ------------ 2021-02-04T23:33:27,525 ----------------- 2021-02-04T23:33:27,526 ---------------------- 2021-02-04T23:33:27,526 --------------------------- 2021-02-04T23:33:27,526 -------------------------------- 2021-02-04T23:33:27,526 -- Trying "Unix Makefiles" generator - success 2021-02-04T23:33:27,527 -------------------------------------------------------------------------------- 2021-02-04T23:33:27,547 Configuring Project 2021-02-04T23:33:27,547 Working directory: 2021-02-04T23:33:27,548 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/_skbuild/linux-armv7l-3.7/cmake-build 2021-02-04T23:33:27,548 Command: 2021-02-04T23:33:27,548 cmake /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c -G 'Unix Makefiles' -DCMAKE_INSTALL_PREFIX:PATH=/tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/_skbuild/linux-armv7l-3.7/cmake-install -DPYTHON_EXECUTABLE:FILEPATH=/usr/bin/python3 -DPYTHON_VERSION_STRING:STRING=3.7.3 -DPYTHON_INCLUDE_DIR:PATH=/usr/include/python3.7m -DPYTHON_LIBRARY:FILEPATH=/usr/lib/arm-linux-gnueabihf/libpython3.7m.so -DSKBUILD:BOOL=TRUE -DCMAKE_MODULE_PATH:PATH=/usr/local/lib/python3.7/dist-packages/skbuild/resources/cmake -DCMAKE_BUILD_TYPE:STRING=Release 2021-02-04T23:33:27,737 -- Using internal chemfiles from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib 2021-02-04T23:33:28,039 -- The C compiler identification is GNU 8.3.0 2021-02-04T23:33:28,468 -- The CXX compiler identification is GNU 8.3.0 2021-02-04T23:33:28,494 -- Check for working C compiler: /usr/bin/cc 2021-02-04T23:33:28,976 -- Check for working C compiler: /usr/bin/cc -- works 2021-02-04T23:33:28,981 -- Detecting C compiler ABI info 2021-02-04T23:33:29,451 -- Detecting C compiler ABI info - done 2021-02-04T23:33:29,482 -- Detecting C compile features 2021-02-04T23:33:30,942 -- Detecting C compile features - done 2021-02-04T23:33:30,970 -- Check for working CXX compiler: /usr/bin/c++ 2021-02-04T23:33:31,577 -- Check for working CXX compiler: /usr/bin/c++ -- works 2021-02-04T23:33:31,581 -- Detecting CXX compiler ABI info 2021-02-04T23:33:32,213 -- Detecting CXX compiler ABI info - done 2021-02-04T23:33:32,243 -- Detecting CXX compile features 2021-02-04T23:33:35,899 -- Detecting CXX compile features - done 2021-02-04T23:34:33,944 -- Unpacking zlib sources 2021-02-04T23:34:36,713 -- Unpacking lzma sources 2021-02-04T23:34:45,136 -- Check if the system is big endian 2021-02-04T23:34:45,136 -- Searching 16 bit integer 2021-02-04T23:34:45,671 -- Using unsigned short 2021-02-04T23:34:46,166 -- Check if the system is big endian - little endian 2021-02-04T23:34:56,433 -- Unpacking bzip2 sources 2021-02-04T23:34:56,761 -- Unpacking fmt sources 2021-02-04T23:35:00,608 -- Unpacking toml11 sources 2021-02-04T23:35:00,913 -- Unpacking netcdf sources 2021-02-04T23:35:34,551 -- Unpacking tng sources 2021-02-04T23:35:35,118 -- Check if the system is big endian 2021-02-04T23:35:35,118 -- Searching 16 bit integer 2021-02-04T23:35:35,120 -- Using unsigned short 2021-02-04T23:35:35,614 -- Check if the system is big endian - little endian 2021-02-04T23:35:36,140 -- Unpacking molfiles sources 2021-02-04T23:35:36,626 -- Unpacking mmtf-cpp sources 2021-02-04T23:35:37,918 -- Unpacking pugixml sources 2021-02-04T23:35:38,273 -- Unpacking xdrfile sources 2021-02-04T23:35:39,014 -- Unpacking gemmi sources 2021-02-04T23:35:41,508 -- Configuring done 2021-02-04T23:35:42,218 -- Generating done 2021-02-04T23:35:42,269 CMake Warning: 2021-02-04T23:35:42,270 Manually-specified variables were not used by the project: 2021-02-04T23:35:42,270 PYTHON_EXECUTABLE 2021-02-04T23:35:42,270 PYTHON_INCLUDE_DIR 2021-02-04T23:35:42,271 PYTHON_LIBRARY 2021-02-04T23:35:42,271 PYTHON_VERSION_STRING 2021-02-04T23:35:42,271 SKBUILD 2021-02-04T23:35:42,279 -- Build files have been written to: /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/_skbuild/linux-armv7l-3.7/cmake-build 2021-02-04T23:35:42,849 Scanning dependencies of target xdrfile 2021-02-04T23:35:42,924 [ 1%] Building C object lib/external/xdrfile/CMakeFiles/xdrfile.dir/src/xdrfile.c.o 2021-02-04T23:35:45,273 [ 1%] Building C object lib/external/xdrfile/CMakeFiles/xdrfile.dir/src/xdrfile_trr.c.o 2021-02-04T23:35:45,971 [ 2%] Building C object lib/external/xdrfile/CMakeFiles/xdrfile.dir/src/xdrfile_xtc.c.o 2021-02-04T23:35:46,282 [ 2%] Built target xdrfile 2021-02-04T23:35:48,084 Scanning dependencies of target chemfiles_objects 2021-02-04T23:35:48,201 [ 3%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Atom.cpp.o 2021-02-04T23:35:51,107 [ 3%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Configuration.cpp.o 2021-02-04T23:36:07,145 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:36:07,145 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/Configuration.cpp:7: 2021-02-04T23:36:07,145 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const toml::value&}; _Tp = toml::value; _Alloc = std::allocator]’: 2021-02-04T23:36:07,146 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:36:07,146 vector<_Tp, _Alloc>:: 2021-02-04T23:36:07,146 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:36:10,075 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {toml::value}; _Tp = toml::value; _Alloc = std::allocator]’: 2021-02-04T23:36:10,075 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:36:30,882 In file included from /usr/include/c++/8/vector:64, 2021-02-04T23:36:30,883 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/Configuration.cpp:7: 2021-02-04T23:36:30,883 /usr/include/c++/8/bits/stl_vector.h: In function ‘toml::result > toml::detail::insert_nested_key(toml::table&, const toml::value&, InputIterator, InputIterator, toml::detail::region, bool) [with InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; Container = std::vector]’: 2021-02-04T23:36:30,883 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:36:30,883 _M_realloc_insert(end(), __x); 2021-02-04T23:36:30,884 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:36:32,339 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:36:32,339 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/Configuration.cpp:7: 2021-02-04T23:36:32,340 /usr/include/c++/8/bits/vector.tcc: In function ‘toml::result, toml::detail::region >, std::__cxx11::basic_string > toml::detail::parse_array(toml::detail::location&) [with Container = std::vector]’: 2021-02-04T23:36:32,340 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:36:32,340 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:36:32,340 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:36:34,742 [ 3%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Connectivity.cpp.o 2021-02-04T23:36:44,677 [ 4%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/File.cpp.o 2021-02-04T23:36:53,485 [ 4%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Format.cpp.o 2021-02-04T23:36:57,309 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:36:57,309 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/Format.cpp:6: 2021-02-04T23:36:57,310 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long unsigned int}; _Tp = long long unsigned int; _Alloc = std::allocator]’: 2021-02-04T23:36:57,310 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:36:57,310 vector<_Tp, _Alloc>:: 2021-02-04T23:36:57,310 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:37:01,921 /usr/include/c++/8/bits/vector.tcc: In member function ‘virtual void chemfiles::TextFormat::write(const chemfiles::Frame&)’: 2021-02-04T23:37:01,921 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:37:01,922 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:37:01,922 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:37:02,592 [ 5%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/FormatFactory.cpp.o 2021-02-04T23:37:22,521 [ 5%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/FormatMetadata.cpp.o 2021-02-04T23:37:32,038 [ 6%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Frame.cpp.o 2021-02-04T23:37:37,345 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:37:37,345 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/Frame.cpp:8: 2021-02-04T23:37:37,345 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const chemfiles::Vector3D&}; _Tp = chemfiles::Vector3D; _Alloc = std::allocator]’: 2021-02-04T23:37:37,346 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:37:37,346 vector<_Tp, _Alloc>:: 2021-02-04T23:37:37,346 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:37:37,392 In file included from /usr/include/c++/8/vector:64, 2021-02-04T23:37:37,392 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/Frame.cpp:8: 2021-02-04T23:37:37,392 /usr/include/c++/8/bits/stl_vector.h: In member function ‘void chemfiles::Frame::add_atom(chemfiles::Atom, chemfiles::Vector3D, chemfiles::Vector3D)’: 2021-02-04T23:37:37,392 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:37:37,393 _M_realloc_insert(end(), __x); 2021-02-04T23:37:37,393 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:37:37,393 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:37:37,393 _M_realloc_insert(end(), __x); 2021-02-04T23:37:37,393 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:37:42,960 [ 6%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Property.cpp.o 2021-02-04T23:37:51,615 [ 7%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Residue.cpp.o 2021-02-04T23:38:00,046 [ 7%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Selection.cpp.o 2021-02-04T23:38:11,621 [ 7%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Topology.cpp.o 2021-02-04T23:38:16,313 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:38:16,313 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/Topology.cpp:5: 2021-02-04T23:38:16,313 /usr/include/c++/8/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator) [with _Tp = chemfiles::Atom; _Alloc = std::allocator]’: 2021-02-04T23:38:16,314 /usr/include/c++/8/bits/vector.tcc:159:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:38:16,314 vector<_Tp, _Alloc>:: 2021-02-04T23:38:16,314 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:38:16,416 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {chemfiles::Residue}; _Tp = chemfiles::Residue; _Alloc = std::allocator]’: 2021-02-04T23:38:16,416 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:38:16,416 vector<_Tp, _Alloc>:: 2021-02-04T23:38:16,416 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:38:16,893 