2021-07-12T12:39:34,289 Created temporary directory: /tmp/pip-ephem-wheel-cache-qwkl_vso 2021-07-12T12:39:34,292 Created temporary directory: /tmp/pip-req-tracker-j99zdpow 2021-07-12T12:39:34,292 Initialized build tracking at /tmp/pip-req-tracker-j99zdpow 2021-07-12T12:39:34,292 Created build tracker: /tmp/pip-req-tracker-j99zdpow 2021-07-12T12:39:34,293 Entered build tracker: /tmp/pip-req-tracker-j99zdpow 2021-07-12T12:39:34,293 Created temporary directory: /tmp/pip-wheel-imtu34op 2021-07-12T12:39:34,322 1 location(s) to search for versions of molmod: 2021-07-12T12:39:34,322 * https://pypi.org/simple/molmod/ 2021-07-12T12:39:34,323 Fetching project page and analyzing links: https://pypi.org/simple/molmod/ 2021-07-12T12:39:34,323 Getting page https://pypi.org/simple/molmod/ 2021-07-12T12:39:34,325 Found index url https://pypi.org/simple 2021-07-12T12:39:34,420 Found link https://files.pythonhosted.org/packages/d8/b1/d7cf3645e70ddf22e3c93225a0f963debc4be6276148cbaed46e973d2064/molmod-1.2.1.tar.gz#sha256=9fc0372f99b2e00fe6fc4ae9954d31b19a767c40c97423c6ee4ada76f3dd9843 (from https://pypi.org/simple/molmod/), version: 1.2.1 2021-07-12T12:39:34,421 Found link https://files.pythonhosted.org/packages/03/2d/4457e38b0e8245af76b37000ccee228d12b029023b0711954bc495494fd0/molmod-1.3.0.tar.gz#sha256=1ed88d05ced28f998b1644f1d400853d30faba8eb06ebb818b22704f2f3cad80 (from https://pypi.org/simple/molmod/), version: 1.3.0 2021-07-12T12:39:34,421 Found link https://files.pythonhosted.org/packages/2c/3d/dd9c32cebc2ee7f29a16a778d775ce074c7c1c7b083f83b0dd63e350927e/molmod-1.3.1.tar.gz#sha256=eee1b0035ef238a9086f71c07bc27563f1481c99ecb172118f41c1f024d6c9fb (from https://pypi.org/simple/molmod/), version: 1.3.1 2021-07-12T12:39:34,421 Found link https://files.pythonhosted.org/packages/79/fd/9f4282bf37b3ee38242dc4c6883b0923d450331f491ab5942702b791e84a/molmod-1.3.2.tar.gz#sha256=0af0b797cf628458e1f5c0334cf7f7f1c2ee6a3edbba87ca0fbde39e9b444ec7 (from https://pypi.org/simple/molmod/), version: 1.3.2 2021-07-12T12:39:34,421 Found link https://files.pythonhosted.org/packages/8c/b1/a243fe8d060c2ccb643e70504b0a727fe4a3420b2c790e3718865b6ffc8c/molmod-1.3.3.tar.gz#sha256=3bcdfb73faf4c3f180e68f7c8efe7fdd58e0e8ce8e8f3883bc4dfb5a260f63db (from https://pypi.org/simple/molmod/), version: 1.3.3 2021-07-12T12:39:34,422 Found link https://files.pythonhosted.org/packages/0d/d2/5df39f43e2f91f5a13376ef2c34aa30de3fd9be11fb6e9e5c18a9e15c9f8/molmod-1.3.4.tar.gz#sha256=c39fc75fa76a6c1c14b0fb41e7e76802b3dad5d695ae62b2afa0ebcc36b37cb4 (from https://pypi.org/simple/molmod/), version: 1.3.4 2021-07-12T12:39:34,422 Found link https://files.pythonhosted.org/packages/5f/dc/39d3239d5d8d54bfc49378235b7c20f010ba98f3c4552b841617884d3646/molmod-1.3.5.tar.gz#sha256=5360f2afab0c09eb6a1124b4deec63966f8aaa5c90176890a9980e242fa4c53c (from https://pypi.org/simple/molmod/), version: 1.3.5 2021-07-12T12:39:34,422 Found link https://files.pythonhosted.org/packages/da/f3/41c1c6830eae57a2b96b0d0d9d1853de31119ab7db44136ef69d3690f21a/molmod-1.4.0.tar.gz#sha256=4dbb214faa90e7e08c9dc54d9b5595c2aa6e2a946c1dcf7defb13e1f9b6fe914 (from https://pypi.org/simple/molmod/), version: 1.4.0 2021-07-12T12:39:34,422 Found link https://files.pythonhosted.org/packages/03/bc/ca927944923a5de71f19c2390ab0b5f99f5e4723a1661c5917ab2cfe9919/molmod-1.4.1.tar.gz#sha256=51992a9e46259293f1851d50a77ddef6ed4d4522826b5452eebd2166f0ffd1d7 (from https://pypi.org/simple/molmod/), version: 1.4.1 2021-07-12T12:39:34,423 Found link https://files.pythonhosted.org/packages/8a/b8/0edf642e6a0bcb411523f5a25f87f1db08b590a073cb3e21dc332407a663/molmod-1.4.2.tar.gz#sha256=c5a533ccdd13e7ffa7ad7c1dec6d49e6279b27b79584a7bd27056b16711e74cd (from https://pypi.org/simple/molmod/), version: 1.4.2 2021-07-12T12:39:34,423 Found link https://files.pythonhosted.org/packages/0b/85/bb75ec4376a612f3e5300712c5e1abab63894ec1bbf7be249a42a90b2c66/molmod-1.4.3.tar.gz#sha256=a93e694e07e36fe5881dc19b8d004c5c4e0514bc5b1240de04497c6aaa99ecf6 (from https://pypi.org/simple/molmod/), version: 1.4.3 2021-07-12T12:39:34,423 Found link https://files.pythonhosted.org/packages/89/80/6a23f730196ed3ffb478dc3f9ea047913c99091d301cc82f4820ecee095d/molmod-1.4.4.tar.gz#sha256=ca0e461fe42fc8b7e0b481cda33aac247d86b5fb817b5076e20abc90dd577797 (from https://pypi.org/simple/molmod/), version: 1.4.4 2021-07-12T12:39:34,424 Found link https://files.pythonhosted.org/packages/98/08/f84c490fe1a2d0e3ff55dddd1079eeb77b2742ed3c8ad49b392444031d2f/molmod-1.4.5.tar.gz#sha256=e94520945c066c26494f20bbf7f85711458acc56b22da7b0da9e48b5b1a2ec35 (from https://pypi.org/simple/molmod/), version: 1.4.5 2021-07-12T12:39:34,424 Found link https://files.pythonhosted.org/packages/e0/ce/a5df4a468f492baf8cce68318fd74eac947ff7f0947afc5bb14ac85fdccb/molmod-1.4.6.tar.gz#sha256=3147eec3a57da164415359188a02385b9285486e70e98f9fc8e2d03037a8ffe3 (from https://pypi.org/simple/molmod/), version: 1.4.6 2021-07-12T12:39:34,424 Found link https://files.pythonhosted.org/packages/31/e6/4d8fe5e1fdf2077fdcee631d56aaaf8efaa331d823c4edc870fb30d701d8/molmod-1.4.7.tar.gz#sha256=bd52ddbfafd8ce88351ba8473580dee760cd1df25f90b75396fc75815db18e66 (from https://pypi.org/simple/molmod/), version: 1.4.7 2021-07-12T12:39:34,424 Found link https://files.pythonhosted.org/packages/23/77/814f9302b6df72ef3aa6944edd8b9b0f5e983aed07027828a4e0666c4ef3/molmod-1.4.8.tar.gz#sha256=08cc526080aee04659ff5d08f8d26ab6973afef62becb9ae21cb11bb5b632177 (from https://pypi.org/simple/molmod/), version: 1.4.8 2021-07-12T12:39:34,425 Skipping link: not a file: https://pypi.org/simple/molmod/ 2021-07-12T12:39:34,445 Given no hashes to check 1 links for project 'molmod': discarding no candidates 2021-07-12T12:39:34,465 Collecting molmod==1.3.0 2021-07-12T12:39:34,470 Created temporary directory: /tmp/pip-unpack-9stxvje3 2021-07-12T12:39:35,532 Downloading molmod-1.3.0.tar.gz (1.7 MB) 2021-07-12T12:39:36,427 Added molmod==1.3.0 from https://files.pythonhosted.org/packages/03/2d/4457e38b0e8245af76b37000ccee228d12b029023b0711954bc495494fd0/molmod-1.3.0.tar.gz#sha256=1ed88d05ced28f998b1644f1d400853d30faba8eb06ebb818b22704f2f3cad80 to build tracker '/tmp/pip-req-tracker-j99zdpow' 2021-07-12T12:39:36,428 Running setup.py (path:/tmp/pip-wheel-imtu34op/molmod_d8a3b52627d2451ebcfee486937eb739/setup.py) egg_info for package molmod 2021-07-12T12:39:36,429 Created temporary directory: /tmp/pip-pip-egg-info-_lr8foau 2021-07-12T12:39:36,429 Running command python setup.py egg_info 2021-07-12T12:39:37,833 fatal: not a git repository (or any of the parent directories): .git 2021-07-12T12:39:38,012 running egg_info 2021-07-12T12:39:38,015 creating /tmp/pip-pip-egg-info-_lr8foau/molmod.egg-info 2021-07-12T12:39:38,016 writing /tmp/pip-pip-egg-info-_lr8foau/molmod.egg-info/PKG-INFO 2021-07-12T12:39:38,018 writing dependency_links to /tmp/pip-pip-egg-info-_lr8foau/molmod.egg-info/dependency_links.txt 2021-07-12T12:39:38,020 writing requirements to /tmp/pip-pip-egg-info-_lr8foau/molmod.egg-info/requires.txt 2021-07-12T12:39:38,021 writing top-level names to /tmp/pip-pip-egg-info-_lr8foau/molmod.egg-info/top_level.txt 2021-07-12T12:39:38,022 writing manifest file '/tmp/pip-pip-egg-info-_lr8foau/molmod.egg-info/SOURCES.txt' 2021-07-12T12:39:38,183 reading manifest file '/tmp/pip-pip-egg-info-_lr8foau/molmod.egg-info/SOURCES.txt' 2021-07-12T12:39:38,185 reading manifest template 'MANIFEST.in' 2021-07-12T12:39:38,529 warning: no previously-included files matching 'ext.c' found under directory 'molmod' 2021-07-12T12:39:38,587 adding license file 'LICENSE.txt' 2021-07-12T12:39:38,597 writing manifest file '/tmp/pip-pip-egg-info-_lr8foau/molmod.egg-info/SOURCES.txt' 2021-07-12T12:39:38,716 Source in /tmp/pip-wheel-imtu34op/molmod_d8a3b52627d2451ebcfee486937eb739 has version 1.3.0, which satisfies requirement molmod==1.3.0 from https://files.pythonhosted.org/packages/03/2d/4457e38b0e8245af76b37000ccee228d12b029023b0711954bc495494fd0/molmod-1.3.0.tar.gz#sha256=1ed88d05ced28f998b1644f1d400853d30faba8eb06ebb818b22704f2f3cad80 2021-07-12T12:39:38,717 Removed molmod==1.3.0 from https://files.pythonhosted.org/packages/03/2d/4457e38b0e8245af76b37000ccee228d12b029023b0711954bc495494fd0/molmod-1.3.0.tar.gz#sha256=1ed88d05ced28f998b1644f1d400853d30faba8eb06ebb818b22704f2f3cad80 from build tracker '/tmp/pip-req-tracker-j99zdpow' 2021-07-12T12:39:38,721 Created temporary directory: /tmp/pip-unpack-jbvsno4x 2021-07-12T12:39:38,721 Building wheels for collected packages: molmod 2021-07-12T12:39:38,725 Created temporary directory: /tmp/pip-wheel-grmt5bhi 2021-07-12T12:39:38,726 Building wheel for molmod (setup.py): started 2021-07-12T12:39:38,726 Destination directory: /tmp/pip-wheel-grmt5bhi 2021-07-12T12:39:38,726 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-imtu34op/molmod_d8a3b52627d2451ebcfee486937eb739/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-imtu34op/molmod_d8a3b52627d2451ebcfee486937eb739/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-grmt5bhi 2021-07-12T12:39:40,064 fatal: not a git repository (or any of the parent directories): .git 2021-07-12T12:39:40,260 running bdist_wheel 2021-07-12T12:39:40,267 running build 2021-07-12T12:39:40,267 running build_py 2021-07-12T12:39:40,410 creating build 2021-07-12T12:39:40,410 creating build/lib.linux-armv7l-3.9 2021-07-12T12:39:40,411 creating build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,413 copying molmod/molecules.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,415 copying molmod/similarity.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,417 copying molmod/minimizer.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,421 copying molmod/vectors.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,423 copying molmod/periodic.