2020-12-14T18:47:36,866 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 Please upgrade your Python as Python 3.5 is no longer maintained.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.
2020-12-14T18:47:37,587 Created temporary directory: /tmp/pip-ephem-wheel-cache-lznm68fh
2020-12-14T18:47:37,592 Created temporary directory: /tmp/pip-req-tracker-7nrsvr9c
2020-12-14T18:47:37,593 Initialized build tracking at /tmp/pip-req-tracker-7nrsvr9c
2020-12-14T18:47:37,593 Created build tracker: /tmp/pip-req-tracker-7nrsvr9c
2020-12-14T18:47:37,594 Entered build tracker: /tmp/pip-req-tracker-7nrsvr9c
2020-12-14T18:47:37,595 Created temporary directory: /tmp/pip-wheel-342kywtq
2020-12-14T18:47:37,616 Looking in indexes: https://pypi.org/simple, https://pypi.ngc.nvidia.com
2020-12-14T18:47:37,619 2 location(s) to search for versions of novartis-pisces:
2020-12-14T18:47:37,619 * https://pypi.org/simple/novartis-pisces/
2020-12-14T18:47:37,619 * https://pypi.ngc.nvidia.com/novartis-pisces/
2020-12-14T18:47:37,619 Fetching project page and analyzing links: https://pypi.org/simple/novartis-pisces/
2020-12-14T18:47:37,622 Getting page https://pypi.org/simple/novartis-pisces/
2020-12-14T18:47:37,625 Found index url https://pypi.org/simple
2020-12-14T18:47:38,208   Found link https://files.pythonhosted.org/packages/7a/69/6e62653f167dfe6d2fa7f2f6527efa22825fecf80941f3190b20b8c0b972/novartis-pisces-0.1.1.tar.gz#sha256=b41fa61940d3517b258f8d1387453bd73814aad7e987ac21641a81dba5165460 (from https://pypi.org/simple/novartis-pisces/), version: 0.1.1
2020-12-14T18:47:38,210   Found link https://files.pythonhosted.org/packages/88/19/cdb5149b3ea5580bafffd7f6b2b18807bdd1cf364154be052bfb17b7a392/novartis-pisces-0.1.2.tar.gz#sha256=f334f331f7f9b29892fe2aa993e75b7d5fb372e7864fcc98c0e32c5b11225e00 (from https://pypi.org/simple/novartis-pisces/), version: 0.1.2
2020-12-14T18:47:38,211   Found link https://files.pythonhosted.org/packages/b6/72/9686797df03a1087913e92f359e09d7f35458b06c9503d27cbfce69959d6/novartis-pisces-0.1.3.tar.gz#sha256=4840853713bdf9cf9c9993c1e2b3cded285f50797868c6321bce2ef669c54ced (from https://pypi.org/simple/novartis-pisces/), version: 0.1.3
2020-12-14T18:47:38,212 Fetching project page and analyzing links: https://pypi.ngc.nvidia.com/novartis-pisces/
2020-12-14T18:47:38,213 Getting page https://pypi.ngc.nvidia.com/novartis-pisces/
2020-12-14T18:47:38,215 Found index url https://pypi.ngc.nvidia.com
2020-12-14T18:47:39,218 Could not fetch URL https://pypi.ngc.nvidia.com/novartis-pisces/: 404 Client Error: Not Found for url: https://developer.download.nvidia.com/compute/redist/novartis-pisces/ - skipping
2020-12-14T18:47:39,236 Given no hashes to check 1 links for project 'novartis-pisces': discarding no candidates
2020-12-14T18:47:39,239 Using version 0.1.3 (newest of versions: 0.1.3)
2020-12-14T18:47:39,248 Collecting novartis-pisces==0.1.3
2020-12-14T18:47:39,253   Created temporary directory: /tmp/pip-unpack-cpgvkvoy
2020-12-14T18:47:40,006   Downloading novartis-pisces-0.1.3.tar.gz (18.4 MB)
2020-12-14T18:47:48,670   Added novartis-pisces==0.1.3 from https://files.pythonhosted.org/packages/b6/72/9686797df03a1087913e92f359e09d7f35458b06c9503d27cbfce69959d6/novartis-pisces-0.1.3.tar.gz#sha256=4840853713bdf9cf9c9993c1e2b3cded285f50797868c6321bce2ef669c54ced to build tracker '/tmp/pip-req-tracker-7nrsvr9c'
2020-12-14T18:47:48,673     Running setup.py (path:/tmp/pip-wheel-342kywtq/novartis-pisces/setup.py) egg_info for package novartis-pisces
2020-12-14T18:47:48,674     Created temporary directory: /tmp/pip-pip-egg-info-ewcxqki1
2020-12-14T18:47:48,675     Running command python setup.py egg_info
2020-12-14T18:47:54,872     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.
