2023-09-16T04:13:00,685 Created temporary directory: /tmp/pip-build-tracker-sjdlq1j0
2023-09-16T04:13:00,686 Initialized build tracking at /tmp/pip-build-tracker-sjdlq1j0
2023-09-16T04:13:00,687 Created build tracker: /tmp/pip-build-tracker-sjdlq1j0
2023-09-16T04:13:00,687 Entered build tracker: /tmp/pip-build-tracker-sjdlq1j0
2023-09-16T04:13:00,688 Created temporary directory: /tmp/pip-wheel-ncl9bo_g
2023-09-16T04:13:00,691 Created temporary directory: /tmp/pip-ephem-wheel-cache-ch_u4f9g
2023-09-16T04:13:00,713 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-09-16T04:13:00,717 2 location(s) to search for versions of pyvcf3:
2023-09-16T04:13:00,717 * https://pypi.org/simple/pyvcf3/
2023-09-16T04:13:00,717 * https://www.piwheels.org/simple/pyvcf3/
2023-09-16T04:13:00,718 Fetching project page and analyzing links: https://pypi.org/simple/pyvcf3/
2023-09-16T04:13:00,719 Getting page https://pypi.org/simple/pyvcf3/
2023-09-16T04:13:00,720 Found index url https://pypi.org/simple/
2023-09-16T04:13:00,935 Fetched page https://pypi.org/simple/pyvcf3/ as application/vnd.pypi.simple.v1+json
2023-09-16T04:13:00,937   Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/28/e4/1444bd99ba308b117583dc2424ad29fbc59e3f48b283f34ee0b525f81355/PyVCF3-1.0.0-py3.10-linux-x86_64.egg (from https://pypi.org/simple/pyvcf3/)
2023-09-16T04:13:00,937   Found link https://files.pythonhosted.org/packages/af/3a/d3c816c29dc176177067160069ac049a4bbd3c0feb96a41380b6d0e9d4bf/PyVCF3-1.0.0.tar.gz (from https://pypi.org/simple/pyvcf3/), version: 1.0.0
2023-09-16T04:13:00,938   Found link https://files.pythonhosted.org/packages/9b/f3/79dd49b0c14edb1e6845fcfcbaebc059970466deadfced075037d1862147/PyVCF3-1.0.1.tar.gz (from https://pypi.org/simple/pyvcf3/), version: 1.0.1
2023-09-16T04:13:00,939   Found link https://files.pythonhosted.org/packages/6a/0d/6d79c6ac40df1e24a8dc2df551e2f1bf93bc5defa815750910787a1f1ead/PyVCF3-1.0.2.tar.gz (from https://pypi.org/simple/pyvcf3/), version: 1.0.2
2023-09-16T04:13:00,939   Found link https://files.pythonhosted.org/packages/28/ee/5d0b0bd20762f1126b34cb15dce973fe4dbd1baf17d7ee621b18e336c0e5/PyVCF3-1.0.3.tar.gz (from https://pypi.org/simple/pyvcf3/), version: 1.0.3
2023-09-16T04:13:00,940 Fetching project page and analyzing links: https://www.piwheels.org/simple/pyvcf3/
2023-09-16T04:13:00,941 Getting page https://www.piwheels.org/simple/pyvcf3/
2023-09-16T04:13:00,942 Found index url https://www.piwheels.org/simple/
2023-09-16T04:13:04,962 Fetched page https://www.piwheels.org/simple/pyvcf3/ as text/html
2023-09-16T04:13:04,979   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.3-cp39-cp39-linux_armv7l.whl#sha256=d18221cbaa400e8c4bf62c3b3d48934d3bee2050b19d99ccc11631c8e83e5fd3 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,980   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.3-cp39-cp39-linux_armv6l.whl#sha256=d18221cbaa400e8c4bf62c3b3d48934d3bee2050b19d99ccc11631c8e83e5fd3 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,981   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.3-cp37-cp37m-linux_armv7l.whl#sha256=2b277f1dd4672377c2f0742abf937ea512150ca34fcd48b232bf12ccbd00351e (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,982   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.3-cp37-cp37m-linux_armv6l.whl#sha256=2b277f1dd4672377c2f0742abf937ea512150ca34fcd48b232bf12ccbd00351e (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,982   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.3-cp35-cp35m-linux_armv7l.whl#sha256=c2bc58d6ef4d1585e4cf018a09ebb2bbcb970d5e9a7057bd8cf8428f59b7a2a3 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,983   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.3-cp35-cp35m-linux_armv6l.whl#sha256=c2bc58d6ef4d1585e4cf018a09ebb2bbcb970d5e9a7057bd8cf8428f59b7a2a3 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,984   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.2-cp39-cp39-linux_armv7l.whl#sha256=14b855223b3226e36ef32d87963a489a07254e6d22b74024ba612b703f671b7e (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,985   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.2-cp39-cp39-linux_armv6l.whl#sha256=14b855223b3226e36ef32d87963a489a07254e6d22b74024ba612b703f671b7e (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,986   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.2-cp37-cp37m-linux_armv7l.whl#sha256=3a4fb334c31a538e67ad8c658cfab21b34169a5456600073530e5e7302fe6337 