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,425 copying molmod/units.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,427 copying molmod/zmatrix.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,429 copying molmod/transformations.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,431 copying molmod/toyff.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,434 copying molmod/__init__.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,436 copying molmod/utils.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,438 copying molmod/isotopes.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,440 copying molmod/quaternions.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,442 copying molmod/clusters.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,444 copying molmod/binning.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,446 copying molmod/pairff.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,449 copying molmod/graphs.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,454 copying molmod/log.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,457 copying molmod/ic.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,460 copying molmod/molecular_graphs.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,462 copying molmod/randomize.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,465 copying molmod/unit_cells.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,468 copying molmod/symmetry.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,470 copying molmod/constants.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,471 copying molmod/bonds.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,473 copying molmod/version.py -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:40,476 creating build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,477 copying molmod/test/test_similarity.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,479 copying molmod/test/test_unit_cells.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,482 copying molmod/test/test_molecules.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,484 copying molmod/test/test_zmatrix.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,486 copying molmod/test/test_log.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,488 copying molmod/test/__init__.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,490 copying molmod/test/test_ic.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,492 copying molmod/test/test_graphs.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,495 copying molmod/test/test_clusters.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,497 copying molmod/test/test_utils.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,499 copying molmod/test/test_examples.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,501 copying molmod/test/test_symmetry.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,502 copying molmod/test/test_quaternions.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,504 copying molmod/test/test_randomize.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,506 copying molmod/test/common.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,508 copying molmod/test/test_units.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,510 copying molmod/test/test_transformations.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,513 copying molmod/test/test_minimizer.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,515 copying molmod/test/test_toyff.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,517 copying molmod/test/test_molecular_graphs.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,520 copying molmod/test/test_vectors.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,522 copying molmod/test/test_data.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,524 copying molmod/test/test_binning.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,526 copying molmod/test/test_pairff.py -> build/lib.linux-armv7l-3.9/molmod/test 2021-07-12T12:39:40,530 creating build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,531 copying molmod/io/cpmd.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,533 copying molmod/io/number_state.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,535 copying molmod/io/cube.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,538 copying molmod/io/cml.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,540 copying molmod/io/atrj.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,542 copying molmod/io/xyz.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,544 copying molmod/io/cp2k.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,547 copying molmod/io/psf.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,549 copying molmod/io/gamess.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,552 copying molmod/io/pdb.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,554 copying molmod/io/__init__.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,557 copying molmod/io/fchk.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,559 copying molmod/io/common.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,561 copying molmod/io/crystal.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,563 copying molmod/io/dlpoly.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,566 copying molmod/io/sdf.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,568 copying molmod/io/gromacs.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,570 copying molmod/io/lammps.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,572 copying molmod/io/chk.py -> build/lib.linux-armv7l-3.9/molmod/io 2021-07-12T12:39:40,576 creating build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,577 copying molmod/io/test/test_gamess.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,579 copying molmod/io/test/test_cml.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,580 copying molmod/io/test/test_psf.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,582 copying molmod/io/test/test_sdf.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,584 copying molmod/io/test/test_gromacs.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,586 copying molmod/io/test/test_lammps.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,588 copying molmod/io/test/test_pdb.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,590 copying molmod/io/test/test_xyz.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,592 copying molmod/io/test/__init__.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,593 copying molmod/io/test/test_dlpoly.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,596 copying molmod/io/test/test_fchk.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,597 copying molmod/io/test/test_cp2k.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,600 copying molmod/io/test/test_cpmd.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,601 copying molmod/io/test/test_cube.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,603 copying molmod/io/test/test_atrj.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,605 copying molmod/io/test/test_number_state.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,607 copying molmod/io/test/test_crystal.py -> build/lib.linux-armv7l-3.9/molmod/io/test 2021-07-12T12:39:40,609 running egg_info 2021-07-12T12:39:40,624 writing molmod.egg-info/PKG-INFO 2021-07-12T12:39:40,626 writing dependency_links to molmod.egg-info/dependency_links.txt 2021-07-12T12:39:40,627 writing requirements to molmod.egg-info/requires.txt 2021-07-12T12:39:40,629 writing top-level names to molmod.egg-info/top_level.txt 2021-07-12T12:39:40,641 reading manifest file 'molmod.egg-info/SOURCES.txt' 2021-07-12T12:39:40,647 reading manifest template 'MANIFEST.in' 2021-07-12T12:39:40,989 warning: no previously-included files matching 'ext.c' found under directory 'molmod' 2021-07-12T12:39:41,043 adding license file 'LICENSE.txt' 2021-07-12T12:39:41,058 writing manifest file 'molmod.egg-info/SOURCES.txt' 2021-07-12T12:39:41,073 copying molmod/common.c -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,075 copying molmod/common.h -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,077 copying molmod/ext.pyx -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,080 copying molmod/ff.c -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,082 copying molmod/ff.h -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,084 copying molmod/ff.pxd -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,087 copying molmod/graphs.c -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,089 copying molmod/graphs.h -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,091 copying molmod/graphs.pxd -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,093 copying molmod/molecules.c -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,095 copying molmod/molecules.h -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,097 copying molmod/molecules.pxd -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,100 copying molmod/similarity.c -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,102 copying molmod/similarity.h -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,104 copying molmod/similarity.pxd -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,107 copying molmod/unit_cells.c -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,110 copying molmod/unit_cells.h -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,113 copying molmod/unit_cells.pxd -> build/lib.linux-armv7l-3.9/molmod 2021-07-12T12:39:41,115 creating build/lib.linux-armv7l-3.9/molmod/data 2021-07-12T12:39:41,116 copying molmod/data/bonds.csv -> build/lib.linux-armv7l-3.9/molmod/data 2021-07-12T12:39:41,118 copying molmod/data/bonds.ods -> build/lib.linux-armv7l-3.9/molmod/data 2021-07-12T12:39:41,121 copying molmod/data/mass.mas03 -> build/lib.linux-armv7l-3.9/molmod/data 2021-07-12T12:39:41,133 copying molmod/data/nubtab03.asc -> build/lib.linux-armv7l-3.9/molmod/data 2021-07-12T12:39:41,150 copying molmod/data/periodic.csv -> build/lib.linux-armv7l-3.9/molmod/data 2021-07-12T12:39:41,153 copying molmod/data/periodic.ods -> build/lib.linux-armv7l-3.9/molmod/data 2021-07-12T12:39:41,157 copying molmod/data/toyff_angles.txt -> build/lib.linux-armv7l-3.9/molmod/data 2021-07-12T12:39:41,161 creating build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,162 copying molmod/data/test/1LJL_Cys10.cml -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,166 copying molmod/data/test/1TOH.b3lyp.fchk -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,181 copying molmod/data/test/1TOH.b3lyp.trim.fchk -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,184 copying molmod/data/test/5ringOH.