2021-08-31T21:38:59,519 Created temporary directory: /tmp/pip-ephem-wheel-cache-fud0tbc2
2021-08-31T21:38:59,525 Created temporary directory: /tmp/pip-req-tracker-qa62jccp
2021-08-31T21:38:59,526 Initialized build tracking at /tmp/pip-req-tracker-qa62jccp
2021-08-31T21:38:59,526 Created build tracker: /tmp/pip-req-tracker-qa62jccp
2021-08-31T21:38:59,527 Entered build tracker: /tmp/pip-req-tracker-qa62jccp
2021-08-31T21:38:59,528 Created temporary directory: /tmp/pip-wheel-e01wakn3
2021-08-31T21:38:59,585 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2021-08-31T21:38:59,588 2 location(s) to search for versions of mgatk:
2021-08-31T21:38:59,588 * https://pypi.org/simple/mgatk/
2021-08-31T21:38:59,588 * https://www.piwheels.org/simple/mgatk/
2021-08-31T21:38:59,589 Fetching project page and analyzing links: https://pypi.org/simple/mgatk/
2021-08-31T21:38:59,591 Getting page https://pypi.org/simple/mgatk/
2021-08-31T21:38:59,595 Found index url https://pypi.org/simple
2021-08-31T21:38:59,947   Found link https://files.pythonhosted.org/packages/8f/0c/47da433403828d2e53de436d7689af32d8ee5130dc1c748ce0175d0f2eb1/mgatk-0.0.1.tar.gz#sha256=f0a66229c6057d0cc66db65b33141cd22a3ebc0a4ede501e4887014b5a56643b (from https://pypi.org/simple/mgatk/), version: 0.0.1
2021-08-31T21:38:59,948   Found link https://files.pythonhosted.org/packages/f7/7f/f09842055b19e670fbc309415123b423d30cc0fd1a8c430785bd1754827f/mgatk-0.1.0.tar.gz#sha256=bcfea43a3fb2d22b7c5cbecf59fd3989ef03250f87378b33e889b4054e275166 (from https://pypi.org/simple/mgatk/), version: 0.1.0
2021-08-31T21:38:59,949   Found link https://files.pythonhosted.org/packages/b7/8e/ac9ab509199f852d88097608e3fb60fc85232c87a36a062a041043ea869d/mgatk-0.2.5.tar.gz#sha256=b16329f84786ef87490379db121816b103fe5339ed90fb395e0a9c4ef5028d6e (from https://pypi.org/simple/mgatk/), version: 0.2.5
2021-08-31T21:38:59,950   Found link https://files.pythonhosted.org/packages/74/28/da183d0b56f401dec7f3bded24c50a02396e56c4f995fd50a3cf21c4381d/mgatk-0.5.0.tar.gz#sha256=61ee4d3c18cf696ecfbea6ab5dd9bfebf9791c368a04cfc2d1afcdfe16a6d3ca (from https://pypi.org/simple/mgatk/), version: 0.5.0
2021-08-31T21:38:59,951   Found link https://files.pythonhosted.org/packages/96/e8/e35c039eac8d418ca9213b1db69c4176b59783ca43638a75e824b475197d/mgatk-0.5.1.tar.gz#sha256=518ef6a1d25d9f889a306514eaf1ade02146fce28a43866a60dc6f1dad81b54c (from https://pypi.org/simple/mgatk/), version: 0.5.1
2021-08-31T21:38:59,952   Found link https://files.pythonhosted.org/packages/b6/16/d11afe05a803f23995d04af8fd832473fa1d21f73f242340f6086eb97183/mgatk-0.5.3.tar.gz#sha256=d9b78751af0fe8c31d22508a24ef061d7478c8a2c6283eded971f8802f060f79 (from https://pypi.org/simple/mgatk/), version: 0.5.3
2021-08-31T21:38:59,953   Found link https://files.pythonhosted.org/packages/be/5f/896adc0419fad47b3434866dd68deb7b93a1328916be0eb1f0827393633e/mgatk-0.5.5.tar.gz#sha256=bcc0470b4d01e5cd5d5e67f87720101fc4db889a0c5a4ef35c7d7224989d60a7 (from https://pypi.org/simple/mgatk/), version: 0.5.5
2021-08-31T21:38:59,954   Found link https://files.pythonhosted.org/packages/d0/3d/4a67edbf2648ab25ee6b2361e454638ecd5de6753a0c5f3de21975a7c5bd/mgatk-0.5.6.tar.gz#sha256=9a5f51c87b26221644ab12b675f4334efc1d3339b32065cd5c5ac2b512350ee6 (from https://pypi.org/simple/mgatk/), version: 0.5.6
2021-08-31T21:38:59,955   Found link https://files.pythonhosted.org/packages/64/fa/87883d229672ffb048510fb9eade72ad77fb6ea787e82631311fdf2099c9/mgatk-0.5.7.tar.gz#sha256=f25f3a0553a1d0e3165c509cc570db81ad91406a89738fae14fb3a60787967df (from https://pypi.org/simple/mgatk/), version: 0.5.7