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,987   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.2-cp37-cp37m-linux_armv6l.whl#sha256=3a4fb334c31a538e67ad8c658cfab21b34169a5456600073530e5e7302fe6337 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,987   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.2-cp35-cp35m-linux_armv7l.whl#sha256=da4f2b44f5cfe68ddb4d162669bb5364e47cc53c2ced18ebf73636987add62f3 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,988   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.2-cp35-cp35m-linux_armv6l.whl#sha256=da4f2b44f5cfe68ddb4d162669bb5364e47cc53c2ced18ebf73636987add62f3 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,989   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.1-py3-none-any.whl#sha256=e8bf3e88ac7b88b6eccd3c91b52606b3c182cdaa49ac4d683f5c60817a46cd96 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,990   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.1-cp39-cp39-linux_armv7l.whl#sha256=b5c8fed57dd1f35872b4b6dbf824f7c9795cf7e0345ed0c7fa9014e6fb9b9b9e (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,990   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.1-cp39-cp39-linux_armv6l.whl#sha256=b5c8fed57dd1f35872b4b6dbf824f7c9795cf7e0345ed0c7fa9014e6fb9b9b9e (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,991   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.1-cp37-cp37m-linux_armv7l.whl#sha256=3308b8a1fa5bd25c337d9f6234df79b445c27005a610251d0d43ee16c417e00e (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,992   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.1-cp37-cp37m-linux_armv6l.whl#sha256=3308b8a1fa5bd25c337d9f6234df79b445c27005a610251d0d43ee16c417e00e (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,993   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.1-cp35-cp35m-linux_armv7l.whl#sha256=0883d937a95f4c19a9ada081207e8b991e1234ed0d3fd8f5f0b274ad91020033 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,994   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.1-cp35-cp35m-linux_armv6l.whl#sha256=0883d937a95f4c19a9ada081207e8b991e1234ed0d3fd8f5f0b274ad91020033 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,994   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.0-cp311-cp311-linux_armv7l.whl#sha256=834bc9b76b225a2870d3d35222774265acd67d1ce3822617fc45e84eb8509631 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,995   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.0-cp311-cp311-linux_armv6l.whl#sha256=834bc9b76b225a2870d3d35222774265acd67d1ce3822617fc45e84eb8509631 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,996   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.0-cp39-cp39-linux_armv7l.whl#sha256=c288b5b3f724d0924a6d4977216943aee43c7bf5c08cbf71303013c1b55b1cb0 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,997   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.0-cp39-cp39-linux_armv6l.whl#sha256=c288b5b3f724d0924a6d4977216943aee43c7bf5c08cbf71303013c1b55b1cb0 (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,998   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.0-cp37-cp37m-linux_armv7l.whl#sha256=197b00635133c0013e911b217a7bb40ea409deab499ca14890971576de63ecfe (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,998   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.0-cp37-cp37m-linux_armv6l.whl#sha256=197b00635133c0013e911b217a7bb40ea409deab499ca14890971576de63ecfe (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:04,999   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.0-cp35-cp35m-linux_armv7l.whl#sha256=804e89f835d7937364092d5d747f44095a51364a56661627f699c8a406722cfb (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:05,000   Skipping link: No binaries permitted for pyvcf3: https://www.piwheels.org/simple/pyvcf3/PyVCF3-1.0.0-cp35-cp35m-linux_armv6l.whl#sha256=804e89f835d7937364092d5d747f44095a51364a56661627f699c8a406722cfb (from https://www.piwheels.org/simple/pyvcf3/)
2023-09-16T04:13:05,001 Skipping link: not a file: https://www.piwheels.org/simple/pyvcf3/
2023-09-16T04:13:05,001 Skipping link: not a file: https://pypi.org/simple/pyvcf3/
2023-09-16T04:13:05,038 Given no hashes to check 1 links for project 'pyvcf3': discarding no candidates
2023-09-16T04:13:05,055 Collecting pyvcf3==1.0.2
2023-09-16T04:13:05,058   Created temporary directory: /tmp/pip-unpack-id27nizt