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,187 copying molmod/data/test/CID_22898828.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,190 copying molmod/data/test/PCGamess_PUNCH -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,213 copying molmod/data/test/SID_31646545.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,216 copying molmod/data/test/SID_31646548.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,219 copying molmod/data/test/SID_40363570.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,222 copying molmod/data/test/SID_40363571.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,225 copying molmod/data/test/SID_41893278.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,228 copying molmod/data/test/SID_41893280.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,231 copying molmod/data/test/SID_54258192.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,234 copying molmod/data/test/SID_55127927.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,236 copying molmod/data/test/SID_55488598.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,239 copying molmod/data/test/SID_56274343.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,241 copying molmod/data/test/TRAJECTORY_H2_CPMD -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,244 copying molmod/data/test/alanine.cube -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,248 copying molmod/data/test/argon.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,250 copying molmod/data/test/bartek.atrj -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,262 copying molmod/data/test/benzene.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,264 copying molmod/data/test/butane.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,267 copying molmod/data/test/caplayer.cml -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,270 copying molmod/data/test/crystal_api.out -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,284 copying molmod/data/test/cyclopentane.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,288 copying molmod/data/test/dinitrogen.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,290 copying molmod/data/test/dlpoly_HISTORY -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,293 copying molmod/data/test/dlpoly_HISTORY_an2 -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,295 copying molmod/data/test/dlpoly_OUTPUT -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,300 copying molmod/data/test/dopamine.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,302 copying molmod/data/test/ethane.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,305 copying molmod/data/test/ethene.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,308 copying molmod/data/test/ethene_ethyl_trans.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,310 copying molmod/data/test/example.sdf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,313 copying molmod/data/test/formol.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,316 copying molmod/data/test/funny.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,318 copying molmod/data/test/h3zrosihohosioh3.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,321 copying molmod/data/test/il2.pdb -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,329 copying molmod/data/test/lammps_dump.txt -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,332 copying molmod/data/test/lau.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,334 copying molmod/data/test/octane.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,336 copying molmod/data/test/oh3siozroh3.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,339 copying molmod/data/test/opt_5ring10T.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,341 copying molmod/data/test/opt_5ring12T.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,344 copying molmod/data/test/opt_6_6ring.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,347 copying molmod/data/test/opt_6ring.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,349 copying molmod/data/test/osih2osihosih2osih2ozrh2oh.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,352 copying molmod/data/test/pentapeptide.psf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,355 copying molmod/data/test/precursor.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,358 copying molmod/data/test/probes.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,361 copying molmod/data/test/tea.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,363 copying molmod/data/test/tetra.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,366 copying molmod/data/test/thf.psf -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,373 copying molmod/data/test/thf.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,376 copying molmod/data/test/thf_64.cell -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,379 copying molmod/data/test/thf_single.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,381 copying molmod/data/test/tpa.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,384 copying molmod/data/test/water.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,386 copying molmod/data/test/water2.gro -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,389 copying molmod/data/test/water_md.inp -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,391 copying molmod/data/test/zr4o8-3.xyz -> build/lib.linux-armv7l-3.9/molmod/data/test 2021-07-12T12:39:41,393 creating build/lib.linux-armv7l-3.9/molmod/examples 2021-07-12T12:39:41,394 creating build/lib.linux-armv7l-3.9/molmod/examples/000_units 2021-07-12T12:39:41,395 copying molmod/examples/000_units/a_reaction.py -> build/lib.linux-armv7l-3.9/molmod/examples/000_units 2021-07-12T12:39:41,397 copying molmod/examples/000_units/b_chbond.py -> build/lib.linux-armv7l-3.9/molmod/examples/000_units 2021-07-12T12:39:41,400 copying molmod/examples/000_units/c_h2rot.py -> build/lib.linux-armv7l-3.9/molmod/examples/000_units 2021-07-12T12:39:41,402 creating build/lib.linux-armv7l-3.9/molmod/examples/001_molecules 2021-07-12T12:39:41,403 copying molmod/examples/001_molecules/a_convert.py -> build/lib.linux-armv7l-3.9/molmod/examples/001_molecules 2021-07-12T12:39:41,406 copying molmod/examples/001_molecules/b_com.py -> build/lib.linux-armv7l-3.9/molmod/examples/001_molecules 2021-07-12T12:39:41,408 copying molmod/examples/001_molecules/c_carbon.py -> build/lib.linux-armv7l-3.9/molmod/examples/001_molecules 2021-07-12T12:39:41,410 copying molmod/examples/001_molecules/d_size.py -> build/lib.linux-armv7l-3.9/molmod/examples/001_molecules 2021-07-12T12:39:41,412 copying molmod/examples/001_molecules/e_shape.py -> build/lib.linux-armv7l-3.9/molmod/examples/001_molecules 2021-07-12T12:39:41,415 copying molmod/examples/001_molecules/ibuprofen.sdf -> build/lib.linux-armv7l-3.9/molmod/examples/001_molecules 2021-07-12T12:39:41,418 creating build/lib.linux-armv7l-3.9/molmod/examples/002_graphs 2021-07-12T12:39:41,418 copying molmod/examples/002_graphs/a_graphs.py -> build/lib.linux-armv7l-3.9/molmod/examples/002_graphs 2021-07-12T12:39:41,421 copying molmod/examples/002_graphs/b_neighbors.py -> build/lib.linux-armv7l-3.9/molmod/examples/002_graphs 2021-07-12T12:39:41,423 copying molmod/examples/002_graphs/c_distances.py -> build/lib.linux-armv7l-3.9/molmod/examples/002_graphs 2021-07-12T12:39:41,426 copying molmod/examples/002_graphs/caffeine.xyz -> build/lib.linux-armv7l-3.9/molmod/examples/002_graphs 2021-07-12T12:39:41,428 copying molmod/examples/002_graphs/d_symmetries.py -> build/lib.linux-armv7l-3.9/molmod/examples/002_graphs 2021-07-12T12:39:41,431 copying molmod/examples/002_graphs/ethanol.xyz -> build/lib.linux-armv7l-3.9/molmod/examples/002_graphs 2021-07-12T12:39:41,433 creating build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates 2021-07-12T12:39:41,434 copying molmod/examples/003_internal_coordinates/a_bond_length.py -> build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates 2021-07-12T12:39:41,436 copying molmod/examples/003_internal_coordinates/b_bending_angles.py -> build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates 2021-07-12T12:39:41,439 copying molmod/examples/003_internal_coordinates/c_ff_hessian.py -> build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates 2021-07-12T12:39:41,441 copying molmod/examples/003_internal_coordinates/d_dft_hessian.py -> build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates 2021-07-12T12:39:41,444 copying molmod/examples/003_internal_coordinates/dopamine.fchk -> build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates 2021-07-12T12:39:41,448 copying molmod/examples/003_internal_coordinates/dopamine.xyz -> build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates 2021-07-12T12:39:41,451 copying molmod/examples/003_internal_coordinates/propane.xyz -> build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates 2021-07-12T12:39:41,453 creating build/lib.linux-armv7l-3.9/molmod/examples/004_patterns 2021-07-12T12:39:41,454 copying molmod/examples/004_patterns/a_propane_types.py -> build/lib.linux-armv7l-3.9/molmod/examples/004_patterns 2021-07-12T12:39:41,457 copying molmod/examples/004_patterns/b_dopamine_types.py -> build/lib.linux-armv7l-3.9/molmod/examples/004_patterns 2021-07-12T12:39:41,459 copying molmod/examples/004_patterns/dopamine.xyz -> build/lib.linux-armv7l-3.9/molmod/examples/004_patterns 2021-07-12T12:39:41,461 copying molmod/examples/004_patterns/mfi_fragment.xyz -> build/lib.linux-armv7l-3.9/molmod/examples/004_patterns 2021-07-12T12:39:41,464 copying molmod/examples/004_patterns/propane.xyz -> build/lib.linux-armv7l-3.9/molmod/examples/004_patterns 2021-07-12T12:39:41,474 running build_ext 2021-07-12T12:39:41,480 cythoning molmod/ext.pyx to molmod/ext.c 2021-07-12T12:39:42,110 /usr/local/lib/python3.9/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-imtu34op/molmod_d8a3b52627d2451ebcfee486937eb739/molmod/ext.pyx 2021-07-12T12:39:42,111 tree = Parsing.p_module(s, pxd, full_module_name) 2021-07-12T12:39:49,497 building 'molmod.ext' extension 2021-07-12T12:39:49,498 creating build/temp.linux-armv7l-3.9 2021-07-12T12:39:49,498 creating build/temp.linux-armv7l-3.9/molmod 2021-07-12T12:39:49,499 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c molmod/common.c -o build/temp.linux-armv7l-3.9/molmod/common.o 2021-07-12T12:39:49,741 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c molmod/ext.c -o build/temp.linux-armv7l-3.9/molmod/ext.o 2021-07-12T12:39:50,139 In file included from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1969, 2021-07-12T12:39:50,139 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2021-07-12T12:39:50,139 from /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2021-07-12T12:39:50,139 from molmod/ext.c:612: 2021-07-12T12:39:50,140 /usr/local/lib/python3.9/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2021-07-12T12:39:50,140 17 | #warning "Using deprecated NumPy API, disable it with " \ 2021-07-12T12:39:50,140 | ^~~~~~~ 2021-07-12T12:39:50,219 molmod/ext.c: In function ‘__pyx_pf_6molmod_3ext_ff_dm_quad’: 2021-07-12T12:39:50,220 molmod/ext.c:2923:40: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,221 2923 | __pyx_t_3 = (((__pyx_v_dm0.shape[0]) != __pyx_v_natom) != 0); 2021-07-12T12:39:50,221 | ^~ 2021-07-12T12:39:50,222 molmod/ext.c:2929:40: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,222 2929 | __pyx_t_3 = (((__pyx_v_dm0.shape[1]) != __pyx_v_natom) != 0); 2021-07-12T12:39:50,222 | ^~ 2021-07-12T12:39:50,223 molmod/ext.c:2963:40: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,224 2963 | __pyx_t_3 = (((__pyx_v_dmk.shape[0]) != __pyx_v_natom) != 0); 2021-07-12T12:39:50,224 | ^~ 2021-07-12T12:39:50,225 molmod/ext.c:2969:40: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,225 2969 | __pyx_t_3 = (((__pyx_v_dmk.shape[1]) != __pyx_v_natom) != 0); 2021-07-12T12:39:50,225 | ^~ 2021-07-12T12:39:50,262 molmod/ext.c: In function ‘__pyx_pf_6molmod_3ext_2ff_dm_reci’: 2021-07-12T12:39:50,263 molmod/ext.c:3679:42: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,264 3679 | __pyx_t_1 = (((__pyx_v_radii.shape[0]) != __pyx_v_natom) != 0); 2021-07-12T12:39:50,264 | ^~ 2021-07-12T12:39:50,266 molmod/ext.c:3711:40: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,266 3711 | __pyx_t_3 = (((__pyx_v_dm0.shape[0]) != __pyx_v_natom) != 0); 2021-07-12T12:39:50,266 | ^~ 2021-07-12T12:39:50,267 molmod/ext.c:3717:40: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,267 3717 | __pyx_t_3 = (((__pyx_v_dm0.shape[1]) != __pyx_v_natom) != 0); 2021-07-12T12:39:50,268 | ^~ 2021-07-12T12:39:50,313 molmod/ext.c: In function ‘__pyx_pf_6molmod_3ext_4ff_bond_quad’: 2021-07-12T12:39:50,315 molmod/ext.c:4583:44: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,315 4583 | __pyx_t_1 = (((__pyx_v_lengths.shape[0]) != __pyx_v_npair) != 0); 2021-07-12T12:39:50,315 | ^~ 2021-07-12T12:39:50,362 molmod/ext.c: In function ‘__pyx_pf_6molmod_3ext_6ff_bond_hyper’: 2021-07-12T12:39:50,365 molmod/ext.c:5327:44: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,365 5327 | __pyx_t_1 = (((__pyx_v_lengths.shape[0]) != __pyx_v_npair) != 0); 2021-07-12T12:39:50,365 | ^~ 2021-07-12T12:39:50,413 molmod/ext.c: In function ‘__pyx_pf_6molmod_3ext_8graphs_floyd_warshall’: 2021-07-12T12:39:50,416 molmod/ext.c:5858:39: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,416 5858 | __pyx_t_1 = (((__pyx_v_dm.shape[1]) != __pyx_v_nvertex) != 0); 2021-07-12T12:39:50,416 | ^~ 2021-07-12T12:39:50,475 molmod/ext.c: In function ‘__pyx_pf_6molmod_3ext_12similarity_table_labels’: 2021-07-12T12:39:50,479 molmod/ext.c:6700:39: warning: passing argument 2 of ‘similarity_table_labels’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2021-07-12T12:39:50,479 6700 | similarity_table_labels(__pyx_v_n, (&(*((long const *) ( /* dim=0 */ ((char *) (((long const *) __pyx_v_labels.data) + __pyx_t_6)) )))), (&(*__Pyx_BufPtrStrided2d(long *, __pyx_pybuffernd_labels_table.rcbuffer->pybuffer.buf, __pyx_t_8, __pyx_pybuffernd_labels_table.diminfo[0].strides, __pyx_t_9, __pyx_pybuffernd_labels_table.diminfo[1].strides)))); 2021-07-12T12:39:50,479 | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-12T12:39:50,479 In file included from molmod/ext.c:623: 2021-07-12T12:39:50,479 molmod/similarity.h:30:46: note: expected ‘long int *’ but argument is of type ‘const long int *’ 2021-07-12T12:39:50,479 30 | void similarity_table_labels(size_t n, long *labels, long* labels_table); 2021-07-12T12:39:50,480 | ~~~~~~^~~~~~ 2021-07-12T12:39:50,481 molmod/ext.c: In function ‘__pyx_pf_6molmod_3ext_14similarity_table_distances’: 2021-07-12T12:39:50,484 molmod/ext.c:6831:52: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,484 6831 | __pyx_t_1 = (((__pyx_v_distance_matrix.shape[1]) != __pyx_v_n) != 0); 2021-07-12T12:39:50,484 | ^~ 2021-07-12T12:39:50,499 molmod/ext.c:6929:42: warning: passing argument 2 of ‘similarity_table_distances’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2021-07-12T12:39:50,499 6929 | similarity_table_distances(__pyx_v_n, (&(*((double const *) ( /* dim=1 */ ((char *) (((double const *) ( /* dim=0 */ (__pyx_v_distance_matrix.data + __pyx_t_7 * __pyx_v_distance_matrix.strides[0]) )) + __pyx_t_8)) )))), (&(*__Pyx_BufPtrStrided1d(double *, __pyx_pybuffernd_distances_table.rcbuffer->pybuffer.buf, __pyx_t_10, __pyx_pybuffernd_distances_table.diminfo[0].strides)))); 2021-07-12T12:39:50,499 | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-12T12:39:50,500 In file included from molmod/ext.c:623: 2021-07-12T12:39:50,500 molmod/similarity.h:31:51: note: expected ‘double *’ but argument is of type ‘const double *’ 2021-07-12T12:39:50,500 31 | void similarity_table_distances(size_t n, double *distance_matrix, double *distances_table); 2021-07-12T12:39:50,500 | ~~~~~~~~^~~~~~~~~~~~~~~ 2021-07-12T12:39:50,506 molmod/ext.c: In function ‘__pyx_pf_6molmod_3ext_16similarity_measure’: 2021-07-12T12:39:50,510 molmod/ext.c:7185:47: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,510 7185 | __pyx_t_1 = (((__pyx_v_distances1.shape[0]) != __pyx_v_n1) != 0); 2021-07-12T12:39:50,510 | ^~ 2021-07-12T12:39:50,514 molmod/ext.c:7249:47: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-12T12:39:50,514 7249 | __pyx_t_1 = (((__pyx_v_distances2.shape[0]) != __pyx_v_n2) != 0); 2021-07-12T12:39:50,515 | ^~ 2021-07-12T12:40:06,698 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c molmod/ff.c -o build/temp.linux-armv7l-3.9/molmod/ff.o 2021-07-12T12:40:07,070 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c molmod/graphs.c -o build/temp.linux-armv7l-3.9/molmod/graphs.o 2021-07-12T12:40:07,205 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c molmod/molecules.c -o build/temp.linux-armv7l-3.9/molmod/molecules.o 2021-07-12T12:40:07,363 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c molmod/similarity.c -o build/temp.linux-armv7l-3.9/molmod/similarity.o 2021-07-12T12:40:07,598 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/local/lib/python3.9/dist-packages/numpy/core/include -I/usr/include/python3.9 -c molmod/unit_cells.c -o build/temp.linux-armv7l-3.9/molmod/unit_cells.o 2021-07-12T12:40:07,945 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/molmod/common.o build/temp.linux-armv7l-3.9/molmod/ext.o build/temp.linux-armv7l-3.9/molmod/ff.o build/temp.linux-armv7l-3.9/molmod/graphs.o build/temp.linux-armv7l-3.9/molmod/molecules.o build/temp.linux-armv7l-3.9/molmod/similarity.o build/temp.linux-armv7l-3.9/molmod/unit_cells.o -o build/lib.linux-armv7l-3.9/molmod/ext.cpython-39-arm-linux-gnueabihf.so 2021-07-12T12:40:08,140 installing to build/bdist.linux-armv7l/wheel 2021-07-12T12:40:08,141 running install 2021-07-12T12:40:08,142 running install_lib 2021-07-12T12:40:08,147 creating build/bdist.linux-armv7l 2021-07-12T12:40:08,147 creating build/bdist.linux-armv7l/wheel 2021-07-12T12:40:08,150 creating build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,151 copying build/lib.linux-armv7l-3.9/molmod/molecules.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,154 copying build/lib.linux-armv7l-3.9/molmod/similarity.