2021-04-22T06:47:10,217 Created temporary directory: /tmp/pip-ephem-wheel-cache-vhbwky7_
2021-04-22T06:47:10,220 Created temporary directory: /tmp/pip-req-tracker-4amth5rl
2021-04-22T06:47:10,220 Initialized build tracking at /tmp/pip-req-tracker-4amth5rl
2021-04-22T06:47:10,221 Created build tracker: /tmp/pip-req-tracker-4amth5rl
2021-04-22T06:47:10,221 Entered build tracker: /tmp/pip-req-tracker-4amth5rl
2021-04-22T06:47:10,222 Created temporary directory: /tmp/pip-wheel-_lvmsvbz
2021-04-22T06:47:10,249 1 location(s) to search for versions of mgatk:
2021-04-22T06:47:10,249 * https://pypi.org/simple/mgatk/
2021-04-22T06:47:10,249 Fetching project page and analyzing links: https://pypi.org/simple/mgatk/
2021-04-22T06:47:10,250 Getting page https://pypi.org/simple/mgatk/
2021-04-22T06:47:10,251 Found index url https://pypi.org/simple
2021-04-22T06:47:10,253 Getting credentials from keyring for https://pypi.org/simple
2021-04-22T06:47:10,599 Loading KWallet
2021-04-22T06:47:10,624 Loading SecretService
2021-04-22T06:47:10,673 Loading Windows
2021-04-22T06:47:10,676 Loading chainer
2021-04-22T06:47:10,677 Loading macOS
2021-04-22T06:47:10,681 Loading Gnome
2021-04-22T06:47:10,723 Loading Google
2021-04-22T06:47:10,728 Loading Windows (alt)
2021-04-22T06:47:10,733 Loading file
2021-04-22T06:47:10,735 Loading keyczar
2021-04-22T06:47:10,735 Loading multi
2021-04-22T06:47:10,737 Loading pyfs
2021-04-22T06:47:10,776 Getting credentials from keyring for pypi.org
2021-04-22T06:47:10,958   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
2021-04-22T06:47:10,959   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
2021-04-22T06:47:10,959   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
2021-04-22T06:47:10,959   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
2021-04-22T06:47:10,960   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
2021-04-22T06:47:10,960   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
2021-04-22T06:47:10,960   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
2021-04-22T06:47:10,960   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
2021-04-22T06:47:10,961   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
2021-04-22T06:47:10,961   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
2021-04-22T06:47:10,961   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
2021-04-22T06:47:10,962   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
2021-04-22T06:47:10,962   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
2021-04-22T06:47:10,977 Given no hashes to check 1 links for project 'mgatk': discarding no candidates
2021-04-22T06:47:10,995 Collecting mgatk==0.6.1
2021-04-22T06:47:10,997   Created temporary directory: /tmp/pip-unpack-ukyqbfbc
2021-04-22T06:47:10,998   Getting credentials from keyring for files.pythonhosted.org
2021-04-22T06:47:14,018   Downloading mgatk-0.6.1.tar.gz (14.3 MB)
2021-04-22T06:47:16,110   Added mgatk==0.6.1 from https://files.pythonhosted.org/packages/20/57/9e2171535e864b06353f2ef16f9bcbc8308f92406c9909e65fe2a7aa39a6/mgatk-0.6.1.tar.gz#sha256=02621183dccb57d508a69d80182506bfd1716669a8808da49f02c78916d7d85a to build tracker '/tmp/pip-req-tracker-4amth5rl'
2021-04-22T06:47:16,111     Running setup.py (path:/tmp/pip-wheel-_lvmsvbz/mgatk_676433f38855400981e4c7228b752416/setup.py) egg_info for package mgatk
2021-04-22T06:47:16,111     Created temporary directory: /tmp/pip-pip-egg-info-a2egpt4i
2021-04-22T06:47:16,112     Running command python setup.py egg_info
2021-04-22T06:47:17,174     running egg_info
2021-04-22T06:47:17,176     creating /tmp/pip-pip-egg-info-a2egpt4i/mgatk.egg-info