2023-09-16T04:13:05,273   Downloading PyVCF3-1.0.2.tar.gz (977 kB)
2023-09-16T04:13:05,591   Added pyvcf3==1.0.2 from https://files.pythonhosted.org/packages/6a/0d/6d79c6ac40df1e24a8dc2df551e2f1bf93bc5defa815750910787a1f1ead/PyVCF3-1.0.2.tar.gz to build tracker '/tmp/pip-build-tracker-sjdlq1j0'
2023-09-16T04:13:05,593   Running setup.py (path:/tmp/pip-wheel-ncl9bo_g/pyvcf3_8537868b47614b2dae5cabc4de10fb47/setup.py) egg_info for package pyvcf3
2023-09-16T04:13:05,594   Created temporary directory: /tmp/pip-pip-egg-info-bxyxil3l
2023-09-16T04:13:05,594   Preparing metadata (setup.py): started
2023-09-16T04:13:05,595   Running command python setup.py egg_info
2023-09-16T04:13:06,609   running egg_info
2023-09-16T04:13:06,610   creating /tmp/pip-pip-egg-info-bxyxil3l/PyVCF3.egg-info
2023-09-16T04:13:06,634   writing /tmp/pip-pip-egg-info-bxyxil3l/PyVCF3.egg-info/PKG-INFO
2023-09-16T04:13:06,637   writing dependency_links to /tmp/pip-pip-egg-info-bxyxil3l/PyVCF3.egg-info/dependency_links.txt
2023-09-16T04:13:06,639   writing entry points to /tmp/pip-pip-egg-info-bxyxil3l/PyVCF3.egg-info/entry_points.txt
2023-09-16T04:13:06,640   writing requirements to /tmp/pip-pip-egg-info-bxyxil3l/PyVCF3.egg-info/requires.txt
2023-09-16T04:13:06,641   writing top-level names to /tmp/pip-pip-egg-info-bxyxil3l/PyVCF3.egg-info/top_level.txt
2023-09-16T04:13:06,643   writing manifest file '/tmp/pip-pip-egg-info-bxyxil3l/PyVCF3.egg-info/SOURCES.txt'
2023-09-16T04:13:06,749   reading manifest file '/tmp/pip-pip-egg-info-bxyxil3l/PyVCF3.egg-info/SOURCES.txt'
2023-09-16T04:13:06,751   reading manifest template 'MANIFEST.in'
2023-09-16T04:13:06,766   adding license file 'LICENSE'
2023-09-16T04:13:06,770   writing manifest file '/tmp/pip-pip-egg-info-bxyxil3l/PyVCF3.egg-info/SOURCES.txt'
2023-09-16T04:13:06,882   Preparing metadata (setup.py): finished with status 'done'
2023-09-16T04:13:06,886   Source in /tmp/pip-wheel-ncl9bo_g/pyvcf3_8537868b47614b2dae5cabc4de10fb47 has version 1.0.2, which satisfies requirement pyvcf3==1.0.2 from https://files.pythonhosted.org/packages/6a/0d/6d79c6ac40df1e24a8dc2df551e2f1bf93bc5defa815750910787a1f1ead/PyVCF3-1.0.2.tar.gz
2023-09-16T04:13:06,887   Removed pyvcf3==1.0.2 from https://files.pythonhosted.org/packages/6a/0d/6d79c6ac40df1e24a8dc2df551e2f1bf93bc5defa815750910787a1f1ead/PyVCF3-1.0.2.tar.gz from build tracker '/tmp/pip-build-tracker-sjdlq1j0'
2023-09-16T04:13:06,891 Created temporary directory: /tmp/pip-unpack-_hj_ifrp
2023-09-16T04:13:06,892 Created temporary directory: /tmp/pip-unpack-1s4hv9sc
2023-09-16T04:13:06,896 Building wheels for collected packages: pyvcf3
2023-09-16T04:13:06,900   Created temporary directory: /tmp/pip-wheel-q2w23438
2023-09-16T04:13:06,901   Building wheel for pyvcf3 (setup.py): started
2023-09-16T04:13:06,902   Destination directory: /tmp/pip-wheel-q2w23438
2023-09-16T04:13:06,903   Running command python setup.py bdist_wheel
2023-09-16T04:13:07,871   running bdist_wheel
2023-09-16T04:13:07,941   running build
2023-09-16T04:13:07,942   running build_py
2023-09-16T04:13:07,968   creating build
2023-09-16T04:13:07,969   creating build/lib.linux-armv7l-cpython-311
2023-09-16T04:13:07,969   creating build/lib.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:07,971   copying vcf/model.py -> build/lib.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:07,973   copying vcf/__init__.py -> build/lib.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:07,974   copying vcf/bgzf.py -> build/lib.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:07,977   copying vcf/sample_filter.py -> build/lib.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:07,979   copying vcf/utils.py -> build/lib.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:07,980   copying vcf/filters.py -> build/lib.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:07,982   copying vcf/parser.py -> build/lib.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:07,985   creating build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:07,986   copying vcf/test/__init__.py -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:07,988   copying vcf/test/prof.py -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:07,990   copying vcf/test/test_vcf.py -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:07,992   running egg_info
2023-09-16T04:13:08,047   writing PyVCF3.egg-info/PKG-INFO
2023-09-16T04:13:08,050   writing dependency_links to PyVCF3.egg-info/dependency_links.txt
