2022-04-08T22:15:20,337 Created temporary directory: /tmp/pip-ephem-wheel-cache-rn_n44wv
2022-04-08T22:15:20,344 Created temporary directory: /tmp/pip-req-tracker-rpn6echh
2022-04-08T22:15:20,344 Initialized build tracking at /tmp/pip-req-tracker-rpn6echh
2022-04-08T22:15:20,345 Created build tracker: /tmp/pip-req-tracker-rpn6echh
2022-04-08T22:15:20,345 Entered build tracker: /tmp/pip-req-tracker-rpn6echh
2022-04-08T22:15:20,347 Created temporary directory: /tmp/pip-wheel-qyc232fz
2022-04-08T22:15:20,416 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2022-04-08T22:15:20,419 2 location(s) to search for versions of mgatk:
2022-04-08T22:15:20,419 * https://pypi.org/simple/mgatk/
2022-04-08T22:15:20,419 * https://www.piwheels.org/simple/mgatk/
2022-04-08T22:15:20,420 Fetching project page and analyzing links: https://pypi.org/simple/mgatk/
2022-04-08T22:15:20,422 Getting page https://pypi.org/simple/mgatk/
2022-04-08T22:15:20,426 Found index url https://pypi.org/simple
2022-04-08T22:15:20,780   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
2022-04-08T22:15:20,781   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
2022-04-08T22:15:20,782   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
2022-04-08T22:15:20,783   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
2022-04-08T22:15:20,784   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
2022-04-08T22:15:20,785   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
2022-04-08T22:15:20,786   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
2022-04-08T22:15:20,787   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
2022-04-08T22:15:20,787   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
2022-04-08T22:15:20,788   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
2022-04-08T22:15:20,789   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
2022-04-08T22:15:20,790   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
2022-04-08T22:15:20,791   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
2022-04-08T22:15:20,792   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
2022-04-08T22:15:20,793   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
2022-04-08T22:15:20,794   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
2022-04-08T22:15:20,795   Found link https://files.pythonhosted.org/packages/21/1f/a19a9984313d6cc4243c7b3bd0c1b1a811f55c369a44222c74fac075e6db/mgatk-0.6.6.tar.gz#sha256=c6a4ecd41a20e58dddef5748d89ec7926245bd93b420acd9163af4a6ba82f8b5 (from https://pypi.org/simple/mgatk/), version: 0.6.6
2022-04-08T22:15:20,795 Fetching project page and analyzing links: https://www.piwheels.org/simple/mgatk/
2022-04-08T22:15:20,796 Getting page https://www.piwheels.org/simple/mgatk/
2022-04-08T22:15:20,799 Found index url https://www.piwheels.org/simple
2022-04-08T22:15:21,032   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.6.4-py2.py3-none-any.whl#sha256=58b5484ca92bb15aac4a8f9063b494c87022e986d856ae9c5e4fc15002965db7 (from https://www.piwheels.org/simple/mgatk/)
2022-04-08T22:15:21,033   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/)
2022-04-08T22:15:21,034   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/)
2022-04-08T22:15:21,035   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/)
2022-04-08T22:15:21,035   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/)
2022-04-08T22:15:21,036   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/)
2022-04-08T22:15:21,036   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/)
2022-04-08T22:15:21,037   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/)
2022-04-08T22:15:21,038   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/)
2022-04-08T22:15:21,038   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/)
2022-04-08T22:15:21,039   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/)