2020-12-14T18:47:58,757     running egg_info
2020-12-14T18:47:58,763     creating /tmp/pip-pip-egg-info-ewcxqki1/novartis_pisces.egg-info
2020-12-14T18:47:58,767     writing entry points to /tmp/pip-pip-egg-info-ewcxqki1/novartis_pisces.egg-info/entry_points.txt
2020-12-14T18:47:58,770     writing requirements to /tmp/pip-pip-egg-info-ewcxqki1/novartis_pisces.egg-info/requires.txt
2020-12-14T18:47:58,772     writing /tmp/pip-pip-egg-info-ewcxqki1/novartis_pisces.egg-info/PKG-INFO
2020-12-14T18:47:58,777     writing dependency_links to /tmp/pip-pip-egg-info-ewcxqki1/novartis_pisces.egg-info/dependency_links.txt
2020-12-14T18:47:58,779     writing top-level names to /tmp/pip-pip-egg-info-ewcxqki1/novartis_pisces.egg-info/top_level.txt
2020-12-14T18:47:58,783     writing manifest file '/tmp/pip-pip-egg-info-ewcxqki1/novartis_pisces.egg-info/SOURCES.txt'
2020-12-14T18:47:59,208     reading manifest file '/tmp/pip-pip-egg-info-ewcxqki1/novartis_pisces.egg-info/SOURCES.txt'
2020-12-14T18:47:59,214     reading manifest template 'MANIFEST.in'
2020-12-14T18:47:59,240     writing manifest file '/tmp/pip-pip-egg-info-ewcxqki1/novartis_pisces.egg-info/SOURCES.txt'
2020-12-14T18:47:59,409   Source in /tmp/pip-wheel-342kywtq/novartis-pisces has version 0.1.3, which satisfies requirement novartis-pisces==0.1.3 from https://files.pythonhosted.org/packages/b6/72/9686797df03a1087913e92f359e09d7f35458b06c9503d27cbfce69959d6/novartis-pisces-0.1.3.tar.gz#sha256=4840853713bdf9cf9c9993c1e2b3cded285f50797868c6321bce2ef669c54ced
2020-12-14T18:47:59,411   Removed novartis-pisces==0.1.3 from https://files.pythonhosted.org/packages/b6/72/9686797df03a1087913e92f359e09d7f35458b06c9503d27cbfce69959d6/novartis-pisces-0.1.3.tar.gz#sha256=4840853713bdf9cf9c9993c1e2b3cded285f50797868c6321bce2ef669c54ced from build tracker '/tmp/pip-req-tracker-7nrsvr9c'
2020-12-14T18:47:59,415 Building wheels for collected packages: novartis-pisces
2020-12-14T18:47:59,424   Created temporary directory: /tmp/pip-wheel-4z4qjzn3
2020-12-14T18:47:59,425   Building wheel for novartis-pisces (setup.py): started
2020-12-14T18:47:59,426   Destination directory: /tmp/pip-wheel-4z4qjzn3
2020-12-14T18:47:59,426   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-342kywtq/novartis-pisces/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-342kywtq/novartis-pisces/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-4z4qjzn3
2020-12-14T18:48:02,884   running bdist_wheel
2020-12-14T18:48:02,892   running build
2020-12-14T18:48:02,893   running build_py
2020-12-14T18:48:03,209   creating build
2020-12-14T18:48:03,210   creating build/lib
2020-12-14T18:48:03,211   creating build/lib/pisces
2020-12-14T18:48:03,214   copying pisces/cli.py -> build/lib/pisces
2020-12-14T18:48:03,219   copying pisces/qc.py -> build/lib/pisces
2020-12-14T18:48:03,224   copying pisces/run.py -> build/lib/pisces
2020-12-14T18:48:03,228   copying pisces/submit.py -> build/lib/pisces
2020-12-14T18:48:03,235   copying pisces/index.py -> build/lib/pisces
2020-12-14T18:48:03,243   copying pisces/__init__.py -> build/lib/pisces
2020-12-14T18:48:03,249   copying pisces/fastq.py -> build/lib/pisces