2023-09-16T04:13:08,051   writing entry points to PyVCF3.egg-info/entry_points.txt
2023-09-16T04:13:08,052   writing requirements to PyVCF3.egg-info/requires.txt
2023-09-16T04:13:08,053   writing top-level names to PyVCF3.egg-info/top_level.txt
2023-09-16T04:13:08,086   reading manifest file 'PyVCF3.egg-info/SOURCES.txt'
2023-09-16T04:13:08,089   reading manifest template 'MANIFEST.in'
2023-09-16T04:13:08,104   adding license file 'LICENSE'
2023-09-16T04:13:08,107   writing manifest file 'PyVCF3.egg-info/SOURCES.txt'
2023-09-16T04:13:08,114   copying vcf/cparse.pyx -> build/lib.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:08,116   copying vcf/test/1kg.sites.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,119   copying vcf/test/1kg.vcf.gz -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,133   copying vcf/test/FT.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,135   copying vcf/test/bad-info-character.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,137   copying vcf/test/bcftools.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,141   copying vcf/test/contig_idonly.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,143   copying vcf/test/example-4.0.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,145   copying vcf/test/example-4.1-bnd.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,147   copying vcf/test/example-4.1-info-multiple-values.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,149   copying vcf/test/example-4.1-ploidy.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,151   copying vcf/test/example-4.1-sv.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,153   copying vcf/test/example-4.1.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,155   copying vcf/test/example-4.2.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,158   copying vcf/test/freebayes.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,161   copying vcf/test/gatk.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,164   copying vcf/test/gatk_26_meta.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,166   copying vcf/test/gonl.chr20.release4.gtc.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,168   copying vcf/test/info-type-character.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,170   copying vcf/test/issue-140-file1.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,172   copying vcf/test/issue-140-file2.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,174   copying vcf/test/issue-140-file3.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,176   copying vcf/test/issue-16.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,178   copying vcf/test/issue-201.vcf.gz -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,180   copying vcf/test/issue-201.vcf.gz.tbi -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,182   copying vcf/test/issue-214.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,184   copying vcf/test/issue-254.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,185   copying vcf/test/issue_49.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,188   copying vcf/test/metadata-whitespace.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,191   copying vcf/test/mixed-filtering.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,193   copying vcf/test/null_genotype_mono.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,195   copying vcf/test/parse-meta-line.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,197   copying vcf/test/samples-space.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,199   copying vcf/test/samtools.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,201   copying vcf/test/strelka.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,203   copying vcf/test/string_as_flag.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,206   copying vcf/test/tb.vcf.gz -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,208   copying vcf/test/tb.vcf.gz.tbi -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,209   copying vcf/test/uncalled_genotypes.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,211   copying vcf/test/walk_left.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,213   copying vcf/test/walk_refcall.vcf -> build/lib.linux-armv7l-cpython-311/vcf/test
2023-09-16T04:13:08,216   running build_ext
2023-09-16T04:13:08,725   Compiling vcf/cparse.pyx because it changed.