2022-04-08T22:15:21,040   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/)
2022-04-08T22:15:21,040   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/)
2022-04-08T22:15:21,041   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/)
2022-04-08T22:15:21,042   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/)
2022-04-08T22:15:21,042   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/)
2022-04-08T22:15:21,078 Given no hashes to check 1 links for project 'mgatk': discarding no candidates
2022-04-08T22:15:21,110 Collecting mgatk==0.6.6
2022-04-08T22:15:21,114   Created temporary directory: /tmp/pip-unpack-2po01pc4
2022-04-08T22:15:22,438   Downloading mgatk-0.6.6.tar.gz (14.3 MB)
2022-04-08T22:15:28,237   Added mgatk==0.6.6 from https://files.pythonhosted.org/packages/21/1f/a19a9984313d6cc4243c7b3bd0c1b1a811f55c369a44222c74fac075e6db/mgatk-0.6.6.tar.gz#sha256=c6a4ecd41a20e58dddef5748d89ec7926245bd93b420acd9163af4a6ba82f8b5 to build tracker '/tmp/pip-req-tracker-rpn6echh'
2022-04-08T22:15:28,240     Running setup.py (path:/tmp/pip-wheel-qyc232fz/mgatk_68ff44e906b244d3aca843e0f0522668/setup.py) egg_info for package mgatk
2022-04-08T22:15:28,241     Created temporary directory: /tmp/pip-pip-egg-info-ud_98hrq
2022-04-08T22:15:28,242     Running command python setup.py egg_info
2022-04-08T22:15:30,418     running egg_info
2022-04-08T22:15:30,424     creating /tmp/pip-pip-egg-info-ud_98hrq/mgatk.egg-info
2022-04-08T22:15:30,427     writing /tmp/pip-pip-egg-info-ud_98hrq/mgatk.egg-info/PKG-INFO
2022-04-08T22:15:30,433     writing requirements to /tmp/pip-pip-egg-info-ud_98hrq/mgatk.egg-info/requires.txt
2022-04-08T22:15:30,435     writing top-level names to /tmp/pip-pip-egg-info-ud_98hrq/mgatk.egg-info/top_level.txt
2022-04-08T22:15:30,440     writing entry points to /tmp/pip-pip-egg-info-ud_98hrq/mgatk.egg-info/entry_points.txt
2022-04-08T22:15:30,442     writing dependency_links to /tmp/pip-pip-egg-info-ud_98hrq/mgatk.egg-info/dependency_links.txt
2022-04-08T22:15:30,446     writing manifest file '/tmp/pip-pip-egg-info-ud_98hrq/mgatk.egg-info/SOURCES.txt'
2022-04-08T22:15:30,798     reading manifest file '/tmp/pip-pip-egg-info-ud_98hrq/mgatk.egg-info/SOURCES.txt'
2022-04-08T22:15:30,802     reading manifest template 'MANIFEST.in'
2022-04-08T22:15:30,804     no previously-included directories found matching 'mgatk.egg-info/'
2022-04-08T22:15:30,805     no previously-included directories found matching 'tests/'
2022-04-08T22:15:30,806     no previously-included directories found matching '*.DS_Store'
2022-04-08T22:15:30,912     writing manifest file '/tmp/pip-pip-egg-info-ud_98hrq/mgatk.egg-info/SOURCES.txt'
2022-04-08T22:15:31,046   Source in /tmp/pip-wheel-qyc232fz/mgatk_68ff44e906b244d3aca843e0f0522668 has version 0.6.6, which satisfies requirement mgatk==0.6.6 from https://files.pythonhosted.org/packages/21/1f/a19a9984313d6cc4243c7b3bd0c1b1a811f55c369a44222c74fac075e6db/mgatk-0.6.6.tar.gz#sha256=c6a4ecd41a20e58dddef5748d89ec7926245bd93b420acd9163af4a6ba82f8b5
2022-04-08T22:15:31,048   Removed mgatk==0.6.6 from https://files.pythonhosted.org/packages/21/1f/a19a9984313d6cc4243c7b3bd0c1b1a811f55c369a44222c74fac075e6db/mgatk-0.6.6.tar.gz#sha256=c6a4ecd41a20e58dddef5748d89ec7926245bd93b420acd9163af4a6ba82f8b5 from build tracker '/tmp/pip-req-tracker-rpn6echh'
2022-04-08T22:15:31,056 Created temporary directory: /tmp/pip-unpack-prbi42wz
2022-04-08T22:15:31,057 Building wheels for collected packages: mgatk
2022-04-08T22:15:31,066   Created temporary directory: /tmp/pip-wheel-x0t95h1v
2022-04-08T22:15:31,067   Building wheel for mgatk (setup.py): started
2022-04-08T22:15:31,068   Destination directory: /tmp/pip-wheel-x0t95h1v
2022-04-08T22:15:31,069   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-qyc232fz/mgatk_68ff44e906b244d3aca843e0f0522668/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-qyc232fz/mgatk_68ff44e906b244d3aca843e0f0522668/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-x0t95h1v
