2021-07-15T10:42:20,105 Created temporary directory: /tmp/pip-ephem-wheel-cache-qwas33pa
2021-07-15T10:42:20,108 Created temporary directory: /tmp/pip-req-tracker-54qz4grz
2021-07-15T10:42:20,108 Initialized build tracking at /tmp/pip-req-tracker-54qz4grz
2021-07-15T10:42:20,108 Created build tracker: /tmp/pip-req-tracker-54qz4grz
2021-07-15T10:42:20,109 Entered build tracker: /tmp/pip-req-tracker-54qz4grz
2021-07-15T10:42:20,109 Created temporary directory: /tmp/pip-wheel-hb4rpoat
2021-07-15T10:42:20,143 1 location(s) to search for versions of py-popgen:
2021-07-15T10:42:20,143 * https://pypi.org/simple/py-popgen/
2021-07-15T10:42:20,144 Fetching project page and analyzing links: https://pypi.org/simple/py-popgen/
2021-07-15T10:42:20,144 Getting page https://pypi.org/simple/py-popgen/
2021-07-15T10:42:20,146 Found index url https://pypi.org/simple
2021-07-15T10:42:20,244   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
2021-07-15T10:42:20,244   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
2021-07-15T10:42:20,249   Found link https://files.pythonhosted.org/packages/6c/3c/38e142063e1bf93855d1f3230be131211f779f8b117d7d72d2350befdd46/py-popgen-0.1.tar.gz#sha256=e27fb4877027f544d95ae0c11406d08ea69239b5f67b563d2a17cc82d5fa0ea3 (from https://pypi.org/simple/py-popgen/) (requires-python:>=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*), version: 0.1
2021-07-15T10:42:20,250   Found link https://files.pythonhosted.org/packages/fc/51/633c5a82433e33626559de8c18a3cbd4fa996c127e5ad6b4189e2b014432/py-popgen-0.1.1.tar.gz#sha256=f2808c99f4719d9e5a439cd4169a043dc77b53a8c3211a39623a48128a645c32 (from https://pypi.org/simple/py-popgen/) (requires-python:>=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*), version: 0.1.1
2021-07-15T10:42:20,252   Found link https://files.pythonhosted.org/packages/5d/35/6c5a59236e0646c45b539d879678adb3d1ff418e33ccfbda03a9aef95420/py-popgen-0.1.2.tar.gz#sha256=29493332c6131f297c20575b30e7a15ee2782dd517cb6bd7c3e25bd06f38e37e (from https://pypi.org/simple/py-popgen/) (requires-python:>=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*), version: 0.1.2
2021-07-15T10:42:20,253   Found link https://files.pythonhosted.org/packages/c3/80/281287a24b61a82d164b91b344c00fbc32fae7530ae8cb681352b4a62997/py-popgen-0.1.3.tar.gz#sha256=f96e091bdf05b28954c4f0550adb2dee824cde8881c00616498a6f3ada14ab0b (from https://pypi.org/simple/py-popgen/) (requires-python:>=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*), version: 0.1.3
2021-07-15T10:42:20,255   Found link https://files.pythonhosted.org/packages/82/59/78398c3e81107c8b43ddb18d7957ba023ca534a96d3ec17ba05995cc7757/py-popgen-0.1.5.tar.gz#sha256=3d18d3360fdc4296a01f3c530757723b4ffe97bed9776e54f643b480e9439bcc (from https://pypi.org/simple/py-popgen/) (requires-python:>=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*), version: 0.1.5
2021-07-15T10:42:20,256   Found link https://files.pythonhosted.org/packages/32/46/dc42908cc9e52642d9ea27938cd13f4d5cf7b06e0fe13680c0d2482d9cc5/py-popgen-0.1.6.tar.gz#sha256=160d2c545729a8ac81d7146baff2f48df6cc8728161ffd534462e7d93343fb21 (from https://pypi.org/simple/py-popgen/) (requires-python:>=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*), version: 0.1.6
2021-07-15T10:42:20,257   Found link https://files.pythonhosted.org/packages/41/b1/4391bd0ceb7049a3adf3bb0b1f6e722a50153ef8002f441aba196d95b8d5/py-popgen-0.1.7.tar.gz#sha256=c6a4cb6f8f2064a6188888dc2e1804c9abdb338f23a23c057cdcf9ca2e410867 (from https://pypi.org/simple/py-popgen/) (requires-python:>=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*), version: 0.1.7
2021-07-15T10:42:20,259   Found link https://files.pythonhosted.org/packages/b8/75/30ac9e5cffe406627a8cac665467910364be97808c17defcb42a1bf45c06/py-popgen-0.1.8.tar.gz#sha256=7278deed48de6eac28aaef32c6df010cdf81403dd86400ab5923da84d95ea1eb (from https://pypi.org/simple/py-popgen/) (requires-python:>=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*), version: 0.1.8
2021-07-15T10:42:20,259   Found link https://files.pythonhosted.org/packages/88/3c/6b73834e1fa600547be5f512a468b05278988b42551f60dc0ea8b9a2f4e4/py-popgen-0.1.9.tar.gz#sha256=92ad36bf05549cf11b2d14ed11949c7ce54c40d2d626831117fec075dd169be2 (from https://pypi.org/simple/py-popgen/) (requires-python:>=3.6.*, !=3.8.*), version: 0.1.9
2021-07-15T10:42:20,260   Found link https://files.pythonhosted.org/packages/ab/81/50731960a816f3bcc8b702f08afc519b0ddf8e24c410407d1d6df077cdbf/py-popgen-0.1.10.tar.gz#sha256=59b548162f03fc77dd477985f74ac1d952b0c58a47ed42b4930fe392df0a2096 (from https://pypi.org/simple/py-popgen/) (requires-python:>=3.6.*, !=3.8.*), version: 0.1.10
2021-07-15T10:42:20,278   Found link https://files.pythonhosted.org/packages/67/60/fbff5462a4af1c54c37a10d333d2e44ee195b3f3ae78d402d41855b0ee45/py_popgen-0.1.10-py3-none-any.whl#sha256=dbca10ee0c0fea4b850cb8d571a408da3f8e8501a722852118c4e099ef2bc06d (from https://pypi.org/simple/py-popgen/) (requires-python:>=3.6.*, !=3.8.*), version: 0.1.10
2021-07-15T10:42:20,279   Found link https://files.pythonhosted.org/packages/e7/d0/6b98b77af174bd0426ba17172150f14c425f719afce215ed8fda20f38365/py-popgen-0.1.11.tar.gz#sha256=76233954accb51ce297bdb29314660d8151f7e6949a53752a79194d7f4f86b65 (from https://pypi.org/simple/py-popgen/) (requires-python:>=3.6.*, !=3.8.*), version: 0.1.11
