2020-09-24T01:20:13,684 DEPRECATION: Python 3.5 reached the end of its life on September 13th, 2020. Please upgrade your Python as Python 3.5 is no longer maintained. pip 21.0 will drop support for Python 3.5 in January 2021. pip 21.0 will remove support for this functionality.
2020-09-24T01:20:14,390 Created temporary directory: /tmp/pip-ephem-wheel-cache-5aeoh6ym
2020-09-24T01:20:14,397 Created temporary directory: /tmp/pip-req-tracker-38frg8zp
2020-09-24T01:20:14,398 Initialized build tracking at /tmp/pip-req-tracker-38frg8zp
2020-09-24T01:20:14,398 Created build tracker: /tmp/pip-req-tracker-38frg8zp
2020-09-24T01:20:14,399 Entered build tracker: /tmp/pip-req-tracker-38frg8zp
2020-09-24T01:20:14,400 Created temporary directory: /tmp/pip-wheel-muviqrzj
2020-09-24T01:20:14,419 Looking in indexes: https://pypi.org/simple, https://pypi.ngc.nvidia.com
2020-09-24T01:20:14,422 2 location(s) to search for versions of ilus:
2020-09-24T01:20:14,422 * https://pypi.org/simple/ilus/
2020-09-24T01:20:14,422 * https://pypi.ngc.nvidia.com/ilus/
2020-09-24T01:20:14,422 Fetching project page and analyzing links: https://pypi.org/simple/ilus/
2020-09-24T01:20:14,424 Getting page https://pypi.org/simple/ilus/
2020-09-24T01:20:14,429 Found index url https://pypi.org/simple
2020-09-24T01:20:14,746   Found link https://files.pythonhosted.org/packages/8e/55/649bd50aabb4f4b880b612986acaa44a19b692302b7a5a922def75599f5c/ilus-0.1.0.tar.gz#sha256=767a37912251f975aa58152f257c6e58fcc3e7a3bda060c85cda4f26b10a827f (from https://pypi.org/simple/ilus/), version: 0.1.0
2020-09-24T01:20:14,748   Found link https://files.pythonhosted.org/packages/64/d1/c750f25d5de6a9fc5a603feed5c7059c5c7f1aa6809fa9c58e1381be2ca2/ilus-1.0.0.tar.gz#sha256=bdb974377abaecf6074d1992de8f925bc67d95f4fdd0bf7aa47b23187f661ced (from https://pypi.org/simple/ilus/), version: 1.0.0
2020-09-24T01:20:14,749   Found link https://files.pythonhosted.org/packages/c8/bf/3716a026b6ebcb7028105356ac7922739ab7872a63eb43f7dfd886c5c5db/ilus-1.0.1.tar.gz#sha256=3fb04424d0f6cd75ad0dc7ffbbd8fead26054fc6c8bd04b8e90fc9799f23ce21 (from https://pypi.org/simple/ilus/), version: 1.0.1
2020-09-24T01:20:14,750 Fetching project page and analyzing links: https://pypi.ngc.nvidia.com/ilus/
2020-09-24T01:20:14,750 Getting page https://pypi.ngc.nvidia.com/ilus/
2020-09-24T01:20:14,753 Found index url https://pypi.ngc.nvidia.com
2020-09-24T01:20:15,826 Could not fetch URL https://pypi.ngc.nvidia.com/ilus/: 404 Client Error: Not Found for url: https://developer.download.nvidia.com/compute/redist/ilus/ - skipping
2020-09-24T01:20:15,845 Given no hashes to check 1 links for project 'ilus': discarding no candidates
2020-09-24T01:20:15,848 Using version 1.0.1 (newest of versions: 1.0.1)
2020-09-24T01:20:15,857 Collecting ilus==1.0.1
2020-09-24T01:20:15,863   Created temporary directory: /tmp/pip-unpack-vtsf9ne3
2020-09-24T01:20:16,084   Downloading ilus-1.0.1.tar.gz (12 kB)