2020-12-14T18:48:03,255   running egg_info
2020-12-14T18:48:03,270   writing dependency_links to novartis_pisces.egg-info/dependency_links.txt
2020-12-14T18:48:03,275   writing requirements to novartis_pisces.egg-info/requires.txt
2020-12-14T18:48:03,279   writing novartis_pisces.egg-info/PKG-INFO
2020-12-14T18:48:03,283   writing top-level names to novartis_pisces.egg-info/top_level.txt
2020-12-14T18:48:03,285   writing entry points to novartis_pisces.egg-info/entry_points.txt
2020-12-14T18:48:03,334   reading manifest file 'novartis_pisces.egg-info/SOURCES.txt'
2020-12-14T18:48:03,370   reading manifest template 'MANIFEST.in'
2020-12-14T18:48:03,398   writing manifest file 'novartis_pisces.egg-info/SOURCES.txt'
2020-12-14T18:48:03,409   copying pisces/.DS_Store -> build/lib/pisces
2020-12-14T18:48:03,415   copying pisces/config.json -> build/lib/pisces
2020-12-14T18:48:03,420   creating build/lib/pisces/R
2020-12-14T18:48:03,422   copying pisces/R/.DS_Store -> build/lib/pisces/R
2020-12-14T18:48:03,428   copying pisces/R/.Rprofile -> build/lib/pisces/R
2020-12-14T18:48:03,433   copying pisces/R/.gitignore -> build/lib/pisces/R
2020-12-14T18:48:03,441   copying pisces/R/make_expression_matrix.R -> build/lib/pisces/R
2020-12-14T18:48:03,451   copying pisces/R/set_up_dependencies.R -> build/lib/pisces/R
2020-12-14T18:48:03,457   creating build/lib/pisces/R/renv
2020-12-14T18:48:03,460   copying pisces/R/renv/activate.R -> build/lib/pisces/R/renv
2020-12-14T18:48:03,466   creating build/lib/pisces/data
2020-12-14T18:48:03,468   copying pisces/data/fp_kmers.txt -> build/lib/pisces/data
2020-12-14T18:48:03,477   copying pisces/data/fp_kmers_col1.txt -> build/lib/pisces/data
2020-12-14T18:48:03,487   creating build/lib/pisces/scripts
2020-12-14T18:48:03,490   copying pisces/scripts/.DS_Store -> build/lib/pisces/scripts
2020-12-14T18:48:03,498   copying pisces/scripts/create_sample_sets_stripped.py -> build/lib/pisces/scripts
2020-12-14T18:48:03,507   copying pisces/scripts/kmer_counts_to_fingerprint_strand_and_pcthuman.py -> build/lib/pisces/scripts
2020-12-14T18:48:03,515   creating build/lib/pisces/tests
2020-12-14T18:48:03,517   copying pisces/tests/test_cli.py -> build/lib/pisces/tests
2020-12-14T18:48:03,529   installing to build/bdist.linux-armv7l/wheel
2020-12-14T18:48:03,530   running install
2020-12-14T18:48:03,534   running install_lib
2020-12-14T18:48:03,546   creating build/bdist.linux-armv7l
2020-12-14T18:48:03,547   creating build/bdist.linux-armv7l/wheel
2020-12-14T18:48:03,551   creating build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,553   copying build/lib/pisces/config.json -> build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,557   copying build/lib/pisces/cli.py -> build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,565   creating build/bdist.linux-armv7l/wheel/pisces/scripts
2020-12-14T18:48:03,567   copying build/lib/pisces/scripts/.DS_Store -> build/bdist.linux-armv7l/wheel/pisces/scripts
2020-12-14T18:48:03,574   copying build/lib/pisces/scripts/create_sample_sets_stripped.py -> build/bdist.linux-armv7l/wheel/pisces/scripts