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,157 creating build/bdist.linux-armv7l/wheel/molmod/examples 2021-07-12T12:40:08,158 creating build/bdist.linux-armv7l/wheel/molmod/examples/002_graphs 2021-07-12T12:40:08,159 copying build/lib.linux-armv7l-3.9/molmod/examples/002_graphs/b_neighbors.py -> build/bdist.linux-armv7l/wheel/molmod/examples/002_graphs 2021-07-12T12:40:08,161 copying build/lib.linux-armv7l-3.9/molmod/examples/002_graphs/d_symmetries.py -> build/bdist.linux-armv7l/wheel/molmod/examples/002_graphs 2021-07-12T12:40:08,163 copying build/lib.linux-armv7l-3.9/molmod/examples/002_graphs/a_graphs.py -> build/bdist.linux-armv7l/wheel/molmod/examples/002_graphs 2021-07-12T12:40:08,165 copying build/lib.linux-armv7l-3.9/molmod/examples/002_graphs/ethanol.xyz -> build/bdist.linux-armv7l/wheel/molmod/examples/002_graphs 2021-07-12T12:40:08,167 copying build/lib.linux-armv7l-3.9/molmod/examples/002_graphs/c_distances.py -> build/bdist.linux-armv7l/wheel/molmod/examples/002_graphs 2021-07-12T12:40:08,169 copying build/lib.linux-armv7l-3.9/molmod/examples/002_graphs/caffeine.xyz -> build/bdist.linux-armv7l/wheel/molmod/examples/002_graphs 2021-07-12T12:40:08,171 creating build/bdist.linux-armv7l/wheel/molmod/examples/001_molecules 2021-07-12T12:40:08,172 copying build/lib.linux-armv7l-3.9/molmod/examples/001_molecules/a_convert.py -> build/bdist.linux-armv7l/wheel/molmod/examples/001_molecules 2021-07-12T12:40:08,174 copying build/lib.linux-armv7l-3.9/molmod/examples/001_molecules/ibuprofen.sdf -> build/bdist.linux-armv7l/wheel/molmod/examples/001_molecules 2021-07-12T12:40:08,176 copying build/lib.linux-armv7l-3.9/molmod/examples/001_molecules/c_carbon.py -> build/bdist.linux-armv7l/wheel/molmod/examples/001_molecules 2021-07-12T12:40:08,177 copying build/lib.linux-armv7l-3.9/molmod/examples/001_molecules/b_com.py -> build/bdist.linux-armv7l/wheel/molmod/examples/001_molecules 2021-07-12T12:40:08,179 copying build/lib.linux-armv7l-3.9/molmod/examples/001_molecules/d_size.py -> build/bdist.linux-armv7l/wheel/molmod/examples/001_molecules 2021-07-12T12:40:08,181 copying build/lib.linux-armv7l-3.9/molmod/examples/001_molecules/e_shape.py -> build/bdist.linux-armv7l/wheel/molmod/examples/001_molecules 2021-07-12T12:40:08,183 creating build/bdist.linux-armv7l/wheel/molmod/examples/000_units 2021-07-12T12:40:08,184 copying build/lib.linux-armv7l-3.9/molmod/examples/000_units/a_reaction.py -> build/bdist.linux-armv7l/wheel/molmod/examples/000_units 2021-07-12T12:40:08,186 copying build/lib.linux-armv7l-3.9/molmod/examples/000_units/b_chbond.py -> build/bdist.linux-armv7l/wheel/molmod/examples/000_units 2021-07-12T12:40:08,188 copying build/lib.linux-armv7l-3.9/molmod/examples/000_units/c_h2rot.py -> build/bdist.linux-armv7l/wheel/molmod/examples/000_units 2021-07-12T12:40:08,190 creating build/bdist.linux-armv7l/wheel/molmod/examples/003_internal_coordinates 2021-07-12T12:40:08,191 copying build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates/dopamine.xyz -> build/bdist.linux-armv7l/wheel/molmod/examples/003_internal_coordinates 2021-07-12T12:40:08,193 copying build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates/dopamine.fchk -> build/bdist.linux-armv7l/wheel/molmod/examples/003_internal_coordinates 2021-07-12T12:40:08,197 copying build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates/b_bending_angles.py -> build/bdist.linux-armv7l/wheel/molmod/examples/003_internal_coordinates 2021-07-12T12:40:08,199 copying build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates/d_dft_hessian.py -> build/bdist.linux-armv7l/wheel/molmod/examples/003_internal_coordinates 2021-07-12T12:40:08,201 copying build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates/a_bond_length.py -> build/bdist.linux-armv7l/wheel/molmod/examples/003_internal_coordinates 2021-07-12T12:40:08,203 copying build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates/propane.xyz -> build/bdist.linux-armv7l/wheel/molmod/examples/003_internal_coordinates 2021-07-12T12:40:08,205 copying build/lib.linux-armv7l-3.9/molmod/examples/003_internal_coordinates/c_ff_hessian.py -> build/bdist.linux-armv7l/wheel/molmod/examples/003_internal_coordinates 2021-07-12T12:40:08,208 creating build/bdist.linux-armv7l/wheel/molmod/examples/004_patterns 2021-07-12T12:40:08,209 copying build/lib.linux-armv7l-3.9/molmod/examples/004_patterns/b_dopamine_types.py -> build/bdist.linux-armv7l/wheel/molmod/examples/004_patterns 2021-07-12T12:40:08,211 copying build/lib.linux-armv7l-3.9/molmod/examples/004_patterns/dopamine.xyz -> build/bdist.linux-armv7l/wheel/molmod/examples/004_patterns 2021-07-12T12:40:08,212 copying build/lib.linux-armv7l-3.9/molmod/examples/004_patterns/a_propane_types.py -> build/bdist.linux-armv7l/wheel/molmod/examples/004_patterns 2021-07-12T12:40:08,214 copying build/lib.linux-armv7l-3.9/molmod/examples/004_patterns/mfi_fragment.xyz -> build/bdist.linux-armv7l/wheel/molmod/examples/004_patterns 2021-07-12T12:40:08,216 copying build/lib.linux-armv7l-3.9/molmod/examples/004_patterns/propane.xyz -> build/bdist.linux-armv7l/wheel/molmod/examples/004_patterns 2021-07-12T12:40:08,218 copying build/lib.linux-armv7l-3.9/molmod/minimizer.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,223 copying build/lib.linux-armv7l-3.9/molmod/vectors.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,224 copying build/lib.linux-armv7l-3.9/molmod/graphs.h -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,226 copying build/lib.linux-armv7l-3.9/molmod/periodic.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,228 copying build/lib.linux-armv7l-3.9/molmod/ext.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,257 copying build/lib.linux-armv7l-3.9/molmod/ext.pyx -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,260 copying build/lib.linux-armv7l-3.9/molmod/unit_cells.c -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,262 copying build/lib.linux-armv7l-3.9/molmod/units.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,264 copying build/lib.linux-armv7l-3.9/molmod/zmatrix.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,267 copying build/lib.linux-armv7l-3.9/molmod/similarity.c -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,269 copying build/lib.linux-armv7l-3.9/molmod/molecules.pxd -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,272 copying build/lib.linux-armv7l-3.9/molmod/transformations.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,275 copying build/lib.linux-armv7l-3.9/molmod/toyff.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,279 copying build/lib.linux-armv7l-3.9/molmod/__init__.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,281 copying build/lib.linux-armv7l-3.9/molmod/utils.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,285 copying build/lib.linux-armv7l-3.9/molmod/isotopes.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,288 copying build/lib.linux-armv7l-3.9/molmod/quaternions.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,290 copying build/lib.linux-armv7l-3.9/molmod/clusters.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,293 copying build/lib.linux-armv7l-3.9/molmod/binning.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,296 copying build/lib.linux-armv7l-3.9/molmod/unit_cells.pxd -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,298 copying build/lib.linux-armv7l-3.9/molmod/pairff.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,301 copying build/lib.linux-armv7l-3.9/molmod/graphs.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,307 creating build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,308 copying build/lib.linux-armv7l-3.9/molmod/io/cpmd.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,310 copying build/lib.linux-armv7l-3.9/molmod/io/number_state.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,313 copying build/lib.linux-armv7l-3.9/molmod/io/cube.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,317 copying build/lib.linux-armv7l-3.9/molmod/io/cml.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,320 copying build/lib.linux-armv7l-3.9/molmod/io/atrj.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,322 copying build/lib.linux-armv7l-3.9/molmod/io/xyz.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,325 copying build/lib.linux-armv7l-3.9/molmod/io/cp2k.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,328 copying build/lib.linux-armv7l-3.9/molmod/io/psf.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,331 copying build/lib.linux-armv7l-3.9/molmod/io/gamess.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,334 copying build/lib.linux-armv7l-3.9/molmod/io/pdb.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,337 copying build/lib.linux-armv7l-3.9/molmod/io/__init__.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,339 copying build/lib.linux-armv7l-3.9/molmod/io/fchk.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,342 copying build/lib.linux-armv7l-3.9/molmod/io/common.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,344 copying build/lib.linux-armv7l-3.9/molmod/io/crystal.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,347 copying build/lib.linux-armv7l-3.9/molmod/io/dlpoly.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,350 copying build/lib.linux-armv7l-3.9/molmod/io/sdf.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,353 copying build/lib.linux-armv7l-3.9/molmod/io/gromacs.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,355 copying build/lib.linux-armv7l-3.9/molmod/io/lammps.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,359 creating build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,360 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_gamess.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,362 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_cml.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,365 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_psf.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,367 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_sdf.