2021-08-31T21:38:59,956   Found link https://files.pythonhosted.org/packages/9e/e3/9ff8a48cac72aaaea4c5c9bdbe71925be6763d6d71ce032905f23c2bc4b6/mgatk-0.5.8.tar.gz#sha256=1933d819307eb79a67cb98980695ebdb3517d5a7842d079b07c9749101ae0e67 (from https://pypi.org/simple/mgatk/), version: 0.5.8
2021-08-31T21:38:59,957   Found link https://files.pythonhosted.org/packages/f1/06/47716f2b5fec77a4a48fb5f3722ec27da0ce98d2219cb2eceb113fc72d8b/mgatk-0.5.9.tar.gz#sha256=6c3ba9b8c2b0edaea34e31f4a0b1a88c282a81e5d3823415f1a7c478395233f4 (from https://pypi.org/simple/mgatk/), version: 0.5.9
2021-08-31T21:38:59,958   Found link https://files.pythonhosted.org/packages/e6/73/33c2bdc77eead0a8d9b81a38adb54b75f804b189adabad25795edb5bdc60/mgatk-0.6.0.tar.gz#sha256=95ac75a5f3994c85789f4bf561f21f19f6f2229534a2a331fdddfcca4b4c5220 (from https://pypi.org/simple/mgatk/), version: 0.6.0
2021-08-31T21:38:59,959   Found link https://files.pythonhosted.org/packages/20/57/9e2171535e864b06353f2ef16f9bcbc8308f92406c9909e65fe2a7aa39a6/mgatk-0.6.1.tar.gz#sha256=02621183dccb57d508a69d80182506bfd1716669a8808da49f02c78916d7d85a (from https://pypi.org/simple/mgatk/), version: 0.6.1
2021-08-31T21:38:59,960   Found link https://files.pythonhosted.org/packages/0c/20/8b326bdf214a7a05c0cf4f9469bb42ba3005cb3b749af130ff8d7a3dbef2/mgatk-0.6.2.tar.gz#sha256=1fff8a100fcf15f9fee42aadc352d4a12a9772269f08caceccfdfc395664f9fe (from https://pypi.org/simple/mgatk/), version: 0.6.2
2021-08-31T21:38:59,960   Found link https://files.pythonhosted.org/packages/c0/c5/7b13208a566f6860899245bf07beabfefa7af72c6abb7f2ef1afaa3b76fe/mgatk-0.6.3.tar.gz#sha256=0541f455d73dbb02ffa0f6062c5449a0833f35668565532378517b49d6552470 (from https://pypi.org/simple/mgatk/), version: 0.6.3
2021-08-31T21:38:59,961   Found link https://files.pythonhosted.org/packages/57/ab/d3cb224a9845960e129904adcfa09d4c59725c9a6abf8a7f6842765530b9/mgatk-0.6.4.tar.gz#sha256=6f2b1cb4a358b4cef57ed7fd92355aa862192d1dc782f57065f057af0cc64a53 (from https://pypi.org/simple/mgatk/), version: 0.6.4
2021-08-31T21:38:59,962 Fetching project page and analyzing links: https://www.piwheels.org/simple/mgatk/
2021-08-31T21:38:59,963 Getting page https://www.piwheels.org/simple/mgatk/
2021-08-31T21:38:59,966 Found index url https://www.piwheels.org/simple
2021-08-31T21:39:00,132   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.0.1-py2.py3-none-any.whl#sha256=7e7d06dc92473d5d2f2c99cc022aaf64ab8d0301f1a1bd06edb2b37e8a17efbc (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,133   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.1.0-py2.py3-none-any.whl#sha256=cef81c26f6eb16952e9f8d05c24dc85d491f400645c82c478dddfd64b785d487 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,134   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.2.5-py2.py3-none-any.whl#sha256=9c0333783e998b2493f6bbd8d93e2a5ce9f332bd53d83e3ff3fe0ce921182b3a (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,135   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.5.0-py2.py3-none-any.whl#sha256=906c45dd6c1ccb708de36350b787e0dfbda0a4d49a08f02c211deec0c5d19da9 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,135   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.5.1-py2.py3-none-any.whl#sha256=886bbaef1900c90d54489c15e59b0f38125d0aca802a551b958af8e9b34c8101 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,136   