2023-01-15T16:35:58,806 Created temporary directory: /tmp/pip-ephem-wheel-cache-qw3smziz
2023-01-15T16:35:58,810 Created temporary directory: /tmp/pip-build-tracker-rilkakkz
2023-01-15T16:35:58,811 Initialized build tracking at /tmp/pip-build-tracker-rilkakkz
2023-01-15T16:35:58,811 Created build tracker: /tmp/pip-build-tracker-rilkakkz
2023-01-15T16:35:58,812 Entered build tracker: /tmp/pip-build-tracker-rilkakkz
2023-01-15T16:35:58,813 Created temporary directory: /tmp/pip-wheel-rfi7gaob
2023-01-15T16:35:58,821 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2023-01-15T16:35:58,826 Created temporary directory: /tmp/pip-ephem-wheel-cache-nhp0f2bz
2023-01-15T16:35:58,884 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-01-15T16:35:58,890 2 location(s) to search for versions of mgatk:
2023-01-15T16:35:58,890 * https://pypi.org/simple/mgatk/
2023-01-15T16:35:58,890 * https://www.piwheels.org/simple/mgatk/
2023-01-15T16:35:58,891 Fetching project page and analyzing links: https://pypi.org/simple/mgatk/
2023-01-15T16:35:58,892 Getting page https://pypi.org/simple/mgatk/
2023-01-15T16:35:58,896 Found index url https://pypi.org/simple
2023-01-15T16:35:59,115 Fetched page https://pypi.org/simple/mgatk/ as application/vnd.pypi.simple.v1+json
2023-01-15T16:35:59,125   Found link https://files.pythonhosted.org/packages/8f/0c/47da433403828d2e53de436d7689af32d8ee5130dc1c748ce0175d0f2eb1/mgatk-0.0.1.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.0.1
2023-01-15T16:35:59,126   Found link https://files.pythonhosted.org/packages/f7/7f/f09842055b19e670fbc309415123b423d30cc0fd1a8c430785bd1754827f/mgatk-0.1.0.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.1.0
2023-01-15T16:35:59,127   Found link https://files.pythonhosted.org/packages/b7/8e/ac9ab509199f852d88097608e3fb60fc85232c87a36a062a041043ea869d/mgatk-0.2.5.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.2.5
2023-01-15T16:35:59,127   Found link https://files.pythonhosted.org/packages/74/28/da183d0b56f401dec7f3bded24c50a02396e56c4f995fd50a3cf21c4381d/mgatk-0.5.0.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.5.0
2023-01-15T16:35:59,128   Found link https://files.pythonhosted.org/packages/96/e8/e35c039eac8d418ca9213b1db69c4176b59783ca43638a75e824b475197d/mgatk-0.5.1.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.5.1
2023-01-15T16:35:59,129   Found link https://files.pythonhosted.org/packages/b6/16/d11afe05a803f23995d04af8fd832473fa1d21f73f242340f6086eb97183/mgatk-0.5.3.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.5.3
2023-01-15T16:35:59,130   Found link https://files.pythonhosted.org/packages/be/5f/896adc0419fad47b3434866dd68deb7b93a1328916be0eb1f0827393633e/mgatk-0.5.5.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.5.5
2023-01-15T16:35:59,130   Found link https://files.pythonhosted.org/packages/d0/3d/4a67edbf2648ab25ee6b2361e454638ecd5de6753a0c5f3de21975a7c5bd/mgatk-0.5.6.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.5.6
2023-01-15T16:35:59,131   Found link https://files.pythonhosted.org/packages/64/fa/87883d229672ffb048510fb9eade72ad77fb6ea787e82631311fdf2099c9/mgatk-0.5.7.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.5.7
2023-01-15T16:35:59,132   Found link https://files.pythonhosted.org/packages/9e/e3/9ff8a48cac72aaaea4c5c9bdbe71925be6763d6d71ce032905f23c2bc4b6/mgatk-0.5.8.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.5.8
2023-01-15T16:35:59,132   Found link https://files.pythonhosted.org/packages/f1/06/47716f2b5fec77a4a48fb5f3722ec27da0ce98d2219cb2eceb113fc72d8b/mgatk-0.5.9.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.5.9
2023-01-15T16:35:59,133   Found link https://files.pythonhosted.org/packages/e6/73/33c2bdc77eead0a8d9b81a38adb54b75f804b189adabad25795edb5bdc60/mgatk-0.6.0.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.6.0
2023-01-15T16:35:59,134   Found link https://files.pythonhosted.org/packages/20/57/9e2171535e864b06353f2ef16f9bcbc8308f92406c9909e65fe2a7aa39a6/mgatk-0.6.1.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.6.1
2023-01-15T16:35:59,134   Found link https://files.pythonhosted.org/packages/0c/20/8b326bdf214a7a05c0cf4f9469bb42ba3005cb3b749af130ff8d7a3dbef2/mgatk-0.6.2.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.6.2
2023-01-15T16:35:59,135   Found link https://files.pythonhosted.org/packages/c0/c5/7b13208a566f6860899245bf07beabfefa7af72c6abb7f2ef1afaa3b76fe/mgatk-0.6.3.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.6.3
2023-01-15T16:35:59,136   Found link https://files.pythonhosted.org/packages/57/ab/d3cb224a9845960e129904adcfa09d4c59725c9a6abf8a7f6842765530b9/mgatk-0.6.4.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.6.4
2023-01-15T16:35:59,136   Found link https://files.pythonhosted.org/packages/21/1f/a19a9984313d6cc4243c7b3bd0c1b1a811f55c369a44222c74fac075e6db/mgatk-0.6.6.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.6.6
2023-01-15T16:35:59,137   Found link https://files.pythonhosted.org/packages/c5/e9/c9ca2e20b08b9d5c16c56598bff3ef3d77b93dfd39552d07e374de43d069/mgatk-0.6.7.tar.gz (from https://pypi.org/simple/mgatk/), version: 0.6.7
2023-01-15T16:35:59,138 Fetching project page and analyzing links: https://www.piwheels.org/simple/mgatk/
2023-01-15T16:35:59,139 Getting page https://www.piwheels.org/simple/mgatk/
2023-01-15T16:35:59,141 Found index url https://www.piwheels.org/simple
2023-01-15T16:35:59,368 Fetched page https://www.piwheels.org/simple/mgatk/ as text/html
2023-01-15T16:35:59,382   Skipping link: No binaries permitted for mgatk: https://www.piwheels.org/simple/mgatk/mgatk-0.6.6-py2.py3-none-any.whl#sha256=db1b17b9efe2010d5474e233eb127e3b9ebbaa04eaebe474d461622e040bc634 (from https://www.piwheels.org/simple/mgatk/)
2023-01-15T16:35:59,383   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/)
2023-01-15T16:35:59,383   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/)
2023-01-15T16:35:59,384   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/)
2023-01-15T16:35:59,385   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/)
2023-01-15T16:35:59,385   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/)
2023-01-15T16:35:59,386   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/)
2023-01-15T16:35:59,386   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/)
