2020-09-12T04:40:54,928 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 Please upgrade your Python as Python 3.5 is no longer maintained.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.
2020-09-12T04:40:55,595 Created temporary directory: /tmp/pip-ephem-wheel-cache-91tksb8i
2020-09-12T04:40:55,600 Created temporary directory: /tmp/pip-req-tracker-04370xep
2020-09-12T04:40:55,601 Initialized build tracking at /tmp/pip-req-tracker-04370xep
2020-09-12T04:40:55,601 Created build tracker: /tmp/pip-req-tracker-04370xep
2020-09-12T04:40:55,602 Entered build tracker: /tmp/pip-req-tracker-04370xep
2020-09-12T04:40:55,603 Created temporary directory: /tmp/pip-wheel-rezw9fp7
2020-09-12T04:40:55,620 1 location(s) to search for versions of oncodrivefml:
2020-09-12T04:40:55,620 * https://pypi.org/simple/oncodrivefml/
2020-09-12T04:40:55,621 Fetching project page and analyzing links: https://pypi.org/simple/oncodrivefml/
2020-09-12T04:40:55,623 Getting page https://pypi.org/simple/oncodrivefml/
2020-09-12T04:40:55,627 Found index url https://pypi.org/simple
2020-09-12T04:40:55,946   Found link https://files.pythonhosted.org/packages/db/67/1739dcef8c63626fda8b6a772cd8d82710adcf4e7a6dbb3185acb54af065/oncodrivefml-1.0.1.tar.gz#sha256=85568115bfa2ae7d1b77cd046fbcf97cd7fc26e3820611dff782ed96ef305161 (from https://pypi.org/simple/oncodrivefml/), version: 1.0.1
2020-09-12T04:40:55,948   Found link https://files.pythonhosted.org/packages/4c/5d/8770a0cf7425743d3b67ea91207dfc619f7a0826df1f82aac907388a9709/oncodrivefml-2.0.1.tar.gz#sha256=02cf92cea9d9bc0b7cdc8a2365a16d3d11b8dc829193bd31254831616064d5a9 (from https://pypi.org/simple/oncodrivefml/), version: 2.0.1
2020-09-12T04:40:55,949   Found link https://files.pythonhosted.org/packages/37/ec/1b093916cb9c9ba337fa9ae09a5d828e797f40e41050d1cbb59cf6eecdae/oncodrivefml-2.0.2.tar.gz#sha256=7b7ba10f48efeafe259627f2f1d0400189e23c3ef805c306679d014b6eac411f (from https://pypi.org/simple/oncodrivefml/), version: 2.0.2
2020-09-12T04:40:55,950   Found link https://files.pythonhosted.org/packages/ba/c9/edbcf5450123b824ca838b5c72d4a799fe87800a2f425eddd816f3460596/oncodrivefml-2.0.3.tar.gz#sha256=b2c1571bc9ae0d0cf17c725479a5197f2ea227a5fdc700d9576264d50e6f23f0 (from https://pypi.org/simple/oncodrivefml/), version: 2.0.3
2020-09-12T04:40:55,951   Found link https://files.pythonhosted.org/packages/ba/68/07a64ac621ccc248d4c8d2757cfb15c847ee2bc4e061a74b0e669698ba93/oncodrivefml-2.1.2.tar.gz#sha256=198b891604b2ff000fc973a779a89648957599ecdcccaefbacf9225f575c988a (from https://pypi.org/simple/oncodrivefml/), version: 2.1.2
2020-09-12T04:40:55,952   Found link https://files.pythonhosted.org/packages/68/6c/c86613b66f24ab8ff575c270865e9bf6fdd167bc52570c42a0114c72f65e/oncodrivefml-2.1.3.tar.gz#sha256=beba29277206e276b8d5face41e0b916c4b2089ef7a6bb707f0983b7eb2cf0a1 (from https://pypi.org/simple/oncodrivefml/), version: 2.1.3
2020-09-12T04:40:55,952   Found link https://files.pythonhosted.org/packages/27/6c/5b59d3c305a25b56ec31627ba1c5fbbebe98525ffd68a242b20d448e92b6/oncodrivefml-2.2.0.tar.gz#sha256=62c63c09424e4992c3d501b81a62fa496ae96ceae5f5358636f414d2eb55ac3f (from https://pypi.org/simple/oncodrivefml/), version: 2.2.0