2023-09-16T04:13:08,726   [1/1] Cythonizing vcf/cparse.pyx
2023-09-16T04:13:09,818   /usr/local/lib/python3.11/dist-packages/Cython/Compiler/Main.py:384: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /tmp/pip-wheel-ncl9bo_g/pyvcf3_8537868b47614b2dae5cabc4de10fb47/vcf/cparse.pyx
2023-09-16T04:13:09,819     tree = Parsing.p_module(s, pxd, full_module_name)
2023-09-16T04:13:10,315   building 'vcf.cparse' extension
2023-09-16T04:13:10,316   creating build/temp.linux-armv7l-cpython-311
2023-09-16T04:13:10,316   creating build/temp.linux-armv7l-cpython-311/vcf
2023-09-16T04:13:10,317   arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/usr/include/python3.11 -c vcf/cparse.c -o build/temp.linux-armv7l-cpython-311/vcf/cparse.o
2023-09-16T04:13:26,673   arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/vcf/cparse.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/vcf/cparse.cpython-311-arm-linux-gnueabihf.so
2023-09-16T04:13:26,855   running build_scripts
2023-09-16T04:13:26,856   creating build/scripts-3.11
2023-09-16T04:13:26,857   copying and adjusting scripts/vcf_melt -> build/scripts-3.11
2023-09-16T04:13:26,858   copying and adjusting scripts/vcf_filter.py -> build/scripts-3.11
2023-09-16T04:13:26,860   copying and adjusting scripts/vcf_sample_filter.py -> build/scripts-3.11
2023-09-16T04:13:26,861   changing mode of build/scripts-3.11/vcf_melt from 644 to 755
2023-09-16T04:13:26,862   changing mode of build/scripts-3.11/vcf_filter.py from 644 to 755
2023-09-16T04:13:26,862   changing mode of build/scripts-3.11/vcf_sample_filter.py from 644 to 755
2023-09-16T04:13:26,887   /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated.
2023-09-16T04:13:26,888   !!

2023-09-16T04:13:26,889           ********************************************************************************
2023-09-16T04:13:26,889           Please avoid running ``setup.py`` directly.
2023-09-16T04:13:26,890           Instead, use pypa/build, pypa/installer or other
2023-09-16T04:13:26,890           standards-based tools.

2023-09-16T04:13:26,891           See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
2023-09-16T04:13:26,892           ********************************************************************************

2023-09-16T04:13:26,893   !!