2022-04-08T22:15:33,233   running bdist_wheel
2022-04-08T22:15:33,250   running build
2022-04-08T22:15:33,250   running build_py
2022-04-08T22:15:33,592   creating build
2022-04-08T22:15:33,593   creating build/lib
2022-04-08T22:15:33,594   creating build/lib/mgatk
2022-04-08T22:15:33,597   copying mgatk/cli.py -> build/lib/mgatk
2022-04-08T22:15:33,604   copying mgatk/mgatkHelp.py -> build/lib/mgatk
2022-04-08T22:15:33,609   copying mgatk/__init__.py -> build/lib/mgatk
2022-04-08T22:15:33,612   running egg_info
2022-04-08T22:15:33,641   writing entry points to mgatk.egg-info/entry_points.txt
2022-04-08T22:15:33,644   writing dependency_links to mgatk.egg-info/dependency_links.txt
2022-04-08T22:15:33,646   writing requirements to mgatk.egg-info/requires.txt
2022-04-08T22:15:33,648   writing top-level names to mgatk.egg-info/top_level.txt
2022-04-08T22:15:33,650   writing mgatk.egg-info/PKG-INFO
2022-04-08T22:15:33,662   reading manifest file 'mgatk.egg-info/SOURCES.txt'
2022-04-08T22:15:33,668   reading manifest template 'MANIFEST.in'
2022-04-08T22:15:33,672   no previously-included directories found matching 'tests/'
2022-04-08T22:15:33,673   no previously-included directories found matching '*.DS_Store'
2022-04-08T22:15:33,764   writing manifest file 'mgatk.egg-info/SOURCES.txt'
2022-04-08T22:15:33,781   copying mgatk/.DS_Store -> build/lib/mgatk
2022-04-08T22:15:33,787   copying mgatk/devnotes.md -> build/lib/mgatk
2022-04-08T22:15:33,791   creating build/lib/mgatk/__pycache__
2022-04-08T22:15:33,793   copying mgatk/__pycache__/__init__.cpython-36.pyc -> build/lib/mgatk/__pycache__
2022-04-08T22:15:33,798   copying mgatk/__pycache__/__init__.cpython-38.pyc -> build/lib/mgatk/__pycache__
2022-04-08T22:15:33,802   copying mgatk/__pycache__/cli.cpython-36.pyc -> build/lib/mgatk/__pycache__
2022-04-08T22:15:33,809   copying mgatk/__pycache__/cli.cpython-38.pyc -> build/lib/mgatk/__pycache__
2022-04-08T22:15:33,815   copying mgatk/__pycache__/mgatkHelp.cpython-36.pyc -> build/lib/mgatk/__pycache__
2022-04-08T22:15:33,822   copying mgatk/__pycache__/mgatkHelp.cpython-38.pyc -> build/lib/mgatk/__pycache__
2022-04-08T22:15:33,829   creating build/lib/mgatk/bin
2022-04-08T22:15:33,832   copying mgatk/bin/.DS_Store -> build/lib/mgatk/bin
2022-04-08T22:15:33,840   copying mgatk/bin/picard.jar -> build/lib/mgatk/bin
2022-04-08T22:15:35,302   creating build/lib/mgatk/bin/R
2022-04-08T22:15:35,304   copying mgatk/bin/R/convert_cellbender_output.R -> build/lib/mgatk/bin/R
2022-04-08T22:15:35,311   copying mgatk/bin/R/prepare_cellbender.R -> build/lib/mgatk/bin/R
2022-04-08T22:15:35,319   copying mgatk/bin/R/toRDS.R -> build/lib/mgatk/bin/R
2022-04-08T22:15:35,329   creating build/lib/mgatk/bin/anno
2022-04-08T22:15:35,331   copying mgatk/bin/anno/.DS_Store -> build/lib/mgatk/bin/anno
2022-04-08T22:15:35,337   creating build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,338   copying mgatk/bin/anno/fasta/.DS_Store -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,345   copying mgatk/bin/anno/fasta/GRCh37.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,355   copying mgatk/bin/anno/fasta/GRCh38.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,363   copying mgatk/bin/anno/fasta/GRCm38.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,370   copying mgatk/bin/anno/fasta/GRCz10.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,376   copying mgatk/bin/anno/fasta/NC_012920.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,383   copying mgatk/bin/anno/fasta/hg19.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,389   copying mgatk/bin/anno/fasta/hg19_chrM.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,396   copying mgatk/bin/anno/fasta/hg38.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,403   copying mgatk/bin/anno/fasta/mm10.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,412   copying mgatk/bin/anno/fasta/mm9.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,420   copying mgatk/bin/anno/fasta/rCRS.fasta -> build/lib/mgatk/bin/anno/fasta