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = chemfiles::Atom; _Alloc = std::allocator]’: 2021-02-04T23:38:16,893 /usr/include/c++/8/bits/vector.tcc:478:5: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:38:16,893 vector<_Tp, _Alloc>:: 2021-02-04T23:38:16,893 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:38:21,599 /usr/include/c++/8/bits/vector.tcc: In member function ‘void chemfiles::Topology::add_residue(chemfiles::Residue)’: 2021-02-04T23:38:21,599 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:38:21,600 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:38:21,600 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:38:21,713 In file included from /usr/include/c++/8/vector:64, 2021-02-04T23:38:21,713 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/Topology.cpp:5: 2021-02-04T23:38:21,714 /usr/include/c++/8/bits/stl_vector.h: In member function ‘void chemfiles::Topology::remove(size_t)’: 2021-02-04T23:38:21,714 /usr/include/c++/8/bits/stl_vector.h:1318:58: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:38:21,714 { return _M_erase(begin() + (__position - cbegin())); } 2021-02-04T23:38:21,714 ^ 2021-02-04T23:38:21,774 /usr/include/c++/8/bits/stl_vector.h: In member function ‘void chemfiles::Topology::resize(size_t)’: 2021-02-04T23:38:21,774 /usr/include/c++/8/bits/stl_vector.h:847:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:38:21,774 _M_fill_insert(end(), __new_size - size(), __x); 2021-02-04T23:38:21,774 ^~~~~~~~~~~~~~ 2021-02-04T23:38:21,998 [ 8%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/Trajectory.cpp.o 2021-02-04T23:38:35,871 [ 8%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/UnitCell.cpp.o 2021-02-04T23:38:44,343 [ 9%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/atom.cpp.o 2021-02-04T23:38:57,343 [ 9%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/cell.cpp.o 2021-02-04T23:39:08,853 [ 10%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/frame.cpp.o 2021-02-04T23:39:24,238 [ 10%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/misc.cpp.o 2021-02-04T23:39:34,361 [ 11%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/property.cpp.o 2021-02-04T23:39:44,586 [ 11%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/residue.cpp.o 2021-02-04T23:39:56,917 [ 11%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/selection.cpp.o 2021-02-04T23:40:07,018 [ 12%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/shared_allocator.cpp.o 2021-02-04T23:40:09,580 [ 12%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/topology.cpp.o 2021-02-04T23:40:24,492 [ 13%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/capi/trajectory.cpp.o 2021-02-04T23:40:37,073 [ 13%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/files/Bz2File.cpp.o 2021-02-04T23:40:46,782 [ 14%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/files/GzFile.cpp.o 2021-02-04T23:40:56,316 [ 14%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/files/MemoryBuffer.cpp.o 2021-02-04T23:41:04,454 [ 15%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/files/MemoryFile.cpp.o 2021-02-04T23:41:12,549 [ 15%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/files/NcFile.cpp.o 2021-02-04T23:41:21,225 [ 15%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/files/PlainFile.cpp.o 2021-02-04T23:41:30,644 [ 16%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/files/TNGFile.cpp.o 2021-02-04T23:41:38,845 [ 16%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/files/XDRFile.cpp.o 2021-02-04T23:41:47,102 [ 17%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/files/XzFile.cpp.o 2021-02-04T23:41:56,700 [ 17%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/AmberNetCDF.cpp.o 2021-02-04T23:42:06,440 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/AmberNetCDF.cpp: In member function ‘void chemfiles::AmberNetCDFFormat::read_array(chemfiles::span, const string&)’: 2021-02-04T23:42:06,440 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/AmberNetCDF.cpp:163:6: note: parameter passing for argument of type ‘chemfiles::span’ changed in GCC 7.1 2021-02-04T23:42:06,441 void AmberNetCDFFormat::read_array(span array, const std::string& name) { 2021-02-04T23:42:06,441 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:42:07,012 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/AmberNetCDF.cpp: In member function ‘virtual void chemfiles::AmberNetCDFFormat::read_step(size_t, chemfiles::Frame&)’: 2021-02-04T23:42:07,012 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/AmberNetCDF.cpp:110:15: note: parameter passing for argument of type ‘chemfiles::span’ changed in GCC 7.1 2021-02-04T23:42:07,012 read_array(frame.positions(), "coordinates"); 2021-02-04T23:42:07,012 ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-02-04T23:42:07,013 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/AmberNetCDF.cpp:113:19: note: parameter passing for argument of type ‘chemfiles::span’ changed in GCC 7.1 2021-02-04T23:42:07,013 read_array(*frame.velocities(), "velocities"); 2021-02-04T23:42:07,013 ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-02-04T23:42:07,340 [ 18%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/CIF.cpp.o 