2021-07-15T10:42:20,280   Found link https://files.pythonhosted.org/packages/65/2d/e6b28bebe9042fc9194bc2420af218acf7b7aa137b61666f7584cc6b68b8/py-popgen-0.1.12.tar.gz#sha256=4288c9594ed38c9db8764c3139f8a7b6292e6edfa6126344db2e985aadd9696e (from https://pypi.org/simple/py-popgen/) (requires-python:>=3.6.*, !=3.8.*), version: 0.1.12
2021-07-15T10:42:20,280 Skipping link: not a file: https://pypi.org/simple/py-popgen/
2021-07-15T10:42:20,283 Given no hashes to check 1 links for project 'py-popgen': discarding no candidates
2021-07-15T10:42:20,302 Collecting py-popgen==0.1.3
2021-07-15T10:42:20,304   Created temporary directory: /tmp/pip-unpack-1ov3_t_0
2021-07-15T10:42:25,801   Downloading py-popgen-0.1.3.tar.gz (26.9 MB)
2021-07-15T10:42:30,445   Added py-popgen==0.1.3 from https://files.pythonhosted.org/packages/c3/80/281287a24b61a82d164b91b344c00fbc32fae7530ae8cb681352b4a62997/py-popgen-0.1.3.tar.gz#sha256=f96e091bdf05b28954c4f0550adb2dee824cde8881c00616498a6f3ada14ab0b to build tracker '/tmp/pip-req-tracker-54qz4grz'
2021-07-15T10:42:30,446     Running setup.py (path:/tmp/pip-wheel-hb4rpoat/py-popgen_1b420b06c50e4a35be318fa6f7213b37/setup.py) egg_info for package py-popgen
2021-07-15T10:42:30,447     Created temporary directory: /tmp/pip-pip-egg-info-swqcbqdn
2021-07-15T10:42:30,447     Running command python setup.py egg_info
2021-07-15T10:42:32,306     running egg_info
2021-07-15T10:42:32,308     creating /tmp/pip-pip-egg-info-swqcbqdn/py_popgen.egg-info
2021-07-15T10:42:32,310     writing /tmp/pip-pip-egg-info-swqcbqdn/py_popgen.egg-info/PKG-INFO
2021-07-15T10:42:32,312     writing dependency_links to /tmp/pip-pip-egg-info-swqcbqdn/py_popgen.egg-info/dependency_links.txt
2021-07-15T10:42:32,314     writing requirements to /tmp/pip-pip-egg-info-swqcbqdn/py_popgen.egg-info/requires.txt
2021-07-15T10:42:32,315     writing top-level names to /tmp/pip-pip-egg-info-swqcbqdn/py_popgen.egg-info/top_level.txt
2021-07-15T10:42:32,317     writing manifest file '/tmp/pip-pip-egg-info-swqcbqdn/py_popgen.egg-info/SOURCES.txt'
2021-07-15T10:42:32,528     reading manifest file '/tmp/pip-pip-egg-info-swqcbqdn/py_popgen.egg-info/SOURCES.txt'
2021-07-15T10:42:32,531     reading manifest template 'MANIFEST.in'
2021-07-15T10:42:32,547     writing manifest file '/tmp/pip-pip-egg-info-swqcbqdn/py_popgen.egg-info/SOURCES.txt'
2021-07-15T10:42:32,660   Source in /tmp/pip-wheel-hb4rpoat/py-popgen_1b420b06c50e4a35be318fa6f7213b37 has version 0.1.3, which satisfies requirement py-popgen==0.1.3 from https://files.pythonhosted.org/packages/c3/80/281287a24b61a82d164b91b344c00fbc32fae7530ae8cb681352b4a62997/py-popgen-0.1.3.tar.gz#sha256=f96e091bdf05b28954c4f0550adb2dee824cde8881c00616498a6f3ada14ab0b
2021-07-15T10:42:32,661   Removed py-popgen==0.1.3 from https://files.pythonhosted.org/packages/c3/80/281287a24b61a82d164b91b344c00fbc32fae7530ae8cb681352b4a62997/py-popgen-0.1.3.tar.gz#sha256=f96e091bdf05b28954c4f0550adb2dee824cde8881c00616498a6f3ada14ab0b from build tracker '/tmp/pip-req-tracker-54qz4grz'
2021-07-15T10:42:32,671 Created temporary directory: /tmp/pip-unpack-pmiacoy4
2021-07-15T10:42:32,671 Building wheels for collected packages: py-popgen
2021-07-15T10:42:32,679   Created temporary directory: /tmp/pip-wheel-21co52o8
2021-07-15T10:42:32,680   Building wheel for py-popgen (setup.py): started
2021-07-15T10:42:32,680   Destination directory: /tmp/pip-wheel-21co52o8
2021-07-15T10:42:32,680   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-hb4rpoat/py-popgen_1b420b06c50e4a35be318fa6f7213b37/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-hb4rpoat/py-popgen_1b420b06c50e4a35be318fa6f7213b37/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-21co52o8
2021-07-15T10:42:34,543   running bdist_wheel
2021-07-15T10:42:34,549   running build
2021-07-15T10:42:34,550   running build_py
2021-07-15T10:42:34,714   creating build
2021-07-15T10:42:34,715   creating build/lib.linux-armv7l-3.9
2021-07-15T10:42:34,715   creating build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,716   copying pgpipe/model_sampler.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,719   copying pgpipe/bed_utilities.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,722   copying pgpipe/vcf_to_ima.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,724   copying pgpipe/vcf_ref_to_seq.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,727   copying pgpipe/vcf_filter_vcftools.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,729   copying pgpipe/picard.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,731   copying pgpipe/vcf_liftover.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,734   copying pgpipe/model_creator.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,736   copying pgpipe/graph_plotter.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,739   copying pgpipe/misc.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,741   copying pgpipe/fasta_utilities.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,743   copying pgpipe/admixtools.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,746   copying pgpipe/four_gamete.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,750   copying pgpipe/fasta.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,752   copying pgpipe/get_nonmissing_chunks.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,754   copying pgpipe/min_pop_filter.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,756   copying pgpipe/logging_module.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,758   copying pgpipe/bedtools.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,760   copying pgpipe/model.