2023-09-16T04:13:26,893     self.initialize_options()
2023-09-16T04:13:26,913   installing to build/bdist.linux-armv7l/wheel
2023-09-16T04:13:26,914   running install
2023-09-16T04:13:26,938   running install_lib
2023-09-16T04:13:26,991   creating build/bdist.linux-armv7l
2023-09-16T04:13:26,991   creating build/bdist.linux-armv7l/wheel
2023-09-16T04:13:26,994   creating build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:26,995   copying build/lib.linux-armv7l-cpython-311/vcf/model.py -> build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:26,998   copying build/lib.linux-armv7l-cpython-311/vcf/cparse.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:27,021   copying build/lib.linux-armv7l-cpython-311/vcf/__init__.py -> build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:27,023   copying build/lib.linux-armv7l-cpython-311/vcf/cparse.pyx -> build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:27,025   copying build/lib.linux-armv7l-cpython-311/vcf/bgzf.py -> build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:27,032   copying build/lib.linux-armv7l-cpython-311/vcf/sample_filter.py -> build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:27,036   creating build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,038   copying build/lib.linux-armv7l-cpython-311/vcf/test/freebayes.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,044   copying build/lib.linux-armv7l-cpython-311/vcf/test/issue-201.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,056   copying build/lib.linux-armv7l-cpython-311/vcf/test/mixed-filtering.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,059   copying build/lib.linux-armv7l-cpython-311/vcf/test/uncalled_genotypes.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,062   copying build/lib.linux-armv7l-cpython-311/vcf/test/issue-140-file1.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,064   copying build/lib.linux-armv7l-cpython-311/vcf/test/bcftools.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,069   copying build/lib.linux-armv7l-cpython-311/vcf/test/issue-254.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,072   copying build/lib.linux-armv7l-cpython-311/vcf/test/example-4.1-ploidy.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,075   copying build/lib.linux-armv7l-cpython-311/vcf/test/example-4.1-info-multiple-values.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,077   copying build/lib.linux-armv7l-cpython-311/vcf/test/metadata-whitespace.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,082   copying build/lib.linux-armv7l-cpython-311/vcf/test/1kg.sites.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,086   copying build/lib.linux-armv7l-cpython-311/vcf/test/strelka.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,097   copying build/lib.linux-armv7l-cpython-311/vcf/test/samtools.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,099   copying build/lib.linux-armv7l-cpython-311/vcf/test/samples-space.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,101   copying build/lib.linux-armv7l-cpython-311/vcf/test/gonl.chr20.release4.gtc.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,104   copying build/lib.linux-armv7l-cpython-311/vcf/test/__init__.py -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,106   copying build/lib.linux-armv7l-cpython-311/vcf/test/issue_49.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,109   copying build/lib.linux-armv7l-cpython-311/vcf/test/prof.py -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,111   copying build/lib.linux-armv7l-cpython-311/vcf/test/gatk.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,114   copying build/lib.linux-armv7l-cpython-311/vcf/test/issue-140-file2.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,116   copying build/lib.linux-armv7l-cpython-311/vcf/test/gatk_26_meta.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,118   copying build/lib.linux-armv7l-cpython-311/vcf/test/issue-16.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,120   copying build/lib.linux-armv7l-cpython-311/vcf/test/walk_left.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,122   copying build/lib.linux-armv7l-cpython-311/vcf/test/example-4.1.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,124   copying build/lib.linux-armv7l-cpython-311/vcf/test/FT.