2022-04-08T22:15:35,427   creating build/lib/mgatk/bin/python
2022-04-08T22:15:35,429   copying mgatk/bin/python/chunk_barcoded_bam.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,434   copying mgatk/bin/python/filterClipBam.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,438   copying mgatk/bin/python/find_barcodes.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,444   copying mgatk/bin/python/oneSample.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,450   copying mgatk/bin/python/split_barcoded_bam.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,456   copying mgatk/bin/python/sumstatsBP.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,464   copying mgatk/bin/python/sumstatsBP_overlap.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,469   copying mgatk/bin/python/sumstatsBPtenx.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,474   copying mgatk/bin/python/sumstatsBPtenx_overlap.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,480   copying mgatk/bin/python/variant_calling.py -> build/lib/mgatk/bin/python
2022-04-08T22:15:35,486   creating build/lib/mgatk/bin/snake
2022-04-08T22:15:35,489   copying mgatk/bin/snake/Snakefile.Gather -> build/lib/mgatk/bin/snake
2022-04-08T22:15:35,496   copying mgatk/bin/snake/Snakefile.Scatter -> build/lib/mgatk/bin/snake
2022-04-08T22:15:35,502   copying mgatk/bin/snake/Snakefile.tenx -> build/lib/mgatk/bin/snake
2022-04-08T22:15:35,508   creating build/lib/mgatk/del
2022-04-08T22:15:35,510   copying mgatk/del/.DS_Store -> build/lib/mgatk/del
2022-04-08T22:15:35,516   copying mgatk/del/clidel.py -> build/lib/mgatk/del
2022-04-08T22:15:35,521   copying mgatk/del/clifind.py -> build/lib/mgatk/del
2022-04-08T22:15:35,527   creating build/lib/mgatk/del/__pycache__
2022-04-08T22:15:35,530   copying mgatk/del/__pycache__/clidel.cpython-36.pyc -> build/lib/mgatk/del/__pycache__
2022-04-08T22:15:35,538   copying mgatk/del/__pycache__/clidel.cpython-38.pyc -> build/lib/mgatk/del/__pycache__
2022-04-08T22:15:35,545   copying mgatk/del/__pycache__/clifind.cpython-36.pyc -> build/lib/mgatk/del/__pycache__
2022-04-08T22:15:35,550   copying mgatk/del/__pycache__/clifind.cpython-38.pyc -> build/lib/mgatk/del/__pycache__
2022-04-08T22:15:35,554   creating build/lib/mgatk/del/bulk_del
2022-04-08T22:15:35,556   copying mgatk/del/bulk_del/.DS_Store -> build/lib/mgatk/del/bulk_del
2022-04-08T22:15:35,562   copying mgatk/del/bulk_del/plot_deletion_breaks_bulk.R -> build/lib/mgatk/del/bulk_del
2022-04-08T22:15:35,567   creating build/lib/mgatk/del/singles_del
2022-04-08T22:15:35,569   copying mgatk/del/singles_del/01_process_cell_reads.py -> build/lib/mgatk/del/singles_del
2022-04-08T22:15:35,574   copying mgatk/del/singles_del/02_heteroplasmy_del_singles.R -> build/lib/mgatk/del/singles_del
2022-04-08T22:15:35,579   copying mgatk/del/singles_del/Snakefile.delSingles -> build/lib/mgatk/del/singles_del
2022-04-08T22:15:35,592   installing to build/bdist.linux-armv7l/wheel
2022-04-08T22:15:35,593   running install
2022-04-08T22:15:35,595   running install_lib
2022-04-08T22:15:35,603   creating build/bdist.linux-armv7l
2022-04-08T22:15:35,604   creating build/bdist.linux-armv7l/wheel
2022-04-08T22:15:35,607   creating build/bdist.linux-armv7l/wheel/mgatk
2022-04-08T22:15:35,609   copying build/lib/mgatk/devnotes.md -> build/bdist.linux-armv7l/wheel/mgatk
2022-04-08T22:15:35,614   copying build/lib/mgatk/cli.py -> build/bdist.linux-armv7l/wheel/mgatk