2023-01-15T16:35:59,387   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/)
2023-01-15T16:35:59,387   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/)
2023-01-15T16:35:59,388   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/)
2023-01-15T16:35:59,388   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/)
2023-01-15T16:35:59,389   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/)
2023-01-15T16:35:59,389   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/)
2023-01-15T16:35:59,390   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/)
2023-01-15T16:35:59,390   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/)
2023-01-15T16:35:59,391   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/)
2023-01-15T16:35:59,392 Skipping link: not a file: https://www.piwheels.org/simple/mgatk/
2023-01-15T16:35:59,392 Skipping link: not a file: https://pypi.org/simple/mgatk/
2023-01-15T16:35:59,431 Given no hashes to check 1 links for project 'mgatk': discarding no candidates
2023-01-15T16:35:59,461 Collecting mgatk==0.6.7
2023-01-15T16:35:59,466   Created temporary directory: /tmp/pip-unpack-2eh_7f0y
2023-01-15T16:36:00,144   Downloading mgatk-0.6.7.tar.gz (14.3 MB)
2023-01-15T16:36:08,942   Added mgatk==0.6.7 from https://files.pythonhosted.org/packages/c5/e9/c9ca2e20b08b9d5c16c56598bff3ef3d77b93dfd39552d07e374de43d069/mgatk-0.6.7.tar.gz to build tracker '/tmp/pip-build-tracker-rilkakkz'
2023-01-15T16:36:08,946   Running setup.py (path:/tmp/pip-wheel-rfi7gaob/mgatk_d1df805c7aa74eed840b9e333fbaa0c4/setup.py) egg_info for package mgatk
2023-01-15T16:36:08,947   Created temporary directory: /tmp/pip-pip-egg-info-5own6qz5
2023-01-15T16:36:08,948   Preparing metadata (setup.py): started
2023-01-15T16:36:08,950   Running command python setup.py egg_info
2023-01-15T16:36:11,860   running egg_info
2023-01-15T16:36:11,865   creating /tmp/pip-pip-egg-info-5own6qz5/mgatk.egg-info
2023-01-15T16:36:11,956   writing /tmp/pip-pip-egg-info-5own6qz5/mgatk.egg-info/PKG-INFO
2023-01-15T16:36:11,961   writing dependency_links to /tmp/pip-pip-egg-info-5own6qz5/mgatk.egg-info/dependency_links.txt
2023-01-15T16:36:11,965   writing entry points to /tmp/pip-pip-egg-info-5own6qz5/mgatk.egg-info/entry_points.txt
2023-01-15T16:36:11,968   writing requirements to /tmp/pip-pip-egg-info-5own6qz5/mgatk.egg-info/requires.txt
2023-01-15T16:36:11,970   writing top-level names to /tmp/pip-pip-egg-info-5own6qz5/mgatk.egg-info/top_level.txt
2023-01-15T16:36:11,972   writing manifest file '/tmp/pip-pip-egg-info-5own6qz5/mgatk.egg-info/SOURCES.txt'
2023-01-15T16:36:12,257   reading manifest file '/tmp/pip-pip-egg-info-5own6qz5/mgatk.egg-info/SOURCES.txt'
2023-01-15T16:36:12,261   reading manifest template 'MANIFEST.in'
2023-01-15T16:36:12,263   /usr/local/lib/python3.7/dist-packages/setuptools/dist.py:774: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
2023-01-15T16:36:12,263     % (opt, underscore_opt)
2023-01-15T16:36:12,264   no previously-included directories found matching 'mgatk.egg-info/'
2023-01-15T16:36:12,264   no previously-included directories found matching 'tests/'
2023-01-15T16:36:12,265   no previously-included directories found matching '*.DS_Store'
2023-01-15T16:36:12,324   adding license file 'LICENSE.txt'
2023-01-15T16:36:12,334   writing manifest file '/tmp/pip-pip-egg-info-5own6qz5/mgatk.egg-info/SOURCES.txt'
2023-01-15T16:36:12,539   Preparing metadata (setup.py): finished with status 'done'
2023-01-15T16:36:12,552   Source in /tmp/pip-wheel-rfi7gaob/mgatk_d1df805c7aa74eed840b9e333fbaa0c4 has version 0.6.7, which satisfies requirement mgatk==0.6.7 from https://files.pythonhosted.org/packages/c5/e9/c9ca2e20b08b9d5c16c56598bff3ef3d77b93dfd39552d07e374de43d069/mgatk-0.6.7.tar.gz
2023-01-15T16:36:12,554   Removed mgatk==0.6.7 from https://files.pythonhosted.org/packages/c5/e9/c9ca2e20b08b9d5c16c56598bff3ef3d77b93dfd39552d07e374de43d069/mgatk-0.6.7.tar.gz from build tracker '/tmp/pip-build-tracker-rilkakkz'
2023-01-15T16:36:12,565 Created temporary directory: /tmp/pip-unpack-6zarc_34
2023-01-15T16:36:12,566 Building wheels for collected packages: mgatk
2023-01-15T16:36:12,575   Created temporary directory: /tmp/pip-wheel-7qdhbr5o
2023-01-15T16:36:12,576   Building wheel for mgatk (setup.py): started
2023-01-15T16:36:12,578   Destination directory: /tmp/pip-wheel-7qdhbr5o
2023-01-15T16:36:12,579   Running command python setup.py bdist_wheel
2023-01-15T16:36:14,945   /usr/local/lib/python3.7/dist-packages/setuptools/dist.py:774: UserWarning: Usage of dash-separated 'description-file' will not be supported in future versions. Please use the underscore name 'description_file' instead
2023-01-15T16:36:14,946     % (opt, underscore_opt)
2023-01-15T16:36:15,490   running bdist_wheel
2023-01-15T16:36:16,374   running build
2023-01-15T16:36:16,374   running build_py
2023-01-15T16:36:16,475   creating build
2023-01-15T16:36:16,475   creating build/lib
2023-01-15T16:36:16,477   creating build/lib/mgatk
2023-01-15T16:36:16,479   copying mgatk/mgatkHelp.py -> build/lib/mgatk
2023-01-15T16:36:16,483   copying mgatk/cli.py -> build/lib/mgatk
2023-01-15T16:36:16,488   copying mgatk/__init__.py -> build/lib/mgatk
2023-01-15T16:36:16,491   running egg_info
2023-01-15T16:36:16,736   writing mgatk.egg-info/PKG-INFO
2023-01-15T16:36:16,741   writing dependency_links to mgatk.egg-info/dependency_links.txt
2023-01-15T16:36:16,744   writing entry points to mgatk.egg-info/entry_points.txt
2023-01-15T16:36:16,746   writing requirements to mgatk.egg-info/requires.txt
2023-01-15T16:36:16,748   writing top-level names to mgatk.egg-info/top_level.txt
2023-01-15T16:36:16,845   reading manifest file 'mgatk.egg-info/SOURCES.txt'
2023-01-15T16:36:16,853   reading manifest template 'MANIFEST.in'
2023-01-15T16:36:16,856   no previously-included directories found matching 'tests/'
2023-01-15T16:36:16,858   no previously-included directories found matching '*.DS_Store'
2023-01-15T16:36:16,912   adding license file 'LICENSE.txt'
2023-01-15T16:36:16,923   writing manifest file 'mgatk.egg-info/SOURCES.txt'
2023-01-15T16:36:16,929   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.__pycache__' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:16,929       !!