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,763   copying pgpipe/plink_ld.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,766   copying pgpipe/beagle.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,768   copying pgpipe/bcftools.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,771   copying pgpipe/stat_sampler.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,774   copying pgpipe/vcf_phase.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,777   copying pgpipe/ima3_wrapper.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,779   copying pgpipe/genome_region.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,782   copying pgpipe/extend_loci.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,784   copying pgpipe/vcf_reader_func.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,787   copying pgpipe/filter_single_vcf.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,789   copying pgpipe/vcftools.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,792   copying pgpipe/__init__.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,793   copying pgpipe/vcf_calc.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,796   copying pgpipe/shapeit.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,799   copying pgpipe/parse_functions.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,801   copying pgpipe/eigenstrat_fstats.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,803   copying pgpipe/argparse_sets.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,805   copying pgpipe/ima_priors.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,807   copying pgpipe/admixture.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,809   copying pgpipe/vcf_split.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,812   copying pgpipe/ima_to_treemix.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,814   copying pgpipe/vcf_filter.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,817   copying pgpipe/convert.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,820   copying pgpipe/plink.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,822   copying pgpipe/vcf_sampler.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,825   copying pgpipe/site_stats.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,827   copying pgpipe/informative_loci_filter.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,830   copying pgpipe/vcf_split_pysam.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,832   copying pgpipe/vcf_utilities.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,835   copying pgpipe/bed_invert.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,838   copying pgpipe/vcf_to_treemix.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,840   copying pgpipe/subtract_bed.py -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,841   running egg_info
2021-07-15T10:42:34,857   writing py_popgen.egg-info/PKG-INFO
2021-07-15T10:42:34,859   writing dependency_links to py_popgen.egg-info/dependency_links.txt
2021-07-15T10:42:34,861   writing requirements to py_popgen.egg-info/requires.txt
2021-07-15T10:42:34,862   writing top-level names to py_popgen.egg-info/top_level.txt
2021-07-15T10:42:34,901   reading manifest file 'py_popgen.egg-info/SOURCES.txt'
2021-07-15T10:42:34,905   reading manifest template 'MANIFEST.in'
2021-07-15T10:42:34,933   writing manifest file 'py_popgen.egg-info/SOURCES.txt'
2021-07-15T10:42:34,936   copying pgpipe/test_cython.c -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,942   copying pgpipe/test_cython.pyx -> build/lib.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,946   running build_ext
2021-07-15T10:42:34,951   building 'pgpipe.test_cython' extension
2021-07-15T10:42:34,952   creating build/temp.linux-armv7l-3.9
2021-07-15T10:42:34,952   creating build/temp.linux-armv7l-3.9/pgpipe
2021-07-15T10:42:34,953   arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.9 -c pgpipe/test_cython.c -o build/temp.linux-armv7l-3.9/pgpipe/test_cython.o
2021-07-15T10:42:35,321   pgpipe/test_cython.c: In function ‘__pyx_pf_6pgpipe_11test_cython_getAlleleCountArray’:
2021-07-15T10:42:35,321   pgpipe/test_cython.c:1438:17: warning: array subscript has type ‘char’ [-Wchar-subscripts]
2021-07-15T10:42:35,322    1438 |       (__pyx_v_d[__pyx_t_5]) = ((__pyx_v_d[__pyx_t_5]) + 1);
2021-07-15T10:42:35,322         |                 ^
2021-07-15T10:42:35,322   pgpipe/test_cython.c:1438:43: warning: array subscript has type ‘char’ [-Wchar-subscripts]
2021-07-15T10:42:35,322    1438 |       (__pyx_v_d[__pyx_t_5]) = ((__pyx_v_d[__pyx_t_5]) + 1);
2021-07-15T10:42:35,322         |                                           ^
2021-07-15T10:42:35,327   pgpipe/test_cython.c: In function ‘__pyx_pf_6pgpipe_11test_cython_2getAlleleCountArraySub’:
2021-07-15T10:42:35,328   pgpipe/test_cython.c:1854:17: warning: array subscript has type ‘char’ [-Wchar-subscripts]
2021-07-15T10:42:35,328    1854 |       (__pyx_v_d[__pyx_t_8]) = ((__pyx_v_d[__pyx_t_8]) + 1);
2021-07-15T10:42:35,328         |                 ^
2021-07-15T10:42:35,329   pgpipe/test_cython.c:1854:43: warning: array subscript has type ‘char’ [-Wchar-subscripts]
2021-07-15T10:42:35,329    1854 |       (__pyx_v_d[__pyx_t_8]) = ((__pyx_v_d[__pyx_t_8]) + 1);
2021-07-15T10:42:35,329         |                                           ^
2021-07-15T10:42:35,346   pgpipe/test_cython.c: In function ‘__Pyx_ParseOptionalKeywords’:
2021-07-15T10:42:35,347   pgpipe/test_cython.c:2697:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,347    2697 |                     (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,347         |                     ^
2021-07-15T10:42:35,347   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,347                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,347                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,348   /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
2021-07-15T10:42:35,348     446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
2021-07-15T10:42:35,348         |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,349   pgpipe/test_cython.c:2697:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,349    2697 |                     (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,349         |                     ^
2021-07-15T10:42:35,349   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,349                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,349                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,349   /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
2021-07-15T10:42:35,349     580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
2021-07-15T10:42:35,349         |                                             ^~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,350   pgpipe/test_cython.c:2697:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,350    2697 |                     (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,350         |                     ^
2021-07-15T10:42:35,350   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,350                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,351                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,351   /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
2021-07-15T10:42:35,351     446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
2021-07-15T10:42:35,351         |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,351   pgpipe/test_cython.c:2697:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,352    2697 |                     (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,352         |                     ^
2021-07-15T10:42:35,352   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,352                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,352                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,352   /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
2021-07-15T10:42:35,352     446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
2021-07-15T10:42:35,352         |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,353   pgpipe/test_cython.c:2697:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,353    2697 |                     (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,353         |                     ^
2021-07-15T10:42:35,353   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,353                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,353                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,354   /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
2021-07-15T10:42:35,354     580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
2021-07-15T10:42:35,354         |                                             ^~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,354   pgpipe/test_cython.c:2697:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,354    2697 |                     (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,354         |                     ^
2021-07-15T10:42:35,355   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,355                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,355                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,355   /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
2021-07-15T10:42:35,355     446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
2021-07-15T10:42:35,355         |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,356   pgpipe/test_cython.c:2713:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,356    2713 |                         (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,356         |                         ^
2021-07-15T10:42:35,357   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,357                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,357                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,357   /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
2021-07-15T10:42:35,357     446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
2021-07-15T10:42:35,357         |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,358   pgpipe/test_cython.c:2713:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,358    2713 |                         (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,358         |                         ^
2021-07-15T10:42:35,358   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,358                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,358                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,358   /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
2021-07-15T10:42:35,358     580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
