2023-05-13T23:53:48,513 Created temporary directory: /tmp/pip-build-tracker-4haqfijl
2023-05-13T23:53:48,516 Initialized build tracking at /tmp/pip-build-tracker-4haqfijl
2023-05-13T23:53:48,516 Created build tracker: /tmp/pip-build-tracker-4haqfijl
2023-05-13T23:53:48,516 Entered build tracker: /tmp/pip-build-tracker-4haqfijl
2023-05-13T23:53:48,518 Created temporary directory: /tmp/pip-wheel-oiiouyoc
2023-05-13T23:53:48,526 Created temporary directory: /tmp/pip-ephem-wheel-cache-fz4y1npc
2023-05-13T23:53:48,577 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-05-13T23:53:48,585 2 location(s) to search for versions of zol:
2023-05-13T23:53:48,585 * https://pypi.org/simple/zol/
2023-05-13T23:53:48,585 * https://www.piwheels.org/simple/zol/
2023-05-13T23:53:48,586 Fetching project page and analyzing links: https://pypi.org/simple/zol/
2023-05-13T23:53:48,588 Getting page https://pypi.org/simple/zol/
2023-05-13T23:53:48,591 Found index url https://pypi.org/simple/
2023-05-13T23:53:48,779 Fetched page https://pypi.org/simple/zol/ as application/vnd.pypi.simple.v1+json
2023-05-13T23:53:48,782   Skipping link: No binaries permitted for zol: https://files.pythonhosted.org/packages/2d/1c/437ee8029ba5e247def65a52837d3678b70276c97aabe0c05ed4d65c9bd3/zol-1.2-py3-none-any.whl (from https://pypi.org/simple/zol/)
2023-05-13T23:53:48,783   Found link https://files.pythonhosted.org/packages/b2/77/86157ae4b699725985561897c8ed3db4390510fb2860014d2898aa1af098/zol-1.2.tar.gz (from https://pypi.org/simple/zol/), version: 1.2
2023-05-13T23:53:48,783   Skipping link: No binaries permitted for zol: https://files.pythonhosted.org/packages/e0/b4/4493087ccc7c49f3c4e3db4eb8242d07305dd19c24bbf323fa170c691d93/zol-1.2.1-py3-none-any.whl (from https://pypi.org/simple/zol/)
2023-05-13T23:53:48,784   Found link https://files.pythonhosted.org/packages/6e/cc/e0dca5f9b8a0dffc13af71f02526f51d1d87a47266372776c0c1575c34cf/zol-1.2.1.tar.gz (from https://pypi.org/simple/zol/), version: 1.2.1
2023-05-13T23:53:48,785 Fetching project page and analyzing links: https://www.piwheels.org/simple/zol/
2023-05-13T23:53:48,785 Getting page https://www.piwheels.org/simple/zol/
2023-05-13T23:53:48,788 Found index url https://www.piwheels.org/simple/
2023-05-13T23:53:49,065 Fetched page https://www.piwheels.org/simple/zol/ as text/html
2023-05-13T23:53:49,068   Skipping link: No binaries permitted for zol: https://www.piwheels.org/simple/zol/zol-1.2.1-py3-none-any.whl#sha256=78e5b20a1c8405447cdd5c9d4b47bbb828be25791b1ce569a861f292e7405dbf (from https://www.piwheels.org/simple/zol/)
2023-05-13T23:53:49,069   Skipping link: No binaries permitted for zol: https://www.piwheels.org/simple/zol/zol-1.2-py3-none-any.whl#sha256=dc3a4f7321388b463b788a147d969eddc4137c5387eb57263816db1ec9f7f16c (from https://www.piwheels.org/simple/zol/)
2023-05-13T23:53:49,070 Skipping link: not a file: https://www.piwheels.org/simple/zol/
2023-05-13T23:53:49,070 Skipping link: not a file: https://pypi.org/simple/zol/
2023-05-13T23:53:49,102 Given no hashes to check 1 links for project 'zol': discarding no candidates
2023-05-13T23:53:49,133 Collecting zol==1.2
2023-05-13T23:53:49,137   Created temporary directory: /tmp/pip-unpack-pm3eq1xh