2022-04-08T22:15:35,621   creating build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2022-04-08T22:15:35,623   copying build/lib/mgatk/__pycache__/mgatkHelp.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2022-04-08T22:15:35,635   copying build/lib/mgatk/__pycache__/__init__.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2022-04-08T22:15:35,639   copying build/lib/mgatk/__pycache__/mgatkHelp.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2022-04-08T22:15:35,644   copying build/lib/mgatk/__pycache__/cli.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2022-04-08T22:15:35,650   copying build/lib/mgatk/__pycache__/__init__.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2022-04-08T22:15:35,654   copying build/lib/mgatk/__pycache__/cli.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2022-04-08T22:15:35,660   copying build/lib/mgatk/mgatkHelp.py -> build/bdist.linux-armv7l/wheel/mgatk
2022-04-08T22:15:35,665   copying build/lib/mgatk/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk
2022-04-08T22:15:35,670   copying build/lib/mgatk/__init__.py -> build/bdist.linux-armv7l/wheel/mgatk
2022-04-08T22:15:35,675   creating build/bdist.linux-armv7l/wheel/mgatk/bin
2022-04-08T22:15:35,677   creating build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2022-04-08T22:15:35,680   copying build/lib/mgatk/bin/snake/Snakefile.Gather -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2022-04-08T22:15:35,684   copying build/lib/mgatk/bin/snake/Snakefile.tenx -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2022-04-08T22:15:35,690   copying build/lib/mgatk/bin/snake/Snakefile.Scatter -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2022-04-08T22:15:35,696   creating build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,699   copying build/lib/mgatk/bin/python/filterClipBam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,703   copying build/lib/mgatk/bin/python/oneSample.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,708   copying build/lib/mgatk/bin/python/split_barcoded_bam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,713   copying build/lib/mgatk/bin/python/chunk_barcoded_bam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,718   copying build/lib/mgatk/bin/python/find_barcodes.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,722   copying build/lib/mgatk/bin/python/variant_calling.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,729   copying build/lib/mgatk/bin/python/sumstatsBPtenx.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,735   copying build/lib/mgatk/bin/python/sumstatsBP.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,740   copying build/lib/mgatk/bin/python/sumstatsBP_overlap.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,746   copying build/lib/mgatk/bin/python/sumstatsBPtenx_overlap.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2022-04-08T22:15:35,752   copying build/lib/mgatk/bin/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin
2022-04-08T22:15:35,761   creating build/bdist.linux-armv7l/wheel/mgatk/bin/R
2022-04-08T22:15:35,764   copying build/lib/mgatk/bin/R/toRDS.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2022-04-08T22:15:35,771   copying build/lib/mgatk/bin/R/prepare_cellbender.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2022-04-08T22:15:35,777   copying build/lib/mgatk/bin/R/convert_cellbender_output.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2022-04-08T22:15:35,782   creating build/bdist.linux-armv7l/wheel/mgatk/bin/anno
2022-04-08T22:15:35,784   copying build/lib/mgatk/bin/anno/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno
2022-04-08T22:15:35,791   creating build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,792   copying build/lib/mgatk/bin/anno/fasta/GRCh37.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,800   copying build/lib/mgatk/bin/anno/fasta/mm10.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,808   copying build/lib/mgatk/bin/anno/fasta/NC_012920.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,815   copying build/lib/mgatk/bin/anno/fasta/hg19.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,821   copying build/lib/mgatk/bin/anno/fasta/rCRS.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,827   copying build/lib/mgatk/bin/anno/fasta/hg38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,832   copying build/lib/mgatk/bin/anno/fasta/hg19_chrM.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,840   copying build/lib/mgatk/bin/anno/fasta/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,846   copying build/lib/mgatk/bin/anno/fasta/mm9.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,862   copying build/lib/mgatk/bin/anno/fasta/GRCz10.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,870   copying build/lib/mgatk/bin/anno/fasta/GRCm38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,877   copying build/lib/mgatk/bin/anno/fasta/GRCh38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2022-04-08T22:15:35,884   copying build/lib/mgatk/bin/picard.jar -> build/bdist.linux-armv7l/wheel/mgatk/bin
2022-04-08T22:15:37,304   creating build/bdist.linux-armv7l/wheel/mgatk/del
2022-04-08T22:15:37,313   copying build/lib/mgatk/del/clifind.py -> build/bdist.linux-armv7l/wheel/mgatk/del
2022-04-08T22:15:37,319   creating build/bdist.linux-armv7l/wheel/mgatk/del/bulk_del
2022-04-08T22:15:37,321   copying build/lib/mgatk/del/bulk_del/plot_deletion_breaks_bulk.R -> build/bdist.linux-armv7l/wheel/mgatk/del/bulk_del
2022-04-08T22:15:37,326   copying build/lib/mgatk/del/bulk_del/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/del/bulk_del
2022-04-08T22:15:37,332   copying build/lib/mgatk/del/clidel.py -> build/bdist.linux-armv7l/wheel/mgatk/del
2022-04-08T22:15:37,340   creating build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2022-04-08T22:15:37,343   copying build/lib/mgatk/del/__pycache__/clidel.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2022-04-08T22:15:37,349   copying build/lib/mgatk/del/__pycache__/clifind.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2022-04-08T22:15:37,353   copying build/lib/mgatk/del/__pycache__/clifind.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2022-04-08T22:15:37,358   copying build/lib/mgatk/del/__pycache__/clidel.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2022-04-08T22:15:37,362   copying build/lib/mgatk/del/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/del
2022-04-08T22:15:37,370   creating build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2022-04-08T22:15:37,373   copying build/lib/mgatk/del/singles_del/02_heteroplasmy_del_singles.R -> build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2022-04-08T22:15:37,379   copying build/lib/mgatk/del/singles_del/Snakefile.delSingles -> build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2022-04-08T22:15:37,384   copying build/lib/mgatk/del/singles_del/01_process_cell_reads.py -> build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2022-04-08T22:15:37,388   running install_egg_info
2022-04-08T22:15:37,406   Copying mgatk.egg-info to build/bdist.linux-armv7l/wheel/mgatk-0.6.6-py3.5.egg-info
2022-04-08T22:15:37,444   running install_scripts
2022-04-08T22:15:37,654   creating build/bdist.linux-armv7l/wheel/mgatk-0.6.6.dist-info/WHEEL
2022-04-08T22:15:42,560   Building wheel for mgatk (setup.py): finished with status 'done'
2022-04-08T22:15:42,797   Created wheel for mgatk: filename=mgatk-0.6.6-py2.py3-none-any.whl size=14356999 sha256=db1b17b9efe2010d5474e233eb127e3b9ebbaa04eaebe474d461622e040bc634
2022-04-08T22:15:42,798   Stored in directory: /tmp/pip-ephem-wheel-cache-rn_n44wv/wheels/27/4a/4b/4d06bc86969cf7d9a29bb592f433a7c13f4d195be204ca757c
2022-04-08T22:15:42,826 Successfully built mgatk
2022-04-08T22:15:45,315 Removed build tracker: '/tmp/pip-req-tracker-rpn6echh'