2021-12-20T19:41:41,514 Created temporary directory: /tmp/pip-ephem-wheel-cache-txt1l2tj 2021-12-20T19:41:41,520 Created temporary directory: /tmp/pip-req-tracker-iri45dlr 2021-12-20T19:41:41,521 Initialized build tracking at /tmp/pip-req-tracker-iri45dlr 2021-12-20T19:41:41,521 Created build tracker: /tmp/pip-req-tracker-iri45dlr 2021-12-20T19:41:41,521 Entered build tracker: /tmp/pip-req-tracker-iri45dlr 2021-12-20T19:41:41,522 Created temporary directory: /tmp/pip-wheel-8p05kt65 2021-12-20T19:41:41,591 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2021-12-20T19:41:41,596 2 location(s) to search for versions of fragmenstein: 2021-12-20T19:41:41,596 * https://pypi.org/simple/fragmenstein/ 2021-12-20T19:41:41,596 * https://www.piwheels.org/simple/fragmenstein/ 2021-12-20T19:41:41,597 Fetching project page and analyzing links: https://pypi.org/simple/fragmenstein/ 2021-12-20T19:41:41,599 Getting page https://pypi.org/simple/fragmenstein/ 2021-12-20T19:41:41,602 Found index url https://pypi.org/simple 2021-12-20T19:41:41,810 Found link https://files.pythonhosted.org/packages/79/ea/7241107f42ce973a3d450ec740b88e5c481b09a368f56e472a79a051a272/Fragmenstein-0.6.tar.gz#sha256=8a298c932ea1b6b55131b92b1553b9659c3b7f63a77db39b88e81051980440b6 (from https://pypi.org/simple/fragmenstein/), version: 0.6 2021-12-20T19:41:41,811 Found link https://files.pythonhosted.org/packages/a5/40/314e6be38aa08837214d20180853d6f7b1216ce5600cc08b9d2af71fddd1/fragmenstein-0.6.1.tar.gz#sha256=e97aafbe0ea51d18115dcd4107984769da0663cc0a20b53443d7f7aaac9bd701 (from https://pypi.org/simple/fragmenstein/), version: 0.6.1 2021-12-20T19:41:41,812 Found link https://files.pythonhosted.org/packages/01/5a/80ee1256cd2c279c50e75ec982d56dcd4abe9f4ac8bb4c19c37299fe8792/fragmenstein-0.6.2.tar.gz#sha256=167e96cb1182bd30a948ff6b919d05bb7f9cc04325d5d2ce842d9660fed5fb30 (from https://pypi.org/simple/fragmenstein/), version: 0.6.2 2021-12-20T19:41:41,812 Found link https://files.pythonhosted.org/packages/d0/5c/78b74cb56d283448857aab8e31dc7593ea40c278367cfddb5d8823f88af1/fragmenstein-0.6.3.tar.gz#sha256=dd8414e3152cc72855bfc85a886b41d7037002a96e2785716194cda67bad0cb6 (from https://pypi.org/simple/fragmenstein/), version: 0.6.3 2021-12-20T19:41:41,813 Found link https://files.pythonhosted.org/packages/ef/53/306ce7438a57b764d88968982f6a5dc9b4c69e83bd23a20d857040223368/Fragmenstein-0.6.4.tar.gz#sha256=f46068418a01abdca48d58e27071f2ae5bcd34f66de527e833e1040d492ca86f (from https://pypi.org/simple/fragmenstein/), version: 0.6.4 2021-12-20T19:41:41,814 Found link https://files.pythonhosted.org/packages/7a/16/dd9b834215d9b986894c991e28cb9111691401b52686f2f8d3b4503cd25e/Fragmenstein-0.6.5.tar.gz#sha256=f15566be1726c42db0bf0947a4fdb5ac60668cf78181354421289646df400b81 (from https://pypi.org/simple/fragmenstein/), version: 0.6.5 2021-12-20T19:41:41,814 Found link https://files.pythonhosted.org/packages/5c/e2/d2ca713c7a98e86580ca55c8cea3bd011aab570829eb7306bb76471f41f5/Fragmenstein-0.6.7.tar.gz#sha256=7bc5579fba97a279e6a7714de296448d12a70b1f4bf0c078318f4ee77d74c6f5 (from https://pypi.org/simple/fragmenstein/), version: 0.6.7 2021-12-20T19:41:41,815 Found link https://files.pythonhosted.org/packages/d3/de/18bb471456c5f660642b8df218f03631149c30947995eb4896b7fca4752d/Fragmenstein-0.6.8.tar.gz#sha256=485807bc0934f4d6beae6947b67c34f64a24f7a0f39a977dbc5ac7949d08fe89 (from https://pypi.org/simple/fragmenstein/), version: 0.6.8 2021-12-20T19:41:41,816 Found link https://files.pythonhosted.org/packages/b3/35/e2afdf14377e64b1a6104d704292b07fc1ce528912a722549c115eb036ad/Fragmenstein-0.6.10.tar.gz#sha256=7b03c6bf51659e874cbcbce8b5ca74cbc60104d3cf0e54373bf0ef66630448f0 (from https://pypi.org/simple/fragmenstein/), version: 0.6.10 2021-12-20T19:41:41,816 Found link https://files.pythonhosted.org/packages/9e/6a/21efc4f6bbb3e74ad3b267e1a2cb6e3f4479d1e6b318412332c520627b0b/Fragmenstein-0.6.11.tar.gz#sha256=91f64dff01c4eb995d14c33bb894d409f2abbf02115bc877b068b805ae178c5c (from https://pypi.org/simple/fragmenstein/), version: 0.6.11 2021-12-20T19:41:41,817 Fetching project page and analyzing links: https://www.piwheels.org/simple/fragmenstein/ 2021-12-20T19:41:41,818 Getting page https://www.piwheels.org/simple/fragmenstein/ 2021-12-20T19:41:41,820 Found index url https://www.piwheels.org/simple 2021-12-20T19:41:42,051 Skipping link: No binaries permitted for fragmenstein: https://www.piwheels.org/simple/fragmenstein/Fragmenstein-0.6-py3-none-any.whl#sha256=a066df758898ce62bb498e9000e9e60772360c4fba8b4c9b687e0fc1e535a5ca (from https://www.piwheels.org/simple/fragmenstein/) 2021-12-20T19:41:42,052 Skipping link: No binaries permitted for fragmenstein: https://www.piwheels.org/simple/fragmenstein/fragmenstein-0.6.1-py3-none-any.whl#sha256=0a434b2df199f1664c61f14d7307e316f5e1bd615eb3995fe740fa9b43567360 (from https://www.piwheels.org/simple/fragmenstein/) 2021-12-20T19:41:42,053 Skipping link: No binaries permitted for fragmenstein: https://www.piwheels.org/simple/fragmenstein/Fragmenstein-0.6.10-py3-none-any.whl#sha256=c81a4ce4083e3c2949820ec4f9a2052f91d107ee5803625c1395eb37662c3f65 (from https://www.piwheels.org/simple/fragmenstein/) 2021-12-20T19:41:42,053 Skipping link: No binaries permitted for fragmenstein: https://www.piwheels.org/simple/fragmenstein/fragmenstein-0.6.2-py3-none-any.whl#sha256=06157e7aa034419ec24c936b586fee8801b66cd32017233c170a9e67aee89f93 (from https://www.piwheels.org/simple/fragmenstein/) 2021-12-20T19:41:42,054 Skipping link: No binaries permitted for fragmenstein: https://www.piwheels.org/simple/fragmenstein/fragmenstein-0.6.3-py3-none-any.whl#sha256=44918733ba0b1d6cd8179b2525562e84b5e8620385d5c36ad304d8ef005ddb9f (from https://www.piwheels.org/simple/fragmenstein/) 2021-12-20T19:41:42,054 Skipping link: No binaries permitted for fragmenstein: https://www.piwheels.org/simple/fragmenstein/Fragmenstein-0.6.4-py3-none-any.whl#sha256=fd2ae6f3f195d72cd1a89a6831ee0a23ab5edecc899e5cecef0663e5da21b3ed (from https://www.piwheels.org/simple/fragmenstein/) 2021-12-20T19:41:42,054 Skipping link: No binaries permitted for fragmenstein: https://www.piwheels.org/simple/fragmenstein/Fragmenstein-0.6.5-py3-none-any.whl#sha256=dc7956be0681793a1b114b9314d939e844ceefbe73c947332ed41160f87f4fb7 (from https://www.piwheels.org/simple/fragmenstein/) 2021-12-20T19:41:42,055 Skipping link: No binaries permitted for fragmenstein: https://www.piwheels.org/simple/fragmenstein/Fragmenstein-0.6.7-py3-none-any.whl#sha256=63fbcc65615bb01dbf461e7bada7ae323d78d0db76c04876bc510d2b449c65c8 (from https://www.piwheels.org/simple/fragmenstein/) 2021-12-20T19:41:42,055 Skipping link: No binaries permitted for fragmenstein: https://www.piwheels.org/simple/fragmenstein/Fragmenstein-0.6.8-py3-none-any.whl#sha256=105c4f74d89ac129d6ce2c540b954b0726b76789048aa6885e9fae20ad97c6f1 (from https://www.piwheels.org/simple/fragmenstein/) 2021-12-20T19:41:42,056 Skipping link: not a file: https://www.piwheels.org/simple/fragmenstein/ 2021-12-20T19:41:42,056 Skipping link: not a file: https://pypi.org/simple/fragmenstein/ 2021-12-20T19:41:42,092 Given no hashes to check 1 links for project 'fragmenstein': discarding no candidates 2021-12-20T19:41:42,122 Collecting fragmenstein==0.6.11 2021-12-20T19:41:42,125 Created temporary directory: /tmp/pip-unpack-o9c2c_lr 