2023-01-15T16:36:16,930       ############################
2023-01-15T16:36:16,931       # Package would be ignored #
2023-01-15T16:36:16,931       ############################
2023-01-15T16:36:16,931       Python recognizes 'mgatk.__pycache__' as an importable package,
2023-01-15T16:36:16,931       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:16,932       'mgatk.__pycache__' has been automatically added to the distribution only
2023-01-15T16:36:16,932       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:16,933       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:16,933       Please make sure that 'mgatk.__pycache__' is included as a package by using
2023-01-15T16:36:16,934       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:16,934       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:16,934       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:16,935       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:16,935       documentation page.


2023-01-15T16:36:16,936   !!

2023-01-15T16:36:16,936     check.warn(importable)
2023-01-15T16:36:16,939   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.bin' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:16,939       !!


2023-01-15T16:36:16,940       ############################
2023-01-15T16:36:16,940       # Package would be ignored #
2023-01-15T16:36:16,941       ############################
2023-01-15T16:36:16,941       Python recognizes 'mgatk.bin' as an importable package,
2023-01-15T16:36:16,941       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:16,942       'mgatk.bin' has been automatically added to the distribution only
2023-01-15T16:36:16,942       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:16,942       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:16,943       Please make sure that 'mgatk.bin' is included as a package by using
2023-01-15T16:36:16,943       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:16,943       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:16,944       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:16,944       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:16,944       documentation page.


2023-01-15T16:36:16,945   !!

2023-01-15T16:36:16,946     check.warn(importable)
2023-01-15T16:36:16,948   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.bin.R' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:16,949       !!


2023-01-15T16:36:16,950       ############################
2023-01-15T16:36:16,950       # Package would be ignored #
2023-01-15T16:36:16,950       ############################
2023-01-15T16:36:16,950       Python recognizes 'mgatk.bin.R' as an importable package,
2023-01-15T16:36:16,951       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:16,951       'mgatk.bin.R' has been automatically added to the distribution only
2023-01-15T16:36:16,952       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:16,952       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:16,953       Please make sure that 'mgatk.bin.R' is included as a package by using
2023-01-15T16:36:16,953       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:16,953       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:16,953       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:16,954       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:16,954       documentation page.


2023-01-15T16:36:16,955   !!

