2022-04-19T09:23:22,386 Created temporary directory: /tmp/pip-ephem-wheel-cache-4taf3o7b 2022-04-19T09:23:22,392 Created temporary directory: /tmp/pip-req-tracker-g2af8148 2022-04-19T09:23:22,392 Initialized build tracking at /tmp/pip-req-tracker-g2af8148 2022-04-19T09:23:22,393 Created build tracker: /tmp/pip-req-tracker-g2af8148 2022-04-19T09:23:22,393 Entered build tracker: /tmp/pip-req-tracker-g2af8148 2022-04-19T09:23:22,394 Created temporary directory: /tmp/pip-wheel-kst0qufi 2022-04-19T09:23:22,462 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-04-19T09:23:22,471 2 location(s) to search for versions of pmx-satumut: 2022-04-19T09:23:22,471 * https://pypi.org/simple/pmx-satumut/ 2022-04-19T09:23:22,471 * https://www.piwheels.org/simple/pmx-satumut/ 2022-04-19T09:23:22,472 Fetching project page and analyzing links: https://pypi.org/simple/pmx-satumut/ 2022-04-19T09:23:22,473 Getting page https://pypi.org/simple/pmx-satumut/ 2022-04-19T09:23:22,477 Found index url https://pypi.org/simple 2022-04-19T09:23:22,590 Link requires a different Python (3.9.2 not in: '>=2.7, <3'): https://files.pythonhosted.org/packages/9d/f3/d060deac232c6274f255fa1a7bddacc4048cba2d7fb004613fc1dde1123a/pmx-satumut-2.0.2.tar.gz#sha256=cfb6e3669a47f1379616fa156f890c7a7edf1bf59f27e698bc28fa1232e17248 (from https://pypi.org/simple/pmx-satumut/) (requires-python:>=2.7, <3) 2022-04-19T09:23:22,591 Found link https://files.pythonhosted.org/packages/ef/7a/46b2633db0c9cece852152edf13ce0941be555137bfe133c8c38ddeb6f3d/pmx-satumut-2.0.3.tar.gz#sha256=cffd1f6170bcb61b0e6a0acd1335118aa9a9434ba041f79c1b09847eabbf59f3 (from https://pypi.org/simple/pmx-satumut/), version: 2.0.3 2022-04-19T09:23:22,592 Found link https://files.pythonhosted.org/packages/72/c5/b3f3a7ea73cde31878d5a8b39755f723fceacfe3d671ad77b69b79d60b0f/pmx-satumut-2.0.4.tar.gz#sha256=71edad3f94734fd3f27d12e9f3f5ccf66e2508c865ed8d18d22c02549b8639c6 (from https://pypi.org/simple/pmx-satumut/) (requires-python:>=3.6), version: 2.0.4 2022-04-19T09:23:22,593 Fetching project page and analyzing links: https://www.piwheels.org/simple/pmx-satumut/ 2022-04-19T09:23:22,594 Getting page https://www.piwheels.org/simple/pmx-satumut/ 2022-04-19T09:23:22,596 Found index url https://www.piwheels.org/simple 2022-04-19T09:23:22,817 Skipping link: No binaries permitted for pmx-satumut: https://www.piwheels.org/simple/pmx-satumut/pmx_satumut-2.0.4-cp37-cp37m-linux_armv7l.whl#sha256=9ad74a1e462b31238fc03094df0f7d66831bfc0e11319138079c16bfa7ab8792 (from https://www.piwheels.org/simple/pmx-satumut/) (requires-python:>=3.6) 2022-04-19T09:23:22,817 Skipping link: No binaries permitted for pmx-satumut: https://www.piwheels.org/simple/pmx-satumut/pmx_satumut-2.0.4-cp37-cp37m-linux_armv6l.whl#sha256=9ad74a1e462b31238fc03094df0f7d66831bfc0e11319138079c16bfa7ab8792 (from https://www.piwheels.org/simple/pmx-satumut/) (requires-python:>=3.6) 2022-04-19T09:23:22,818 Skipping link: No binaries permitted for pmx-satumut: https://www.piwheels.org/simple/pmx-satumut/pmx_satumut-2.0.3-cp39-cp39-linux_armv7l.whl#sha256=c88c5fcb51d11c22f11e1b7655a6de1399c175ec56a707b2043b953e583b8195 (from https://www.piwheels.org/simple/pmx-satumut/) 2022-04-19T09:23:22,819 Skipping link: No binaries permitted for pmx-satumut: https://www.piwheels.org/simple/pmx-satumut/pmx_satumut-2.0.3-cp39-cp39-linux_armv6l.whl#sha256=c88c5fcb51d11c22f11e1b7655a6de1399c175ec56a707b2043b953e583b8195 (from https://www.piwheels.org/simple/pmx-satumut/) 2022-04-19T09:23:22,819 Skipping link: No binaries permitted for pmx-satumut: https://www.piwheels.org/simple/pmx-satumut/pmx_satumut-2.0.3-cp37-cp37m-linux_armv7l.whl#sha256=8924f68e4e17468581042f6ed9ced75532b38316f5f49099911c43e5b3487f18 (from https://www.piwheels.org/simple/pmx-satumut/) 2022-04-19T09:23:22,820 Skipping link: No binaries permitted for pmx-satumut: https://www.piwheels.org/simple/pmx-satumut/pmx_satumut-2.0.3-cp37-cp37m-linux_armv6l.whl#sha256=8924f68e4e17468581042f6ed9ced75532b38316f5f49099911c43e5b3487f18 (from https://www.piwheels.org/simple/pmx-satumut/) 2022-04-19T09:23:22,820 Skipping link: No binaries permitted for pmx-satumut: https://www.piwheels.org/simple/pmx-satumut/pmx_satumut-2.0.3-cp35-cp35m-linux_armv7l.whl#sha256=48f313e84e29ab2d93241ac2c77777e82287084ee7f4c03b98ba90412abaa8a0 (from https://www.piwheels.org/simple/pmx-satumut/) 2022-04-19T09:23:22,820 Skipping link: No binaries permitted for pmx-satumut: https://www.piwheels.org/simple/pmx-satumut/pmx_satumut-2.0.3-cp35-cp35m-linux_armv6l.whl#sha256=48f313e84e29ab2d93241ac2c77777e82287084ee7f4c03b98ba90412abaa8a0 (from https://www.piwheels.org/simple/pmx-satumut/) 2022-04-19T09:23:22,821 Skipping link: not a file: https://www.piwheels.org/simple/pmx-satumut/ 2022-04-19T09:23:22,821 Skipping link: not a file: https://pypi.org/simple/pmx-satumut/ 2022-04-19T09:23:22,866 Given no hashes to check 1 links for project 'pmx-satumut': discarding no candidates 2022-04-19T09:23:22,907 Collecting pmx-satumut==2.0.4 2022-04-19T09:23:22,911 Created temporary directory: /tmp/pip-unpack-zozm8cm8 2022-04-19T09:23:23,001 Downloading pmx-satumut-2.0.4.tar.gz (5.3 MB) 2022-04-19T09:23:29,579 Added pmx-satumut==2.0.4 from