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,369 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_gromacs.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,371 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_lammps.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,374 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_pdb.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,376 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_xyz.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,378 copying build/lib.linux-armv7l-3.9/molmod/io/test/__init__.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,381 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_dlpoly.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,383 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_fchk.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,385 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_cp2k.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,388 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_cpmd.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,390 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_cube.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,393 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_atrj.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,395 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_number_state.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,397 copying build/lib.linux-armv7l-3.9/molmod/io/test/test_crystal.py -> build/bdist.linux-armv7l/wheel/molmod/io/test 2021-07-12T12:40:08,399 copying build/lib.linux-armv7l-3.9/molmod/io/chk.py -> build/bdist.linux-armv7l/wheel/molmod/io 2021-07-12T12:40:08,402 copying build/lib.linux-armv7l-3.9/molmod/common.c -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,405 copying build/lib.linux-armv7l-3.9/molmod/log.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,408 copying build/lib.linux-armv7l-3.9/molmod/ic.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,411 copying build/lib.linux-armv7l-3.9/molmod/molecular_graphs.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,414 copying build/lib.linux-armv7l-3.9/molmod/randomize.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,417 copying build/lib.linux-armv7l-3.9/molmod/graphs.pxd -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,419 copying build/lib.linux-armv7l-3.9/molmod/ff.pxd -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,421 copying build/lib.linux-armv7l-3.9/molmod/molecules.h -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,422 copying build/lib.linux-armv7l-3.9/molmod/unit_cells.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,425 copying build/lib.linux-armv7l-3.9/molmod/ff.c -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,428 copying build/lib.linux-armv7l-3.9/molmod/similarity.h -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,430 copying build/lib.linux-armv7l-3.9/molmod/unit_cells.h -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,432 copying build/lib.linux-armv7l-3.9/molmod/ff.h -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,434 copying build/lib.linux-armv7l-3.9/molmod/molecules.c -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,436 copying build/lib.linux-armv7l-3.9/molmod/symmetry.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,438 copying build/lib.linux-armv7l-3.9/molmod/constants.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,440 creating build/bdist.linux-armv7l/wheel/molmod/data 2021-07-12T12:40:08,441 copying build/lib.linux-armv7l-3.9/molmod/data/mass.mas03 -> build/bdist.linux-armv7l/wheel/molmod/data 2021-07-12T12:40:08,453 copying build/lib.linux-armv7l-3.9/molmod/data/periodic.ods -> build/bdist.linux-armv7l/wheel/molmod/data 2021-07-12T12:40:08,457 copying build/lib.linux-armv7l-3.9/molmod/data/periodic.csv -> build/bdist.linux-armv7l/wheel/molmod/data 2021-07-12T12:40:08,459 copying build/lib.linux-armv7l-3.9/molmod/data/bonds.ods -> build/bdist.linux-armv7l/wheel/molmod/data 2021-07-12T12:40:08,462 copying build/lib.linux-armv7l-3.9/molmod/data/bonds.csv -> build/bdist.linux-armv7l/wheel/molmod/data 2021-07-12T12:40:08,465 copying build/lib.linux-armv7l-3.9/molmod/data/toyff_angles.txt -> build/bdist.linux-armv7l/wheel/molmod/data 2021-07-12T12:40:08,471 creating build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,472 copying build/lib.linux-armv7l-3.9/molmod/data/test/PCGamess_PUNCH -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,497 copying build/lib.linux-armv7l-3.9/molmod/data/test/1TOH.b3lyp.fchk -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,512 copying build/lib.linux-armv7l-3.9/molmod/data/test/opt_6ring.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,514 copying build/lib.linux-armv7l-3.9/molmod/data/test/lau.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,516 copying build/lib.linux-armv7l-3.9/molmod/data/test/dlpoly_HISTORY -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,518 copying build/lib.linux-armv7l-3.9/molmod/data/test/ethane.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,519 copying build/lib.linux-armv7l-3.9/molmod/data/test/opt_5ring10T.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,521 copying build/lib.linux-armv7l-3.9/molmod/data/test/tetra.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,523 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_40363570.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,525 copying build/lib.linux-armv7l-3.9/molmod/data/test/lammps_dump.txt -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,527 copying build/lib.linux-armv7l-3.9/molmod/data/test/tea.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,529 copying build/lib.linux-armv7l-3.9/molmod/data/test/ethene.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,531 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_41893278.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,533 copying build/lib.linux-armv7l-3.9/molmod/data/test/h3zrosihohosioh3.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,535 copying build/lib.linux-armv7l-3.9/molmod/data/test/dopamine.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,537 copying build/lib.linux-armv7l-3.9/molmod/data/test/water_md.inp -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,539 copying build/lib.linux-armv7l-3.9/molmod/data/test/thf_64.cell -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,541 copying build/lib.linux-armv7l-3.9/molmod/data/test/opt_6_6ring.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,543 copying build/lib.linux-armv7l-3.9/molmod/data/test/dlpoly_OUTPUT -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,546 copying build/lib.linux-armv7l-3.9/molmod/data/test/ethene_ethyl_trans.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,548 copying build/lib.linux-armv7l-3.9/molmod/data/test/pentapeptide.psf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,551 copying build/lib.linux-armv7l-3.9/molmod/data/test/il2.pdb -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,557 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_55488598.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,559 copying build/lib.linux-armv7l-3.9/molmod/data/test/thf_single.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,561 copying build/lib.linux-armv7l-3.9/molmod/data/test/probes.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,563 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_40363571.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,566 copying build/lib.linux-armv7l-3.9/molmod/data/test/water2.gro -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,567 copying build/lib.linux-armv7l-3.9/molmod/data/test/bartek.atrj -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,580 copying build/lib.linux-armv7l-3.9/molmod/data/test/alanine.cube -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,583 copying build/lib.linux-armv7l-3.9/molmod/data/test/octane.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,585 copying build/lib.linux-armv7l-3.9/molmod/data/test/example.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,587 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_56274343.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,589 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_31646548.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,591 copying build/lib.linux-armv7l-3.9/molmod/data/test/oh3siozroh3.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,593 copying build/lib.linux-armv7l-3.9/molmod/data/test/crystal_api.out -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,607 copying build/lib.linux-armv7l-3.9/molmod/data/test/dinitrogen.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,608 copying build/lib.linux-armv7l-3.9/molmod/data/test/formol.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,610 copying build/lib.linux-armv7l-3.9/molmod/data/test/tpa.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,612 copying build/lib.linux-armv7l-3.9/molmod/data/test/benzene.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,614 copying build/lib.linux-armv7l-3.9/molmod/data/test/caplayer.cml -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,616 copying build/lib.linux-armv7l-3.9/molmod/data/test/opt_5ring12T.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,618 copying build/lib.linux-armv7l-3.9/molmod/data/test/water.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,620 copying build/lib.linux-armv7l-3.9/molmod/data/test/butane.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,622 copying build/lib.linux-armv7l-3.9/molmod/data/test/thf.