2021-12-20T19:41:42,212 Downloading Fragmenstein-0.6.11.tar.gz (85 kB) 2021-12-20T19:41:42,475 Added fragmenstein==0.6.11 from https://files.pythonhosted.org/packages/9e/6a/21efc4f6bbb3e74ad3b267e1a2cb6e3f4479d1e6b318412332c520627b0b/Fragmenstein-0.6.11.tar.gz#sha256=91f64dff01c4eb995d14c33bb894d409f2abbf02115bc877b068b805ae178c5c to build tracker '/tmp/pip-req-tracker-iri45dlr' 2021-12-20T19:41:42,476 Running setup.py (path:/tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1/setup.py) egg_info for package fragmenstein 2021-12-20T19:41:42,477 Created temporary directory: /tmp/pip-pip-egg-info-tvkw214t 2021-12-20T19:41:42,478 Preparing metadata (setup.py): started 2021-12-20T19:41:42,479 Running command python setup.py egg_info 2021-12-20T19:41:44,278 running egg_info 2021-12-20T19:41:44,282 creating /tmp/pip-pip-egg-info-tvkw214t/Fragmenstein.egg-info 2021-12-20T19:41:44,284 writing /tmp/pip-pip-egg-info-tvkw214t/Fragmenstein.egg-info/PKG-INFO 2021-12-20T19:41:44,288 writing dependency_links to /tmp/pip-pip-egg-info-tvkw214t/Fragmenstein.egg-info/dependency_links.txt 2021-12-20T19:41:44,290 writing entry points to /tmp/pip-pip-egg-info-tvkw214t/Fragmenstein.egg-info/entry_points.txt 2021-12-20T19:41:44,293 writing requirements to /tmp/pip-pip-egg-info-tvkw214t/Fragmenstein.egg-info/requires.txt 2021-12-20T19:41:44,294 writing top-level names to /tmp/pip-pip-egg-info-tvkw214t/Fragmenstein.egg-info/top_level.txt 2021-12-20T19:41:44,297 writing manifest file '/tmp/pip-pip-egg-info-tvkw214t/Fragmenstein.egg-info/SOURCES.txt' 2021-12-20T19:41:44,329 reading manifest file '/tmp/pip-pip-egg-info-tvkw214t/Fragmenstein.egg-info/SOURCES.txt' 2021-12-20T19:41:44,332 adding license file 'LICENSE' 2021-12-20T19:41:44,340 writing manifest file '/tmp/pip-pip-egg-info-tvkw214t/Fragmenstein.egg-info/SOURCES.txt' 2021-12-20T19:41:44,342 /tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1/setup.py:16: UserWarning: This 3.6+ script **requires** rdkit which ~cannot~ [could not] be pip installed. To install try either pip install rdkit-pypiconda install -c conda-forge rdkit or sudo apt-get/brew install python3-rdkit or visit rdkit documentation. 2021-12-20T19:41:44,342 'conda install -c conda-forge rdkit or ' + 2021-12-20T19:41:44,343 /tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1/setup.py:20: UserWarning: The minimisation part of this code uses pyrosetta, which has to be downloaded from the Rosetta software site due to licencing. Without it only the classes Monster and Rectifier will work 2021-12-20T19:41:44,343 warn('The minimisation part of this code uses pyrosetta, which has to be downloaded from ' + 2021-12-20T19:41:44,344 /tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1/setup.py:24: UserWarning: The module pymol2 is optionally required (conda or apt-get installable). 2021-12-20T19:41:44,344 warn('The module pymol2 is optionally required (conda or apt-get installable).') 2021-12-20T19:41:44,443 Preparing metadata (setup.py): finished with status 'done' 2021-12-20T19:41:44,450 Source in /tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1 has version 0.6.11, which satisfies requirement fragmenstein==0.6.11 from https://files.pythonhosted.org/packages/9e/6a/21efc4f6bbb3e74ad3b267e1a2cb6e3f4479d1e6b318412332c520627b0b/Fragmenstein-0.6.11.tar.gz#sha256=91f64dff01c4eb995d14c33bb894d409f2abbf02115bc877b068b805ae178c5c 2021-12-20T19:41:44,452 Removed fragmenstein==0.6.11 from https://files.pythonhosted.org/packages/9e/6a/21efc4f6bbb3e74ad3b267e1a2cb6e3f4479d1e6b318412332c520627b0b/Fragmenstein-0.6.11.tar.gz#sha256=91f64dff01c4eb995d14c33bb894d409f2abbf02115bc877b068b805ae178c5c from build