https://files.pythonhosted.org/packages/72/c5/b3f3a7ea73cde31878d5a8b39755f723fceacfe3d671ad77b69b79d60b0f/pmx-satumut-2.0.4.tar.gz#sha256=71edad3f94734fd3f27d12e9f3f5ccf66e2508c865ed8d18d22c02549b8639c6 to build tracker '/tmp/pip-req-tracker-g2af8148' 2022-04-19T09:23:29,582 Running setup.py (path:/tmp/pip-wheel-kst0qufi/pmx-satumut_270b8afc326143a6839583d7ad112621/setup.py) egg_info for package pmx-satumut 2022-04-19T09:23:29,583 Created temporary directory: /tmp/pip-pip-egg-info-tou_yxgq 2022-04-19T09:23:29,583 Preparing metadata (setup.py): started 2022-04-19T09:23:29,585 Running command python setup.py egg_info 2022-04-19T09:23:31,585 /usr/local/lib/python3.9/dist-packages/setuptools/dist.py:493: UserWarning: Normalizing 'v2.0.4' to '2.0.4' 2022-04-19T09:23:31,586 warnings.warn(tmpl.format(**locals())) 2022-04-19T09:23:31,641 running egg_info 2022-04-19T09:23:31,646 creating /tmp/pip-pip-egg-info-tou_yxgq/pmx_satumut.egg-info 2022-04-19T09:23:31,661 writing manifest file '/tmp/pip-pip-egg-info-tou_yxgq/pmx_satumut.egg-info/SOURCES.txt' 2022-04-19T09:23:32,179 writing manifest file '/tmp/pip-pip-egg-info-tou_yxgq/pmx_satumut.egg-info/SOURCES.txt' 2022-04-19T09:23:32,316 Preparing metadata (setup.py): finished with status 'done' 2022-04-19T09:23:32,326 Source in /tmp/pip-wheel-kst0qufi/pmx-satumut_270b8afc326143a6839583d7ad112621 has version 2.0.4, which satisfies requirement pmx-satumut==2.0.4 from https://files.pythonhosted.org/packages/72/c5/b3f3a7ea73cde31878d5a8b39755f723fceacfe3d671ad77b69b79d60b0f/pmx-satumut-2.0.4.tar.gz#sha256=71edad3f94734fd3f27d12e9f3f5ccf66e2508c865ed8d18d22c02549b8639c6 2022-04-19T09:23:32,328 Removed pmx-satumut==2.0.4 from https://files.pythonhosted.org/packages/72/c5/b3f3a7ea73cde31878d5a8b39755f723fceacfe3d671ad77b69b79d60b0f/pmx-satumut-2.0.4.tar.gz#sha256=71edad3f94734fd3f27d12e9f3f5ccf66e2508c865ed8d18d22c02549b8639c6 from build tracker '/tmp/pip-req-tracker-g2af8148' 2022-04-19T09:23:32,341 Created temporary directory: /tmp/pip-unpack-uw_50a3l 2022-04-19T09:23:32,342 Building wheels for collected packages: pmx-satumut 2022-04-19T09:23:32,350 Created temporary directory: /tmp/pip-wheel-h6ex0ztp 2022-04-19T09:23:32,351 Building wheel for pmx-satumut (setup.py): started 2022-04-19T09:23:32,353 Destination directory: /tmp/pip-wheel-h6ex0ztp 2022-04-19T09:23:32,353 Running command python setup.py bdist_wheel 2022-04-19T09:23:34,235 /usr/local/lib/python3.9/dist-packages/setuptools/dist.py:493: UserWarning: Normalizing 'v2.0.4' to '2.0.4' 2022-04-19T09:23:34,236 warnings.warn(tmpl.format(**locals())) 2022-04-19T09:23:34,350 running bdist_wheel 2022-04-19T09:23:34,732 running build 2022-04-19T09:23:34,733 running build_py 2022-04-19T09:23:34,746 creating build 2022-04-19T09:23:34,747 creating build/lib.linux-armv7l-3.9 2022-04-19T09:23:34,748 creating build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,750 copying src/pmx/chain.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,756 copying src/pmx/alchemy.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,763 copying src/pmx/_version.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,766 copying src/pmx/model.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,772 copying src/pmx/ndx.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,776 copying src/pmx/estimators.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,782 copying src/pmx/gmx.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,786 copying src/pmx/analysis.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,790 copying src/pmx/options.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,794 copying src/pmx/ligand_alchemy.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,803 copying src/pmx/builder.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,808 copying src/pmx/jobscript.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,811 copying src/pmx/atomselection.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,815 copying src/pmx/xtc.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,819 copying src/pmx/rotamer.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,823 copying src/pmx/utils.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,827 copying src/pmx/molecule.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,832 copying src/pmx/mutdb.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,837 copying src/pmx/library.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,847 copying src/pmx/atom.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,851 copying src/pmx/ffparser.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,856 copying src/pmx/__init__.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,859 copying src/pmx/xdrfile.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,863 copying src/pmx/forcefield.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,872 copying src/pmx/parser.