2023-01-15T16:36:16,956     check.warn(importable)
2023-01-15T16:36:16,956   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.bin.anno' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:16,957       !!


2023-01-15T16:36:16,957       ############################
2023-01-15T16:36:16,958       # Package would be ignored #
2023-01-15T16:36:16,958       ############################
2023-01-15T16:36:16,958       Python recognizes 'mgatk.bin.anno' as an importable package,
2023-01-15T16:36:16,959       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:16,959       'mgatk.bin.anno' has been automatically added to the distribution only
2023-01-15T16:36:16,960       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:16,960       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:16,961       Please make sure that 'mgatk.bin.anno' is included as a package by using
2023-01-15T16:36:16,961       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:16,961       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:16,961       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:16,962       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:16,962       documentation page.


2023-01-15T16:36:16,963   !!

2023-01-15T16:36:16,964     check.warn(importable)
2023-01-15T16:36:16,964   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.bin.anno.fasta' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:16,964       !!


2023-01-15T16:36:16,965       ############################
2023-01-15T16:36:16,965       # Package would be ignored #
2023-01-15T16:36:16,966       ############################
2023-01-15T16:36:16,966       Python recognizes 'mgatk.bin.anno.fasta' as an importable package,
2023-01-15T16:36:16,966       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:16,967       'mgatk.bin.anno.fasta' has been automatically added to the distribution only
2023-01-15T16:36:16,967       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:16,967       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:16,968       Please make sure that 'mgatk.bin.anno.fasta' is included as a package by using
2023-01-15T16:36:16,968       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:16,969       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:16,969       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:16,970       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:16,971       documentation page.


2023-01-15T16:36:16,972   !!

2023-01-15T16:36:16,973     check.warn(importable)
2023-01-15T16:36:16,974   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.bin.python' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:16,974       !!


2023-01-15T16:36:16,975       ############################
2023-01-15T16:36:16,976       # Package would be ignored #
2023-01-15T16:36:16,976       ############################
2023-01-15T16:36:16,977       Python recognizes 'mgatk.bin.python' as an importable package,
2023-01-15T16:36:16,977       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:16,978       'mgatk.bin.python' has been automatically added to the distribution only
2023-01-15T16:36:16,978       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:16,979       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:16,980       Please make sure that 'mgatk.bin.python' is included as a package by using
2023-01-15T16:36:16,980       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:16,980       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:16,981       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:16,982       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:16,982       documentation page.


2023-01-15T16:36:16,983   !!

2023-01-15T16:36:16,984     check.warn(importable)
2023-01-15T16:36:16,985   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.bin.snake' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:16,985       !!


2023-01-15T16:36:16,986       ############################
2023-01-15T16:36:16,987       # Package would be ignored #
2023-01-15T16:36:16,987       ############################
2023-01-15T16:36:16,987       Python recognizes 'mgatk.bin.snake' as an importable package,
2023-01-15T16:36:16,988       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:16,989       'mgatk.bin.snake' has been automatically added to the distribution only
2023-01-15T16:36:16,989       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:16,990       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:16,991       Please make sure that 'mgatk.bin.snake' is included as a package by using
2023-01-15T16:36:16,991       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:16,991       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:16,992       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:16,993       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:16,993       documentation page.


2023-01-15T16:36:16,995   !!

2023-01-15T16:36:16,996     check.warn(importable)
2023-01-15T16:36:16,996   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.deletioncalling' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:16,996       !!


2023-01-15T16:36:16,998       ############################
2023-01-15T16:36:16,998       # Package would be ignored #
2023-01-15T16:36:16,999       ############################
2023-01-15T16:36:16,999       Python recognizes 'mgatk.deletioncalling' as an importable package,
2023-01-15T16:36:17,000       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:17,000       'mgatk.deletioncalling' has been automatically added to the distribution only
2023-01-15T16:36:17,001       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:17,001       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:17,002       Please make sure that 'mgatk.deletioncalling' is included as a package by using
2023-01-15T16:36:17,002       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:17,003       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:17,003       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:17,004       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:17,005       documentation page.


2023-01-15T16:36:17,006   !!

2023-01-15T16:36:17,007     check.warn(importable)
2023-01-15T16:36:17,007   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.deletioncalling.__pycache__' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:17,008       !!


2023-01-15T16:36:17,009       ############################
2023-01-15T16:36:17,010       # Package would be ignored #
2023-01-15T16:36:17,010       ############################
2023-01-15T16:36:17,011       Python recognizes 'mgatk.deletioncalling.__pycache__' as an importable package,
2023-01-15T16:36:17,011       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:17,012       'mgatk.deletioncalling.__pycache__' has been automatically added to the distribution only
2023-01-15T16:36:17,013       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:17,013       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:17,014       Please make sure that 'mgatk.deletioncalling.__pycache__' is included as a package by using
2023-01-15T16:36:17,014       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:17,015       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:17,015       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:17,016       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:17,016       documentation page.


2023-01-15T16:36:17,017   !!

2023-01-15T16:36:17,017     check.warn(importable)
2023-01-15T16:36:17,018   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.deletioncalling.bulk_del' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:17,018       !!


2023-01-15T16:36:17,019       ############################
2023-01-15T16:36:17,019       # Package would be ignored #
2023-01-15T16:36:17,019       ############################
2023-01-15T16:36:17,020       Python recognizes 'mgatk.deletioncalling.bulk_del' as an importable package,
2023-01-15T16:36:17,020       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:17,021       'mgatk.deletioncalling.bulk_del' has been automatically added to the distribution only
2023-01-15T16:36:17,021       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:17,021       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:17,022       Please make sure that 'mgatk.deletioncalling.bulk_del' is included as a package by using
2023-01-15T16:36:17,022       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:17,022       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:17,023       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:17,023       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:17,023       documentation page.