2021-02-04T23:42:20,465 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:42:20,465 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/CIF.cpp:11: 2021-02-04T23:42:20,465 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const gemmi::SmallStructure::Site&}; _Tp = gemmi::SmallStructure::Site; _Alloc = std::allocator]’: 2021-02-04T23:42:20,465 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:42:20,466 vector<_Tp, _Alloc>:: 2021-02-04T23:42:20,466 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:42:20,648 In file included from /usr/include/c++/8/vector:64, 2021-02-04T23:42:20,648 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/CIF.cpp:11: 2021-02-04T23:42:20,648 /usr/include/c++/8/bits/stl_vector.h: In member function ‘std::vector gemmi::SmallStructure::get_all_unit_cell_sites() const’: 2021-02-04T23:42:20,649 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:42:20,649 _M_realloc_insert(end(), __x); 2021-02-04T23:42:20,649 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:42:20,650 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:42:20,650 _M_realloc_insert(end(), __x); 2021-02-04T23:42:20,650 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:42:22,014 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:42:22,015 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/CIF.cpp:11: 2021-02-04T23:42:22,015 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const gemmi::SmallStructure::AtomType&}; _Tp = gemmi::SmallStructure::AtomType; _Alloc = std::allocator]’: 2021-02-04T23:42:22,015 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:42:22,015 vector<_Tp, _Alloc>:: 2021-02-04T23:42:22,015 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:42:22,238 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {gemmi::Mat33&, gemmi::Vec3&}; _Tp = gemmi::FTransform; _Alloc = std::allocator]’: 2021-02-04T23:42:22,238 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:42:22,307 /usr/include/c++/8/bits/vector.tcc: In member function ‘void gemmi::UnitCell::set_cell_images_from_spacegroup(const SG*) [with SG = gemmi::SpaceGroup]’: 2021-02-04T23:42:22,307 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:42:22,308 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:42:22,308 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:42:22,724 In file included from /usr/include/c++/8/vector:64, 2021-02-04T23:42:22,724 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/CIF.cpp:11: 2021-02-04T23:42:22,724 /usr/include/c++/8/bits/stl_vector.h: In function ‘gemmi::SmallStructure gemmi::make_small_structure_from_block(const gemmi::cif::Block&)’: 2021-02-04T23:42:22,725 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:42:22,725 _M_realloc_insert(end(), __x); 2021-02-04T23:42:22,725 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:42:22,729 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:42:22,729 _M_realloc_insert(end(), __x); 2021-02-04T23:42:22,729 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:42:23,594 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:42:23,595 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/CIF.cpp:11: 2021-02-04T23:42:23,595 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const gemmi::SmallStructure&}; _Tp = gemmi::SmallStructure; _Alloc = std::allocator]’: 2021-02-04T23:42:23,595 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:42:23,595 vector<_Tp, _Alloc>:: 2021-02-04T23:42:23,595 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:42:30,054 In file included from /usr/include/c++/8/vector:64, 2021-02-04T23:42:30,054 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/CIF.cpp:11: 2021-02-04T23:42:30,055 /usr/include/c++/8/bits/stl_vector.h: In member function ‘void chemfiles::CIFFormat::init_()’: 2021-02-04T23:42:30,055 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:42:30,055 _M_realloc_insert(end(), __x); 2021-02-04T23:42:30,055 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:42:30,435 [ 18%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/CML.cpp.o 2021-02-04T23:42:43,559 [ 19%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/CSSR.cpp.o 2021-02-04T23:42:55,469 [ 19%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/GRO.cpp.o 2021-02-04T23:43:07,729 [ 19%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/LAMMPSData.cpp.o 2021-02-04T23:43:16,907 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:43:16,907 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/LAMMPSData.cpp:11: 2021-02-04T23:43:16,908 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {std::pair, std::allocator >, double>}; _Tp = std::pair, double>; _Alloc = std::allocator, double> >]’: 2021-02-04T23:43:16,908 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector, double>, std::allocator, double> > >::iterator’ {aka ‘__gnu_cxx::__normal_iterator, double>*, std::vector, double>, std::allocator, double> > > >’} changed in GCC 7.1 2021-02-04T23:43:16,908 vector<_Tp, _Alloc>:: 2021-02-04T23:43:16,908 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:43:23,044 /usr/include/c++/8/bits/vector.tcc: In constructor ‘chemfiles::DataTypes::DataTypes(const chemfiles::Topology&)’: 2021-02-04T23:43:23,045 /usr/include/c++/8/bits/vector.tcc:343:2: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator, double>*, std::vector, double>, std::allocator, double> > > >’ changed in GCC 7.1 2021-02-04T23:43:23,045 _M_realloc_insert(begin() + __n, std::move(__v)); 2021-02-04T23:43:23,045 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:43:24,891 [ 20%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/MMTF.cpp.o 2021-02-04T23:43:41,946 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:43:41,946 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/MMTF.cpp:8: 2021-02-04T23:43:41,946 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {chemfiles::Residue&}; _Tp = chemfiles::Residue; _Alloc = std::allocator]’: 2021-02-04T23:43:41,947 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:43:41,947 vector<_Tp, _Alloc>:: 2021-02-04T23:43:41,947 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:43:42,779 /usr/include/c++/8/bits/vector.tcc: In member function ‘void chemfiles::MMTFFormat::apply_symmetry(chemfiles::Frame&)’: 2021-02-04T23:43:42,779 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:43:42,779 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:43:42,780 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:43:53,448 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/MMTF.cpp: In member function ‘void chemfiles::MMTFFormat::read_group(chemfiles::Frame&, size_t, chemfiles::Residue&, chemfiles::span)’: 2021-02-04T23:43:53,448 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/MMTF.cpp:294:6: note: parameter passing for argument of type ‘chemfiles::span’ changed in GCC 7.1 2021-02-04T23:43:53,449 void MMTFFormat::read_group(Frame& frame, size_t group_type, Residue& residue, span positions) { 2021-02-04T23:43:53,449 ^~~~~~~~~~ 2021-02-04T23:43:53,668 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/MMTF.cpp: In member function ‘void chemfiles::MMTFFormat::read_model(chemfiles::Frame&)’: 2021-02-04T23:43:53,668 /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/MMTF.cpp:235:23: note: parameter passing for argument of type ‘chemfiles::span’ changed in GCC 7.1 2021-02-04T23:43:53,668 read_group(frame, group_type, residue, positions); 2021-02-04T23:43:53,668 ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-02-04T23:43:54,930 [ 20%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/MOL2.cpp.o 2021-02-04T23:44:08,047 [ 21%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/Molfile.cpp.o 2021-02-04T23:44:14,793 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:44:14,794 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/Molfile.cpp:14: 2021-02-04T23:44:14,794 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {chemfiles::Frame}; _Tp = chemfiles::Frame; _Alloc = std::allocator]’: 2021-02-04T23:44:14,794 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:44:14,794 vector<_Tp, _Alloc>:: 2021-02-04T23:44:14,794 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:44:20,439 /usr/include/c++/8/bits/vector.tcc: In member function ‘void chemfiles::Molfile::read(chemfiles::Frame&) [with chemfiles::MolfileFormat F = (chemfiles::MolfileFormat)0]’: 2021-02-04T23:44:20,439 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:44:20,439 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:44:20,439 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:44:20,523 /usr/include/c++/8/bits/vector.tcc: In member function ‘void chemfiles::Molfile::read(chemfiles::Frame&) [with chemfiles::MolfileFormat F = (chemfiles::MolfileFormat)1]’: 2021-02-04T23:44:20,523 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:44:20,523 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:44:20,523 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:44:20,610 /usr/include/c++/8/bits/vector.tcc: In member function ‘void chemfiles::Molfile::read(chemfiles::Frame&) [with chemfiles::MolfileFormat F = (chemfiles::MolfileFormat)2]’: 2021-02-04T23:44:20,610 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:44:20,611 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:44:20,611 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:44:20,704 /usr/include/c++/8/bits/vector.tcc: In member function ‘void chemfiles::Molfile::read(chemfiles::Frame&) [with chemfiles::MolfileFormat F = (chemfiles::MolfileFormat)3]’: 2021-02-04T23:44:20,705 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:44:20,705 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:44:20,705 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:44:20,981 [ 21%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/PDB.cpp.o 2021-02-04T23:44:29,429 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:44:29,430 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/PDB.cpp:12: 2021-02-04T23:44:29,430 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {long long int}; _Tp = long long int; _Alloc = std::allocator]’: 2021-02-04T23:44:29,430 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:44:29,430 vector<_Tp, _Alloc>:: 2021-02-04T23:44:29,431 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:44:35,874 /usr/include/c++/8/bits/vector.tcc: In member function ‘virtual void chemfiles::PDBFormat::write_next(const