2021-04-22T06:47:17,178     writing /tmp/pip-pip-egg-info-a2egpt4i/mgatk.egg-info/PKG-INFO
2021-04-22T06:47:17,181     writing dependency_links to /tmp/pip-pip-egg-info-a2egpt4i/mgatk.egg-info/dependency_links.txt
2021-04-22T06:47:17,183     writing entry points to /tmp/pip-pip-egg-info-a2egpt4i/mgatk.egg-info/entry_points.txt
2021-04-22T06:47:17,185     writing requirements to /tmp/pip-pip-egg-info-a2egpt4i/mgatk.egg-info/requires.txt
2021-04-22T06:47:17,186     writing top-level names to /tmp/pip-pip-egg-info-a2egpt4i/mgatk.egg-info/top_level.txt
2021-04-22T06:47:17,189     writing manifest file '/tmp/pip-pip-egg-info-a2egpt4i/mgatk.egg-info/SOURCES.txt'
2021-04-22T06:47:17,336     reading manifest file '/tmp/pip-pip-egg-info-a2egpt4i/mgatk.egg-info/SOURCES.txt'
2021-04-22T06:47:17,338     reading manifest template 'MANIFEST.in'
2021-04-22T06:47:17,339     no previously-included directories found matching 'mgatk.egg-info/'
2021-04-22T06:47:17,339     no previously-included directories found matching 'tests/'
2021-04-22T06:47:17,340     no previously-included directories found matching '*.DS_Store'
2021-04-22T06:47:17,384     writing manifest file '/tmp/pip-pip-egg-info-a2egpt4i/mgatk.egg-info/SOURCES.txt'
2021-04-22T06:47:17,446   Source in /tmp/pip-wheel-_lvmsvbz/mgatk_676433f38855400981e4c7228b752416 has version 0.6.1, which satisfies requirement mgatk==0.6.1 from https://files.pythonhosted.org/packages/20/57/9e2171535e864b06353f2ef16f9bcbc8308f92406c9909e65fe2a7aa39a6/mgatk-0.6.1.tar.gz#sha256=02621183dccb57d508a69d80182506bfd1716669a8808da49f02c78916d7d85a
2021-04-22T06:47:17,447   Removed mgatk==0.6.1 from https://files.pythonhosted.org/packages/20/57/9e2171535e864b06353f2ef16f9bcbc8308f92406c9909e65fe2a7aa39a6/mgatk-0.6.1.tar.gz#sha256=02621183dccb57d508a69d80182506bfd1716669a8808da49f02c78916d7d85a from build tracker '/tmp/pip-req-tracker-4amth5rl'
2021-04-22T06:47:17,485 Created temporary directory: /tmp/pip-unpack-grvvkg96
2021-04-22T06:47:17,485 Building wheels for collected packages: mgatk
2021-04-22T06:47:17,490   Created temporary directory: /tmp/pip-wheel-z6u2546v
2021-04-22T06:47:17,490   Building wheel for mgatk (setup.py): started
2021-04-22T06:47:17,490   Destination directory: /tmp/pip-wheel-z6u2546v
2021-04-22T06:47:17,491   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-_lvmsvbz/mgatk_676433f38855400981e4c7228b752416/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-_lvmsvbz/mgatk_676433f38855400981e4c7228b752416/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-z6u2546v
2021-04-22T06:47:18,498   running bdist_wheel
2021-04-22T06:47:18,505   running build
2021-04-22T06:47:18,505   running build_py
2021-04-22T06:47:18,646   creating build
2021-04-22T06:47:18,647   creating build/lib
2021-04-22T06:47:18,647   creating build/lib/mgatk
2021-04-22T06:47:18,649   copying mgatk/__init__.py -> build/lib/mgatk
2021-04-22T06:47:18,651   copying mgatk/cli.py -> build/lib/mgatk
2021-04-22T06:47:18,654   copying mgatk/mgatkHelp.py -> build/lib/mgatk
2021-04-22T06:47:18,656   running egg_info
2021-04-22T06:47:18,670   writing mgatk.egg-info/PKG-INFO
2021-04-22T06:47:18,673   writing dependency_links to mgatk.egg-info/dependency_links.txt
2021-04-22T06:47:18,675   writing entry points to mgatk.egg-info/entry_points.txt
2021-04-22T06:47:18,677   writing requirements to mgatk.egg-info/requires.txt
2021-04-22T06:47:18,678   writing top-level names to mgatk.egg-info/top_level.txt
2021-04-22T06:47:18,683   reading manifest file 'mgatk.egg-info/SOURCES.txt'
2021-04-22T06:47:18,687   reading manifest template 'MANIFEST.in'