2023-01-15T16:36:17,024   !!

2023-01-15T16:36:17,025     check.warn(importable)
2023-01-15T16:36:17,025   /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning:     Installing 'mgatk.deletioncalling.singles_del' as data is deprecated, please list it in `packages`.
2023-01-15T16:36:17,025       !!


2023-01-15T16:36:17,026       ############################
2023-01-15T16:36:17,027       # Package would be ignored #
2023-01-15T16:36:17,027       ############################
2023-01-15T16:36:17,027       Python recognizes 'mgatk.deletioncalling.singles_del' as an importable package,
2023-01-15T16:36:17,027       but it is not listed in the `packages` configuration of setuptools.

2023-01-15T16:36:17,028       'mgatk.deletioncalling.singles_del' has been automatically added to the distribution only
2023-01-15T16:36:17,028       because it may contain data files, but this behavior is likely to change
2023-01-15T16:36:17,029       in future versions of setuptools (and therefore is considered deprecated).

2023-01-15T16:36:17,029       Please make sure that 'mgatk.deletioncalling.singles_del' is included as a package by using
2023-01-15T16:36:17,030       the `packages` configuration field or the proper discovery methods
2023-01-15T16:36:17,030       (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-01-15T16:36:17,030       instead of `find_packages(...)`/`find:`).

2023-01-15T16:36:17,031       You can read more about "package discovery" and "data files" on setuptools
2023-01-15T16:36:17,031       documentation page.


2023-01-15T16:36:17,032   !!