chemfiles::Frame&)’: 2021-02-04T23:44:35,874 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:44:35,874 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:44:35,875 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:44:35,875 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:44:35,875 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:44:35,875 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:44:37,252 [ 22%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/SDF.cpp.o 2021-02-04T23:44:48,991 [ 22%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/SMI.cpp.o 2021-02-04T23:44:57,644 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:44:57,644 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/SMI.cpp:14: 2021-02-04T23:44:57,644 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {chemfiles::Residue}; _Tp = chemfiles::Residue; _Alloc = std::allocator]’: 2021-02-04T23:44:57,645 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:44:57,645 vector<_Tp, _Alloc>:: 2021-02-04T23:44:57,645 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:44:57,751 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {chemfiles::Residue}; _Tp = chemfiles::Residue; _Alloc = std::allocator]’: 2021-02-04T23:44:57,751 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:44:57,751 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:44:57,751 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:45:05,246 [ 23%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/TNG.cpp.o 2021-02-04T23:45:10,775 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:45:10,775 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/TNG.cpp:9: 2021-02-04T23:45:10,775 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long int&}; _Tp = long long int; _Alloc = std::allocator]’: 2021-02-04T23:45:10,776 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:45:10,776 vector<_Tp, _Alloc>:: 2021-02-04T23:45:10,776 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:45:15,423 In file included from /usr/include/c++/8/vector:64, 2021-02-04T23:45:15,423 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/TNG.cpp:9: 2021-02-04T23:45:15,423 /usr/include/c++/8/bits/stl_vector.h: In constructor ‘chemfiles::TNGFormat::TNGFormat(std::__cxx11::string, chemfiles::File::Mode, chemfiles::File::Compression)’: 2021-02-04T23:45:15,424 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:45:15,424 _M_realloc_insert(end(), __x); 2021-02-04T23:45:15,424 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:45:15,691 [ 23%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/TRR.cpp.o 2021-02-04T23:45:25,175 [ 24%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/Tinker.cpp.o 2021-02-04T23:45:37,312 [ 24%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/XTC.cpp.o 2021-02-04T23:45:46,546 [ 24%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/XYZ.cpp.o 2021-02-04T23:46:00,127 [ 25%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/formats/mmCIF.cpp.o 2021-02-04T23:46:07,267 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:46:07,268 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/mmCIF.cpp:8: 2021-02-04T23:46:07,268 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator]’: 2021-02-04T23:46:07,268 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:46:07,268 vector<_Tp, _Alloc>:: 2021-02-04T23:46:07,268 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:46:12,615 In file included from /usr/include/c++/8/vector:64, 2021-02-04T23:46:12,615 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/formats/mmCIF.cpp:8: 2021-02-04T23:46:12,616 /usr/include/c++/8/bits/stl_vector.h: In member function ‘void chemfiles::mmCIFFormat::init_()’: 2021-02-04T23:46:12,616 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:46:12,616 _M_realloc_insert(end(), __x); 2021-02-04T23:46:12,616 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:46:12,617 /usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:46:12,617 _M_realloc_insert(end(), __x); 2021-02-04T23:46:12,617 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:46:14,257 [ 25%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/parse.cpp.o 2021-02-04T23:46:24,258 [ 26%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/pdb_connectivity.cpp.o 2021-02-04T23:46:34,545 [ 26%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/periodic_table.cpp.o 2021-02-04T23:46:40,715 [ 27%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/selections/NumericValues.cpp.o 2021-02-04T23:46:48,496 [ 27%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/selections/expr.cpp.o 2021-02-04T23:47:01,125 [ 28%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/selections/lexer.cpp.o 2021-02-04T23:47:04,924 In file included from /usr/include/c++/8/vector:69, 2021-02-04T23:47:04,924 from /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/lib/src/selections/lexer.cpp:8: 2021-02-04T23:47:04,925 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {chemfiles::selections::Token}; _Tp = chemfiles::selections::Token; _Alloc = std::allocator]’: 2021-02-04T23:47:04,925 /usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type ‘std::vector::iterator’ {aka ‘__gnu_cxx::__normal_iterator >’} changed in GCC 7.1 2021-02-04T23:47:04,925 vector<_Tp, _Alloc>:: 2021-02-04T23:47:04,925 ^~~~~~~~~~~~~~~~~~~ 2021-02-04T23:47:04,974 /usr/include/c++/8/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {chemfiles::selections::Token}; _Tp = chemfiles::selections::Token; _Alloc = std::allocator]’: 2021-02-04T23:47:04,974 /usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-02-04T23:47:04,974 _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-02-04T23:47:04,974 ^~~~~~~~~~~~~~~~~ 2021-02-04T23:47:10,296 [ 28%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/selections/parser.cpp.o 2021-02-04T23:47:27,484 [ 28%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/utils.cpp.o 2021-02-04T23:47:29,523 [ 29%] Building CXX object lib/CMakeFiles/chemfiles_objects.dir/src/warnings.cpp.o 2021-02-04T23:47:31,544 [ 29%] Built target chemfiles_objects 2021-02-04T23:47:31,639 Scanning dependencies of target pugixml 2021-02-04T23:47:31,712 [ 29%] Building CXX object lib/external/CMakeFiles/pugixml.dir/pugixml/src/pugixml.cpp.o 2021-02-04T23:47:46,821 [ 29%] Built 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Installing: /tmp/pip-wheel-4qxf2498/chemfiles_cbe0669975d046b69c400d53afcd7a4c/_skbuild/linux-armv7l-3.7/cmake-install/chemfiles/libchemfiles.so 2021-02-04T23:50:09,600 copying chemfiles/__init__.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/__init__.py 2021-02-04T23:50:09,602 copying chemfiles/utils.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/utils.py 2021-02-04T23:50:09,604 copying chemfiles/topology.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/topology.py 2021-02-04T23:50:09,607 copying chemfiles/selection.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/selection.py 2021-02-04T23:50:09,609 copying chemfiles/misc.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/misc.py 2021-02-04T23:50:09,612 copying chemfiles/ffi.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/ffi.py 2021-02-04T23:50:09,615 copying chemfiles/property.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/property.py 2021-02-04T23:50:09,617 copying chemfiles/residue.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/residue.py 2021-02-04T23:50:09,620 copying chemfiles/cell.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/cell.py 2021-02-04T23:50:09,623 copying chemfiles/clib.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/clib.py 2021-02-04T23:50:09,625 copying chemfiles/frame.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/frame.py 2021-02-04T23:50:09,627 copying chemfiles/trajectory.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/trajectory.py 2021-02-04T23:50:09,630 copying chemfiles/atom.py -> _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/atom.py 2021-02-04T23:50:09,654 running bdist_wheel 2021-02-04T23:50:09,658 running build 2021-02-04T23:50:09,659 running build_py 2021-02-04T23:50:09,661 creating _skbuild/linux-armv7l-3.7/setuptools/lib 2021-02-04T23:50:09,662 creating _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,663 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/__init__.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,666 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/utils.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,668 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/topology.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,670 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/selection.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,673 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/misc.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,675 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/ffi.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,679 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/property.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,681 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/residue.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,683 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/cell.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,686 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/clib.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,688 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/frame.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,691 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/trajectory.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,695 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/atom.py -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,704 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/libchemfiles.so -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,801 copying _skbuild/linux-armv7l-3.7/cmake-install/chemfiles/libchemfiles.so.0.10.0 -> _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles 2021-02-04T23:50:09,905 copied 13 files 2021-02-04T23:50:09,906 running build_ext 2021-02-04T23:50:09,907 installing to _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel 2021-02-04T23:50:09,907 running install 2021-02-04T23:50:09,908 running install_lib 2021-02-04T23:50:09,909 creating _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l 2021-02-04T23:50:09,910 creating _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel 2021-02-04T23:50:09,912 creating _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,913 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/__init__.