2023-05-13T23:53:49,231   Downloading zol-1.2.tar.gz (81 kB)
2023-05-13T23:53:49,445   Added zol==1.2 from https://files.pythonhosted.org/packages/b2/77/86157ae4b699725985561897c8ed3db4390510fb2860014d2898aa1af098/zol-1.2.tar.gz to build tracker '/tmp/pip-build-tracker-4haqfijl'
2023-05-13T23:53:49,448   Running setup.py (path:/tmp/pip-wheel-oiiouyoc/zol_c659211811df49daa58392252095dc68/setup.py) egg_info for package zol
2023-05-13T23:53:49,450   Created temporary directory: /tmp/pip-pip-egg-info-v4pdvfd9
2023-05-13T23:53:49,450   Preparing metadata (setup.py): started
2023-05-13T23:53:49,452   Running command python setup.py egg_info
2023-05-13T23:53:50,878   running egg_info
2023-05-13T23:53:50,889   creating /tmp/pip-pip-egg-info-v4pdvfd9/zol.egg-info
2023-05-13T23:53:50,947   writing /tmp/pip-pip-egg-info-v4pdvfd9/zol.egg-info/PKG-INFO
2023-05-13T23:53:50,954   writing dependency_links to /tmp/pip-pip-egg-info-v4pdvfd9/zol.egg-info/dependency_links.txt
2023-05-13T23:53:50,961   writing top-level names to /tmp/pip-pip-egg-info-v4pdvfd9/zol.egg-info/top_level.txt
2023-05-13T23:53:50,964   writing manifest file '/tmp/pip-pip-egg-info-v4pdvfd9/zol.egg-info/SOURCES.txt'
2023-05-13T23:53:51,393   reading manifest file '/tmp/pip-pip-egg-info-v4pdvfd9/zol.egg-info/SOURCES.txt'
2023-05-13T23:53:51,397   adding license file 'LICENSE'
2023-05-13T23:53:51,403   writing manifest file '/tmp/pip-pip-egg-info-v4pdvfd9/zol.egg-info/SOURCES.txt'
2023-05-13T23:53:51,520   g++: error: zol/orthologs/runRBH.cpp: No such file or directory
2023-05-13T23:53:51,714   g++: fatal error: no input files
2023-05-13T23:53:51,714   compilation terminated.
2023-05-13T23:53:51,735   g++: error: zol/orthologs/splitDiamondResults.cpp: No such file or directory
2023-05-13T23:53:51,737   g++: fatal error: no input files
2023-05-13T23:53:51,737   compilation terminated.
2023-05-13T23:53:51,758   g++: error: zol/splitDiamondResultsForFai.cpp: No such file or directory
2023-05-13T23:53:51,759   g++: fatal error: no input files
2023-05-13T23:53:51,760   compilation terminated.
2023-05-13T23:53:51,895   Preparing metadata (setup.py): finished with status 'done'
2023-05-13T23:53:51,905   Source in /tmp/pip-wheel-oiiouyoc/zol_c659211811df49daa58392252095dc68 has version 1.2, which satisfies requirement zol==1.2 from https://files.pythonhosted.org/packages/b2/77/86157ae4b699725985561897c8ed3db4390510fb2860014d2898aa1af098/zol-1.2.tar.gz
2023-05-13T23:53:51,907   Removed zol==1.2 from https://files.pythonhosted.org/packages/b2/77/86157ae4b699725985561897c8ed3db4390510fb2860014d2898aa1af098/zol-1.2.tar.gz from build tracker '/tmp/pip-build-tracker-4haqfijl'
2023-05-13T23:53:51,916 Created temporary directory: /tmp/pip-unpack-jbz9bavu
2023-05-13T23:53:51,918 Building wheels for collected packages: zol
2023-05-13T23:53:51,926   Created temporary directory: /tmp/pip-wheel-sg3bwn14
2023-05-13T23:53:51,927   Building wheel for zol (setup.py): started
2023-05-13T23:53:51,929   Destination directory: /tmp/pip-wheel-sg3bwn14
2023-05-13T23:53:51,930   Running command python setup.py bdist_wheel
2023-05-13T23:53:53,883   running bdist_wheel
2023-05-13T23:53:54,055   running build
2023-05-13T23:53:54,056   running build_py
2023-05-13T23:53:54,119   creating build