2023-01-15T16:36:17,032     check.warn(importable)
2023-01-15T16:36:17,033   copying mgatk/.DS_Store -> build/lib/mgatk
2023-01-15T16:36:17,033   copying mgatk/devnotes.md -> build/lib/mgatk
2023-01-15T16:36:17,033   creating build/lib/mgatk/__pycache__
2023-01-15T16:36:17,034   copying mgatk/__pycache__/__init__.cpython-36.pyc -> build/lib/mgatk/__pycache__
2023-01-15T16:36:17,034   copying mgatk/__pycache__/__init__.cpython-38.pyc -> build/lib/mgatk/__pycache__
2023-01-15T16:36:17,034   copying mgatk/__pycache__/cli.cpython-36.pyc -> build/lib/mgatk/__pycache__
2023-01-15T16:36:17,034   copying mgatk/__pycache__/cli.cpython-38.pyc -> build/lib/mgatk/__pycache__
2023-01-15T16:36:17,035   copying mgatk/__pycache__/mgatkHelp.cpython-36.pyc -> build/lib/mgatk/__pycache__
2023-01-15T16:36:17,035   copying mgatk/__pycache__/mgatkHelp.cpython-38.pyc -> build/lib/mgatk/__pycache__
2023-01-15T16:36:17,035   creating build/lib/mgatk/bin
2023-01-15T16:36:17,036   copying mgatk/bin/.DS_Store -> build/lib/mgatk/bin
2023-01-15T16:36:17,036   copying mgatk/bin/picard.jar -> build/lib/mgatk/bin
2023-01-15T16:36:17,585   creating build/lib/mgatk/bin/R
2023-01-15T16:36:17,586   copying mgatk/bin/R/convert_cellbender_output.R -> build/lib/mgatk/bin/R
2023-01-15T16:36:17,590   copying mgatk/bin/R/prepare_cellbender.R -> build/lib/mgatk/bin/R
2023-01-15T16:36:17,595   copying mgatk/bin/R/toRDS.R -> build/lib/mgatk/bin/R
2023-01-15T16:36:17,599   creating build/lib/mgatk/bin/anno
2023-01-15T16:36:17,601   copying mgatk/bin/anno/.DS_Store -> build/lib/mgatk/bin/anno
2023-01-15T16:36:17,605   creating build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,607   copying mgatk/bin/anno/fasta/.DS_Store -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,611   copying mgatk/bin/anno/fasta/GRCh37.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,616   copying mgatk/bin/anno/fasta/GRCh38.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,622   copying mgatk/bin/anno/fasta/GRCm38.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,628   copying mgatk/bin/anno/fasta/GRCz10.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,633   copying mgatk/bin/anno/fasta/NC_012920.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,638   copying mgatk/bin/anno/fasta/hg19.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,643   copying mgatk/bin/anno/fasta/hg19_chrM.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,648   copying mgatk/bin/anno/fasta/hg38.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,654   copying mgatk/bin/anno/fasta/mm10.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,658   copying mgatk/bin/anno/fasta/mm9.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,663   copying mgatk/bin/anno/fasta/rCRS.fasta -> build/lib/mgatk/bin/anno/fasta
2023-01-15T16:36:17,668   creating build/lib/mgatk/bin/python
2023-01-15T16:36:17,669   copying mgatk/bin/python/chunk_barcoded_bam.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,674   copying mgatk/bin/python/filterClipBam.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,681   copying mgatk/bin/python/find_barcodes.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,685   copying mgatk/bin/python/oneSample.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,690   copying mgatk/bin/python/split_barcoded_bam.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,694   copying mgatk/bin/python/sumstatsBP.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,699   copying mgatk/bin/python/sumstatsBP_overlap.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,703   copying mgatk/bin/python/sumstatsBPtenx.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,707   copying mgatk/bin/python/sumstatsBPtenx_overlap.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,712   copying mgatk/bin/python/variant_calling.py -> build/lib/mgatk/bin/python
2023-01-15T16:36:17,716   creating build/lib/mgatk/bin/snake
2023-01-15T16:36:17,717   copying mgatk/bin/snake/Snakefile.Gather -> build/lib/mgatk/bin/snake
2023-01-15T16:36:17,722   copying mgatk/bin/snake/Snakefile.Scatter -> build/lib/mgatk/bin/snake
2023-01-15T16:36:17,726   copying mgatk/bin/snake/Snakefile.tenx -> build/lib/mgatk/bin/snake
2023-01-15T16:36:17,730   creating build/lib/mgatk/deletioncalling
2023-01-15T16:36:17,731   copying mgatk/deletioncalling/.DS_Store -> build/lib/mgatk/deletioncalling
2023-01-15T16:36:17,736   copying mgatk/deletioncalling/clidel.py -> build/lib/mgatk/deletioncalling
2023-01-15T16:36:17,741   copying mgatk/deletioncalling/clifind.py -> build/lib/mgatk/deletioncalling
2023-01-15T16:36:17,744   creating build/lib/mgatk/deletioncalling/__pycache__
2023-01-15T16:36:17,746   copying mgatk/deletioncalling/__pycache__/clidel.cpython-38.pyc -> build/lib/mgatk/deletioncalling/__pycache__
2023-01-15T16:36:17,750   copying mgatk/deletioncalling/__pycache__/clifind.cpython-38.pyc -> build/lib/mgatk/deletioncalling/__pycache__
2023-01-15T16:36:17,754   creating build/lib/mgatk/deletioncalling/bulk_del
2023-01-15T16:36:17,756   copying mgatk/deletioncalling/bulk_del/.DS_Store -> build/lib/mgatk/deletioncalling/bulk_del
2023-01-15T16:36:17,760   copying mgatk/deletioncalling/bulk_del/plot_deletion_breaks_bulk.R -> build/lib/mgatk/deletioncalling/bulk_del
2023-01-15T16:36:17,765   creating build/lib/mgatk/deletioncalling/singles_del
2023-01-15T16:36:17,766   copying mgatk/deletioncalling/singles_del/01_process_cell_reads.py -> build/lib/mgatk/deletioncalling/singles_del
2023-01-15T16:36:17,770   copying mgatk/deletioncalling/singles_del/02_heteroplasmy_del_singles.R -> build/lib/mgatk/deletioncalling/singles_del
2023-01-15T16:36:17,774   copying mgatk/deletioncalling/singles_del/Snakefile.delSingles -> build/lib/mgatk/deletioncalling/singles_del
2023-01-15T16:36:17,879   /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.
2023-01-15T16:36:17,880     setuptools.SetuptoolsDeprecationWarning,
2023-01-15T16:36:17,982   installing to build/bdist.linux-armv7l/wheel
2023-01-15T16:36:17,982   running install
2023-01-15T16:36:18,044   running install_lib
2023-01-15T16:36:18,140   creating build/bdist.linux-armv7l
2023-01-15T16:36:18,141   creating build/bdist.linux-armv7l/wheel