2020-12-14T18:48:03,583   copying build/lib/pisces/scripts/kmer_counts_to_fingerprint_strand_and_pcthuman.py -> build/bdist.linux-armv7l/wheel/pisces/scripts
2020-12-14T18:48:03,590   copying build/lib/pisces/.DS_Store -> build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,599   creating build/bdist.linux-armv7l/wheel/pisces/R
2020-12-14T18:48:03,601   copying build/lib/pisces/R/.Rprofile -> build/bdist.linux-armv7l/wheel/pisces/R
2020-12-14T18:48:03,607   copying build/lib/pisces/R/make_expression_matrix.R -> build/bdist.linux-armv7l/wheel/pisces/R
2020-12-14T18:48:03,617   creating build/bdist.linux-armv7l/wheel/pisces/R/renv
2020-12-14T18:48:03,619   copying build/lib/pisces/R/renv/activate.R -> build/bdist.linux-armv7l/wheel/pisces/R/renv
2020-12-14T18:48:03,627   copying build/lib/pisces/R/.DS_Store -> build/bdist.linux-armv7l/wheel/pisces/R
2020-12-14T18:48:03,634   copying build/lib/pisces/R/.gitignore -> build/bdist.linux-armv7l/wheel/pisces/R
2020-12-14T18:48:03,639   copying build/lib/pisces/R/set_up_dependencies.R -> build/bdist.linux-armv7l/wheel/pisces/R
2020-12-14T18:48:03,646   creating build/bdist.linux-armv7l/wheel/pisces/tests
2020-12-14T18:48:03,649   copying build/lib/pisces/tests/test_cli.py -> build/bdist.linux-armv7l/wheel/pisces/tests
2020-12-14T18:48:03,656   creating build/bdist.linux-armv7l/wheel/pisces/data
2020-12-14T18:48:03,658   copying build/lib/pisces/data/fp_kmers.txt -> build/bdist.linux-armv7l/wheel/pisces/data
2020-12-14T18:48:03,668   copying build/lib/pisces/data/fp_kmers_col1.txt -> build/bdist.linux-armv7l/wheel/pisces/data
2020-12-14T18:48:03,676   copying build/lib/pisces/qc.py -> build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,683   copying build/lib/pisces/run.py -> build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,690   copying build/lib/pisces/submit.py -> build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,697   copying build/lib/pisces/index.py -> build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,705   copying build/lib/pisces/__init__.py -> build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,713   copying build/lib/pisces/fastq.py -> build/bdist.linux-armv7l/wheel/pisces
2020-12-14T18:48:03,719   running install_egg_info
2020-12-14T18:48:03,727   Copying novartis_pisces.egg-info to build/bdist.linux-armv7l/wheel/novartis_pisces-0.1.3-py3.5.egg-info
2020-12-14T18:48:03,757   running install_scripts
2020-12-14T18:48:04,708   Installing salmon
2020-12-14T18:48:14,071   creating build/bdist.linux-armv7l/wheel/novartis_pisces-0.1.3.dist-info/WHEEL
2020-12-14T18:48:14,445   Building wheel for novartis-pisces (setup.py): finished with status 'done'
2020-12-14T18:48:14,450   Created wheel for novartis-pisces: filename=novartis_pisces-0.1.3-py3-none-any.whl size=59088 sha256=0022b6d3eb89c050d399a54f590cce7fd6b6ec8a6a2288d8d261e0e5cbefc8f4
2020-12-14T18:48:14,451   Stored in directory: /tmp/pip-ephem-wheel-cache-lznm68fh/wheels/89/cc/44/83750bbe3777300c9e252d5a7b23f1f8dcd55058824c12d861
2020-12-14T18:48:14,455 Successfully built novartis-pisces
2020-12-14T18:48:14,472 Removed build tracker: '/tmp/pip-req-tracker-7nrsvr9c'