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,126   copying build/lib.linux-armv7l-cpython-311/vcf/test/tb.vcf.gz -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,128   copying build/lib.linux-armv7l-cpython-311/vcf/test/walk_refcall.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,130   copying build/lib.linux-armv7l-cpython-311/vcf/test/example-4.1-bnd.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,132   copying build/lib.linux-armv7l-cpython-311/vcf/test/example-4.2.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,134   copying build/lib.linux-armv7l-cpython-311/vcf/test/test_vcf.py -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,138   copying build/lib.linux-armv7l-cpython-311/vcf/test/tb.vcf.gz.tbi -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,140   copying build/lib.linux-armv7l-cpython-311/vcf/test/issue-214.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,142   copying build/lib.linux-armv7l-cpython-311/vcf/test/example-4.0.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,143   copying build/lib.linux-armv7l-cpython-311/vcf/test/null_genotype_mono.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,146   copying build/lib.linux-armv7l-cpython-311/vcf/test/string_as_flag.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,148   copying build/lib.linux-armv7l-cpython-311/vcf/test/example-4.1-sv.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,150   copying build/lib.linux-armv7l-cpython-311/vcf/test/1kg.vcf.gz -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,164   copying build/lib.linux-armv7l-cpython-311/vcf/test/info-type-character.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,166   copying build/lib.linux-armv7l-cpython-311/vcf/test/bad-info-character.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,168   copying build/lib.linux-armv7l-cpython-311/vcf/test/issue-140-file3.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,169   copying build/lib.linux-armv7l-cpython-311/vcf/test/contig_idonly.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,171   copying build/lib.linux-armv7l-cpython-311/vcf/test/issue-201.vcf.gz -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,173   copying build/lib.linux-armv7l-cpython-311/vcf/test/parse-meta-line.vcf -> build/bdist.linux-armv7l/wheel/vcf/test
2023-09-16T04:13:27,174   copying build/lib.linux-armv7l-cpython-311/vcf/utils.py -> build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:27,176   copying build/lib.linux-armv7l-cpython-311/vcf/filters.py -> build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:27,178   copying build/lib.linux-armv7l-cpython-311/vcf/parser.py -> build/bdist.linux-armv7l/wheel/vcf
2023-09-16T04:13:27,181   running install_egg_info
2023-09-16T04:13:27,212   Copying PyVCF3.egg-info to build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2-py3.11.egg-info
2023-09-16T04:13:27,224   running install_scripts
2023-09-16T04:13:27,225   creating build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2.data
2023-09-16T04:13:27,225   creating build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2.data/scripts
2023-09-16T04:13:27,226   copying build/scripts-3.11/vcf_melt -> build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2.data/scripts
2023-09-16T04:13:27,228   copying build/scripts-3.11/vcf_filter.py -> build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2.data/scripts
2023-09-16T04:13:27,231   copying build/scripts-3.11/vcf_sample_filter.py -> build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2.data/scripts
2023-09-16T04:13:27,232   changing mode of build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2.data/scripts/vcf_melt to 755
2023-09-16T04:13:27,233   changing mode of build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2.data/scripts/vcf_filter.py to 755
2023-09-16T04:13:27,233   changing mode of build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2.data/scripts/vcf_sample_filter.py to 755
2023-09-16T04:13:27,285   creating build/bdist.linux-armv7l/wheel/PyVCF3-1.0.2.dist-info/WHEEL
2023-09-16T04:13:27,287   creating '/tmp/pip-wheel-q2w23438/PyVCF3-1.0.2-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2023-09-16T04:13:27,291   adding 'PyVCF3-1.0.2.data/scripts/vcf_filter.py'