2023-01-15T16:36:18,144   creating build/bdist.linux-armv7l/wheel/mgatk
2023-01-15T16:36:18,147   creating build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2023-01-15T16:36:18,149   copying build/lib/mgatk/__pycache__/cli.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2023-01-15T16:36:18,154   copying build/lib/mgatk/__pycache__/__init__.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2023-01-15T16:36:18,157   copying build/lib/mgatk/__pycache__/mgatkHelp.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2023-01-15T16:36:18,161   copying build/lib/mgatk/__pycache__/__init__.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2023-01-15T16:36:18,165   copying build/lib/mgatk/__pycache__/mgatkHelp.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2023-01-15T16:36:18,169   copying build/lib/mgatk/__pycache__/cli.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2023-01-15T16:36:18,175   creating build/bdist.linux-armv7l/wheel/mgatk/bin
2023-01-15T16:36:18,176   copying build/lib/mgatk/bin/picard.jar -> build/bdist.linux-armv7l/wheel/mgatk/bin
2023-01-15T16:36:18,747   creating build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,751   copying build/lib/mgatk/bin/python/oneSample.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,754   copying build/lib/mgatk/bin/python/chunk_barcoded_bam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,758   copying build/lib/mgatk/bin/python/sumstatsBPtenx_overlap.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,761   copying build/lib/mgatk/bin/python/sumstatsBP_overlap.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,765   copying build/lib/mgatk/bin/python/split_barcoded_bam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,769   copying build/lib/mgatk/bin/python/find_barcodes.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,771   copying build/lib/mgatk/bin/python/filterClipBam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,775   copying build/lib/mgatk/bin/python/sumstatsBPtenx.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,778   copying build/lib/mgatk/bin/python/variant_calling.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,782   copying build/lib/mgatk/bin/python/sumstatsBP.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2023-01-15T16:36:18,786   creating build/bdist.linux-armv7l/wheel/mgatk/bin/anno
2023-01-15T16:36:18,789   creating build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,790   copying build/lib/mgatk/bin/anno/fasta/GRCh38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,795   copying build/lib/mgatk/bin/anno/fasta/GRCm38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,799   copying build/lib/mgatk/bin/anno/fasta/mm10.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,804   copying build/lib/mgatk/bin/anno/fasta/mm9.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,808   copying build/lib/mgatk/bin/anno/fasta/hg38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,813   copying build/lib/mgatk/bin/anno/fasta/rCRS.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,817   copying build/lib/mgatk/bin/anno/fasta/NC_012920.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,822   copying build/lib/mgatk/bin/anno/fasta/hg19.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,826   copying build/lib/mgatk/bin/anno/fasta/GRCh37.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,831   copying build/lib/mgatk/bin/anno/fasta/GRCz10.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,836   copying build/lib/mgatk/bin/anno/fasta/hg19_chrM.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,841   copying build/lib/mgatk/bin/anno/fasta/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2023-01-15T16:36:18,845   copying build/lib/mgatk/bin/anno/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno
2023-01-15T16:36:18,850   creating build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2023-01-15T16:36:18,851   copying build/lib/mgatk/bin/snake/Snakefile.tenx -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2023-01-15T16:36:18,855   copying build/lib/mgatk/bin/snake/Snakefile.Scatter -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2023-01-15T16:36:18,858   copying build/lib/mgatk/bin/snake/Snakefile.Gather -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2023-01-15T16:36:18,863   creating build/bdist.linux-armv7l/wheel/mgatk/bin/R
2023-01-15T16:36:18,864   copying build/lib/mgatk/bin/R/prepare_cellbender.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2023-01-15T16:36:18,868   copying build/lib/mgatk/bin/R/convert_cellbender_output.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2023-01-15T16:36:18,872   copying build/lib/mgatk/bin/R/toRDS.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2023-01-15T16:36:18,876   copying build/lib/mgatk/bin/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin
2023-01-15T16:36:18,880   copying build/lib/mgatk/mgatkHelp.py -> build/bdist.linux-armv7l/wheel/mgatk
2023-01-15T16:36:18,884   copying build/lib/mgatk/devnotes.md -> build/bdist.linux-armv7l/wheel/mgatk
2023-01-15T16:36:18,887   copying build/lib/mgatk/cli.py -> build/bdist.linux-armv7l/wheel/mgatk
2023-01-15T16:36:18,892   copying build/lib/mgatk/__init__.py -> build/bdist.linux-armv7l/wheel/mgatk
2023-01-15T16:36:18,896   creating build/bdist.linux-armv7l/wheel/mgatk/deletioncalling
2023-01-15T16:36:18,898   creating build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/__pycache__
2023-01-15T16:36:18,900   copying build/lib/mgatk/deletioncalling/__pycache__/clifind.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/__pycache__
2023-01-15T16:36:18,904   copying build/lib/mgatk/deletioncalling/__pycache__/clidel.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/__pycache__
2023-01-15T16:36:18,908   copying build/lib/mgatk/deletioncalling/clidel.py -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling
2023-01-15T16:36:18,913   creating build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/bulk_del
2023-01-15T16:36:18,915   copying build/lib/mgatk/deletioncalling/bulk_del/plot_deletion_breaks_bulk.R -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/bulk_del
2023-01-15T16:36:18,920   copying build/lib/mgatk/deletioncalling/bulk_del/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/bulk_del