2023-05-13T23:53:54,120   creating build/lib
2023-05-13T23:53:54,121   creating build/lib/zol
2023-05-13T23:53:54,124   copying zol/util.py -> build/lib/zol
2023-05-13T23:53:54,130   copying zol/__init__.py -> build/lib/zol
2023-05-13T23:53:54,133   copying zol/fai.py -> build/lib/zol
2023-05-13T23:53:54,140   copying zol/zol.py -> build/lib/zol
2023-05-13T23:53:54,148   running build_scripts
2023-05-13T23:53:54,150   creating build/scripts-3.7
2023-05-13T23:53:54,152   copying and adjusting bin/zol -> build/scripts-3.7
2023-05-13T23:53:54,162   copying and adjusting bin/fai -> build/scripts-3.7
2023-05-13T23:53:54,169   copying and adjusting bin/prepTG -> build/scripts-3.7
2023-05-13T23:53:54,174   copying and adjusting scripts/runProdigalAndMakeProperGenbank.py -> build/scripts-3.7
2023-05-13T23:53:54,179   copying and adjusting scripts/listAllGenomesInDirectory.py -> build/scripts-3.7
2023-05-13T23:53:54,184   copying scripts/setup_annotation_dbs.py -> build/scripts-3.7
2023-05-13T23:53:54,189   copying and adjusting scripts/processNCBIGenBank.py -> build/scripts-3.7
2023-05-13T23:53:54,194   copying and adjusting scripts/extractBiG-SCAPEclusters.py -> build/scripts-3.7
2023-05-13T23:53:54,199   copying and adjusting zol/orthologs/findOrthologs.py -> build/scripts-3.7
2023-05-13T23:53:54,205   copying scripts/generateSyntenicVisual.py -> build/scripts-3.7
2023-05-13T23:53:54,210   copying and adjusting scripts/convertMiniprotGffToGbkAndProt.py -> build/scripts-3.7
2023-05-13T23:53:54,215   copying scripts/expandDereplicatedAlignment.py -> build/scripts-3.7
2023-05-13T23:53:54,218   changing mode of build/scripts-3.7/zol from 644 to 755
2023-05-13T23:53:54,219   changing mode of build/scripts-3.7/fai from 644 to 755
2023-05-13T23:53:54,219   changing mode of build/scripts-3.7/prepTG from 644 to 755
2023-05-13T23:53:54,220   changing mode of build/scripts-3.7/runProdigalAndMakeProperGenbank.py from 644 to 755
2023-05-13T23:53:54,221   changing mode of build/scripts-3.7/listAllGenomesInDirectory.py from 644 to 755
2023-05-13T23:53:54,221   changing mode of build/scripts-3.7/setup_annotation_dbs.py from 644 to 755
2023-05-13T23:53:54,222   changing mode of build/scripts-3.7/processNCBIGenBank.py from 644 to 755
2023-05-13T23:53:54,223   changing mode of build/scripts-3.7/extractBiG-SCAPEclusters.py from 644 to 755
2023-05-13T23:53:54,223   changing mode of build/scripts-3.7/findOrthologs.py from 644 to 755
2023-05-13T23:53:54,224   changing mode of build/scripts-3.7/generateSyntenicVisual.py from 644 to 755
2023-05-13T23:53:54,225   changing mode of build/scripts-3.7/convertMiniprotGffToGbkAndProt.py from 644 to 755
2023-05-13T23:53:54,226   changing mode of build/scripts-3.7/expandDereplicatedAlignment.py from 644 to 755
2023-05-13T23:53:54,292   /usr/local/lib/python3.7/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2023-05-13T23:53:54,292   !!

2023-05-13T23:53:54,293           ********************************************************************************
2023-05-13T23:53:54,293           Please avoid running ``setup.py`` directly.
2023-05-13T23:53:54,294           Instead, use pypa/build, pypa/installer, pypa/build or
2023-05-13T23:53:54,294           other standards-based tools.