tracker '/tmp/pip-req-tracker-iri45dlr' 2021-12-20T19:41:44,460 Created temporary directory: /tmp/pip-unpack-thhrbp3y 2021-12-20T19:41:44,462 Building wheels for collected packages: fragmenstein 2021-12-20T19:41:44,470 Created temporary directory: /tmp/pip-wheel-z3s63vgd 2021-12-20T19:41:44,471 Building wheel for fragmenstein (setup.py): started 2021-12-20T19:41:44,471 Destination directory: /tmp/pip-wheel-z3s63vgd 2021-12-20T19:41:44,472 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1/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-z3s63vgd 2021-12-20T19:41:45,864 /tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1/setup.py:16: UserWarning: This 3.6+ script **requires** rdkit which ~cannot~ [could not] be pip installed. To install try either pip install rdkit-pypiconda install -c conda-forge rdkit or sudo apt-get/brew install python3-rdkit or visit rdkit documentation. 2021-12-20T19:41:45,865 'conda install -c conda-forge rdkit or ' + 2021-12-20T19:41:45,866 /tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1/setup.py:20: UserWarning: The minimisation part of this code uses pyrosetta, which has to be downloaded from the Rosetta software site due to licencing. Without it only the classes Monster and Rectifier will work 2021-12-20T19:41:45,866 warn('The minimisation part of this code uses pyrosetta, which has to be downloaded from ' + 2021-12-20T19:41:45,866 /tmp/pip-wheel-8p05kt65/fragmenstein_b917e397cf664dd5b23114aba9c333b1/setup.py:24: UserWarning: The module pymol2 is optionally required (conda or apt-get installable). 2021-12-20T19:41:45,867 warn('The module pymol2 is optionally required (conda or apt-get installable).') 2021-12-20T19:41:46,243 running bdist_wheel 2021-12-20T19:41:46,252 running build 2021-12-20T19:41:46,252 running build_py 2021-12-20T19:41:46,260 creating build 2021-12-20T19:41:46,261 creating build/lib 2021-12-20T19:41:46,262 creating build/lib/fragmenstein 2021-12-20T19:41:46,264 copying fragmenstein/__init__.py -> build/lib/fragmenstein 2021-12-20T19:41:46,267 copying fragmenstein/m_rmsd.py -> build/lib/fragmenstein 2021-12-20T19:41:46,273 creating build/lib/fragmenstein/cli 2021-12-20T19:41:46,274 copying fragmenstein/cli/__init__.py -> build/lib/fragmenstein/cli 2021-12-20T19:41:46,279 creating build/lib/fragmenstein/mpro 2021-12-20T19:41:46,280 copying fragmenstein/mpro/__init__.py -> build/lib/fragmenstein/mpro 2021-12-20T19:41:46,287 creating build/lib/fragmenstein/monster 2021-12-20T19:41:46,289 copying fragmenstein/monster/_modification_logging.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,292 copying fragmenstein/monster/unmerge_mapper.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,297 copying fragmenstein/monster/_blend_place.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,302 copying fragmenstein/monster/__init__.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,306 copying fragmenstein/monster/_communal.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,310 copying fragmenstein/monster/_join_neighboring.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,314 copying fragmenstein/monster/_combine.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,317 copying fragmenstein/monster/positional_mapping.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,321 copying fragmenstein/monster/_collapse_ring.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,328 copying fragmenstein/monster/_utility.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,333 copying fragmenstein/monster/bond_provenance.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,336 copying fragmenstein/monster/_merge.