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,625 copying build/lib.linux-armv7l-3.9/molmod/data/test/precursor.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,627 copying build/lib.linux-armv7l-3.9/molmod/data/test/dlpoly_HISTORY_an2 -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,629 copying build/lib.linux-armv7l-3.9/molmod/data/test/zr4o8-3.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,631 copying build/lib.linux-armv7l-3.9/molmod/data/test/CID_22898828.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,633 copying build/lib.linux-armv7l-3.9/molmod/data/test/cyclopentane.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,636 copying build/lib.linux-armv7l-3.9/molmod/data/test/5ringOH.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,638 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_31646545.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,640 copying build/lib.linux-armv7l-3.9/molmod/data/test/funny.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,642 copying build/lib.linux-armv7l-3.9/molmod/data/test/osih2osihosih2osih2ozrh2oh.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,644 copying build/lib.linux-armv7l-3.9/molmod/data/test/argon.xyz -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,646 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_54258192.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,648 copying build/lib.linux-armv7l-3.9/molmod/data/test/1LJL_Cys10.cml -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,652 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_55127927.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,655 copying build/lib.linux-armv7l-3.9/molmod/data/test/TRAJECTORY_H2_CPMD -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,657 copying build/lib.linux-armv7l-3.9/molmod/data/test/thf.psf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,663 copying build/lib.linux-armv7l-3.9/molmod/data/test/1TOH.b3lyp.trim.fchk -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,666 copying build/lib.linux-armv7l-3.9/molmod/data/test/SID_41893280.sdf -> build/bdist.linux-armv7l/wheel/molmod/data/test 2021-07-12T12:40:08,668 copying build/lib.linux-armv7l-3.9/molmod/data/nubtab03.asc -> build/bdist.linux-armv7l/wheel/molmod/data 2021-07-12T12:40:08,684 copying build/lib.linux-armv7l-3.9/molmod/graphs.c -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,686 copying build/lib.linux-armv7l-3.9/molmod/bonds.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,688 copying build/lib.linux-armv7l-3.9/molmod/similarity.pxd -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,691 creating build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,692 copying build/lib.linux-armv7l-3.9/molmod/test/test_similarity.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,694 copying build/lib.linux-armv7l-3.9/molmod/test/test_unit_cells.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,697 copying build/lib.linux-armv7l-3.9/molmod/test/test_molecules.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,700 copying build/lib.linux-armv7l-3.9/molmod/test/test_zmatrix.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,702 copying build/lib.linux-armv7l-3.9/molmod/test/test_log.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,704 copying build/lib.linux-armv7l-3.9/molmod/test/__init__.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,706 copying build/lib.linux-armv7l-3.9/molmod/test/test_ic.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,709 copying build/lib.linux-armv7l-3.9/molmod/test/test_graphs.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,712 copying build/lib.linux-armv7l-3.9/molmod/test/test_clusters.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,714 copying build/lib.linux-armv7l-3.9/molmod/test/test_utils.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,716 copying build/lib.linux-armv7l-3.9/molmod/test/test_examples.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,718 copying build/lib.linux-armv7l-3.9/molmod/test/test_symmetry.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,720 copying build/lib.linux-armv7l-3.9/molmod/test/test_quaternions.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,722 copying build/lib.linux-armv7l-3.9/molmod/test/test_randomize.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,725 copying build/lib.linux-armv7l-3.9/molmod/test/common.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,727 copying build/lib.linux-armv7l-3.9/molmod/test/test_units.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,729 copying build/lib.linux-armv7l-3.9/molmod/test/test_transformations.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,732 copying build/lib.linux-armv7l-3.9/molmod/test/test_minimizer.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,735 copying build/lib.linux-armv7l-3.9/molmod/test/test_toyff.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,738 copying build/lib.linux-armv7l-3.9/molmod/test/test_molecular_graphs.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,741 copying build/lib.linux-armv7l-3.9/molmod/test/test_vectors.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,743 copying build/lib.linux-armv7l-3.9/molmod/test/test_data.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,745 copying build/lib.linux-armv7l-3.9/molmod/test/test_binning.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,748 copying build/lib.linux-armv7l-3.9/molmod/test/test_pairff.py -> build/bdist.linux-armv7l/wheel/molmod/test 2021-07-12T12:40:08,751 copying build/lib.linux-armv7l-3.9/molmod/version.py -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,753 copying build/lib.linux-armv7l-3.9/molmod/common.h -> build/bdist.linux-armv7l/wheel/molmod 2021-07-12T12:40:08,755 running install_egg_info 2021-07-12T12:40:08,765 Copying molmod.egg-info to build/bdist.linux-armv7l/wheel/molmod-1.3.0-py3.9.egg-info 2021-07-12T12:40:08,778 running install_scripts 2021-07-12T12:40:08,825 adding license file "LICENSE.txt" (matched pattern "LICEN[CS]E*") 2021-07-12T12:40:08,831 creating build/bdist.linux-armv7l/wheel/molmod-1.3.0.dist-info/WHEEL 2021-07-12T12:40:08,834 creating '/tmp/pip-wheel-grmt5bhi/molmod-1.3.0-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-12T12:40:08,838 adding 'molmod/__init__.py' 2021-07-12T12:40:08,841 adding 'molmod/binning.py' 2021-07-12T12:40:08,843 adding 'molmod/bonds.py' 2021-07-12T12:40:08,844 adding 'molmod/clusters.py' 2021-07-12T12:40:08,846 adding 'molmod/common.c' 2021-07-12T12:40:08,847 adding 'molmod/common.h' 2021-07-12T12:40:08,849 adding 'molmod/constants.py' 2021-07-12T12:40:09,073 adding 'molmod/ext.cpython-39-arm-linux-gnueabihf.so' 2021-07-12T12:40:09,084 adding 'molmod/ext.pyx' 2021-07-12T12:40:09,085 adding 'molmod/ff.c' 2021-07-12T12:40:09,086 adding 'molmod/ff.h' 2021-07-12T12:40:09,088 adding 'molmod/ff.pxd' 2021-07-12T12:40:09,089 adding 'molmod/graphs.c' 2021-07-12T12:40:09,090 adding 'molmod/graphs.h' 2021-07-12T12:40:09,091 adding 'molmod/graphs.pxd' 2021-07-12T12:40:09,101 adding 'molmod/graphs.py' 2021-07-12T12:40:09,104 adding 'molmod/ic.py' 2021-07-12T12:40:09,106 adding 'molmod/isotopes.py' 2021-07-12T12:40:09,108 adding 'molmod/log.py' 2021-07-12T12:40:09,117 adding 'molmod/minimizer.py' 2021-07-12T12:40:09,120 adding 'molmod/molecular_graphs.py' 2021-07-12T12:40:09,122 adding 'molmod/molecules.c' 2021-07-12T12:40:09,123 adding 'molmod/molecules.h' 2021-07-12T12:40:09,124 adding 'molmod/molecules.pxd' 2021-07-12T12:40:09,126 adding 'molmod/molecules.py' 2021-07-12T12:40:09,128 adding 'molmod/pairff.py' 2021-07-12T12:40:09,130 adding 'molmod/periodic.py' 2021-07-12T12:40:09,132 adding 'molmod/quaternions.py' 2021-07-12T12:40:09,134 adding 'molmod/randomize.py' 2021-07-12T12:40:09,136 adding 'molmod/similarity.c' 2021-07-12T12:40:09,137 adding 'molmod/similarity.h' 2021-07-12T12:40:09,138 adding 'molmod/similarity.pxd' 2021-07-12T12:40:09,140 adding 'molmod/similarity.py' 2021-07-12T12:40:09,141 adding 'molmod/symmetry.py' 2021-07-12T12:40:09,143 adding 'molmod/toyff.py' 2021-07-12T12:40:09,146 adding 'molmod/transformations.py' 2021-07-12T12:40:09,147 adding 'molmod/unit_cells.c' 2021-07-12T12:40:09,149 adding 'molmod/unit_cells.h' 2021-07-12T12:40:09,150 adding 'molmod/unit_cells.pxd' 2021-07-12T12:40:09,152 adding 'molmod/unit_cells.py' 2021-07-12T12:40:09,154 adding 'molmod/units.py' 2021-07-12T12:40:09,156 adding 'molmod/utils.py' 2021-07-12T12:40:09,158 adding 'molmod/vectors.py' 2021-07-12T12:40:09,159 adding 'molmod/version.py' 2021-07-12T12:40:09,161 adding 'molmod/zmatrix.py' 2021-07-12T12:40:09,163 adding 'molmod/data/bonds.csv' 2021-07-12T12:40:09,165 adding 'molmod/data/bonds.ods' 2021-07-12T12:40:09,249 adding 'molmod/data/mass.mas03' 2021-07-12T12:40:09,333 adding 'molmod/data/nubtab03.asc' 2021-07-12T12:40:09,339 adding 'molmod/data/periodic.csv' 2021-07-12T12:40:09,342 adding 'molmod/data/periodic.ods' 2021-07-12T12:40:09,357 adding 'molmod/data/toyff_angles.txt' 2021-07-12T12:40:09,364 adding 'molmod/data/test/1LJL_Cys10.cml' 2021-07-12T12:40:09,497 adding 'molmod/data/test/1TOH.b3lyp.fchk' 2021-07-12T12:40:09,503 adding 'molmod/data/test/1TOH.b3lyp.trim.fchk' 2021-07-12T12:40:09,504 adding 'molmod/data/test/5ringOH.xyz' 2021-07-12T12:40:09,505 adding 'molmod/data/test/CID_22898828.sdf' 2021-07-12T12:40:09,749 adding 'molmod/data/test/PCGamess_PUNCH' 2021-07-12T12:40:09,758 adding 'molmod/data/test/SID_31646545.sdf' 2021-07-12T12:40:09,759 adding 'molmod/data/test/SID_31646548.sdf' 2021-07-12T12:40:09,760 adding 'molmod/data/test/SID_40363570.sdf' 2021-07-12T12:40:09,762 adding 'molmod/data/test/SID_40363571.sdf' 2021-07-12T12:40:09,763 adding 'molmod/data/test/SID_41893278.sdf' 2021-07-12T12:40:09,764 