2021-07-15T10:42:35,358         |                                             ^~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,359   pgpipe/test_cython.c:2713:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,359    2713 |                         (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,359         |                         ^
2021-07-15T10:42:35,359   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,359                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,360                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,360   /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
2021-07-15T10:42:35,360     446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
2021-07-15T10:42:35,360         |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,360   pgpipe/test_cython.c:2713:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,360    2713 |                         (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,361         |                         ^
2021-07-15T10:42:35,361   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,361                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,361                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,361   /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
2021-07-15T10:42:35,361     446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
2021-07-15T10:42:35,361         |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,362   pgpipe/test_cython.c:2713:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,362    2713 |                         (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,362         |                         ^
2021-07-15T10:42:35,362   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,362                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,362                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,362   /usr/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
2021-07-15T10:42:35,363     580 | Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
2021-07-15T10:42:35,363         |                                             ^~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:35,363   pgpipe/test_cython.c:2713:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
2021-07-15T10:42:35,363    2713 |                         (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
2021-07-15T10:42:35,363         |                         ^
2021-07-15T10:42:35,364   In file included from /usr/include/python3.9/unicodeobject.h:1026,
2021-07-15T10:42:35,364                    from /usr/include/python3.9/Python.h:97,
2021-07-15T10:42:35,364                    from pgpipe/test_cython.c:16:
2021-07-15T10:42:35,364   /usr/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
2021-07-15T10:42:35,364     446 | static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
2021-07-15T10:42:35,364         |                          ^~~~~~~~~~~~~~~~~~~~~~~~~~
2021-07-15T10:42:36,648   arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/pgpipe/test_cython.o -o build/lib.linux-armv7l-3.9/pgpipe/test_cython.cpython-39-arm-linux-gnueabihf.so
2021-07-15T10:42:36,761   running build_scripts
2021-07-15T10:42:36,762   creating build/scripts-3.9
2021-07-15T10:42:36,763   copying and adjusting pgpipe/vcf_filter.py -> build/scripts-3.9
2021-07-15T10:42:36,766   copying and adjusting pgpipe/vcf_calc.py -> build/scripts-3.9
2021-07-15T10:42:36,769   copying and adjusting pgpipe/vcf_split.py -> build/scripts-3.9
2021-07-15T10:42:36,772   copying and adjusting pgpipe/vcf_phase.py -> build/scripts-3.9
2021-07-15T10:42:36,775   copying pgpipe/four_gamete.py -> build/scripts-3.9
2021-07-15T10:42:36,778   copying and adjusting pgpipe/stat_sampler.py -> build/scripts-3.9
2021-07-15T10:42:36,781   copying and adjusting pgpipe/bed_utilities.py -> build/scripts-3.9
2021-07-15T10:42:36,783   copying and adjusting pgpipe/informative_loci_filter.py -> build/scripts-3.9
2021-07-15T10:42:36,785   copying and adjusting pgpipe/convert.py -> build/scripts-3.9
2021-07-15T10:42:36,788   copying and adjusting pgpipe/vcf_to_ima.py -> build/scripts-3.9
2021-07-15T10:42:36,791   copying and adjusting pgpipe/admixture.py -> build/scripts-3.9
2021-07-15T10:42:36,793   copying and adjusting pgpipe/plink_ld.py -> build/scripts-3.9
2021-07-15T10:42:36,796   copying and adjusting pgpipe/ima3_wrapper.py -> build/scripts-3.9
2021-07-15T10:42:36,798   copying and adjusting pgpipe/eigenstrat_fstats.py -> build/scripts-3.9
2021-07-15T10:42:36,801   copying and adjusting pgpipe/vcf_liftover.py -> build/scripts-3.9
2021-07-15T10:42:36,803   copying and adjusting pgpipe/vcf_utilities.py -> build/scripts-3.9
2021-07-15T10:42:36,806   changing mode of build/scripts-3.9/vcf_filter.py from 644 to 755
2021-07-15T10:42:36,806   changing mode of build/scripts-3.9/vcf_calc.py from 644 to 755
2021-07-15T10:42:36,806   changing mode of build/scripts-3.9/vcf_split.py from 644 to 755
2021-07-15T10:42:36,806   changing mode of build/scripts-3.9/vcf_phase.py from 644 to 755
2021-07-15T10:42:36,807   changing mode of build/scripts-3.9/four_gamete.py from 644 to 755
2021-07-15T10:42:36,807   changing mode of build/scripts-3.9/stat_sampler.py from 644 to 755
2021-07-15T10:42:36,807   changing mode of build/scripts-3.9/bed_utilities.py from 644 to 755
2021-07-15T10:42:36,808   changing mode of build/scripts-3.9/informative_loci_filter.py from 644 to 755
2021-07-15T10:42:36,808   changing mode of build/scripts-3.9/convert.py from 644 to 755