2021-04-22T06:47:18,688   no previously-included directories found matching 'tests/'
2021-04-22T06:47:18,689   no previously-included directories found matching '*.DS_Store'
2021-04-22T06:47:18,734   writing manifest file 'mgatk.egg-info/SOURCES.txt'
2021-04-22T06:47:18,744   copying mgatk/.DS_Store -> build/lib/mgatk
2021-04-22T06:47:18,747   copying mgatk/devnotes.md -> build/lib/mgatk
2021-04-22T06:47:18,750   creating build/lib/mgatk/__pycache__
2021-04-22T06:47:18,751   copying mgatk/__pycache__/__init__.cpython-36.pyc -> build/lib/mgatk/__pycache__
2021-04-22T06:47:18,754   copying mgatk/__pycache__/__init__.cpython-38.pyc -> build/lib/mgatk/__pycache__
2021-04-22T06:47:18,757   copying mgatk/__pycache__/cli.cpython-36.pyc -> build/lib/mgatk/__pycache__
2021-04-22T06:47:18,760   copying mgatk/__pycache__/cli.cpython-38.pyc -> build/lib/mgatk/__pycache__
2021-04-22T06:47:18,764   copying mgatk/__pycache__/mgatkHelp.cpython-36.pyc -> build/lib/mgatk/__pycache__
2021-04-22T06:47:18,767   copying mgatk/__pycache__/mgatkHelp.cpython-38.pyc -> build/lib/mgatk/__pycache__
2021-04-22T06:47:18,770   creating build/lib/mgatk/bin
2021-04-22T06:47:18,772   copying mgatk/bin/.DS_Store -> build/lib/mgatk/bin
2021-04-22T06:47:18,776   copying mgatk/bin/picard.jar -> build/lib/mgatk/bin
2021-04-22T06:47:19,040   creating build/lib/mgatk/bin/R
2021-04-22T06:47:19,041   copying mgatk/bin/R/toRDS.R -> build/lib/mgatk/bin/R
2021-04-22T06:47:19,044   creating build/lib/mgatk/bin/anno
2021-04-22T06:47:19,045   copying mgatk/bin/anno/.DS_Store -> build/lib/mgatk/bin/anno
2021-04-22T06:47:19,047   creating build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,048   copying mgatk/bin/anno/fasta/GRCh37.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,052   copying mgatk/bin/anno/fasta/GRCh38.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,055   copying mgatk/bin/anno/fasta/GRCh38.fasta.fai -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,057   copying mgatk/bin/anno/fasta/GRCm38.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,061   copying mgatk/bin/anno/fasta/GRCz10.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,064   copying mgatk/bin/anno/fasta/NC_012920.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,067   copying mgatk/bin/anno/fasta/hg19.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,071   copying mgatk/bin/anno/fasta/hg19_chrM.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,074   copying mgatk/bin/anno/fasta/hg38.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,078   copying mgatk/bin/anno/fasta/mm10.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,081   copying mgatk/bin/anno/fasta/mm9.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,084   copying mgatk/bin/anno/fasta/rCRS.fasta -> build/lib/mgatk/bin/anno/fasta
2021-04-22T06:47:19,088   creating build/lib/mgatk/bin/python
2021-04-22T06:47:19,089   copying mgatk/bin/python/chunk_barcoded_bam.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,092   copying mgatk/bin/python/filterClipBam.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,095   copying mgatk/bin/python/find_barcodes.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,097   copying mgatk/bin/python/oneSample.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,100   copying mgatk/bin/python/split_barcoded_bam.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,103   copying mgatk/bin/python/sumstatsBP.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,106   copying mgatk/bin/python/sumstatsBP_overlap.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,109   copying mgatk/bin/python/sumstatsBPtenx.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,112   copying mgatk/bin/python/sumstatsBPtenx_overlap.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,115   copying mgatk/bin/python/variant_calling.py -> build/lib/mgatk/bin/python