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,876 copying src/pmx/geometry.py -> build/lib.linux-armv7l-3.9/pmx 2022-04-19T09:23:34,879 running egg_info 2022-04-19T09:23:35,016 writing manifest file 'src/pmx_satumut.egg-info/SOURCES.txt' 2022-04-19T09:23:35,089 creating build/lib.linux-armv7l-3.9/pmx/data 2022-04-19T09:23:35,090 copying src/pmx/data/aminoacids.pkl -> build/lib.linux-armv7l-3.9/pmx/data 2022-04-19T09:23:35,106 copying src/pmx/data/bbdep.pkl -> build/lib.linux-armv7l-3.9/pmx/data 2022-04-19T09:23:35,949 copying src/pmx/data/blosum62_new.mat -> build/lib.linux-armv7l-3.9/pmx/data 2022-04-19T09:23:35,952 copying src/pmx/data/bp.pkl -> build/lib.linux-armv7l-3.9/pmx/data 2022-04-19T09:23:35,963 copying src/pmx/data/bp_amber.pkl -> build/lib.linux-armv7l-3.9/pmx/data 2022-04-19T09:23:35,976 copying src/pmx/data/bp_charmm.pkl -> build/lib.linux-armv7l-3.9/pmx/data 2022-04-19T09:23:35,989 copying src/pmx/data/rna.pkl -> build/lib.linux-armv7l-3.9/pmx/data 2022-04-19T09:23:35,996 creating build/lib.linux-armv7l-3.9/pmx/data/mutff 2022-04-19T09:23:35,997 copying src/pmx/data/mutff/atommass.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff 2022-04-19T09:23:36,002 copying src/pmx/data/mutff/elements.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff 2022-04-19T09:23:36,006 copying src/pmx/data/mutff/residuetypes.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff 2022-04-19T09:23:36,012 copying src/pmx/data/mutff/spc216.gro -> build/lib.linux-armv7l-3.9/pmx/data/mutff 2022-04-19T09:23:36,018 copying src/pmx/data/mutff/specbond.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff 2022-04-19T09:23:36,022 copying src/pmx/data/mutff/vdwradii.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff 2022-04-19T09:23:36,026 copying src/pmx/data/mutff/xlateat.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff 2022-04-19T09:23:36,030 creating build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,031 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.am -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,035 copying src/pmx/data/mutff/amber14sbmut.ff/Makefile.in -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,040 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,045 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,049 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,056 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,060 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,063 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,072 copying src/pmx/data/mutff/amber14sbmut.ff/aminoacids.vsd -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,077 copying src/pmx/data/mutff/amber14sbmut.ff/atomtypes.atp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,081 copying src/pmx/data/mutff/amber14sbmut.ff/dna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,085 copying src/pmx/data/mutff/amber14sbmut.ff/dna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,089 copying src/pmx/data/mutff/amber14sbmut.ff/dna.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,093 copying src/pmx/data/mutff/amber14sbmut.ff/dna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,099 copying src/pmx/data/mutff/amber14sbmut.ff/ffbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,106 copying src/pmx/data/mutff/amber14sbmut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,111 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.doc -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,114 copying src/pmx/data/mutff/amber14sbmut.ff/forcefield.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,118 copying src/pmx/data/mutff/amber14sbmut.ff/gbsa.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,122 copying src/pmx/data/mutff/amber14sbmut.ff/ions.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,127 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.mtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,285 copying src/pmx/data/mutff/amber14sbmut.ff/mutres.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,349 copying src/pmx/data/mutff/amber14sbmut.ff/rna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,353 copying src/pmx/data/mutff/amber14sbmut.ff/rna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,358 copying src/pmx/data/mutff/amber14sbmut.ff/rna.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,362 copying src/pmx/data/mutff/amber14sbmut.ff/rna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,368 copying src/pmx/data/mutff/amber14sbmut.ff/spc.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,372 copying src/pmx/data/mutff/amber14sbmut.ff/spce.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,375 copying src/pmx/data/mutff/amber14sbmut.ff/tip3p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,379 copying src/pmx/data/mutff/amber14sbmut.ff/tip4p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,383 copying src/pmx/data/mutff/amber14sbmut.ff/tip4pew.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,386 copying src/pmx/data/mutff/amber14sbmut.ff/tip5p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,390 copying src/pmx/data/mutff/amber14sbmut.ff/urea.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,394 copying src/pmx/data/mutff/amber14sbmut.ff/watermodels.