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.5.3-py2.py3-none-any.whl#sha256=f7709526d1c046488d849a38c4b85838814c2db9a8e9b140f8f706febe4bed36 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,137   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.5.5-py2.py3-none-any.whl#sha256=ff9f09e518b7936a8a6923a2d095fa02bb30822361e426c072ea2018006d5f96 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,137   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.5.6-py2.py3-none-any.whl#sha256=a199b8ec80e8f6581d33504f49229ef908c215936379d77f622394cf1ab2b558 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,138   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.5.7-py2.py3-none-any.whl#sha256=95b59ea0189b6f7d87453823792ba21b9f45deaaeb5a205ccb173694fd16c43d (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,138   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.5.8-py2.py3-none-any.whl#sha256=6e2875d8620ce7ed459c23ad983c0413adef335eabc99b82aedd074c181592d0 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,139   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.5.9-py2.py3-none-any.whl#sha256=7078b4d3d77e2260f01ca68bb7f6707cb4a2c852ed2c7a5e4f7a6c68cc1c50e2 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,140   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.6.0-py2.py3-none-any.whl#sha256=36135d81a973357f7125fb1ff898ef3590364d14ee64ee4f9c6a25b1340d78ca (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,140   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.6.1-py2.py3-none-any.whl#sha256=751c5ba1854115dc6815f5c3b6fcaa4860c66dc8970dfcf7449b18cd4306395e (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,141   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.6.2-py2.py3-none-any.whl#sha256=ad87bf28d8140677cd9328a5b9582470aedc1867c3a9b307d9420c2712454009 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,142   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.6.3-py2.py3-none-any.whl#sha256=360fb6d8cb87a3d76ecd2ac7a4b94e1f13cdcd515050c8926af8309672d0c0d2 (from https://www.piwheels.org/simple/mgatk/)
2021-08-31T21:39:00,178 Given no hashes to check 1 links for project 'mgatk': discarding no candidates
2021-08-31T21:39:00,210 Collecting mgatk==0.6.4
2021-08-31T21:39:00,214   Created temporary directory: /tmp/pip-unpack-5w1def4j
2021-08-31T21:39:01,031   Downloading mgatk-0.6.4.tar.gz (14.3 MB)
2021-08-31T21:39:06,565   Added mgatk==0.6.4 from https://files.pythonhosted.org/packages/57/ab/d3cb224a9845960e129904adcfa09d4c59725c9a6abf8a7f6842765530b9/mgatk-0.6.4.tar.gz#sha256=6f2b1cb4a358b4cef57ed7fd92355aa862192d1dc782f57065f057af0cc64a53 to build tracker '/tmp/pip-req-tracker-qa62jccp'
2021-08-31T21:39:06,567     Running setup.py (path:/tmp/pip-wheel-e01wakn3/mgatk_325560ea600b44f7ab621d574f14cbf4/setup.py) egg_info for package mgatk
2021-08-31T21:39:06,569     Created temporary directory: /tmp/pip-pip-egg-info-v9wfw1wa
2021-08-31T21:39:06,569     Running command python setup.py egg_info
2021-08-31T21:39:08,478     running egg_info
2021-08-31T21:39:08,485     creating /tmp/pip-pip-egg-info-v9wfw1wa/mgatk.egg-info
2021-08-31T21:39:08,487     writing top-level names to /tmp/pip-pip-egg-info-v9wfw1wa/mgatk.egg-info/top_level.txt
2021-08-31T21:39:08,490     writing entry points to /tmp/pip-pip-egg-info-v9wfw1wa/mgatk.egg-info/entry_points.txt
2021-08-31T21:39:08,493     writing /tmp/pip-pip-egg-info-v9wfw1wa/mgatk.egg-info/PKG-INFO
2021-08-31T21:39:08,498     writing dependency_links to /tmp/pip-pip-egg-info-v9wfw1wa/mgatk.egg-info/dependency_links.txt