2021-07-15T10:42:36,808   changing mode of build/scripts-3.9/vcf_to_ima.py from 644 to 755
2021-07-15T10:42:36,808   changing mode of build/scripts-3.9/admixture.py from 644 to 755
2021-07-15T10:42:36,809   changing mode of build/scripts-3.9/plink_ld.py from 644 to 755
2021-07-15T10:42:36,809   changing mode of build/scripts-3.9/ima3_wrapper.py from 644 to 755
2021-07-15T10:42:36,809   changing mode of build/scripts-3.9/eigenstrat_fstats.py from 644 to 755
2021-07-15T10:42:36,809   changing mode of build/scripts-3.9/vcf_liftover.py from 644 to 755
2021-07-15T10:42:36,810   changing mode of build/scripts-3.9/vcf_utilities.py from 644 to 755
2021-07-15T10:42:36,818   installing to build/bdist.linux-armv7l/wheel
2021-07-15T10:42:36,819   running install
2021-07-15T10:42:36,820   running install_lib
2021-07-15T10:42:36,824   creating build/bdist.linux-armv7l
2021-07-15T10:42:36,825   creating build/bdist.linux-armv7l/wheel
2021-07-15T10:42:36,827   creating build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,828   copying build/lib.linux-armv7l-3.9/pgpipe/model_sampler.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,831   copying build/lib.linux-armv7l-3.9/pgpipe/bed_utilities.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,834   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_to_ima.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,837   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_ref_to_seq.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,839   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_filter_vcftools.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,842   copying build/lib.linux-armv7l-3.9/pgpipe/picard.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,845   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_liftover.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,847   copying build/lib.linux-armv7l-3.9/pgpipe/model_creator.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,850   copying build/lib.linux-armv7l-3.9/pgpipe/graph_plotter.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,853   copying build/lib.linux-armv7l-3.9/pgpipe/misc.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,855   copying build/lib.linux-armv7l-3.9/pgpipe/fasta_utilities.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,857   copying build/lib.linux-armv7l-3.9/pgpipe/admixtools.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,860   copying build/lib.linux-armv7l-3.9/pgpipe/four_gamete.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,863   copying build/lib.linux-armv7l-3.9/pgpipe/fasta.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,866   copying build/lib.linux-armv7l-3.9/pgpipe/get_nonmissing_chunks.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,868   copying build/lib.linux-armv7l-3.9/pgpipe/min_pop_filter.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,870   copying build/lib.linux-armv7l-3.9/pgpipe/logging_module.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,872   copying build/lib.linux-armv7l-3.9/pgpipe/bedtools.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,875   copying build/lib.linux-armv7l-3.9/pgpipe/model.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,877   copying build/lib.linux-armv7l-3.9/pgpipe/plink_ld.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,880   copying build/lib.linux-armv7l-3.9/pgpipe/beagle.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,883   copying build/lib.linux-armv7l-3.9/pgpipe/bcftools.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,886   copying build/lib.linux-armv7l-3.9/pgpipe/stat_sampler.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,889   copying build/lib.linux-armv7l-3.9/pgpipe/test_cython.pyx -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,891   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_phase.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,895   copying build/lib.linux-armv7l-3.9/pgpipe/ima3_wrapper.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,897   copying build/lib.linux-armv7l-3.9/pgpipe/genome_region.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,900   copying build/lib.linux-armv7l-3.9/pgpipe/extend_loci.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,903   copying build/lib.linux-armv7l-3.9/pgpipe/test_cython.c -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,910   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_reader_func.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,913   copying build/lib.linux-armv7l-3.9/pgpipe/filter_single_vcf.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,915   copying build/lib.linux-armv7l-3.9/pgpipe/vcftools.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,918   copying build/lib.linux-armv7l-3.9/pgpipe/__init__.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,920   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_calc.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,923   copying build/lib.linux-armv7l-3.9/pgpipe/shapeit.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,926   copying build/lib.linux-armv7l-3.9/pgpipe/parse_functions.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,928   copying build/lib.linux-armv7l-3.9/pgpipe/eigenstrat_fstats.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,931   copying build/lib.linux-armv7l-3.9/pgpipe/test_cython.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,936   copying build/lib.linux-armv7l-3.9/pgpipe/argparse_sets.