2023-05-13T23:53:54,294           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2023-05-13T23:53:54,295           ********************************************************************************

2023-05-13T23:53:54,296   !!
2023-05-13T23:53:54,296     self.initialize_options()
2023-05-13T23:53:54,352   installing to build/bdist.linux-armv7l/wheel
2023-05-13T23:53:54,352   running install
2023-05-13T23:53:54,413   running install_lib
2023-05-13T23:53:54,475   creating build/bdist.linux-armv7l
2023-05-13T23:53:54,476   creating build/bdist.linux-armv7l/wheel
2023-05-13T23:53:54,479   creating build/bdist.linux-armv7l/wheel/zol
2023-05-13T23:53:54,481   copying build/lib/zol/util.py -> build/bdist.linux-armv7l/wheel/zol
2023-05-13T23:53:54,488   copying build/lib/zol/__init__.py -> build/bdist.linux-armv7l/wheel/zol
2023-05-13T23:53:54,491   copying build/lib/zol/fai.py -> build/bdist.linux-armv7l/wheel/zol
2023-05-13T23:53:54,498   copying build/lib/zol/zol.py -> build/bdist.linux-armv7l/wheel/zol
2023-05-13T23:53:54,507   running install_egg_info
2023-05-13T23:53:54,662   running egg_info
2023-05-13T23:53:54,719   writing zol.egg-info/PKG-INFO
2023-05-13T23:53:54,722   writing dependency_links to zol.egg-info/dependency_links.txt
2023-05-13T23:53:54,727   writing top-level names to zol.egg-info/top_level.txt
2023-05-13T23:53:54,789   reading manifest file 'zol.egg-info/SOURCES.txt'
2023-05-13T23:53:54,794   adding license file 'LICENSE'
2023-05-13T23:53:54,800   writing manifest file 'zol.egg-info/SOURCES.txt'
2023-05-13T23:53:54,803   Copying zol.egg-info to build/bdist.linux-armv7l/wheel/zol-1.2-py3.7.egg-info
2023-05-13T23:53:54,823   running install_scripts
2023-05-13T23:53:54,826   creating build/bdist.linux-armv7l/wheel/zol-1.2.data
2023-05-13T23:53:54,827   creating build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,829   copying build/scripts-3.7/setup_annotation_dbs.py -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,835   copying build/scripts-3.7/extractBiG-SCAPEclusters.py -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,840   copying build/scripts-3.7/convertMiniprotGffToGbkAndProt.py -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,844   copying build/scripts-3.7/runProdigalAndMakeProperGenbank.py -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,848   copying build/scripts-3.7/prepTG -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,853   copying build/scripts-3.7/processNCBIGenBank.py -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,857   copying build/scripts-3.7/findOrthologs.py -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,862   copying build/scripts-3.7/expandDereplicatedAlignment.py -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,866   copying build/scripts-3.7/listAllGenomesInDirectory.py -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,870   copying build/scripts-3.7/generateSyntenicVisual.py -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,874   copying build/scripts-3.7/fai -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,880   copying build/scripts-3.7/zol -> build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts
2023-05-13T23:53:54,885   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/setup_annotation_dbs.py to 755
2023-05-13T23:53:54,885   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/extractBiG-SCAPEclusters.py to 755
2023-05-13T23:53:54,886   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/convertMiniprotGffToGbkAndProt.py to 755
2023-05-13T23:53:54,887   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/runProdigalAndMakeProperGenbank.py to 755
2023-05-13T23:53:54,887   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/prepTG to 755