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,916 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/utils.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,918 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/topology.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,921 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/selection.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,923 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/misc.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,926 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/ffi.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,929 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/property.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,932 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/residue.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,934 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/cell.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,937 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/clib.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,940 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/frame.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,943 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/trajectory.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,945 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/atom.py -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:09,948 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/libchemfiles.so.0.10.0 -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:10,042 copying _skbuild/linux-armv7l-3.7/setuptools/lib/chemfiles/libchemfiles.so -> _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles 2021-02-04T23:50:10,141 copied 15 files 2021-02-04T23:50:10,141 running install_egg_info 2021-02-04T23:50:10,159 running egg_info 2021-02-04T23:50:10,159 creating chemfiles.egg-info 2021-02-04T23:50:10,160 writing chemfiles.egg-info/PKG-INFO 2021-02-04T23:50:10,165 writing dependency_links to chemfiles.egg-info/dependency_links.txt 2021-02-04T23:50:10,168 writing requirements to chemfiles.egg-info/requires.txt 2021-02-04T23:50:10,169 writing top-level names to chemfiles.egg-info/top_level.txt 2021-02-04T23:50:10,171 writing manifest file 'chemfiles.egg-info/SOURCES.txt' 2021-02-04T23:50:10,177 reading manifest file 'chemfiles.egg-info/SOURCES.txt' 2021-02-04T23:50:10,183 writing manifest file 'chemfiles.egg-info/SOURCES.txt' 2021-02-04T23:50:10,185 Copying chemfiles.egg-info to _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles-0.10.0-py3.7.egg-info 2021-02-04T23:50:10,207 running install_scripts 2021-02-04T23:50:10,273 copied 0 files 2021-02-04T23:50:10,299 adding license file "LICENSE" (matched pattern "LICENSE") 2021-02-04T23:50:10,305 creating _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel/chemfiles-0.10.0.dist-info/WHEEL 2021-02-04T23:50:10,308 creating '/tmp/pip-wheel-0qxjqkzw/chemfiles-0.10.0-py2.py3-none-linux_armv7l.whl' and adding '_skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel' to it 2021-02-04T23:50:10,312 adding 'chemfiles/__init__.py' 2021-02-04T23:50:10,315 adding 'chemfiles/atom.py' 2021-02-04T23:50:10,317 adding 'chemfiles/cell.py' 2021-02-04T23:50:10,318 adding 'chemfiles/clib.py' 2021-02-04T23:50:10,323 adding 'chemfiles/ffi.py' 2021-02-04T23:50:10,325 adding 'chemfiles/frame.py' 2021-02-04T23:50:11,097 adding 'chemfiles/libchemfiles.so' 2021-02-04T23:50:11,889 adding 'chemfiles/libchemfiles.so.0.10.0' 2021-02-04T23:50:11,917 adding 'chemfiles/misc.py' 2021-02-04T23:50:11,918 adding 'chemfiles/property.py' 2021-02-04T23:50:11,920 adding 'chemfiles/residue.py' 2021-02-04T23:50:11,921 adding 'chemfiles/selection.py' 2021-02-04T23:50:11,923 adding 'chemfiles/topology.py' 2021-02-04T23:50:11,925 adding 'chemfiles/trajectory.py' 2021-02-04T23:50:11,926 adding 'chemfiles/utils.py' 2021-02-04T23:50:11,929 adding 'chemfiles-0.10.0.dist-info/LICENSE' 2021-02-04T23:50:11,930 adding 'chemfiles-0.10.0.dist-info/METADATA' 2021-02-04T23:50:11,931 adding 'chemfiles-0.10.0.dist-info/WHEEL' 2021-02-04T23:50:11,933 adding 'chemfiles-0.10.0.dist-info/top_level.txt' 2021-02-04T23:50:11,934 adding 'chemfiles-0.10.0.dist-info/RECORD' 2021-02-04T23:50:11,991 removing _skbuild/linux-armv7l-3.7/setuptools/bdist.linux-armv7l/wheel 2021-02-04T23:50:12,098 Building wheel for chemfiles (setup.py): finished with status 'done' 2021-02-04T23:50:12,136 Created wheel for chemfiles: filename=chemfiles-0.10.0-py2.py3-none-linux_armv7l.whl size=3133017 sha256=b7f387f3badc60e5b20ff7be596a7000ff0ee1868a5f055f9a358e0ccd93b29d 2021-02-04T23:50:12,137 Stored in directory: /tmp/pip-ephem-wheel-cache-cx5kp0rv/wheels/d5/56/09/e73cf90f76833c22ec960ad3b9d705bfe0ce9bd8e89c4145eb 2021-02-04T23:50:12,148 Successfully built chemfiles 2021-02-04T23:50:12,288 Removed build tracker: '/tmp/pip-req-tracker-h28x7dvz'