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,938   copying build/lib.linux-armv7l-3.9/pgpipe/ima_priors.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,940   copying build/lib.linux-armv7l-3.9/pgpipe/admixture.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,943   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_split.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,946   copying build/lib.linux-armv7l-3.9/pgpipe/ima_to_treemix.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,948   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_filter.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,951   copying build/lib.linux-armv7l-3.9/pgpipe/convert.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,954   copying build/lib.linux-armv7l-3.9/pgpipe/plink.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,957   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_sampler.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,960   copying build/lib.linux-armv7l-3.9/pgpipe/site_stats.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,962   copying build/lib.linux-armv7l-3.9/pgpipe/informative_loci_filter.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,965   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_split_pysam.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,968   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_utilities.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,971   copying build/lib.linux-armv7l-3.9/pgpipe/bed_invert.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,973   copying build/lib.linux-armv7l-3.9/pgpipe/vcf_to_treemix.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,975   copying build/lib.linux-armv7l-3.9/pgpipe/subtract_bed.py -> build/bdist.linux-armv7l/wheel/pgpipe
2021-07-15T10:42:36,977   running install_egg_info
2021-07-15T10:42:36,983   Copying py_popgen.egg-info to build/bdist.linux-armv7l/wheel/py_popgen-0.1.3-py3.9.egg-info
2021-07-15T10:42:36,994   running install_scripts
2021-07-15T10:42:37,017   creating build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data
2021-07-15T10:42:37,017   creating build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,018   copying build/scripts-3.9/bed_utilities.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,021   copying build/scripts-3.9/vcf_to_ima.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,023   copying build/scripts-3.9/vcf_liftover.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,026   copying build/scripts-3.9/four_gamete.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,029   copying build/scripts-3.9/plink_ld.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,031   copying build/scripts-3.9/stat_sampler.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,034   copying build/scripts-3.9/vcf_phase.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,038   copying build/scripts-3.9/ima3_wrapper.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,041   copying build/scripts-3.9/vcf_calc.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,044   copying build/scripts-3.9/eigenstrat_fstats.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,047   copying build/scripts-3.9/admixture.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,049   copying build/scripts-3.9/vcf_split.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,052   copying build/scripts-3.9/vcf_filter.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,056   copying build/scripts-3.9/convert.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,058   copying build/scripts-3.9/informative_loci_filter.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,061   copying build/scripts-3.9/vcf_utilities.py -> build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts
2021-07-15T10:42:37,063   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/bed_utilities.py to 755
2021-07-15T10:42:37,064   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/vcf_to_ima.py to 755
2021-07-15T10:42:37,064   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/vcf_liftover.py to 755
2021-07-15T10:42:37,064   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/four_gamete.py to 755
2021-07-15T10:42:37,064   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/plink_ld.py to 755
2021-07-15T10:42:37,065   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/stat_sampler.py to 755
2021-07-15T10:42:37,065   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/vcf_phase.py to 755
2021-07-15T10:42:37,065   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/ima3_wrapper.py to 755
2021-07-15T10:42:37,066   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/vcf_calc.py to 755
2021-07-15T10:42:37,066   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/eigenstrat_fstats.py to 755
2021-07-15T10:42:37,066   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/admixture.py to 755
2021-07-15T10:42:37,067   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/vcf_split.py to 755
2021-07-15T10:42:37,067   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/vcf_filter.py to 755
2021-07-15T10:42:37,067   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/convert.py to 755
2021-07-15T10:42:37,067   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/informative_loci_filter.py to 755
2021-07-15T10:42:37,068   changing mode of build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.data/scripts/vcf_utilities.py to 755
2021-07-15T10:42:37,099   creating build/bdist.linux-armv7l/wheel/py_popgen-0.1.3.dist-info/WHEEL