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,340 copying fragmenstein/monster/_place.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,344 copying fragmenstein/monster/_base.py -> build/lib/fragmenstein/monster 2021-12-20T19:41:46,349 creating build/lib/fragmenstein/igor 2021-12-20T19:41:46,350 copying fragmenstein/igor/__init__.py -> build/lib/fragmenstein/igor 2021-12-20T19:41:46,354 copying fragmenstein/igor/_igor_min.py -> build/lib/fragmenstein/igor 2021-12-20T19:41:46,359 copying fragmenstein/igor/_igor_utils.py -> build/lib/fragmenstein/igor 2021-12-20T19:41:46,363 copying fragmenstein/igor/_igor_init.py -> build/lib/fragmenstein/igor 2021-12-20T19:41:46,369 creating build/lib/fragmenstein/victor 2021-12-20T19:41:46,370 copying fragmenstein/victor/_victor_journal.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,374 copying fragmenstein/victor/__init__.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,379 copying fragmenstein/victor/minimalPDB.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,383 copying fragmenstein/victor/_loggerwriter.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,386 copying fragmenstein/victor/_victor_overridables.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,389 copying fragmenstein/victor/_victor_igor.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,392 copying fragmenstein/victor/_victor_combine.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,396 copying fragmenstein/victor/_victor_validate.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,400 copying fragmenstein/victor/_victor_safety.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,403 copying fragmenstein/victor/_victor_common.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,407 copying fragmenstein/victor/_victor_base.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,411 copying fragmenstein/victor/_victor_plonk.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,415 copying fragmenstein/victor/_victor_place.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,419 copying fragmenstein/victor/_victor_utils.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,424 copying fragmenstein/victor/_victor_store.py -> build/lib/fragmenstein/victor 2021-12-20T19:41:46,429 creating build/lib/fragmenstein/laboratory 2021-12-20T19:41:46,430 copying fragmenstein/laboratory/__init__.py -> build/lib/fragmenstein/laboratory 2021-12-20T19:41:46,434 copying fragmenstein/laboratory/laboratory.py -> build/lib/fragmenstein/laboratory 2021-12-20T19:41:46,437 copying fragmenstein/laboratory/_process.py -> build/lib/fragmenstein/laboratory 2021-12-20T19:41:46,440 copying fragmenstein/laboratory/make_pyrosetta_options.py -> build/lib/fragmenstein/laboratory 2021-12-20T19:41:46,444 creating build/lib/fragmenstein/mpro/data 2021-12-20T19:41:46,446 copying fragmenstein/mpro/data/__init__.py -> build/lib/fragmenstein/mpro/data 2021-12-20T19:41:46,450 creating build/lib/fragmenstein/mpro/data/hit_mols 2021-12-20T19:41:46,452 copying fragmenstein/mpro/data/hit_mols/__init__.py -> build/lib/fragmenstein/mpro/data/hit_mols 2021-12-20T19:41:46,454 running egg_info 2021-12-20T19:41:46,478 writing Fragmenstein.egg-info/PKG-INFO 2021-12-20T19:41:46,481 writing dependency_links to Fragmenstein.egg-info/dependency_links.txt 2021-12-20T19:41:46,484 writing entry points to Fragmenstein.egg-info/entry_points.txt 2021-12-20T19:41:46,486 writing requirements to Fragmenstein.egg-info/requires.txt 2021-12-20T19:41:46,488 writing top-level names to Fragmenstein.egg-info/top_level.txt 2021-12-20T19:41:46,514 reading manifest file 'Fragmenstein.egg-info/SOURCES.txt' 2021-12-20T19:41:46,519 adding license file 'LICENSE' 2021-12-20T19:41:46,529 writing manifest file 'Fragmenstein.egg-info/SOURCES.txt' 2021-12-20T19:41:46,551 /usr/local/lib/python3.7/dist-packages/setuptools/command/install.py:37: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. 