2021-08-31T21:39:08,500     writing requirements to /tmp/pip-pip-egg-info-v9wfw1wa/mgatk.egg-info/requires.txt
2021-08-31T21:39:08,504     writing manifest file '/tmp/pip-pip-egg-info-v9wfw1wa/mgatk.egg-info/SOURCES.txt'
2021-08-31T21:39:08,854     reading manifest file '/tmp/pip-pip-egg-info-v9wfw1wa/mgatk.egg-info/SOURCES.txt'
2021-08-31T21:39:08,857     reading manifest template 'MANIFEST.in'
2021-08-31T21:39:08,860     no previously-included directories found matching 'mgatk.egg-info/'
2021-08-31T21:39:08,860     no previously-included directories found matching 'tests/'
2021-08-31T21:39:08,861     no previously-included directories found matching '*.DS_Store'
2021-08-31T21:39:08,954     writing manifest file '/tmp/pip-pip-egg-info-v9wfw1wa/mgatk.egg-info/SOURCES.txt'
2021-08-31T21:39:09,087   Source in /tmp/pip-wheel-e01wakn3/mgatk_325560ea600b44f7ab621d574f14cbf4 has version 0.6.4, which satisfies requirement mgatk==0.6.4 from https://files.pythonhosted.org/packages/57/ab/d3cb224a9845960e129904adcfa09d4c59725c9a6abf8a7f6842765530b9/mgatk-0.6.4.tar.gz#sha256=6f2b1cb4a358b4cef57ed7fd92355aa862192d1dc782f57065f057af0cc64a53
2021-08-31T21:39:09,089   Removed mgatk==0.6.4 from https://files.pythonhosted.org/packages/57/ab/d3cb224a9845960e129904adcfa09d4c59725c9a6abf8a7f6842765530b9/mgatk-0.6.4.tar.gz#sha256=6f2b1cb4a358b4cef57ed7fd92355aa862192d1dc782f57065f057af0cc64a53 from build tracker '/tmp/pip-req-tracker-qa62jccp'
2021-08-31T21:39:09,097 Created temporary directory: /tmp/pip-unpack-hck3rs1h
2021-08-31T21:39:09,098 Building wheels for collected packages: mgatk
2021-08-31T21:39:09,108   Created temporary directory: /tmp/pip-wheel-9w7l4ry3
2021-08-31T21:39:09,109   Building wheel for mgatk (setup.py): started
2021-08-31T21:39:09,110   Destination directory: /tmp/pip-wheel-9w7l4ry3
2021-08-31T21:39:09,110   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-e01wakn3/mgatk_325560ea600b44f7ab621d574f14cbf4/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-e01wakn3/mgatk_325560ea600b44f7ab621d574f14cbf4/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-9w7l4ry3
2021-08-31T21:39:11,048   running bdist_wheel
2021-08-31T21:39:11,062   running build
2021-08-31T21:39:11,063   running build_py
2021-08-31T21:39:11,404   creating build
2021-08-31T21:39:11,405   creating build/lib
2021-08-31T21:39:11,406   creating build/lib/mgatk
2021-08-31T21:39:11,409   copying mgatk/cli.py -> build/lib/mgatk
2021-08-31T21:39:11,416   copying mgatk/mgatkHelp.py -> build/lib/mgatk
2021-08-31T21:39:11,421   copying mgatk/__init__.py -> build/lib/mgatk
2021-08-31T21:39:11,424   running egg_info
2021-08-31T21:39:11,453   writing requirements to mgatk.egg-info/requires.txt
2021-08-31T21:39:11,456   writing entry points to mgatk.egg-info/entry_points.txt
2021-08-31T21:39:11,457   writing mgatk.egg-info/PKG-INFO
2021-08-31T21:39:11,462   writing dependency_links to mgatk.egg-info/dependency_links.txt
2021-08-31T21:39:11,464   writing top-level names to mgatk.egg-info/top_level.txt
2021-08-31T21:39:11,473   reading manifest file 'mgatk.egg-info/SOURCES.txt'
2021-08-31T21:39:11,480   reading manifest template 'MANIFEST.in'
2021-08-31T21:39:11,483   no previously-included directories found matching 'tests/'
2021-08-31T21:39:11,484   no previously-included directories found matching '*.DS_Store'
2021-08-31T21:39:11,575   writing manifest file 'mgatk.egg-info/SOURCES.txt'
2021-08-31T21:39:11,592   copying mgatk/.DS_Store -> build/lib/mgatk