2023-09-16T04:13:27,292   adding 'PyVCF3-1.0.2.data/scripts/vcf_melt'
2023-09-16T04:13:27,293   adding 'PyVCF3-1.0.2.data/scripts/vcf_sample_filter.py'
2023-09-16T04:13:27,296   adding 'vcf/__init__.py'
2023-09-16T04:13:27,301   adding 'vcf/bgzf.py'
2023-09-16T04:13:27,445   adding 'vcf/cparse.cpython-311-arm-linux-gnueabihf.so'
2023-09-16T04:13:27,452   adding 'vcf/cparse.pyx'
2023-09-16T04:13:27,453   adding 'vcf/filters.py'
2023-09-16T04:13:27,457   adding 'vcf/model.py'
2023-09-16T04:13:27,461   adding 'vcf/parser.py'
2023-09-16T04:13:27,462   adding 'vcf/sample_filter.py'
2023-09-16T04:13:27,464   adding 'vcf/utils.py'
2023-09-16T04:13:27,469   adding 'vcf/test/1kg.sites.vcf'
2023-09-16T04:13:27,568   adding 'vcf/test/1kg.vcf.gz'
2023-09-16T04:13:27,576   adding 'vcf/test/FT.vcf'
2023-09-16T04:13:27,577   adding 'vcf/test/__init__.py'
2023-09-16T04:13:27,579   adding 'vcf/test/bad-info-character.vcf'
2023-09-16T04:13:27,586   adding 'vcf/test/bcftools.vcf'
2023-09-16T04:13:27,587   adding 'vcf/test/contig_idonly.vcf'
2023-09-16T04:13:27,588   adding 'vcf/test/example-4.0.vcf'
2023-09-16T04:13:27,590   adding 'vcf/test/example-4.1-bnd.vcf'
2023-09-16T04:13:27,591   adding 'vcf/test/example-4.1-info-multiple-values.vcf'
2023-09-16T04:13:27,592   adding 'vcf/test/example-4.1-ploidy.vcf'
2023-09-16T04:13:27,594   adding 'vcf/test/example-4.1-sv.vcf'
2023-09-16T04:13:27,595   adding 'vcf/test/example-4.1.vcf'
2023-09-16T04:13:27,598   adding 'vcf/test/example-4.2.vcf'
2023-09-16T04:13:27,613   adding 'vcf/test/freebayes.vcf'
2023-09-16T04:13:27,617   adding 'vcf/test/gatk.vcf'
2023-09-16T04:13:27,618   adding 'vcf/test/gatk_26_meta.vcf'
2023-09-16T04:13:27,620   adding 'vcf/test/gonl.chr20.release4.gtc.vcf'
2023-09-16T04:13:27,622   adding 'vcf/test/info-type-character.vcf'
2023-09-16T04:13:27,623   adding 'vcf/test/issue-140-file1.vcf'
2023-09-16T04:13:27,624   adding 'vcf/test/issue-140-file2.vcf'
2023-09-16T04:13:27,625   adding 'vcf/test/issue-140-file3.vcf'
2023-09-16T04:13:27,626   adding 'vcf/test/issue-16.vcf'
2023-09-16T04:13:27,628   adding 'vcf/test/issue-201.vcf.gz'
2023-09-16T04:13:27,629   adding 'vcf/test/issue-201.vcf.gz.tbi'
2023-09-16T04:13:27,630   adding 'vcf/test/issue-214.vcf'
2023-09-16T04:13:27,631   adding 'vcf/test/issue-254.vcf'
2023-09-16T04:13:27,633   adding 'vcf/test/issue_49.vcf'
2023-09-16T04:13:27,636   adding 'vcf/test/metadata-whitespace.vcf'
2023-09-16T04:13:27,638   adding 'vcf/test/mixed-filtering.vcf'
2023-09-16T04:13:27,639   adding 'vcf/test/null_genotype_mono.vcf'
2023-09-16T04:13:27,641   adding 'vcf/test/parse-meta-line.vcf'
2023-09-16T04:13:27,642   adding 'vcf/test/prof.py'
2023-09-16T04:13:27,643   adding 'vcf/test/samples-space.vcf'
2023-09-16T04:13:27,644   adding 'vcf/test/samtools.vcf'
2023-09-16T04:13:27,646   adding 'vcf/test/strelka.vcf'
2023-09-16T04:13:27,647   adding 'vcf/test/string_as_flag.vcf'
2023-09-16T04:13:27,648   adding 'vcf/test/tb.vcf.gz'
2023-09-16T04:13:27,649   adding 'vcf/test/tb.vcf.gz.tbi'
2023-09-16T04:13:27,654   adding 'vcf/test/test_vcf.py'
2023-09-16T04:13:27,656   adding 'vcf/test/uncalled_genotypes.vcf'
2023-09-16T04:13:27,657   adding 'vcf/test/walk_left.vcf'
2023-09-16T04:13:27,658   adding 'vcf/test/walk_refcall.vcf'
2023-09-16T04:13:27,659   adding 'PyVCF3-1.0.2.dist-info/LICENSE'
2023-09-16T04:13:27,660   adding 'PyVCF3-1.0.2.dist-info/METADATA'
2023-09-16T04:13:27,661   adding 'PyVCF3-1.0.2.dist-info/WHEEL'
2023-09-16T04:13:27,662   adding 'PyVCF3-1.0.2.dist-info/entry_points.txt'
2023-09-16T04:13:27,663   adding 'PyVCF3-1.0.2.dist-info/top_level.txt'
2023-09-16T04:13:27,664   adding 'PyVCF3-1.0.2.dist-info/RECORD'
2023-09-16T04:13:27,677   removing build/bdist.linux-armv7l/wheel
2023-09-16T04:13:27,944   Building wheel for pyvcf3 (setup.py): finished with status 'done'
2023-09-16T04:13:27,961   Created wheel for pyvcf3: filename=PyVCF3-1.0.2-cp311-cp311-linux_armv7l.whl size=1254293 sha256=b82181179fa7837fd8947bbeed0983199e20de7d0873355849d21e04bff7ee91
2023-09-16T04:13:27,962   Stored in directory: /tmp/pip-ephem-wheel-cache-ch_u4f9g/wheels/86/0d/7b/1196bab04885489d6138f8f0c3678fb86b3bd8b2ec66e44a57
2023-09-16T04:13:27,974 Successfully built pyvcf3
2023-09-16T04:13:28,018 Removed build tracker: '/tmp/pip-build-tracker-sjdlq1j0'