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber14sbmut.ff 2022-04-19T09:23:36,397 creating build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,399 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,405 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.arn_backup -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,408 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,412 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,416 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,420 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,424 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,436 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,440 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,444 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,451 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/backup_mutres -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,504 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/correct_ffbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,510 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,514 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,517 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,521 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/dna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,526 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffberger.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,531 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,537 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,542 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.doc -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,546 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/forcefield.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,550 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/gbsa.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,554 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/ions.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,558 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.mtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,675 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,734 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,753 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,763 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,769 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/popc_AmbBer_posre.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,775 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,780 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,785 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,789 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/rna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,796 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spc.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,800 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/spce.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,805 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip3p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,810 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,814 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,820 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/tip5p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,824 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/urea.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,829 copying src/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff/watermodels.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-bsc1-mut.ff 2022-04-19T09:23:36,833 creating build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,835 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,840 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,844 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,850 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,854 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,860 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,869 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,873 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,878 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_ffbonded_for_ildn_test.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,883 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/backup_mutres -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,954 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/correct_ffbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,962 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,967 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,972 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,976 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/dna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,983 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffberger.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,988 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,995 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:36,999 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.doc -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,003 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/forcefield.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,006 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/gbsa.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,011 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/ions.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,015 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.mtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,159 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,225 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,244 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,254 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,261 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/popc_AmbBer_posre.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,266 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,269 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,274 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,277 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/rna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,283 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spc.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,287 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/spce.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,291 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip3p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,295 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,298 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,302 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/tip5p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,306 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/urea.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,310 copying src/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff/watermodels.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-dna-mut.ff 2022-04-19T09:23:37,313 creating build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,314 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,319 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,323 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,328 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,331 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,335 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,345 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,350 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,354 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,358 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,362 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,366 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/dna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,371 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,377 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,382 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.doc -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,385 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/forcefield.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,389 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/gbsa.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,393 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/ions.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,397 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.mtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,560 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/mutres.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,626 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,629 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,633 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,638 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/rna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,643 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spc.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,647 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/spce.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,651 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip3p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,654 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,658 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,661 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/tip5p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,665 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/urea.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,668 copying src/pmx/data/mutff/amber99sb-star-ildn-mut.ff/watermodels.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff/amber99sb-star-ildn-mut.ff 2022-04-19T09:23:37,672 creating build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,673 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,677 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.c.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,681 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,685 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.n.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,689 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,692 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,699 copying src/pmx/data/mutff/charmm22star-mut.ff/aminoacids.vsd -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,703 copying src/pmx/data/mutff/charmm22star-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,709 copying src/pmx/data/mutff/charmm22star-mut.ff/cmap.