2021-08-31T21:39:11,598   copying mgatk/devnotes.md -> build/lib/mgatk
2021-08-31T21:39:11,603   creating build/lib/mgatk/__pycache__
2021-08-31T21:39:11,605   copying mgatk/__pycache__/__init__.cpython-36.pyc -> build/lib/mgatk/__pycache__
2021-08-31T21:39:11,610   copying mgatk/__pycache__/__init__.cpython-38.pyc -> build/lib/mgatk/__pycache__
2021-08-31T21:39:11,615   copying mgatk/__pycache__/cli.cpython-36.pyc -> build/lib/mgatk/__pycache__
2021-08-31T21:39:11,621   copying mgatk/__pycache__/cli.cpython-38.pyc -> build/lib/mgatk/__pycache__
2021-08-31T21:39:11,630   copying mgatk/__pycache__/mgatkHelp.cpython-36.pyc -> build/lib/mgatk/__pycache__
2021-08-31T21:39:11,637   copying mgatk/__pycache__/mgatkHelp.cpython-38.pyc -> build/lib/mgatk/__pycache__
2021-08-31T21:39:11,645   creating build/lib/mgatk/bin
2021-08-31T21:39:11,646   copying mgatk/bin/.DS_Store -> build/lib/mgatk/bin
2021-08-31T21:39:11,653   copying mgatk/bin/picard.jar -> build/lib/mgatk/bin
2021-08-31T21:39:13,074   creating build/lib/mgatk/bin/R
2021-08-31T21:39:13,075   copying mgatk/bin/R/convert_cellbender_output.R -> build/lib/mgatk/bin/R
2021-08-31T21:39:13,082   copying mgatk/bin/R/prepare_cellbender.R -> build/lib/mgatk/bin/R
2021-08-31T21:39:13,088   copying mgatk/bin/R/toRDS.R -> build/lib/mgatk/bin/R
2021-08-31T21:39:13,095   creating build/lib/mgatk/bin/anno
2021-08-31T21:39:13,098   copying mgatk/bin/anno/.DS_Store -> build/lib/mgatk/bin/anno
2021-08-31T21:39:13,106   creating build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,108   copying mgatk/bin/anno/fasta/.DS_Store -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,117   copying mgatk/bin/anno/fasta/GRCh37.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,126   copying mgatk/bin/anno/fasta/GRCh38.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,135   copying mgatk/bin/anno/fasta/GRCm38.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,144   copying mgatk/bin/anno/fasta/GRCz10.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,152   copying mgatk/bin/anno/fasta/NC_012920.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,161   copying mgatk/bin/anno/fasta/hg19.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,170   copying mgatk/bin/anno/fasta/hg19_chrM.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,178   copying mgatk/bin/anno/fasta/hg38.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,187   copying mgatk/bin/anno/fasta/mm10.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,196   copying mgatk/bin/anno/fasta/mm9.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,205   copying mgatk/bin/anno/fasta/rCRS.fasta -> build/lib/mgatk/bin/anno/fasta
2021-08-31T21:39:13,213   creating build/lib/mgatk/bin/python
2021-08-31T21:39:13,216   copying mgatk/bin/python/chunk_barcoded_bam.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,223   copying mgatk/bin/python/filterClipBam.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,229   copying mgatk/bin/python/find_barcodes.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,236   copying mgatk/bin/python/oneSample.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,242   copying mgatk/bin/python/split_barcoded_bam.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,249   copying mgatk/bin/python/sumstatsBP.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,256   copying mgatk/bin/python/sumstatsBP_overlap.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,264   copying mgatk/bin/python/sumstatsBPtenx.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,270   copying mgatk/bin/python/sumstatsBPtenx_overlap.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,278   copying mgatk/bin/python/variant_calling.py -> build/lib/mgatk/bin/python