2023-01-15T16:36:18,925   creating build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/singles_del
2023-01-15T16:36:18,927   copying build/lib/mgatk/deletioncalling/singles_del/02_heteroplasmy_del_singles.R -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/singles_del
2023-01-15T16:36:18,931   copying build/lib/mgatk/deletioncalling/singles_del/01_process_cell_reads.py -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/singles_del
2023-01-15T16:36:18,935   copying build/lib/mgatk/deletioncalling/singles_del/Snakefile.delSingles -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling/singles_del
2023-01-15T16:36:18,939   copying build/lib/mgatk/deletioncalling/clifind.py -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling
2023-01-15T16:36:18,943   copying build/lib/mgatk/deletioncalling/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/deletioncalling
2023-01-15T16:36:18,947   copying build/lib/mgatk/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk
2023-01-15T16:36:18,951   running install_egg_info
2023-01-15T16:36:19,053   Copying mgatk.egg-info to build/bdist.linux-armv7l/wheel/mgatk-0.6.7-py3.7.egg-info
2023-01-15T16:36:19,079   running install_scripts
2023-01-15T16:36:19,245   adding license file "LICENSE.txt" (matched pattern "LICEN[CS]E*")
2023-01-15T16:36:19,253   creating build/bdist.linux-armv7l/wheel/mgatk-0.6.7.dist-info/WHEEL
2023-01-15T16:36:19,258   creating '/tmp/pip-wheel-7qdhbr5o/mgatk-0.6.7-py2.py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2023-01-15T16:36:19,264   adding 'mgatk/.DS_Store'
2023-01-15T16:36:19,267   adding 'mgatk/__init__.py'
2023-01-15T16:36:19,275   adding 'mgatk/cli.py'
2023-01-15T16:36:19,278   adding 'mgatk/devnotes.md'
2023-01-15T16:36:19,283   adding 'mgatk/mgatkHelp.py'
2023-01-15T16:36:19,287   adding 'mgatk/__pycache__/__init__.cpython-36.pyc'
2023-01-15T16:36:19,289   adding 'mgatk/__pycache__/__init__.cpython-38.pyc'
2023-01-15T16:36:19,295   adding 'mgatk/__pycache__/cli.cpython-36.pyc'
2023-01-15T16:36:19,301   adding 'mgatk/__pycache__/cli.cpython-38.pyc'
2023-01-15T16:36:19,307   adding 'mgatk/__pycache__/mgatkHelp.cpython-36.pyc'
2023-01-15T16:36:19,312   adding 'mgatk/__pycache__/mgatkHelp.cpython-38.pyc'
2023-01-15T16:36:19,317   adding 'mgatk/bin/.DS_Store'
2023-01-15T16:36:23,728   adding 'mgatk/bin/picard.jar'
2023-01-15T16:36:24,042   adding 'mgatk/bin/R/convert_cellbender_output.R'
2023-01-15T16:36:24,046   adding 'mgatk/bin/R/prepare_cellbender.R'
2023-01-15T16:36:24,051   adding 'mgatk/bin/R/toRDS.R'
2023-01-15T16:36:24,055   adding 'mgatk/bin/anno/.DS_Store'
2023-01-15T16:36:24,060   adding 'mgatk/bin/anno/fasta/.DS_Store'
2023-01-15T16:36:24,079   adding 'mgatk/bin/anno/fasta/GRCh37.fasta'
2023-01-15T16:36:24,099   adding 'mgatk/bin/anno/fasta/GRCh38.fasta'
2023-01-15T16:36:24,118   adding 'mgatk/bin/anno/fasta/GRCm38.fasta'
2023-01-15T16:36:24,137   adding 'mgatk/bin/anno/fasta/GRCz10.fasta'
2023-01-15T16:36:24,156   adding 'mgatk/bin/anno/fasta/NC_012920.fasta'
2023-01-15T16:36:24,175   adding 'mgatk/bin/anno/fasta/hg19.fasta'
2023-01-15T16:36:24,194   adding 'mgatk/bin/anno/fasta/hg19_chrM.fasta'
2023-01-15T16:36:24,212   adding 'mgatk/bin/anno/fasta/hg38.fasta'
2023-01-15T16:36:24,230   adding 'mgatk/bin/anno/fasta/mm10.fasta'
2023-01-15T16:36:24,249   adding 'mgatk/bin/anno/fasta/mm9.fasta'
2023-01-15T16:36:24,267   adding 'mgatk/bin/anno/fasta/rCRS.fasta'
2023-01-15T16:36:24,271   adding 'mgatk/bin/python/chunk_barcoded_bam.py'
2023-01-15T16:36:24,273   adding 'mgatk/bin/python/filterClipBam.py'
2023-01-15T16:36:24,276   adding 'mgatk/bin/python/find_barcodes.py'
2023-01-15T16:36:24,278   adding 'mgatk/bin/python/oneSample.py'
2023-01-15T16:36:24,281   adding 'mgatk/bin/python/split_barcoded_bam.py'
2023-01-15T16:36:24,284   adding 'mgatk/bin/python/sumstatsBP.py'
2023-01-15T16:36:24,287   adding 'mgatk/bin/python/sumstatsBP_overlap.py'
2023-01-15T16:36:24,290   adding 'mgatk/bin/python/sumstatsBPtenx.py'
2023-01-15T16:36:24,293   adding 'mgatk/bin/python/sumstatsBPtenx_overlap.py'
2023-01-15T16:36:24,296   adding 'mgatk/bin/python/variant_calling.py'
2023-01-15T16:36:24,300   adding 'mgatk/bin/snake/Snakefile.Gather'
2023-01-15T16:36:24,302   adding 'mgatk/bin/snake/Snakefile.Scatter'
2023-01-15T16:36:24,305   adding 'mgatk/bin/snake/Snakefile.tenx'
2023-01-15T16:36:24,310   adding 'mgatk/deletioncalling/.DS_Store'
2023-01-15T16:36:24,314   adding 'mgatk/deletioncalling/clidel.py'
2023-01-15T16:36:24,317   adding 'mgatk/deletioncalling/clifind.py'
2023-01-15T16:36:24,321   adding 'mgatk/deletioncalling/__pycache__/clidel.cpython-38.pyc'
2023-01-15T16:36:24,325   adding 'mgatk/deletioncalling/__pycache__/clifind.cpython-38.pyc'
2023-01-15T16:36:24,328   adding 'mgatk/deletioncalling/bulk_del/.DS_Store'
2023-01-15T16:36:24,331   adding 'mgatk/deletioncalling/bulk_del/plot_deletion_breaks_bulk.R'
2023-01-15T16:36:24,335   adding 'mgatk/deletioncalling/singles_del/01_process_cell_reads.py'
2023-01-15T16:36:24,338   adding 'mgatk/deletioncalling/singles_del/02_heteroplasmy_del_singles.R'
2023-01-15T16:36:24,340   adding 'mgatk/deletioncalling/singles_del/Snakefile.delSingles'
2023-01-15T16:36:24,344   adding 'mgatk-0.6.7.dist-info/LICENSE.txt'
2023-01-15T16:36:24,346   adding 'mgatk-0.6.7.dist-info/METADATA'
2023-01-15T16:36:24,348   adding 'mgatk-0.6.7.dist-info/WHEEL'
2023-01-15T16:36:24,350   adding 'mgatk-0.6.7.dist-info/entry_points.txt'
2023-01-15T16:36:24,351   adding 'mgatk-0.6.7.dist-info/top_level.txt'
2023-01-15T16:36:24,354   adding 'mgatk-0.6.7.dist-info/RECORD'
2023-01-15T16:36:24,919   removing build/bdist.linux-armv7l/wheel
2023-01-15T16:36:25,215   Building wheel for mgatk (setup.py): finished with status 'done'
2023-01-15T16:36:25,642   Created wheel for mgatk: filename=mgatk-0.6.7-py2.py3-none-any.whl size=14351534 sha256=79fed343da0db4117616398f89d660c2fbd8e79fe68fb94ec1aefc118d87648a
2023-01-15T16:36:25,644   Stored in directory: /tmp/pip-ephem-wheel-cache-nhp0f2bz/wheels/11/21/f4/dab77886f3bb6f691f711a2a1020eae83d3c39afb24d8baff1
2023-01-15T16:36:25,690 Successfully built mgatk
2023-01-15T16:36:26,627 Removed build tracker: '/tmp/pip-build-tracker-rilkakkz'