2020-09-24T01:20:16,277   Added ilus==1.0.1 from https://files.pythonhosted.org/packages/c8/bf/3716a026b6ebcb7028105356ac7922739ab7872a63eb43f7dfd886c5c5db/ilus-1.0.1.tar.gz#sha256=3fb04424d0f6cd75ad0dc7ffbbd8fead26054fc6c8bd04b8e90fc9799f23ce21 to build tracker '/tmp/pip-req-tracker-38frg8zp'
2020-09-24T01:20:16,280     Running setup.py (path:/tmp/pip-wheel-muviqrzj/ilus/setup.py) egg_info for package ilus
2020-09-24T01:20:16,282     Created temporary directory: /tmp/pip-pip-egg-info-aj8pqu3f
2020-09-24T01:20:16,283     Running command python setup.py egg_info
2020-09-24T01:20:18,396     running egg_info
2020-09-24T01:20:18,402     creating /tmp/pip-pip-egg-info-aj8pqu3f/ilus.egg-info
2020-09-24T01:20:18,405     writing dependency_links to /tmp/pip-pip-egg-info-aj8pqu3f/ilus.egg-info/dependency_links.txt
2020-09-24T01:20:18,408     writing /tmp/pip-pip-egg-info-aj8pqu3f/ilus.egg-info/PKG-INFO
2020-09-24T01:20:18,413     writing top-level names to /tmp/pip-pip-egg-info-aj8pqu3f/ilus.egg-info/top_level.txt
2020-09-24T01:20:18,416     writing requirements to /tmp/pip-pip-egg-info-aj8pqu3f/ilus.egg-info/requires.txt
2020-09-24T01:20:18,418     writing entry points to /tmp/pip-pip-egg-info-aj8pqu3f/ilus.egg-info/entry_points.txt
2020-09-24T01:20:18,422     writing manifest file '/tmp/pip-pip-egg-info-aj8pqu3f/ilus.egg-info/SOURCES.txt'
2020-09-24T01:20:18,785     reading manifest file '/tmp/pip-pip-egg-info-aj8pqu3f/ilus.egg-info/SOURCES.txt'
2020-09-24T01:20:18,793     writing manifest file '/tmp/pip-pip-egg-info-aj8pqu3f/ilus.egg-info/SOURCES.txt'
2020-09-24T01:20:18,927   Source in /tmp/pip-wheel-muviqrzj/ilus has version 1.0.1, which satisfies requirement ilus==1.0.1 from https://files.pythonhosted.org/packages/c8/bf/3716a026b6ebcb7028105356ac7922739ab7872a63eb43f7dfd886c5c5db/ilus-1.0.1.tar.gz#sha256=3fb04424d0f6cd75ad0dc7ffbbd8fead26054fc6c8bd04b8e90fc9799f23ce21
2020-09-24T01:20:18,929   Removed ilus==1.0.1 from https://files.pythonhosted.org/packages/c8/bf/3716a026b6ebcb7028105356ac7922739ab7872a63eb43f7dfd886c5c5db/ilus-1.0.1.tar.gz#sha256=3fb04424d0f6cd75ad0dc7ffbbd8fead26054fc6c8bd04b8e90fc9799f23ce21 from build tracker '/tmp/pip-req-tracker-38frg8zp'
2020-09-24T01:20:18,934 Building wheels for collected packages: ilus
2020-09-24T01:20:18,944   Created temporary directory: /tmp/pip-wheel-qdct8vex
2020-09-24T01:20:18,945   Building wheel for ilus (setup.py): started
2020-09-24T01:20:18,945   Destination directory: /tmp/pip-wheel-qdct8vex
2020-09-24T01:20:18,946   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-muviqrzj/ilus/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-muviqrzj/ilus/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-qdct8vex
2020-09-24T01:20:21,127   running bdist_wheel
2020-09-24T01:20:21,144   running build
2020-09-24T01:20:21,145   running build_py
2020-09-24T01:20:21,490   creating build
2020-09-24T01:20:21,492   creating build/lib
2020-09-24T01:20:21,494   creating build/lib/ilus
2020-09-24T01:20:21,498   copying ilus/utils.py -> build/lib/ilus
2020-09-24T01:20:21,504   copying ilus/main.py -> build/lib/ilus