2021-08-31T21:39:13,285   creating build/lib/mgatk/bin/snake
2021-08-31T21:39:13,288   copying mgatk/bin/snake/Snakefile.Gather -> build/lib/mgatk/bin/snake
2021-08-31T21:39:13,295   copying mgatk/bin/snake/Snakefile.Scatter -> build/lib/mgatk/bin/snake
2021-08-31T21:39:13,301   copying mgatk/bin/snake/Snakefile.tenx -> build/lib/mgatk/bin/snake
2021-08-31T21:39:13,309   creating build/lib/mgatk/del
2021-08-31T21:39:13,311   copying mgatk/del/.DS_Store -> build/lib/mgatk/del
2021-08-31T21:39:13,320   copying mgatk/del/clidel.py -> build/lib/mgatk/del
2021-08-31T21:39:13,328   copying mgatk/del/clifind.py -> build/lib/mgatk/del
2021-08-31T21:39:13,335   creating build/lib/mgatk/del/__pycache__
2021-08-31T21:39:13,338   copying mgatk/del/__pycache__/clidel.cpython-36.pyc -> build/lib/mgatk/del/__pycache__
2021-08-31T21:39:13,344   copying mgatk/del/__pycache__/clidel.cpython-38.pyc -> build/lib/mgatk/del/__pycache__
2021-08-31T21:39:13,350   copying mgatk/del/__pycache__/clifind.cpython-36.pyc -> build/lib/mgatk/del/__pycache__
2021-08-31T21:39:13,355   copying mgatk/del/__pycache__/clifind.cpython-38.pyc -> build/lib/mgatk/del/__pycache__
2021-08-31T21:39:13,361   creating build/lib/mgatk/del/bulk_del
2021-08-31T21:39:13,363   copying mgatk/del/bulk_del/.DS_Store -> build/lib/mgatk/del/bulk_del
2021-08-31T21:39:13,371   copying mgatk/del/bulk_del/plot_deletion_breaks_bulk.R -> build/lib/mgatk/del/bulk_del
2021-08-31T21:39:13,379   creating build/lib/mgatk/del/singles_del
2021-08-31T21:39:13,381   copying mgatk/del/singles_del/01_process_cell_reads.py -> build/lib/mgatk/del/singles_del
2021-08-31T21:39:13,389   copying mgatk/del/singles_del/02_heteroplasmy_del_singles.R -> build/lib/mgatk/del/singles_del
2021-08-31T21:39:13,395   copying mgatk/del/singles_del/Snakefile.delSingles -> build/lib/mgatk/del/singles_del
2021-08-31T21:39:13,416   installing to build/bdist.linux-armv7l/wheel
2021-08-31T21:39:13,417   running install
2021-08-31T21:39:13,420   running install_lib
2021-08-31T21:39:13,429   creating build/bdist.linux-armv7l
2021-08-31T21:39:13,430   creating build/bdist.linux-armv7l/wheel
2021-08-31T21:39:13,434   creating build/bdist.linux-armv7l/wheel/mgatk
2021-08-31T21:39:13,436   copying build/lib/mgatk/devnotes.md -> build/bdist.linux-armv7l/wheel/mgatk
2021-08-31T21:39:13,440   copying build/lib/mgatk/cli.py -> build/bdist.linux-armv7l/wheel/mgatk
2021-08-31T21:39:13,448   creating build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-08-31T21:39:13,450   copying build/lib/mgatk/__pycache__/mgatkHelp.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-08-31T21:39:13,456   copying build/lib/mgatk/__pycache__/__init__.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-08-31T21:39:13,460   copying build/lib/mgatk/__pycache__/mgatkHelp.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-08-31T21:39:13,466   copying build/lib/mgatk/__pycache__/cli.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-08-31T21:39:13,474   copying build/lib/mgatk/__pycache__/__init__.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-08-31T21:39:13,480   copying build/lib/mgatk/__pycache__/cli.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-08-31T21:39:13,487   copying build/lib/mgatk/mgatkHelp.py -> build/bdist.linux-armv7l/wheel/mgatk