2021-04-22T06:47:19,118   creating build/lib/mgatk/bin/snake
2021-04-22T06:47:19,119   copying mgatk/bin/snake/Snakefile.Gather -> build/lib/mgatk/bin/snake
2021-04-22T06:47:19,122   copying mgatk/bin/snake/Snakefile.Scatter -> build/lib/mgatk/bin/snake
2021-04-22T06:47:19,125   copying mgatk/bin/snake/Snakefile.tenx -> build/lib/mgatk/bin/snake
2021-04-22T06:47:19,128   creating build/lib/mgatk/del
2021-04-22T06:47:19,129   copying mgatk/del/.DS_Store -> build/lib/mgatk/del
2021-04-22T06:47:19,133   copying mgatk/del/clidel.py -> build/lib/mgatk/del
2021-04-22T06:47:19,136   copying mgatk/del/clifind.py -> build/lib/mgatk/del
2021-04-22T06:47:19,138   creating build/lib/mgatk/del/__pycache__
2021-04-22T06:47:19,139   copying mgatk/del/__pycache__/clidel.cpython-36.pyc -> build/lib/mgatk/del/__pycache__
2021-04-22T06:47:19,143   copying mgatk/del/__pycache__/clidel.cpython-38.pyc -> build/lib/mgatk/del/__pycache__
2021-04-22T06:47:19,146   copying mgatk/del/__pycache__/clifind.cpython-36.pyc -> build/lib/mgatk/del/__pycache__
2021-04-22T06:47:19,149   copying mgatk/del/__pycache__/clifind.cpython-38.pyc -> build/lib/mgatk/del/__pycache__
2021-04-22T06:47:19,151   creating build/lib/mgatk/del/bulk_del
2021-04-22T06:47:19,152   copying mgatk/del/bulk_del/.DS_Store -> build/lib/mgatk/del/bulk_del
2021-04-22T06:47:19,156   copying mgatk/del/bulk_del/plot_deletion_breaks_bulk.R -> build/lib/mgatk/del/bulk_del
2021-04-22T06:47:19,159   creating build/lib/mgatk/del/singles_del
2021-04-22T06:47:19,160   copying mgatk/del/singles_del/01_process_cell_reads.py -> build/lib/mgatk/del/singles_del
2021-04-22T06:47:19,163   copying mgatk/del/singles_del/02_heteroplasmy_del_singles.R -> build/lib/mgatk/del/singles_del
2021-04-22T06:47:19,165   copying mgatk/del/singles_del/Snakefile.delSingles -> build/lib/mgatk/del/singles_del
2021-04-22T06:47:19,172   installing to build/bdist.linux-armv7l/wheel
2021-04-22T06:47:19,172   running install
2021-04-22T06:47:19,174   running install_lib
2021-04-22T06:47:19,178   creating build/bdist.linux-armv7l
2021-04-22T06:47:19,179   creating build/bdist.linux-armv7l/wheel
2021-04-22T06:47:19,181   creating build/bdist.linux-armv7l/wheel/mgatk
2021-04-22T06:47:19,182   copying build/lib/mgatk/devnotes.md -> build/bdist.linux-armv7l/wheel/mgatk
2021-04-22T06:47:19,185   creating build/bdist.linux-armv7l/wheel/mgatk/bin
2021-04-22T06:47:19,187   creating build/bdist.linux-armv7l/wheel/mgatk/bin/anno
2021-04-22T06:47:19,189   creating build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,190   copying build/lib/mgatk/bin/anno/fasta/GRCh38.fasta.fai -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,192   copying build/lib/mgatk/bin/anno/fasta/hg38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,195   copying build/lib/mgatk/bin/anno/fasta/GRCh38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,198   copying build/lib/mgatk/bin/anno/fasta/hg19.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,201   copying build/lib/mgatk/bin/anno/fasta/hg19_chrM.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,203   copying build/lib/mgatk/bin/anno/fasta/rCRS.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,206   copying build/lib/mgatk/bin/anno/fasta/mm10.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,209   copying build/lib/mgatk/bin/anno/fasta/GRCz10.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,212   copying build/lib/mgatk/bin/anno/fasta/GRCh37.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,215   copying build/lib/mgatk/bin/anno/fasta/NC_012920.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,218   copying build/lib/mgatk/bin/anno/fasta/GRCm38.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,221   copying build/lib/mgatk/bin/anno/fasta/mm9.fasta -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno/fasta