2021-12-20T19:41:46,551 setuptools.SetuptoolsDeprecationWarning, 2021-12-20T19:41:46,555 installing to build/bdist.linux-armv7l/wheel 2021-12-20T19:41:46,555 running install 2021-12-20T19:41:46,558 running install_lib 2021-12-20T19:41:46,564 creating build/bdist.linux-armv7l 2021-12-20T19:41:46,565 creating build/bdist.linux-armv7l/wheel 2021-12-20T19:41:46,568 creating build/bdist.linux-armv7l/wheel/fragmenstein 2021-12-20T19:41:46,570 creating build/bdist.linux-armv7l/wheel/fragmenstein/cli 2021-12-20T19:41:46,572 copying build/lib/fragmenstein/cli/__init__.py -> build/bdist.linux-armv7l/wheel/fragmenstein/cli 2021-12-20T19:41:46,576 copying build/lib/fragmenstein/__init__.py -> build/bdist.linux-armv7l/wheel/fragmenstein 2021-12-20T19:41:46,581 creating build/bdist.linux-armv7l/wheel/fragmenstein/mpro 2021-12-20T19:41:46,583 creating build/bdist.linux-armv7l/wheel/fragmenstein/mpro/data 2021-12-20T19:41:46,585 creating build/bdist.linux-armv7l/wheel/fragmenstein/mpro/data/hit_mols 2021-12-20T19:41:46,587 copying build/lib/fragmenstein/mpro/data/hit_mols/__init__.py -> build/bdist.linux-armv7l/wheel/fragmenstein/mpro/data/hit_mols 2021-12-20T19:41:46,591 copying build/lib/fragmenstein/mpro/data/__init__.py -> build/bdist.linux-armv7l/wheel/fragmenstein/mpro/data 2021-12-20T19:41:46,594 copying build/lib/fragmenstein/mpro/__init__.py -> build/bdist.linux-armv7l/wheel/fragmenstein/mpro 2021-12-20T19:41:46,599 creating build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,600 copying build/lib/fragmenstein/monster/_modification_logging.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,604 copying build/lib/fragmenstein/monster/unmerge_mapper.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,609 copying build/lib/fragmenstein/monster/_blend_place.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,614 copying build/lib/fragmenstein/monster/__init__.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,618 copying build/lib/fragmenstein/monster/_communal.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,623 copying build/lib/fragmenstein/monster/_join_neighboring.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,627 copying build/lib/fragmenstein/monster/_combine.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,631 copying build/lib/fragmenstein/monster/positional_mapping.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,635 copying build/lib/fragmenstein/monster/_collapse_ring.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,642 copying build/lib/fragmenstein/monster/_utility.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,647 copying build/lib/fragmenstein/monster/bond_provenance.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,651 copying build/lib/fragmenstein/monster/_merge.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,656 copying build/lib/fragmenstein/monster/_place.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,660 copying build/lib/fragmenstein/monster/_base.py -> build/bdist.linux-armv7l/wheel/fragmenstein/monster 2021-12-20T19:41:46,665 creating build/bdist.linux-armv7l/wheel/fragmenstein/igor 2021-12-20T19:41:46,667 copying build/lib/fragmenstein/igor/__init__.py -> build/bdist.linux-armv7l/wheel/fragmenstein/igor 2021-12-20T19:41:46,671 copying build/lib/fragmenstein/igor/_igor_min.py -> build/bdist.linux-armv7l/wheel/fragmenstein/igor 2021-12-20T19:41:46,677 copying build/lib/fragmenstein/igor/_igor_utils.py -> build/bdist.linux-armv7l/wheel/fragmenstein/igor 2021-12-20T19:41:46,681 copying build/lib/fragmenstein/igor/_igor_init.py -> build/bdist.linux-armv7l/wheel/fragmenstein/igor 2021-12-20T19:41:46,685 copying build/lib/fragmenstein/m_rmsd.py -> build/bdist.linux-armv7l/wheel/fragmenstein 2021-12-20T19:41:46,691 creating build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,692 copying build/lib/fragmenstein/victor/_victor_journal.