2021-08-31T21:39:13,494   copying build/lib/mgatk/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk
2021-08-31T21:39:13,501   copying build/lib/mgatk/__init__.py -> build/bdist.linux-armv7l/wheel/mgatk
2021-08-31T21:39:13,508   creating build/bdist.linux-armv7l/wheel/mgatk/bin
2021-08-31T21:39:13,512   creating build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2021-08-31T21:39:13,515   copying build/lib/mgatk/bin/snake/Snakefile.Gather -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2021-08-31T21:39:13,521   copying build/lib/mgatk/bin/snake/Snakefile.tenx -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2021-08-31T21:39:13,528   copying build/lib/mgatk/bin/snake/Snakefile.Scatter -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2021-08-31T21:39:13,536   creating build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,538   copying build/lib/mgatk/bin/python/filterClipBam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,544   copying build/lib/mgatk/bin/python/oneSample.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,550   copying build/lib/mgatk/bin/python/split_barcoded_bam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,556   copying build/lib/mgatk/bin/python/chunk_barcoded_bam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,562   copying build/lib/mgatk/bin/python/find_barcodes.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,567   copying build/lib/mgatk/bin/python/variant_calling.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,574   copying build/lib/mgatk/bin/python/sumstatsBPtenx.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,580   copying build/lib/mgatk/bin/python/sumstatsBP.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,587   copying build/lib/mgatk/bin/python/sumstatsBP_overlap.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,594   copying build/lib/mgatk/bin/python/sumstatsBPtenx_overlap.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-08-31T21:39:13,600   copying build/lib/mgatk/bin/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin
2021-08-31T21:39:13,609   creating build/bdist.linux-armv7l/wheel/mgatk/bin/R
2021-08-31T21:39:13,612   copying build/lib/mgatk/bin/R/toRDS.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2021-08-31T21:39:13,619   copying build/lib/mgatk/bin/R/prepare_cellbender.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2021-08-31T21:39:13,627   copying build/lib/mgatk/bin/R/convert_cellbender_output.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2021-08-31T21:39:13,635   creating build/bdist.linux-armv7l/wheel/mgatk/bin/anno
2021-08-31T21:39:13,638   copying build/lib/mgatk/bin/anno/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno
2021-08-31T21:39:13,647   creating build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,650   copying build/lib/mgatk/bin/anno/fasta/GRCh37.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,658   copying build/lib/mgatk/bin/anno/fasta/mm10.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,666   copying build/lib/mgatk/bin/anno/fasta/NC_012920.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,673   copying build/lib/mgatk/bin/anno/fasta/hg19.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,681   copying build/lib/mgatk/bin/anno/fasta/rCRS.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,689   copying build/lib/mgatk/bin/anno/fasta/hg38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,697   copying build/lib/mgatk/bin/anno/fasta/hg19_chrM.