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,715 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,718 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.c.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,722 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,726 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.n.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,730 copying src/pmx/data/mutff/charmm22star-mut.ff/dna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,734 copying src/pmx/data/mutff/charmm22star-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,743 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnabonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,752 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnanonbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,759 copying src/pmx/data/mutff/charmm22star-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,771 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.doc -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,775 copying src/pmx/data/mutff/charmm22star-mut.ff/forcefield.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,779 copying src/pmx/data/mutff/charmm22star-mut.ff/gb.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,782 copying src/pmx/data/mutff/charmm22star-mut.ff/ions.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,786 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,789 copying src/pmx/data/mutff/charmm22star-mut.ff/lipids.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,796 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,800 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.mtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,922 copying src/pmx/data/mutff/charmm22star-mut.ff/mutres.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,983 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,988 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.c.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,992 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:37,996 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.n.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,001 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,005 copying src/pmx/data/mutff/charmm22star-mut.ff/rna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,010 copying src/pmx/data/mutff/charmm22star-mut.ff/spc.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,015 copying src/pmx/data/mutff/charmm22star-mut.ff/spce.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,019 copying src/pmx/data/mutff/charmm22star-mut.ff/tip3p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,023 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,028 copying src/pmx/data/mutff/charmm22star-mut.ff/tip4pew.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,032 copying src/pmx/data/mutff/charmm22star-mut.ff/tip5p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,037 copying src/pmx/data/mutff/charmm22star-mut.ff/tips3p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,041 copying src/pmx/data/mutff/charmm22star-mut.ff/watermodels.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm22star-mut.ff 2022-04-19T09:23:38,045 creating build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,047 copying src/pmx/data/mutff/charmm36m-mut.ff/atomtypes.atp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,055 copying src/pmx/data/mutff/charmm36m-mut.ff/cmap.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,065 copying src/pmx/data/mutff/charmm36m-mut.ff/ffbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,126 copying src/pmx/data/mutff/charmm36m-mut.ff/ffnonbonded.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,214 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.doc -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,219 copying src/pmx/data/mutff/charmm36m-mut.ff/forcefield.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,224 copying src/pmx/data/mutff/charmm36m-mut.ff/gb.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,230 copying src/pmx/data/mutff/charmm36m-mut.ff/ions.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,234 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,239 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.c.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,243 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.hdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,249 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.n.tdb -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,254 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.r2b -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,258 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,322 copying src/pmx/data/mutff/charmm36m-mut.ff/merged.vsd -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,326 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.arn -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,330 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.mtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,479 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,540 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.mtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,561 copying src/pmx/data/mutff/charmm36m-mut.ff/mutres_dna.rtp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,572 copying src/pmx/data/mutff/charmm36m-mut.ff/nbfix.