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,696 copying build/lib/fragmenstein/victor/__init__.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,700 copying build/lib/fragmenstein/victor/minimalPDB.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,704 copying build/lib/fragmenstein/victor/_loggerwriter.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,707 copying build/lib/fragmenstein/victor/_victor_overridables.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,710 copying build/lib/fragmenstein/victor/_victor_igor.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,714 copying build/lib/fragmenstein/victor/_victor_combine.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,718 copying build/lib/fragmenstein/victor/_victor_validate.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,721 copying build/lib/fragmenstein/victor/_victor_safety.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,724 copying build/lib/fragmenstein/victor/_victor_common.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,728 copying build/lib/fragmenstein/victor/_victor_base.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,732 copying build/lib/fragmenstein/victor/_victor_plonk.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,737 copying build/lib/fragmenstein/victor/_victor_place.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,741 copying build/lib/fragmenstein/victor/_victor_utils.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,746 copying build/lib/fragmenstein/victor/_victor_store.py -> build/bdist.linux-armv7l/wheel/fragmenstein/victor 2021-12-20T19:41:46,751 creating build/bdist.linux-armv7l/wheel/fragmenstein/laboratory 2021-12-20T19:41:46,752 copying build/lib/fragmenstein/laboratory/__init__.py -> build/bdist.linux-armv7l/wheel/fragmenstein/laboratory 2021-12-20T19:41:46,756 copying build/lib/fragmenstein/laboratory/laboratory.py -> build/bdist.linux-armv7l/wheel/fragmenstein/laboratory 2021-12-20T19:41:46,759 copying build/lib/fragmenstein/laboratory/_process.py -> build/bdist.linux-armv7l/wheel/fragmenstein/laboratory 2021-12-20T19:41:46,763 copying build/lib/fragmenstein/laboratory/make_pyrosetta_options.py -> build/bdist.linux-armv7l/wheel/fragmenstein/laboratory 2021-12-20T19:41:46,765 running install_egg_info 2021-12-20T19:41:46,780 Copying Fragmenstein.egg-info to build/bdist.linux-armv7l/wheel/Fragmenstein-0.6.11-py3.7.egg-info 2021-12-20T19:41:46,802 running install_scripts 2021-12-20T19:41:46,961 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2021-12-20T19:41:46,969 creating build/bdist.linux-armv7l/wheel/Fragmenstein-0.6.11.dist-info/WHEEL 2021-12-20T19:41:46,973 creating '/tmp/pip-wheel-z3s63vgd/Fragmenstein-0.6.11-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-12-20T19:41:46,980 adding 'fragmenstein/__init__.py' 2021-12-20T19:41:46,984 adding 'fragmenstein/m_rmsd.py' 2021-12-20T19:41:46,988 adding 'fragmenstein/cli/__init__.py' 2021-12-20T19:41:46,992 adding 'fragmenstein/igor/__init__.py' 2021-12-20T19:41:46,995 adding 'fragmenstein/igor/_igor_init.py' 2021-12-20T19:41:47,000 adding 'fragmenstein/igor/_igor_min.py' 