2021-04-22T06:47:19,224   copying build/lib/mgatk/bin/anno/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin/anno
2021-04-22T06:47:19,227   creating build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2021-04-22T06:47:19,228   copying build/lib/mgatk/bin/snake/Snakefile.Scatter -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2021-04-22T06:47:19,231   copying build/lib/mgatk/bin/snake/Snakefile.Gather -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2021-04-22T06:47:19,233   copying build/lib/mgatk/bin/snake/Snakefile.tenx -> build/bdist.linux-armv7l/wheel/mgatk/bin/snake
2021-04-22T06:47:19,236   copying build/lib/mgatk/bin/picard.jar -> build/bdist.linux-armv7l/wheel/mgatk/bin
2021-04-22T06:47:19,534   creating build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,535   copying build/lib/mgatk/bin/python/sumstatsBPtenx.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,537   copying build/lib/mgatk/bin/python/variant_calling.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,540   copying build/lib/mgatk/bin/python/find_barcodes.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,543   copying build/lib/mgatk/bin/python/split_barcoded_bam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,545   copying build/lib/mgatk/bin/python/oneSample.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,547   copying build/lib/mgatk/bin/python/sumstatsBP_overlap.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,550   copying build/lib/mgatk/bin/python/chunk_barcoded_bam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,553   copying build/lib/mgatk/bin/python/sumstatsBP.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,555   copying build/lib/mgatk/bin/python/sumstatsBPtenx_overlap.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,558   copying build/lib/mgatk/bin/python/filterClipBam.py -> build/bdist.linux-armv7l/wheel/mgatk/bin/python
2021-04-22T06:47:19,562   creating build/bdist.linux-armv7l/wheel/mgatk/bin/R
2021-04-22T06:47:19,563   copying build/lib/mgatk/bin/R/toRDS.R -> build/bdist.linux-armv7l/wheel/mgatk/bin/R
2021-04-22T06:47:19,566   copying build/lib/mgatk/bin/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/bin
2021-04-22T06:47:19,569   copying build/lib/mgatk/__init__.py -> build/bdist.linux-armv7l/wheel/mgatk
2021-04-22T06:47:19,573   creating build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-04-22T06:47:19,574   copying build/lib/mgatk/__pycache__/mgatkHelp.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-04-22T06:47:19,577   copying build/lib/mgatk/__pycache__/__init__.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-04-22T06:47:19,580   copying build/lib/mgatk/__pycache__/mgatkHelp.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-04-22T06:47:19,583   copying build/lib/mgatk/__pycache__/cli.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-04-22T06:47:19,586   copying build/lib/mgatk/__pycache__/cli.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-04-22T06:47:19,589   copying build/lib/mgatk/__pycache__/__init__.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/__pycache__
2021-04-22T06:47:19,593   creating build/bdist.linux-armv7l/wheel/mgatk/del