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,705   copying build/lib/mgatk/bin/anno/fasta/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,712   copying build/lib/mgatk/bin/anno/fasta/mm9.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,720   copying build/lib/mgatk/bin/anno/fasta/GRCz10.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,728   copying build/lib/mgatk/bin/anno/fasta/GRCm38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,736   copying build/lib/mgatk/bin/anno/fasta/GRCh38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-08-31T21:39:13,744   copying build/lib/mgatk/bin/picard.jar -> build/bdist.linux-armv7l/wheel/mgatk/bin
2021-08-31T21:39:15,166   creating build/bdist.linux-armv7l/wheel/mgatk/del
2021-08-31T21:39:15,167   copying build/lib/mgatk/del/clifind.py -> build/bdist.linux-armv7l/wheel/mgatk/del
2021-08-31T21:39:15,174   creating build/bdist.linux-armv7l/wheel/mgatk/del/bulk_del
2021-08-31T21:39:15,176   copying build/lib/mgatk/del/bulk_del/plot_deletion_breaks_bulk.R -> build/bdist.linux-armv7l/wheel/mgatk/del/bulk_del
2021-08-31T21:39:15,183   copying build/lib/mgatk/del/bulk_del/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/del/bulk_del
2021-08-31T21:39:15,189   copying build/lib/mgatk/del/clidel.py -> build/bdist.linux-armv7l/wheel/mgatk/del
2021-08-31T21:39:15,197   creating build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-08-31T21:39:15,199   copying build/lib/mgatk/del/__pycache__/clidel.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-08-31T21:39:15,206   copying build/lib/mgatk/del/__pycache__/clifind.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-08-31T21:39:15,211   copying build/lib/mgatk/del/__pycache__/clifind.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-08-31T21:39:15,217   copying build/lib/mgatk/del/__pycache__/clidel.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-08-31T21:39:15,223   copying build/lib/mgatk/del/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/del
2021-08-31T21:39:15,231   creating build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2021-08-31T21:39:15,234   copying build/lib/mgatk/del/singles_del/02_heteroplasmy_del_singles.R -> build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2021-08-31T21:39:15,240   copying build/lib/mgatk/del/singles_del/Snakefile.delSingles -> build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2021-08-31T21:39:15,246   copying build/lib/mgatk/del/singles_del/01_process_cell_reads.py -> build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2021-08-31T21:39:15,250   running install_egg_info
2021-08-31T21:39:15,268   Copying mgatk.egg-info to build/bdist.linux-armv7l/wheel/mgatk-0.6.4-py3.5.egg-info
2021-08-31T21:39:15,305   running install_scripts
2021-08-31T21:39:15,527   creating build/bdist.linux-armv7l/wheel/mgatk-0.6.4.dist-info/WHEEL
2021-08-31T21:39:20,447   Building wheel for mgatk (setup.py): finished with status 'done'
2021-08-31T21:39:20,687   Created wheel for mgatk: filename=mgatk-0.6.4-py2.py3-none-any.whl size=14356808 sha256=58b5484ca92bb15aac4a8f9063b494c87022e986d856ae9c5e4fc15002965db7
2021-08-31T21:39:20,688   Stored in directory: /tmp/pip-ephem-wheel-cache-fud0tbc2/wheels/f3/87/59/f6ecc739c6abbf234ebe1fdcc7bfc9366eefe35375ac9cb902
2021-08-31T21:39:20,716 Successfully built mgatk
2021-08-31T21:39:23,197 Removed build tracker: '/tmp/pip-req-tracker-qa62jccp'