2021-12-20T19:41:47,003 adding 'fragmenstein/igor/_igor_utils.py' 2021-12-20T19:41:47,006 adding 'fragmenstein/laboratory/__init__.py' 2021-12-20T19:41:47,008 adding 'fragmenstein/laboratory/_process.py' 2021-12-20T19:41:47,011 adding 'fragmenstein/laboratory/laboratory.py' 2021-12-20T19:41:47,013 adding 'fragmenstein/laboratory/make_pyrosetta_options.py' 2021-12-20T19:41:47,018 adding 'fragmenstein/monster/__init__.py' 2021-12-20T19:41:47,021 adding 'fragmenstein/monster/_base.py' 2021-12-20T19:41:47,029 adding 'fragmenstein/monster/_blend_place.py' 2021-12-20T19:41:47,043 adding 'fragmenstein/monster/_collapse_ring.py' 2021-12-20T19:41:47,046 adding 'fragmenstein/monster/_combine.py' 2021-12-20T19:41:47,051 adding 'fragmenstein/monster/_communal.py' 2021-12-20T19:41:47,055 adding 'fragmenstein/monster/_join_neighboring.py' 2021-12-20T19:41:47,060 adding 'fragmenstein/monster/_merge.py' 2021-12-20T19:41:47,062 adding 'fragmenstein/monster/_modification_logging.py' 2021-12-20T19:41:47,064 adding 'fragmenstein/monster/_place.py' 2021-12-20T19:41:47,069 adding 'fragmenstein/monster/_utility.py' 2021-12-20T19:41:47,071 adding 'fragmenstein/monster/bond_provenance.py' 2021-12-20T19:41:47,074 adding 'fragmenstein/monster/positional_mapping.py' 2021-12-20T19:41:47,079 adding 'fragmenstein/monster/unmerge_mapper.py' 2021-12-20T19:41:47,084 adding 'fragmenstein/mpro/__init__.py' 2021-12-20T19:41:47,087 adding 'fragmenstein/mpro/data/__init__.py' 2021-12-20T19:41:47,090 adding 'fragmenstein/mpro/data/hit_mols/__init__.py' 2021-12-20T19:41:47,095 adding 'fragmenstein/victor/__init__.py' 2021-12-20T19:41:47,097 adding 'fragmenstein/victor/_loggerwriter.py' 2021-12-20T19:41:47,100 adding 'fragmenstein/victor/_victor_base.py' 2021-12-20T19:41:47,103 adding 'fragmenstein/victor/_victor_combine.py' 2021-12-20T19:41:47,108 adding 'fragmenstein/victor/_victor_common.py' 2021-12-20T19:41:47,111 adding 'fragmenstein/victor/_victor_igor.py' 2021-12-20T19:41:47,113 adding 'fragmenstein/victor/_victor_journal.py' 2021-12-20T19:41:47,115 adding 'fragmenstein/victor/_victor_overridables.py' 2021-12-20T19:41:47,118 adding 'fragmenstein/victor/_victor_place.py' 2021-12-20T19:41:47,121 adding 'fragmenstein/victor/_victor_plonk.py' 2021-12-20T19:41:47,124 adding 'fragmenstein/victor/_victor_safety.py' 2021-12-20T19:41:47,126 adding 'fragmenstein/victor/_victor_store.py' 2021-12-20T19:41:47,132 adding 'fragmenstein/victor/_victor_utils.py' 2021-12-20T19:41:47,135 adding 'fragmenstein/victor/_victor_validate.py' 2021-12-20T19:41:47,138 adding 'fragmenstein/victor/minimalPDB.py' 2021-12-20T19:41:47,140 adding 'Fragmenstein-0.6.11.dist-info/LICENSE' 2021-12-20T19:41:47,141 adding 'Fragmenstein-0.6.11.dist-info/METADATA' 2021-12-20T19:41:47,143 adding 'Fragmenstein-0.6.11.dist-info/WHEEL' 2021-12-20T19:41:47,144 adding 'Fragmenstein-0.6.11.dist-info/entry_points.txt' 2021-12-20T19:41:47,146 adding 'Fragmenstein-0.6.11.dist-info/top_level.txt' 2021-12-20T19:41:47,148 adding 'Fragmenstein-0.6.11.dist-info/RECORD' 2021-12-20T19:41:47,154 removing build/bdist.linux-armv7l/wheel 2021-12-20T19:41:47,301 Building wheel for fragmenstein (setup.py): finished with status 'done' 2021-12-20T19:41:47,308 Created wheel for fragmenstein: filename=Fragmenstein-0.6.11-py3-none-any.whl size=103582 sha256=d420f2d7bb13d0486d2df0e68413c577ccb6f739f6599927f6a8fda21f6b23e9 2021-12-20T19:41:47,309 Stored in directory: /tmp/pip-ephem-wheel-cache-txt1l2tj/wheels/97/e6/c2/e512b1535ce7ad3430f200a3e46fc6b6cbe6ef1ee2d81b0298 2021-12-20T19:41:47,332 Successfully built fragmenstein 2021-12-20T19:41:47,346 Removed build tracker: '/tmp/pip-req-tracker-iri45dlr'