2021-07-15T10:42:37,101   creating '/tmp/pip-wheel-21co52o8/py_popgen-0.1.3-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2021-07-15T10:42:37,105   adding 'pgpipe/__init__.py'
2021-07-15T10:42:37,107   adding 'pgpipe/admixtools.py'
2021-07-15T10:42:37,110   adding 'pgpipe/admixture.py'
2021-07-15T10:42:37,111   adding 'pgpipe/argparse_sets.py'
2021-07-15T10:42:37,114   adding 'pgpipe/bcftools.py'
2021-07-15T10:42:37,116   adding 'pgpipe/beagle.py'
2021-07-15T10:42:37,118   adding 'pgpipe/bed_invert.py'
2021-07-15T10:42:37,120   adding 'pgpipe/bed_utilities.py'
2021-07-15T10:42:37,122   adding 'pgpipe/bedtools.py'
2021-07-15T10:42:37,124   adding 'pgpipe/convert.py'
2021-07-15T10:42:37,127   adding 'pgpipe/eigenstrat_fstats.py'
2021-07-15T10:42:37,129   adding 'pgpipe/extend_loci.py'
2021-07-15T10:42:37,130   adding 'pgpipe/fasta.py'
2021-07-15T10:42:37,131   adding 'pgpipe/fasta_utilities.py'
2021-07-15T10:42:37,132   adding 'pgpipe/filter_single_vcf.py'
2021-07-15T10:42:37,138   adding 'pgpipe/four_gamete.py'
2021-07-15T10:42:37,141   adding 'pgpipe/genome_region.py'
2021-07-15T10:42:37,143   adding 'pgpipe/get_nonmissing_chunks.py'
2021-07-15T10:42:37,144   adding 'pgpipe/graph_plotter.py'
2021-07-15T10:42:37,146   adding 'pgpipe/ima3_wrapper.py'
2021-07-15T10:42:37,147   adding 'pgpipe/ima_priors.py'
2021-07-15T10:42:37,148   adding 'pgpipe/ima_to_treemix.py'
2021-07-15T10:42:37,150   adding 'pgpipe/informative_loci_filter.py'
2021-07-15T10:42:37,152   adding 'pgpipe/logging_module.py'
2021-07-15T10:42:37,153   adding 'pgpipe/min_pop_filter.py'
2021-07-15T10:42:37,154   adding 'pgpipe/misc.py'
2021-07-15T10:42:37,156   adding 'pgpipe/model.py'
2021-07-15T10:42:37,158   adding 'pgpipe/model_creator.py'
2021-07-15T10:42:37,160   adding 'pgpipe/model_sampler.py'
2021-07-15T10:42:37,162   adding 'pgpipe/parse_functions.py'
2021-07-15T10:42:37,163   adding 'pgpipe/picard.py'
2021-07-15T10:42:37,166   adding 'pgpipe/plink.py'
2021-07-15T10:42:37,169   adding 'pgpipe/plink_ld.py'
2021-07-15T10:42:37,171   adding 'pgpipe/shapeit.py'
2021-07-15T10:42:37,172   adding 'pgpipe/site_stats.py'
2021-07-15T10:42:37,175   adding 'pgpipe/stat_sampler.py'
2021-07-15T10:42:37,176   adding 'pgpipe/subtract_bed.py'
2021-07-15T10:42:37,191   adding 'pgpipe/test_cython.c'
2021-07-15T10:42:37,213   adding 'pgpipe/test_cython.cpython-39-arm-linux-gnueabihf.so'
2021-07-15T10:42:37,215   adding 'pgpipe/test_cython.pyx'
2021-07-15T10:42:37,218   adding 'pgpipe/vcf_calc.py'
2021-07-15T10:42:37,222   adding 'pgpipe/vcf_filter.py'
2021-07-15T10:42:37,226   adding 'pgpipe/vcf_filter_vcftools.py'
2021-07-15T10:42:37,228   adding 'pgpipe/vcf_liftover.py'
2021-07-15T10:42:37,232   adding 'pgpipe/vcf_phase.py'
2021-07-15T10:42:37,235   adding 'pgpipe/vcf_reader_func.py'
2021-07-15T10:42:37,238   adding 'pgpipe/vcf_ref_to_seq.py'
2021-07-15T10:42:37,240   adding 'pgpipe/vcf_sampler.py'
2021-07-15T10:42:37,243   adding 'pgpipe/vcf_split.py'
2021-07-15T10:42:37,245   adding 'pgpipe/vcf_split_pysam.py'
2021-07-15T10:42:37,249   adding 'pgpipe/vcf_to_ima.py'
2021-07-15T10:42:37,251   adding 'pgpipe/vcf_to_treemix.py'
2021-07-15T10:42:37,253   adding 'pgpipe/vcf_utilities.py'
2021-07-15T10:42:37,256   adding 'pgpipe/vcftools.py'
2021-07-15T10:42:37,260   adding 'py_popgen-0.1.3.data/scripts/admixture.py'
2021-07-15T10:42:37,262   adding 'py_popgen-0.1.3.data/scripts/bed_utilities.py'
2021-07-15T10:42:37,264   adding 'py_popgen-0.1.3.data/scripts/convert.py'
2021-07-15T10:42:37,267   adding 'py_popgen-0.1.3.data/scripts/eigenstrat_fstats.py'
2021-07-15T10:42:37,273   adding 'py_popgen-0.1.3.data/scripts/four_gamete.py'
2021-07-15T10:42:37,275   adding 'py_popgen-0.1.3.data/scripts/ima3_wrapper.py'
2021-07-15T10:42:37,277   adding 'py_popgen-0.1.3.data/scripts/informative_loci_filter.py'
2021-07-15T10:42:37,279   adding 'py_popgen-0.1.3.data/scripts/plink_ld.py'
2021-07-15T10:42:37,282   adding 'py_popgen-0.1.3.data/scripts/stat_sampler.py'
2021-07-15T10:42:37,286   adding 'py_popgen-0.1.3.data/scripts/vcf_calc.py'
2021-07-15T10:42:37,290   adding 'py_popgen-0.1.3.data/scripts/vcf_filter.py'
2021-07-15T10:42:37,292   adding 'py_popgen-0.1.3.data/scripts/vcf_liftover.py'
2021-07-15T10:42:37,297   adding 'py_popgen-0.1.3.data/scripts/vcf_phase.py'
2021-07-15T10:42:37,300   adding 'py_popgen-0.1.3.data/scripts/vcf_split.py'
2021-07-15T10:42:37,304   adding 'py_popgen-0.1.3.data/scripts/vcf_to_ima.py'
2021-07-15T10:42:37,306   adding 'py_popgen-0.1.3.data/scripts/vcf_utilities.py'
2021-07-15T10:42:37,309   adding 'py_popgen-0.1.3.dist-info/METADATA'
2021-07-15T10:42:37,309   adding 'py_popgen-0.1.3.dist-info/WHEEL'
2021-07-15T10:42:37,310   adding 'py_popgen-0.1.3.dist-info/top_level.txt'
2021-07-15T10:42:37,312   adding 'py_popgen-0.1.3.dist-info/RECORD'
2021-07-15T10:42:37,319   removing build/bdist.linux-armv7l/wheel
2021-07-15T10:42:37,454   Building wheel for py-popgen (setup.py): finished with status 'done'
2021-07-15T10:42:37,460   Created wheel for py-popgen: filename=py_popgen-0.1.3-cp39-cp39-linux_armv7l.whl size=323176 sha256=1a6814c897aaaece70742d67a5f4c4060cbde2b995e187369eed2e13c2e1acdd
2021-07-15T10:42:37,460   Stored in directory: /tmp/pip-ephem-wheel-cache-qwas33pa/wheels/02/f6/36/5a4aca5a95d2a6486dbcb97c67d34fdf9d3a5564f5ee796861
2021-07-15T10:42:37,471 Successfully built py-popgen
2021-07-15T10:42:37,483 Removed build tracker: '/tmp/pip-req-tracker-54qz4grz'