adding 'molmod/data/test/SID_41893280.sdf' 2021-07-12T12:40:09,766 adding 'molmod/data/test/SID_54258192.sdf' 2021-07-12T12:40:09,767 adding 'molmod/data/test/SID_55127927.sdf' 2021-07-12T12:40:09,768 adding 'molmod/data/test/SID_55488598.sdf' 2021-07-12T12:40:09,770 adding 'molmod/data/test/SID_56274343.sdf' 2021-07-12T12:40:09,771 adding 'molmod/data/test/TRAJECTORY_H2_CPMD' 2021-07-12T12:40:09,774 adding 'molmod/data/test/alanine.cube' 2021-07-12T12:40:09,776 adding 'molmod/data/test/argon.xyz' 2021-07-12T12:40:09,851 adding 'molmod/data/test/bartek.atrj' 2021-07-12T12:40:09,855 adding 'molmod/data/test/benzene.xyz' 2021-07-12T12:40:09,856 adding 'molmod/data/test/butane.xyz' 2021-07-12T12:40:09,858 adding 'molmod/data/test/caplayer.cml' 2021-07-12T12:40:09,924 adding 'molmod/data/test/crystal_api.out' 2021-07-12T12:40:09,928 adding 'molmod/data/test/cyclopentane.xyz' 2021-07-12T12:40:09,930 adding 'molmod/data/test/dinitrogen.xyz' 2021-07-12T12:40:09,931 adding 'molmod/data/test/dlpoly_HISTORY' 2021-07-12T12:40:09,932 adding 'molmod/data/test/dlpoly_HISTORY_an2' 2021-07-12T12:40:09,937 adding 'molmod/data/test/dlpoly_OUTPUT' 2021-07-12T12:40:09,939 adding 'molmod/data/test/dopamine.xyz' 2021-07-12T12:40:09,940 adding 'molmod/data/test/ethane.xyz' 2021-07-12T12:40:09,941 adding 'molmod/data/test/ethene.xyz' 2021-07-12T12:40:09,942 adding 'molmod/data/test/ethene_ethyl_trans.xyz' 2021-07-12T12:40:09,943 adding 'molmod/data/test/example.sdf' 2021-07-12T12:40:09,945 adding 'molmod/data/test/formol.xyz' 2021-07-12T12:40:09,946 adding 'molmod/data/test/funny.xyz' 2021-07-12T12:40:09,947 adding 'molmod/data/test/h3zrosihohosioh3.xyz' 2021-07-12T12:40:09,977 adding 'molmod/data/test/il2.pdb' 2021-07-12T12:40:09,981 adding 'molmod/data/test/lammps_dump.txt' 2021-07-12T12:40:09,982 adding 'molmod/data/test/lau.xyz' 2021-07-12T12:40:09,984 adding 'molmod/data/test/octane.xyz' 2021-07-12T12:40:09,985 adding 'molmod/data/test/oh3siozroh3.xyz' 2021-07-12T12:40:09,986 adding 'molmod/data/test/opt_5ring10T.xyz' 2021-07-12T12:40:09,987 adding 'molmod/data/test/opt_5ring12T.xyz' 2021-07-12T12:40:09,989 adding 'molmod/data/test/opt_6_6ring.xyz' 2021-07-12T12:40:09,990 adding 'molmod/data/test/opt_6ring.xyz' 2021-07-12T12:40:09,991 adding 'molmod/data/test/osih2osihosih2osih2ozrh2oh.xyz' 2021-07-12T12:40:09,993 adding 'molmod/data/test/pentapeptide.psf' 2021-07-12T12:40:09,995 adding 'molmod/data/test/precursor.xyz' 2021-07-12T12:40:09,996 adding 'molmod/data/test/probes.xyz' 2021-07-12T12:40:09,997 adding 'molmod/data/test/tea.xyz' 2021-07-12T12:40:09,998 adding 'molmod/data/test/tetra.xyz' 2021-07-12T12:40:10,020 adding 'molmod/data/test/thf.psf' 2021-07-12T12:40:10,027 adding 'molmod/data/test/thf.xyz' 2021-07-12T12:40:10,029 adding 'molmod/data/test/thf_64.cell' 2021-07-12T12:40:10,030 adding 'molmod/data/test/thf_single.xyz' 2021-07-12T12:40:10,031 adding 'molmod/data/test/tpa.xyz' 2021-07-12T12:40:10,032 adding 'molmod/data/test/water.xyz' 2021-07-12T12:40:10,033 adding 'molmod/data/test/water2.gro' 2021-07-12T12:40:10,034 adding 'molmod/data/test/water_md.inp' 2021-07-12T12:40:10,035 adding 'molmod/data/test/zr4o8-3.xyz' 2021-07-12T12:40:10,038 adding 'molmod/examples/000_units/a_reaction.py' 2021-07-12T12:40:10,039 adding 'molmod/examples/000_units/b_chbond.py' 2021-07-12T12:40:10,040 adding 'molmod/examples/000_units/c_h2rot.py' 2021-07-12T12:40:10,042 adding 'molmod/examples/001_molecules/a_convert.py' 2021-07-12T12:40:10,043 adding 'molmod/examples/001_molecules/b_com.py' 2021-07-12T12:40:10,044 adding 'molmod/examples/001_molecules/c_carbon.py' 2021-07-12T12:40:10,045 adding 'molmod/examples/001_molecules/d_size.py' 2021-07-12T12:40:10,046 adding 'molmod/examples/001_molecules/e_shape.py' 2021-07-12T12:40:10,048 adding 'molmod/examples/001_molecules/ibuprofen.sdf' 2021-07-12T12:40:10,050 adding 'molmod/examples/002_graphs/a_graphs.py' 2021-07-12T12:40:10,051 adding 'molmod/examples/002_graphs/b_neighbors.py' 2021-07-12T12:40:10,052 adding 'molmod/examples/002_graphs/c_distances.py' 2021-07-12T12:40:10,054 adding 'molmod/examples/002_graphs/caffeine.xyz' 2021-07-12T12:40:10,055 adding 'molmod/examples/002_graphs/d_symmetries.py' 2021-07-12T12:40:10,056 adding 'molmod/examples/002_graphs/ethanol.xyz' 2021-07-12T12:40:10,058 adding 'molmod/examples/003_internal_coordinates/a_bond_length.py' 2021-07-12T12:40:10,059 adding 'molmod/examples/003_internal_coordinates/b_bending_angles.py' 2021-07-12T12:40:10,061 adding 'molmod/examples/003_internal_coordinates/c_ff_hessian.py' 2021-07-12T12:40:10,062 adding 'molmod/examples/003_internal_coordinates/d_dft_hessian.py' 2021-07-12T12:40:10,073 adding 'molmod/examples/003_internal_coordinates/dopamine.fchk' 2021-07-12T12:40:10,074 adding 'molmod/examples/003_internal_coordinates/dopamine.xyz' 2021-07-12T12:40:10,075 adding 'molmod/examples/003_internal_coordinates/propane.xyz' 2021-07-12T12:40:10,077 adding 'molmod/examples/004_patterns/a_propane_types.py' 2021-07-12T12:40:10,079 adding 'molmod/examples/004_patterns/b_dopamine_types.py' 2021-07-12T12:40:10,080 adding 'molmod/examples/004_patterns/dopamine.xyz' 2021-07-12T12:40:10,082 adding 'molmod/examples/004_patterns/mfi_fragment.xyz' 2021-07-12T12:40:10,083 adding 'molmod/examples/004_patterns/propane.xyz' 2021-07-12T12:40:10,085 adding 'molmod/io/__init__.py' 2021-07-12T12:40:10,087 adding 'molmod/io/atrj.py' 2021-07-12T12:40:10,088 adding 'molmod/io/chk.py' 2021-07-12T12:40:10,090 adding 'molmod/io/cml.py' 2021-07-12T12:40:10,092 adding 'molmod/io/common.py' 2021-07-12T12:40:10,094 adding 'molmod/io/cp2k.py' 2021-07-12T12:40:10,095 adding 'molmod/io/cpmd.py' 2021-07-12T12:40:10,097 adding 'molmod/io/crystal.py' 2021-07-12T12:40:10,099 adding 'molmod/io/cube.py' 2021-07-12T12:40:10,101 adding 'molmod/io/dlpoly.py' 2021-07-12T12:40:10,102 adding 'molmod/io/fchk.py' 2021-07-12T12:40:10,104 adding 'molmod/io/gamess.py' 2021-07-12T12:40:10,106 adding 'molmod/io/gromacs.py' 2021-07-12T12:40:10,107 adding 'molmod/io/lammps.py' 2021-07-12T12:40:10,109 adding 'molmod/io/number_state.py' 2021-07-12T12:40:10,111 adding 'molmod/io/pdb.py' 2021-07-12T12:40:10,113 adding 'molmod/io/psf.py' 2021-07-12T12:40:10,114 adding 'molmod/io/sdf.py' 2021-07-12T12:40:10,116 adding 'molmod/io/xyz.py' 2021-07-12T12:40:10,118 adding 'molmod/io/test/__init__.py' 2021-07-12T12:40:10,120 adding 'molmod/io/test/test_atrj.py' 2021-07-12T12:40:10,121 adding 'molmod/io/test/test_cml.py' 2021-07-12T12:40:10,122 adding 'molmod/io/test/test_cp2k.py' 2021-07-12T12:40:10,124 adding 'molmod/io/test/test_cpmd.py' 2021-07-12T12:40:10,125 adding 'molmod/io/test/test_crystal.py' 2021-07-12T12:40:10,127 adding 'molmod/io/test/test_cube.py' 2021-07-12T12:40:10,128 adding 'molmod/io/test/test_dlpoly.py' 2021-07-12T12:40:10,129 adding 'molmod/io/test/test_fchk.py' 2021-07-12T12:40:10,131 adding 'molmod/io/test/test_gamess.py' 2021-07-12T12:40:10,132 adding 'molmod/io/test/test_gromacs.py' 2021-07-12T12:40:10,133 adding 'molmod/io/test/test_lammps.py' 2021-07-12T12:40:10,135 adding 'molmod/io/test/test_number_state.py' 2021-07-12T12:40:10,136 adding 'molmod/io/test/test_pdb.py' 2021-07-12T12:40:10,137 adding 'molmod/io/test/test_psf.py' 2021-07-12T12:40:10,139 adding 'molmod/io/test/test_sdf.py' 2021-07-12T12:40:10,140 adding 'molmod/io/test/test_xyz.py' 2021-07-12T12:40:10,143 adding 'molmod/test/__init__.py' 2021-07-12T12:40:10,144 adding 'molmod/test/common.py' 2021-07-12T12:40:10,146 adding 'molmod/test/test_binning.py' 2021-07-12T12:40:10,147 adding 'molmod/test/test_clusters.py' 2021-07-12T12:40:10,149 adding 'molmod/test/test_data.py' 2021-07-12T12:40:10,150 adding 'molmod/test/test_examples.py' 2021-07-12T12:40:10,153 adding 'molmod/test/test_graphs.py' 2021-07-12T12:40:10,155 adding 'molmod/test/test_ic.py' 2021-07-12T12:40:10,157 adding 'molmod/test/test_log.py' 2021-07-12T12:40:10,159 adding 'molmod/test/test_minimizer.py' 2021-07-12T12:40:10,162 adding 'molmod/test/test_molecular_graphs.py' 2021-07-12T12:40:10,164 adding 'molmod/test/test_molecules.py' 2021-07-12T12:40:10,166 adding 'molmod/test/test_pairff.py' 2021-07-12T12:40:10,168 adding 'molmod/test/test_quaternions.py' 2021-07-12T12:40:10,169 adding 'molmod/test/test_randomize.py' 2021-07-12T12:40:10,170 adding 'molmod/test/test_similarity.py' 2021-07-12T12:40:10,172 adding 'molmod/test/test_symmetry.py' 2021-07-12T12:40:10,173 adding 'molmod/test/test_toyff.py' 2021-07-12T12:40:10,176 adding 'molmod/test/test_transformations.py' 2021-07-12T12:40:10,178 adding 'molmod/test/test_unit_cells.py' 2021-07-12T12:40:10,180 adding 'molmod/test/test_units.py' 2021-07-12T12:40:10,181 adding 'molmod/test/test_utils.py' 2021-07-12T12:40:10,182 adding 'molmod/test/test_vectors.py' 2021-07-12T12:40:10,184 adding 'molmod/test/test_zmatrix.py' 2021-07-12T12:40:10,191 adding 'molmod-1.3.0.dist-info/LICENSE.txt' 2021-07-12T12:40:10,192 adding 'molmod-1.3.0.dist-info/METADATA' 2021-07-12T12:40:10,193 adding 'molmod-1.3.0.dist-info/WHEEL' 2021-07-12T12:40:10,194 adding 'molmod-1.3.0.dist-info/top_level.txt' 2021-07-12T12:40:10,197 adding 'molmod-1.3.0.dist-info/RECORD' 2021-07-12T12:40:10,236 removing build/bdist.linux-armv7l/wheel 2021-07-12T12:40:10,698 Building wheel for molmod (setup.py): finished with status 'done' 2021-07-12T12:40:10,731 Created wheel for molmod: filename=molmod-1.3.0-cp39-cp39-linux_armv7l.whl size=1953457 sha256=78777d19e953e61a2176ccc556fc4ab996e0397c3ffed562c95ff7069b3e3baf 2021-07-12T12:40:10,731 Stored in directory: /tmp/pip-ephem-wheel-cache-qwkl_vso/wheels/8f/3d/b0/e1c72fc5a288b395f1ef2730fbc5f4740868c61592c32b9860 2021-07-12T12:40:10,749 Successfully built molmod 2021-07-12T12:40:10,825 Removed build tracker: '/tmp/pip-req-tracker-j99zdpow'