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,576 copying src/pmx/data/mutff/charmm36m-mut.ff/spc.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,581 copying src/pmx/data/mutff/charmm36m-mut.ff/spce.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,585 copying src/pmx/data/mutff/charmm36m-mut.ff/tip3p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,589 copying src/pmx/data/mutff/charmm36m-mut.ff/tip4p.itp -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,593 copying src/pmx/data/mutff/charmm36m-mut.ff/watermodels.dat -> build/lib.linux-armv7l-3.9/pmx/data/mutff/charmm36m-mut.ff 2022-04-19T09:23:38,597 creating build/lib.linux-armv7l-3.9/pmx/extensions 2022-04-19T09:23:38,597 creating build/lib.linux-armv7l-3.9/pmx/extensions/pmx 2022-04-19T09:23:38,600 copying src/pmx/extensions/pmx/Energy.c -> build/lib.linux-armv7l-3.9/pmx/extensions/pmx 2022-04-19T09:23:38,605 copying src/pmx/extensions/pmx/Geometry.c -> build/lib.linux-armv7l-3.9/pmx/extensions/pmx 2022-04-19T09:23:38,610 copying src/pmx/extensions/pmx/Geometry.h -> build/lib.linux-armv7l-3.9/pmx/extensions/pmx 2022-04-19T09:23:38,616 copying src/pmx/extensions/pmx/cpp_test.cpp -> build/lib.linux-armv7l-3.9/pmx/extensions/pmx 2022-04-19T09:23:38,620 copying src/pmx/extensions/pmx/init.c -> build/lib.linux-armv7l-3.9/pmx/extensions/pmx 2022-04-19T09:23:38,624 copying src/pmx/extensions/pmx/pmx.h -> build/lib.linux-armv7l-3.9/pmx/extensions/pmx 2022-04-19T09:23:38,629 copying src/pmx/extensions/pmx/wrap_Geometry.c -> build/lib.linux-armv7l-3.9/pmx/extensions/pmx 2022-04-19T09:23:38,634 creating build/lib.linux-armv7l-3.9/pmx/extensions/xdr 2022-04-19T09:23:38,636 copying src/pmx/extensions/xdr/trr2xtc.c -> build/lib.linux-armv7l-3.9/pmx/extensions/xdr 2022-04-19T09:23:38,641 copying src/pmx/extensions/xdr/xdrfile.c -> build/lib.linux-armv7l-3.9/pmx/extensions/xdr 2022-04-19T09:23:38,649 copying src/pmx/extensions/xdr/xdrfile.h -> build/lib.linux-armv7l-3.9/pmx/extensions/xdr 2022-04-19T09:23:38,655 copying src/pmx/extensions/xdr/xdrfile_c_test.c -> build/lib.linux-armv7l-3.9/pmx/extensions/xdr 2022-04-19T09:23:38,660 copying src/pmx/extensions/xdr/xdrfile_trr.c -> build/lib.linux-armv7l-3.9/pmx/extensions/xdr 2022-04-19T09:23:38,666 copying src/pmx/extensions/xdr/xdrfile_trr.h -> build/lib.linux-armv7l-3.9/pmx/extensions/xdr 2022-04-19T09:23:38,670 copying src/pmx/extensions/xdr/xdrfile_xtc.c -> build/lib.linux-armv7l-3.9/pmx/extensions/xdr 2022-04-19T09:23:38,674 copying src/pmx/extensions/xdr/xdrfile_xtc.h -> build/lib.linux-armv7l-3.9/pmx/extensions/xdr 2022-04-19T09:23:38,678 creating build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,680 copying src/pmx/scripts/__init__.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,683 copying src/pmx/scripts/analyze_dhdl.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,689 copying src/pmx/scripts/atomMapping.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,695 copying src/pmx/scripts/build_cyclic_top.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,700 copying src/pmx/scripts/cli.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,704 copying src/pmx/scripts/generate_hybrid_residue.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,713 copying src/pmx/scripts/generate_hybrid_topology.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,718 copying src/pmx/scripts/ligandHybrid.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,723 copying src/pmx/scripts/make_double_box.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,727 copying src/pmx/scripts/md_setup.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,732 copying src/pmx/scripts/mutate.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,738 copying src/pmx/scripts/prepare_crooks_runs.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,742 copying src/pmx/scripts/set_gmxlib.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,746 copying src/pmx/scripts/setup_abfe.py -> build/lib.linux-armv7l-3.9/pmx/scripts 2022-04-19T09:23:38,757 UPDATING build/lib.linux-armv7l-3.9/pmx/_version.py 2022-04-19T09:23:38,760 set build/lib.linux-armv7l-3.9/pmx/_version.py to 'v2.0.4' 2022-04-19T09:23:38,760 running build_ext 2022-04-19T09:23:38,772 creating build/temp.linux-armv7l-3.9 2022-04-19T09:23:38,772 creating build/temp.linux-armv7l-3.9/src 2022-04-19T09:23:38,774 creating build/temp.linux-armv7l-3.9/src/pmx 2022-04-19T09:23:38,775 creating build/temp.linux-armv7l-3.9/src/pmx/extensions 2022-04-19T09:23:38,776 creating build/temp.linux-armv7l-3.9/src/pmx/extensions/pmx 2022-04-19T09:23:38,778 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 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.9 -c src/pmx/extensions/pmx/Energy.c -o build/temp.linux-armv7l-3.9/src/pmx/extensions/pmx/Energy.o 2022-04-19T09:23:41,064 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 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.9 -c src/pmx/extensions/pmx/Geometry.c -o build/temp.linux-armv7l-3.9/src/pmx/extensions/pmx/Geometry.o 2022-04-19T09:23:41,824 src/pmx/extensions/pmx/Geometry.c: In function ‘spread_atoms_on_grid’: 2022-04-19T09:23:41,824 