2021-04-22T06:47:19,599   creating build/bdist.linux-armv7l/wheel/mgatk/del/bulk_del
2021-04-22T06:47:19,601   copying build/lib/mgatk/del/bulk_del/plot_deletion_breaks_bulk.R -> build/bdist.linux-armv7l/wheel/mgatk/del/bulk_del
2021-04-22T06:47:19,604   copying build/lib/mgatk/del/bulk_del/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/del/bulk_del
2021-04-22T06:47:19,608   creating build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-04-22T06:47:19,609   copying build/lib/mgatk/del/__pycache__/clidel.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-04-22T06:47:19,613   copying build/lib/mgatk/del/__pycache__/clifind.cpython-38.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-04-22T06:47:19,615   copying build/lib/mgatk/del/__pycache__/clifind.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-04-22T06:47:19,618   copying build/lib/mgatk/del/__pycache__/clidel.cpython-36.pyc -> build/bdist.linux-armv7l/wheel/mgatk/del/__pycache__
2021-04-22T06:47:19,621   copying build/lib/mgatk/del/clifind.py -> build/bdist.linux-armv7l/wheel/mgatk/del
2021-04-22T06:47:19,624   copying build/lib/mgatk/del/clidel.py -> build/bdist.linux-armv7l/wheel/mgatk/del
2021-04-22T06:47:19,627   creating build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2021-04-22T06:47:19,628   copying build/lib/mgatk/del/singles_del/02_heteroplasmy_del_singles.R -> build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2021-04-22T06:47:19,631   copying build/lib/mgatk/del/singles_del/01_process_cell_reads.py -> build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2021-04-22T06:47:19,634   copying build/lib/mgatk/del/singles_del/Snakefile.delSingles -> build/bdist.linux-armv7l/wheel/mgatk/del/singles_del
2021-04-22T06:47:19,636   copying build/lib/mgatk/del/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk/del
2021-04-22T06:47:19,640   copying build/lib/mgatk/cli.py -> build/bdist.linux-armv7l/wheel/mgatk
2021-04-22T06:47:19,643   copying build/lib/mgatk/mgatkHelp.py -> build/bdist.linux-armv7l/wheel/mgatk
2021-04-22T06:47:19,646   copying build/lib/mgatk/.DS_Store -> build/bdist.linux-armv7l/wheel/mgatk
2021-04-22T06:47:19,648   running install_egg_info
2021-04-22T06:47:19,658   Copying mgatk.egg-info to build/bdist.linux-armv7l/wheel/mgatk-0.6.1-py3.7.egg-info
2021-04-22T06:47:19,677   running install_scripts
2021-04-22T06:47:19,767   adding license file "LICENSE.txt" (matched pattern "LICEN[CS]E*")
2021-04-22T06:47:19,774   creating build/bdist.linux-armv7l/wheel/mgatk-0.6.1.dist-info/WHEEL
2021-04-22T06:47:19,776   creating '/tmp/pip-wheel-z6u2546v/mgatk-0.6.1-py2.py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2021-04-22T06:47:19,780   adding 'mgatk/.DS_Store'
2021-04-22T06:47:19,781   adding 'mgatk/__init__.py'
2021-04-22T06:47:19,784   adding 'mgatk/cli.py'
2021-04-22T06:47:19,786   adding 'mgatk/devnotes.md'
2021-04-22T06:47:19,788   adding 'mgatk/mgatkHelp.py'
2021-04-22T06:47:19,790   adding 'mgatk/__pycache__/__init__.cpython-36.pyc'
2021-04-22T06:47:19,791   adding 'mgatk/__pycache__/__init__.cpython-38.pyc'
2021-04-22T06:47:19,794   adding 'mgatk/__pycache__/cli.cpython-36.pyc'
2021-04-22T06:47:19,797   adding 'mgatk/__pycache__/cli.cpython-38.pyc'
2021-04-22T06:47:19,800   adding 'mgatk/__pycache__/mgatkHelp.cpython-36.pyc'
2021-04-22T06:47:19,802   adding 'mgatk/__pycache__/mgatkHelp.cpython-38.pyc'
2021-04-22T06:47:19,805   adding 'mgatk/bin/.DS_Store'
2021-04-22T06:47:21,529   adding 'mgatk/bin/picard.jar'
2021-04-22T06:47:21,627   adding 'mgatk/bin/R/toRDS.R'
2021-04-22T06:47:21,629   adding 'mgatk/bin/anno/.DS_Store'