2020-09-24T01:20:21,510   copying ilus/__init__.py -> build/lib/ilus
2020-09-24T01:20:21,516   creating build/lib/ilus/pipeline
2020-09-24T01:20:21,519   copying ilus/pipeline/__init__.py -> build/lib/ilus/pipeline
2020-09-24T01:20:21,526   copying ilus/pipeline/wgs.py -> build/lib/ilus/pipeline
2020-09-24T01:20:21,537   creating build/lib/ilus/modules
2020-09-24T01:20:21,540   copying ilus/modules/__init__.py -> build/lib/ilus/modules
2020-09-24T01:20:21,547   creating build/lib/ilus/launch
2020-09-24T01:20:21,550   copying ilus/launch/runfunction.py -> build/lib/ilus/launch
2020-09-24T01:20:21,557   copying ilus/launch/__init__.py -> build/lib/ilus/launch
2020-09-24T01:20:21,563   creating build/lib/ilus/modules/summary
2020-09-24T01:20:21,566   copying ilus/modules/summary/bam.py -> build/lib/ilus/modules/summary
2020-09-24T01:20:21,571   copying ilus/modules/summary/__init__.py -> build/lib/ilus/modules/summary
2020-09-24T01:20:21,577   creating build/lib/ilus/modules/variants
2020-09-24T01:20:21,580   copying ilus/modules/variants/__init__.py -> build/lib/ilus/modules/variants
2020-09-24T01:20:21,585   copying ilus/modules/variants/gatk.py -> build/lib/ilus/modules/variants
2020-09-24T01:20:21,593   creating build/lib/ilus/modules/vcf
2020-09-24T01:20:21,596   copying ilus/modules/vcf/bcftools.py -> build/lib/ilus/modules/vcf
2020-09-24T01:20:21,603   copying ilus/modules/vcf/__init__.py -> build/lib/ilus/modules/vcf
2020-09-24T01:20:21,610   creating build/lib/ilus/modules/ngsaligner
2020-09-24T01:20:21,613   copying ilus/modules/ngsaligner/bwa.py -> build/lib/ilus/modules/ngsaligner
2020-09-24T01:20:21,619   copying ilus/modules/ngsaligner/__init__.py -> build/lib/ilus/modules/ngsaligner
2020-09-24T01:20:21,622   running egg_info
2020-09-24T01:20:21,651   writing entry points to ilus.egg-info/entry_points.txt
2020-09-24T01:20:21,653   writing dependency_links to ilus.egg-info/dependency_links.txt
2020-09-24T01:20:21,656   writing ilus.egg-info/PKG-INFO
2020-09-24T01:20:21,661   writing requirements to ilus.egg-info/requires.txt
2020-09-24T01:20:21,664   writing top-level names to ilus.egg-info/top_level.txt
2020-09-24T01:20:21,680   reading manifest file 'ilus.egg-info/SOURCES.txt'
2020-09-24T01:20:21,691   writing manifest file 'ilus.egg-info/SOURCES.txt'
2020-09-24T01:20:21,710   installing to build/bdist.linux-armv7l/wheel
2020-09-24T01:20:21,711   running install
2020-09-24T01:20:21,713   running install_lib
2020-09-24T01:20:21,721   creating build/bdist.linux-armv7l
2020-09-24T01:20:21,722   creating build/bdist.linux-armv7l/wheel
2020-09-24T01:20:21,726   creating build/bdist.linux-armv7l/wheel/ilus
2020-09-24T01:20:21,728   copying build/lib/ilus/utils.py -> build/bdist.linux-armv7l/wheel/ilus
2020-09-24T01:20:21,733   copying build/lib/ilus/main.py -> build/bdist.linux-armv7l/wheel/ilus
2020-09-24T01:20:21,740   creating build/bdist.linux-armv7l/wheel/ilus/pipeline