src/pmx/extensions/pmx/Geometry.c:527:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2022-04-19T09:23:41,825 527 | int nx, ny, nz; 2022-04-19T09:23:41,825 | ^~ 2022-04-19T09:23:41,827 src/pmx/extensions/pmx/Geometry.c: In function ‘search_neighbors’: 2022-04-19T09:23:41,827 src/pmx/extensions/pmx/Geometry.c:586:15: warning: variable ‘nz’ set but not used [-Wunused-but-set-variable] 2022-04-19T09:23:41,828 586 | int nx, ny, nz; 2022-04-19T09:23:41,828 | ^~ 2022-04-19T09:23:45,798 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 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.9 -c src/pmx/extensions/pmx/init.c -o build/temp.linux-armv7l-3.9/src/pmx/extensions/pmx/init.o 2022-04-19T09:23:46,612 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 -fPIC -Isrc/pmx/extensions/pmx -I/usr/include/python3.9 -c src/pmx/extensions/pmx/wrap_Geometry.c -o build/temp.linux-armv7l-3.9/src/pmx/extensions/pmx/wrap_Geometry.o 2022-04-19T09:23:49,775 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-3.9/src/pmx/extensions/pmx/Energy.o build/temp.linux-armv7l-3.9/src/pmx/extensions/pmx/Geometry.o build/temp.linux-armv7l-3.9/src/pmx/extensions/pmx/init.o build/temp.linux-armv7l-3.9/src/pmx/extensions/pmx/wrap_Geometry.o -L/usr/lib -lm -o build/lib.linux-armv7l-3.9/pmx/_pmx.cpython-39-arm-linux-gnueabihf.so 2022-04-19T09:23:50,078 creating build/temp.linux-armv7l-3.9/src/pmx/extensions/xdr 2022-04-19T09:23:50,080 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 -fPIC -Isrc/pmx/extensions/xdr -I/usr/include/python3.9 -c src/pmx/extensions/xdr/xdrfile.c -o build/temp.linux-armv7l-3.9/src/pmx/extensions/xdr/xdrfile.o 2022-04-19T09:23:50,181 src/pmx/extensions/xdr/xdrfile.c:5:2: warning: "/*" within comment [-Wcomment] 2022-04-19T09:23:50,181 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-04-19T09:23:50,182 | 2022-04-19T09:23:50,359 In file included from src/pmx/extensions/xdr/xdrfile.c:60: 2022-04-19T09:23:50,359 src/pmx/extensions/xdr/xdrfile.h:5:2: warning: "/*" within comment [-Wcomment] 2022-04-19T09:23:50,360 5 | /* -*- mode: c; tab-width: 4; indent-tabs-mode: t; c-basic-offset: 4 -*- 2022-04-19T09:23:50,360 | 2022-04-19T09:23:50,375 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofint’: 2022-04-19T09:23:50,375 src/pmx/extensions/xdr/xdrfile.c:499:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-04-19T09:23:50,375 499 | while (size >= num && num_of_bits < 32) 2022-04-19T09:23:50,376 | ^~ 2022-04-19T09:23:50,376 src/pmx/extensions/xdr/xdrfile.c: In function ‘sizeofints’: 2022-04-19T09:23:50,377 src/pmx/extensions/xdr/xdrfile.c:545:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-04-19T09:23:50,377 545 | while (bytes[num_of_bytes] >= num) 2022-04-19T09:23:50,377 | ^~ 2022-04-19T09:23:50,379 src/pmx/extensions/xdr/xdrfile.c: In function ‘encodeints’: 2022-04-19T09:23:50,380 src/pmx/extensions/xdr/xdrfile.c:654:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-04-19T09:23:50,380 654 | if (num_of_bits >= num_of_bytes * 8) 2022-04-19T09:23:50,381 | ^~ 2022-04-19T09:23:50,381 src/pmx/extensions/xdr/xdrfile.c:656:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-04-19T09:23:50,381 656 | for (i = 0; i < num_of_bytes; i++) 2022-04-19T09:23:50,382 | ^ 2022-04-19T09:23:50,382 src/pmx/extensions/xdr/xdrfile.c:664:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-04-19T09:23:50,382 664 | for (i = 0; i < num_of_bytes-1; i++) 2022-04-19T09:23:50,383 | ^ 2022-04-19T09:23:50,383 src/pmx/extensions/xdr/xdrfile.c: In function ‘decodebits’: 2022-04-19T09:23:50,384 src/pmx/extensions/xdr/xdrfile.c:704:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-04-19T09:23:50,384 704 | if (lastbits < num_of_bits) 2022-04-19T09:23:50,384 | ^ 2022-04-19T09:23:50,388 src/pmx/extensions/xdr/xdrfile.c: In function ‘xdrfile_decompress_coord_float’: 2022-04-19T09:23:50,389 src/pmx/extensions/xdr/xdrfile.c:814:10: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-04-19T09:23:50,389 814 | if(size3>xfp->buf1size) 2022-04-19T09:23:50,390 | ^ 2022-04-19T09:23:50,393 src/pmx/extensions/xdr/xdrfile.c:866:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-04-19T09:23:50,393 866 | maxidx = (LASTIDXxfp->buf1size) 2022-04-19T09:23:50,404 | ^ 2022-04-19T09:23:50,415 src/pmx/extensions/xdr/xdrfile.c:1133:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-04-19T09:23:50,416 1133 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) 2022-04-19T09:23:50,416 | ^ 2022-04-19T09:23:50,417 src/pmx/extensions/xdr/xdrfile.c:1139:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-04-19T09:23:50,417 1139 | maxidx = (LASTIDXxfp->buf1size) 2022-04-19T09:23:50,432 | ^ 2022-04-19T09:23:50,436 src/pmx/extensions/xdr/xdrfile.c:1366:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-04-19T09:23:50,437 1366 | maxidx = (LASTIDXxfp->buf1size) { 2022-04-19T09:23:50,452 | ^ 2022-04-19T09:23:50,467 src/pmx/extensions/xdr/xdrfile.c:1617:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2022-04-19T09:23:50,468 1617 | while (smallidx < LASTIDX && magicints[smallidx] < mindiff) { 2022-04-19T09:23:50,468 | ^ 2022-04-19T09:23:50,470 src/pmx/extensions/xdr/xdrfile.c:1622:19: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2022-04-19T09:23:50,470 1622 | maxidx = (LASTIDX