2021-04-22T06:47:21,638   adding 'mgatk/bin/anno/fasta/GRCh37.fasta'
2021-04-22T06:47:21,646   adding 'mgatk/bin/anno/fasta/GRCh38.fasta'
2021-04-22T06:47:21,647   adding 'mgatk/bin/anno/fasta/GRCh38.fasta.fai'
2021-04-22T06:47:21,655   adding 'mgatk/bin/anno/fasta/GRCm38.fasta'
2021-04-22T06:47:21,664   adding 'mgatk/bin/anno/fasta/GRCz10.fasta'
2021-04-22T06:47:21,672   adding 'mgatk/bin/anno/fasta/NC_012920.fasta'
2021-04-22T06:47:21,681   adding 'mgatk/bin/anno/fasta/hg19.fasta'
2021-04-22T06:47:21,689   adding 'mgatk/bin/anno/fasta/hg19_chrM.fasta'
2021-04-22T06:47:21,697   adding 'mgatk/bin/anno/fasta/hg38.fasta'
2021-04-22T06:47:21,705   adding 'mgatk/bin/anno/fasta/mm10.fasta'
2021-04-22T06:47:21,713   adding 'mgatk/bin/anno/fasta/mm9.fasta'
2021-04-22T06:47:21,721   adding 'mgatk/bin/anno/fasta/rCRS.fasta'
2021-04-22T06:47:21,724   adding 'mgatk/bin/python/chunk_barcoded_bam.py'
2021-04-22T06:47:21,726   adding 'mgatk/bin/python/filterClipBam.py'
2021-04-22T06:47:21,727   adding 'mgatk/bin/python/find_barcodes.py'
2021-04-22T06:47:21,729   adding 'mgatk/bin/python/oneSample.py'
2021-04-22T06:47:21,730   adding 'mgatk/bin/python/split_barcoded_bam.py'
2021-04-22T06:47:21,732   adding 'mgatk/bin/python/sumstatsBP.py'
2021-04-22T06:47:21,734   adding 'mgatk/bin/python/sumstatsBP_overlap.py'
2021-04-22T06:47:21,735   adding 'mgatk/bin/python/sumstatsBPtenx.py'
2021-04-22T06:47:21,737   adding 'mgatk/bin/python/sumstatsBPtenx_overlap.py'
2021-04-22T06:47:21,739   adding 'mgatk/bin/python/variant_calling.py'
2021-04-22T06:47:21,741   adding 'mgatk/bin/snake/Snakefile.Gather'
2021-04-22T06:47:21,742   adding 'mgatk/bin/snake/Snakefile.Scatter'
2021-04-22T06:47:21,744   adding 'mgatk/bin/snake/Snakefile.tenx'
2021-04-22T06:47:21,747   adding 'mgatk/del/.DS_Store'
2021-04-22T06:47:21,749   adding 'mgatk/del/clidel.py'
2021-04-22T06:47:21,750   adding 'mgatk/del/clifind.py'
2021-04-22T06:47:21,753   adding 'mgatk/del/__pycache__/clidel.cpython-36.pyc'
2021-04-22T06:47:21,755   adding 'mgatk/del/__pycache__/clidel.cpython-38.pyc'
2021-04-22T06:47:21,757   adding 'mgatk/del/__pycache__/clifind.cpython-36.pyc'
2021-04-22T06:47:21,758   adding 'mgatk/del/__pycache__/clifind.cpython-38.pyc'
2021-04-22T06:47:21,761   adding 'mgatk/del/bulk_del/.DS_Store'
2021-04-22T06:47:21,762   adding 'mgatk/del/bulk_del/plot_deletion_breaks_bulk.R'
2021-04-22T06:47:21,765   adding 'mgatk/del/singles_del/01_process_cell_reads.py'
2021-04-22T06:47:21,766   adding 'mgatk/del/singles_del/02_heteroplasmy_del_singles.R'
2021-04-22T06:47:21,768   adding 'mgatk/del/singles_del/Snakefile.delSingles'
2021-04-22T06:47:21,770   adding 'mgatk-0.6.1.dist-info/LICENSE.txt'
2021-04-22T06:47:21,772   adding 'mgatk-0.6.1.dist-info/METADATA'
2021-04-22T06:47:21,773   adding 'mgatk-0.6.1.dist-info/WHEEL'
2021-04-22T06:47:21,774   adding 'mgatk-0.6.1.dist-info/entry_points.txt'
2021-04-22T06:47:21,775   adding 'mgatk-0.6.1.dist-info/top_level.txt'
2021-04-22T06:47:21,776   adding 'mgatk-0.6.1.dist-info/RECORD'
2021-04-22T06:47:21,955   removing build/bdist.linux-armv7l/wheel
2021-04-22T06:47:22,062   Building wheel for mgatk (setup.py): finished with status 'done'
2021-04-22T06:47:22,214   Created wheel for mgatk: filename=mgatk-0.6.1-py2.py3-none-any.whl size=14349058 sha256=751c5ba1854115dc6815f5c3b6fcaa4860c66dc8970dfcf7449b18cd4306395e
2021-04-22T06:47:22,215   Stored in directory: /tmp/pip-ephem-wheel-cache-vhbwky7_/wheels/43/0b/6e/bbb45fb6680071f18c2bdc0fe1ceea6e132b1bf9559c5a5d08
2021-04-22T06:47:22,232 Successfully built mgatk
2021-04-22T06:47:22,728 Removed build tracker: '/tmp/pip-req-tracker-4amth5rl'