2019-07-07T08:21:59 Created temporary directory: /tmp/pip-ephem-wheel-cache-ad0ufocz
2019-07-07T08:21:59 Created temporary directory: /tmp/pip-req-tracker-oodbxftr
2019-07-07T08:21:59 Created requirements tracker '/tmp/pip-req-tracker-oodbxftr'
2019-07-07T08:21:59 Created temporary directory: /tmp/pip-wheel-4c58z0rs
2019-07-07T08:21:59 Collecting py-popgen==0.0.2
2019-07-07T08:21:59   1 location(s) to search for versions of py-popgen:
2019-07-07T08:21:59   * https://pypi.org/simple/py-popgen/
2019-07-07T08:21:59   Getting page https://pypi.org/simple/py-popgen/
2019-07-07T08:21:59   Analyzing links from page https://pypi.org/simple/py-popgen/
2019-07-07T08:21:59     Found link https://files.pythonhosted.org/packages/ef/06/30919016d98c175fa7e978a21f5d9e6a51fb0732c9d816506704cb6ea805/py-popgen-0.0.1.tar.gz#sha256=c95c719e8e1536b59b32fd617118d8374e8b4438ec114d1fc48704ccf9ccaf9a (from https://pypi.org/simple/py-popgen/), version: 0.0.1
2019-07-07T08:21:59     Found link https://files.pythonhosted.org/packages/58/00/c1f0bde98f08d43f77941c57adf7d76ad7efb536bf7971a706f6cf65fc19/py-popgen-0.0.2.tar.gz#sha256=150557350080571d2db292b647478c80bfe7bfd81a3750db368276e613fae36d (from https://pypi.org/simple/py-popgen/), version: 0.0.2
2019-07-07T08:21:59   Using version 0.0.2 (newest of versions: 0.0.2)
2019-07-07T08:21:59   Created temporary directory: /tmp/pip-unpack-k8p05s2e
2019-07-07T08:22:00   Downloading https://files.pythonhosted.org/packages/58/00/c1f0bde98f08d43f77941c57adf7d76ad7efb536bf7971a706f6cf65fc19/py-popgen-0.0.2.tar.gz (26.9MB)
2019-07-07T08:22:00   Downloading from URL https://files.pythonhosted.org/packages/58/00/c1f0bde98f08d43f77941c57adf7d76ad7efb536bf7971a706f6cf65fc19/py-popgen-0.0.2.tar.gz#sha256=150557350080571d2db292b647478c80bfe7bfd81a3750db368276e613fae36d (from https://pypi.org/simple/py-popgen/)
2019-07-07T08:22:09   Added py-popgen==0.0.2 from https://files.pythonhosted.org/packages/58/00/c1f0bde98f08d43f77941c57adf7d76ad7efb536bf7971a706f6cf65fc19/py-popgen-0.0.2.tar.gz#sha256=150557350080571d2db292b647478c80bfe7bfd81a3750db368276e613fae36d to build tracker '/tmp/pip-req-tracker-oodbxftr'
2019-07-07T08:22:09     Running setup.py (path:/tmp/pip-wheel-4c58z0rs/py-popgen/setup.py) egg_info for package py-popgen
2019-07-07T08:22:09     Running command python setup.py egg_info
2019-07-07T08:22:11     running egg_info
2019-07-07T08:22:11     creating pip-egg-info/py_popgen.egg-info
2019-07-07T08:22:11     writing requirements to pip-egg-info/py_popgen.egg-info/requires.txt
2019-07-07T08:22:11     writing top-level names to pip-egg-info/py_popgen.egg-info/top_level.txt
2019-07-07T08:22:11     writing dependency_links to pip-egg-info/py_popgen.egg-info/dependency_links.txt
2019-07-07T08:22:11     writing pip-egg-info/py_popgen.egg-info/PKG-INFO
2019-07-07T08:22:11     writing manifest file 'pip-egg-info/py_popgen.egg-info/SOURCES.txt'
2019-07-07T08:22:11     reading manifest file 'pip-egg-info/py_popgen.egg-info/SOURCES.txt'
2019-07-07T08:22:11     reading manifest template 'MANIFEST.in'
2019-07-07T08:22:11     writing manifest file 'pip-egg-info/py_popgen.egg-info/SOURCES.txt'
2019-07-07T08:22:12   Source in /tmp/pip-wheel-4c58z0rs/py-popgen has version 0.0.2, which satisfies requirement py-popgen==0.0.2 from https://files.pythonhosted.org/packages/58/00/c1f0bde98f08d43f77941c57adf7d76ad7efb536bf7971a706f6cf65fc19/py-popgen-0.0.2.tar.gz#sha256=150557350080571d2db292b647478c80bfe7bfd81a3750db368276e613fae36d
2019-07-07T08:22:12   Removed py-popgen==0.0.2 from https://files.pythonhosted.org/packages/58/00/c1f0bde98f08d43f77941c57adf7d76ad7efb536bf7971a706f6cf65fc19/py-popgen-0.0.2.tar.gz#sha256=150557350080571d2db292b647478c80bfe7bfd81a3750db368276e613fae36d from build tracker '/tmp/pip-req-tracker-oodbxftr'
2019-07-07T08:22:12 Building wheels for collected packages: py-popgen
2019-07-07T08:22:12   Created temporary directory: /tmp/pip-wheel-aaomf5bq
2019-07-07T08:22:12   Building wheel for py-popgen (setup.py): started
2019-07-07T08:22:12   Destination directory: /tmp/pip-wheel-aaomf5bq
2019-07-07T08:22:12   Running command /usr/bin/python3 -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-wheel-4c58z0rs/py-popgen/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-aaomf5bq
2019-07-07T08:22:13   running bdist_wheel
2019-07-07T08:22:13   running build
2019-07-07T08:22:13   running build_py
2019-07-07T08:22:14   creating build
2019-07-07T08:22:14   creating build/lib
2019-07-07T08:22:14   creating build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/gene_region.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/fasta.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_calc.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/bed_tasks.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcftools.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/picard.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/plink.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/fasta_utilities.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/extend_with_vcf.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/model_creator.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/informative_filter.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/plink_ld.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/admixture.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/graph_plotter.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/shapeit.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/find_intergenic_bed.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_utilities.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/ima3_wrapper.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/eigenstrat_fstats.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/filter_single_vcf.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_from_regions.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/argparse_sets.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_reader_func.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/model_sampler.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/model.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/logging_module.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/get_nonmissing_chunks.