2023-05-13T23:53:54,888   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/processNCBIGenBank.py to 755
2023-05-13T23:53:54,889   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/findOrthologs.py to 755
2023-05-13T23:53:54,889   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/expandDereplicatedAlignment.py to 755
2023-05-13T23:53:54,890   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/listAllGenomesInDirectory.py to 755
2023-05-13T23:53:54,891   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/generateSyntenicVisual.py to 755
2023-05-13T23:53:54,891   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/fai to 755
2023-05-13T23:53:54,892   changing mode of build/bdist.linux-armv7l/wheel/zol-1.2.data/scripts/zol to 755
2023-05-13T23:53:54,913   adding license file "LICENSE" (matched pattern "LICEN[CS]E*")
2023-05-13T23:53:54,921   creating build/bdist.linux-armv7l/wheel/zol-1.2.dist-info/WHEEL
2023-05-13T23:53:54,925   creating '/tmp/pip-wheel-sg3bwn14/zol-1.2-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2023-05-13T23:53:54,930   adding 'zol/__init__.py'
2023-05-13T23:53:54,944   adding 'zol/fai.py'
2023-05-13T23:53:54,956   adding 'zol/util.py'
2023-05-13T23:53:54,981   adding 'zol/zol.py'
2023-05-13T23:53:54,989   adding 'zol-1.2.data/scripts/convertMiniprotGffToGbkAndProt.py'
2023-05-13T23:53:54,992   adding 'zol-1.2.data/scripts/expandDereplicatedAlignment.py'
2023-05-13T23:53:54,996   adding 'zol-1.2.data/scripts/extractBiG-SCAPEclusters.py'
2023-05-13T23:53:55,004   adding 'zol-1.2.data/scripts/fai'
2023-05-13T23:53:55,011   adding 'zol-1.2.data/scripts/findOrthologs.py'
2023-05-13T23:53:55,014   adding 'zol-1.2.data/scripts/generateSyntenicVisual.py'
2023-05-13T23:53:55,018   adding 'zol-1.2.data/scripts/listAllGenomesInDirectory.py'
2023-05-13T23:53:55,023   adding 'zol-1.2.data/scripts/prepTG'
2023-05-13T23:53:55,027   adding 'zol-1.2.data/scripts/processNCBIGenBank.py'
2023-05-13T23:53:55,031   adding 'zol-1.2.data/scripts/runProdigalAndMakeProperGenbank.py'
2023-05-13T23:53:55,035   adding 'zol-1.2.data/scripts/setup_annotation_dbs.py'
2023-05-13T23:53:55,044   adding 'zol-1.2.data/scripts/zol'
2023-05-13T23:53:55,050   adding 'zol-1.2.dist-info/LICENSE'
2023-05-13T23:53:55,052   adding 'zol-1.2.dist-info/METADATA'
2023-05-13T23:53:55,054   adding 'zol-1.2.dist-info/WHEEL'
2023-05-13T23:53:55,055   adding 'zol-1.2.dist-info/top_level.txt'
2023-05-13T23:53:55,057   adding 'zol-1.2.dist-info/RECORD'
2023-05-13T23:53:55,063   removing build/bdist.linux-armv7l/wheel
2023-05-13T23:53:55,096   g++: error: zol/orthologs/runRBH.cpp: No such file or directory
2023-05-13T23:53:55,097   g++: fatal error: no input files
2023-05-13T23:53:55,097   compilation terminated.
2023-05-13T23:53:55,119   g++: error: zol/orthologs/splitDiamondResults.cpp: No such file or directory
2023-05-13T23:53:55,120   g++: fatal error: no input files
2023-05-13T23:53:55,120   compilation terminated.
2023-05-13T23:53:55,142   g++: error: zol/splitDiamondResultsForFai.cpp: No such file or directory
2023-05-13T23:53:55,143   g++: fatal error: no input files
2023-05-13T23:53:55,144   compilation terminated.
2023-05-13T23:53:55,315   Building wheel for zol (setup.py): finished with status 'done'
2023-05-13T23:53:55,324   Created wheel for zol: filename=zol-1.2-py3-none-any.whl size=93996 sha256=ee5eba8ae7cd5e8bee820570b2664bf9e8c9d2aca7050cda48effb2317d89c74
2023-05-13T23:53:55,326   Stored in directory: /tmp/pip-ephem-wheel-cache-fz4y1npc/wheels/6b/ff/6e/d5a14d119f46dddaf4b2686c12d30b0badde3a7479169b2d3a
2023-05-13T23:53:55,352 Successfully built zol
2023-05-13T23:53:55,365 Removed build tracker: '/tmp/pip-build-tracker-4haqfijl'