2020-09-24T01:20:21,742   copying build/lib/ilus/pipeline/__init__.py -> build/bdist.linux-armv7l/wheel/ilus/pipeline
2020-09-24T01:20:21,746   copying build/lib/ilus/pipeline/wgs.py -> build/bdist.linux-armv7l/wheel/ilus/pipeline
2020-09-24T01:20:21,755   creating build/bdist.linux-armv7l/wheel/ilus/modules
2020-09-24T01:20:21,759   creating build/bdist.linux-armv7l/wheel/ilus/modules/summary
2020-09-24T01:20:21,762   copying build/lib/ilus/modules/summary/bam.py -> build/bdist.linux-armv7l/wheel/ilus/modules/summary
2020-09-24T01:20:21,769   copying build/lib/ilus/modules/summary/__init__.py -> build/bdist.linux-armv7l/wheel/ilus/modules/summary
2020-09-24T01:20:21,775   creating build/bdist.linux-armv7l/wheel/ilus/modules/variants
2020-09-24T01:20:21,778   copying build/lib/ilus/modules/variants/__init__.py -> build/bdist.linux-armv7l/wheel/ilus/modules/variants
2020-09-24T01:20:21,784   copying build/lib/ilus/modules/variants/gatk.py -> build/bdist.linux-armv7l/wheel/ilus/modules/variants
2020-09-24T01:20:21,793   creating build/bdist.linux-armv7l/wheel/ilus/modules/vcf
2020-09-24T01:20:21,796   copying build/lib/ilus/modules/vcf/bcftools.py -> build/bdist.linux-armv7l/wheel/ilus/modules/vcf
2020-09-24T01:20:21,803   copying build/lib/ilus/modules/vcf/__init__.py -> build/bdist.linux-armv7l/wheel/ilus/modules/vcf
2020-09-24T01:20:21,809   creating build/bdist.linux-armv7l/wheel/ilus/modules/ngsaligner
2020-09-24T01:20:21,812   copying build/lib/ilus/modules/ngsaligner/bwa.py -> build/bdist.linux-armv7l/wheel/ilus/modules/ngsaligner
2020-09-24T01:20:21,818   copying build/lib/ilus/modules/ngsaligner/__init__.py -> build/bdist.linux-armv7l/wheel/ilus/modules/ngsaligner
2020-09-24T01:20:21,823   copying build/lib/ilus/modules/__init__.py -> build/bdist.linux-armv7l/wheel/ilus/modules
2020-09-24T01:20:21,829   creating build/bdist.linux-armv7l/wheel/ilus/launch
2020-09-24T01:20:21,832   copying build/lib/ilus/launch/runfunction.py -> build/bdist.linux-armv7l/wheel/ilus/launch
2020-09-24T01:20:21,841   copying build/lib/ilus/launch/__init__.py -> build/bdist.linux-armv7l/wheel/ilus/launch
2020-09-24T01:20:21,846   copying build/lib/ilus/__init__.py -> build/bdist.linux-armv7l/wheel/ilus
2020-09-24T01:20:21,850   running install_egg_info
2020-09-24T01:20:21,875   Copying ilus.egg-info to build/bdist.linux-armv7l/wheel/ilus-1.0.1-py3.5.egg-info
2020-09-24T01:20:21,905   running install_scripts
2020-09-24T01:20:22,100   creating build/bdist.linux-armv7l/wheel/ilus-1.0.1.dist-info/WHEEL
2020-09-24T01:20:22,396   Building wheel for ilus (setup.py): finished with status 'done'
2020-09-24T01:20:22,400   Created wheel for ilus: filename=ilus-1.0.1-py3-none-any.whl size=16756 sha256=b1787a95b35aa0f798fa13b7407a034445b46252d3453354d569d03a9bd458ce
2020-09-24T01:20:22,401   Stored in directory: /tmp/pip-ephem-wheel-cache-5aeoh6ym/wheels/5f/ef/3c/d9a0c3392b420b8be96a1e2110e0314eb00cb979885d241c94
2020-09-24T01:20:22,405 Successfully built ilus
2020-09-24T01:20:22,415 Removed build tracker: '/tmp/pip-req-tracker-38frg8zp'