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/min_pop_filter.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/parse_functions.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_ref_to_seq.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/new_stats.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/subtract_bed.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_phase.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/convert.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_liftover.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/stat_sampler.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_sampler.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/admixtools.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_filter.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/bcftools.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_to_ima.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/vcf_split.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/four_gamete_pysam.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/beagle.py -> build/lib/pgpipe
2019-07-07T08:22:14   copying pgpipe/__init__.py -> build/lib/pgpipe
2019-07-07T08:22:14   running egg_info
2019-07-07T08:22:14   writing top-level names to py_popgen.egg-info/top_level.txt
2019-07-07T08:22:14   writing requirements to py_popgen.egg-info/requires.txt
2019-07-07T08:22:14   writing py_popgen.egg-info/PKG-INFO
2019-07-07T08:22:14   writing dependency_links to py_popgen.egg-info/dependency_links.txt
2019-07-07T08:22:14   reading manifest file 'py_popgen.egg-info/SOURCES.txt'
2019-07-07T08:22:14   reading manifest template 'MANIFEST.in'
2019-07-07T08:22:14   writing manifest file 'py_popgen.egg-info/SOURCES.txt'
2019-07-07T08:22:14   running build_scripts
2019-07-07T08:22:14   creating build/scripts-3.5
2019-07-07T08:22:14   copying pgpipe/vcf_phase.py -> build/scripts-3.5
2019-07-07T08:22:14   installing to build/bdist.linux-armv7l/wheel
2019-07-07T08:22:14   running install
2019-07-07T08:22:14   running install_lib
2019-07-07T08:22:14   creating build/bdist.linux-armv7l
2019-07-07T08:22:14   creating build/bdist.linux-armv7l/wheel
2019-07-07T08:22:14   creating build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/gene_region.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/fasta.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_calc.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/bed_tasks.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcftools.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/picard.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/plink.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/fasta_utilities.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/extend_with_vcf.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/model_creator.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/informative_filter.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/plink_ld.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/admixture.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/graph_plotter.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/shapeit.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/find_intergenic_bed.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_utilities.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/ima3_wrapper.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/eigenstrat_fstats.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/filter_single_vcf.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_from_regions.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/argparse_sets.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_reader_func.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/model_sampler.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/model.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/logging_module.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/get_nonmissing_chunks.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/min_pop_filter.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/parse_functions.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_ref_to_seq.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/new_stats.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/subtract_bed.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_phase.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/convert.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_liftover.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/stat_sampler.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_sampler.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/admixtools.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_filter.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/bcftools.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_to_ima.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/vcf_split.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/four_gamete_pysam.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/beagle.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   copying build/lib/pgpipe/__init__.py -> build/bdist.linux-armv7l/wheel/pgpipe
2019-07-07T08:22:14   running install_egg_info
2019-07-07T08:22:14   Copying py_popgen.egg-info to build/bdist.linux-armv7l/wheel/py_popgen-0.0.2-py3.5.egg-info
2019-07-07T08:22:14   running install_scripts
2019-07-07T08:22:14   creating build/bdist.linux-armv7l/wheel/py_popgen-0.0.2.data
2019-07-07T08:22:14   creating build/bdist.linux-armv7l/wheel/py_popgen-0.0.2.data/scripts
2019-07-07T08:22:14   copying build/scripts-3.5/vcf_phase.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.0.2.data/scripts
2019-07-07T08:22:14   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.0.2.data/scripts/vcf_phase.py to 755
2019-07-07T08:22:14   creating build/bdist.linux-armv7l/wheel/py_popgen-0.0.2.dist-info/WHEEL
2019-07-07T08:22:15   Building wheel for py-popgen (setup.py): finished with status 'done'
2019-07-07T08:22:15   Stored in directory: /tmp/tmpsfvxp0a0
2019-07-07T08:22:15 Successfully built py-popgen
2019-07-07T08:22:15 Cleaning up...
2019-07-07T08:22:15   Removing source in /tmp/pip-wheel-4c58z0rs/py-popgen
2019-07-07T08:22:15 Removed build tracker '/tmp/pip-req-tracker-oodbxftr'