2020-09-12T04:40:55,953   Found link https://files.pythonhosted.org/packages/05/ae/a3359962a4ff891c830429f227d49514374de04b06435fc4b9bd7f68620b/oncodrivefml-2.3.0.tar.gz#sha256=9ef35231696a9b01867d3b89a94b9d93d16b75357497dd17544a1670b44449f9 (from https://pypi.org/simple/oncodrivefml/), version: 2.3.0
2020-09-12T04:40:55,965 Given no hashes to check 1 links for project 'oncodrivefml': discarding no candidates
2020-09-12T04:40:55,967 Using version 2.3.0 (newest of versions: 2.3.0)
2020-09-12T04:40:55,975 Collecting oncodrivefml==2.3.0
2020-09-12T04:40:55,980   Created temporary directory: /tmp/pip-unpack-_e7g9xnk
2020-09-12T04:40:56,229   Downloading oncodrivefml-2.3.0.tar.gz (607 kB)
2020-09-12T04:40:56,696   Added oncodrivefml==2.3.0 from https://files.pythonhosted.org/packages/05/ae/a3359962a4ff891c830429f227d49514374de04b06435fc4b9bd7f68620b/oncodrivefml-2.3.0.tar.gz#sha256=9ef35231696a9b01867d3b89a94b9d93d16b75357497dd17544a1670b44449f9 to build tracker '/tmp/pip-req-tracker-04370xep'
2020-09-12T04:40:56,698     Running setup.py (path:/tmp/pip-wheel-rezw9fp7/oncodrivefml/setup.py) egg_info for package oncodrivefml
2020-09-12T04:40:56,700     Created temporary directory: /tmp/pip-pip-egg-info-gt5ea0fp
2020-09-12T04:40:56,701     Running command python setup.py egg_info
2020-09-12T04:40:58,931     running egg_info
2020-09-12T04:40:58,938     creating /tmp/pip-pip-egg-info-gt5ea0fp/oncodrivefml.egg-info
2020-09-12T04:40:58,940     writing dependency_links to /tmp/pip-pip-egg-info-gt5ea0fp/oncodrivefml.egg-info/dependency_links.txt
2020-09-12T04:40:58,943     writing /tmp/pip-pip-egg-info-gt5ea0fp/oncodrivefml.egg-info/PKG-INFO
2020-09-12T04:40:58,948     writing entry points to /tmp/pip-pip-egg-info-gt5ea0fp/oncodrivefml.egg-info/entry_points.txt
2020-09-12T04:40:58,950     writing requirements to /tmp/pip-pip-egg-info-gt5ea0fp/oncodrivefml.egg-info/requires.txt
2020-09-12T04:40:58,954     writing top-level names to /tmp/pip-pip-egg-info-gt5ea0fp/oncodrivefml.egg-info/top_level.txt
2020-09-12T04:40:58,959     writing manifest file '/tmp/pip-pip-egg-info-gt5ea0fp/oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T04:40:59,822     reading manifest file '/tmp/pip-pip-egg-info-gt5ea0fp/oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T04:40:59,826     reading manifest template 'MANIFEST.in'
2020-09-12T04:40:59,829     warning: no previously-included files matching '*.c' found anywhere in distribution
2020-09-12T04:40:59,830     warning: no previously-included files matching '*.so' found anywhere in distribution
2020-09-12T04:40:59,837     writing manifest file '/tmp/pip-pip-egg-info-gt5ea0fp/oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T04:40:59,997   Source in /tmp/pip-wheel-rezw9fp7/oncodrivefml has version 2.3.0, which satisfies requirement oncodrivefml==2.3.0 from https://files.pythonhosted.org/packages/05/ae/a3359962a4ff891c830429f227d49514374de04b06435fc4b9bd7f68620b/oncodrivefml-2.3.0.tar.gz#sha256=9ef35231696a9b01867d3b89a94b9d93d16b75357497dd17544a1670b44449f9
2020-09-12T04:40:59,999   Removed oncodrivefml==2.3.0 from https://files.pythonhosted.org/packages/05/ae/a3359962a4ff891c830429f227d49514374de04b06435fc4b9bd7f68620b/oncodrivefml-2.3.0.tar.gz#sha256=9ef35231696a9b01867d3b89a94b9d93d16b75357497dd17544a1670b44449f9 from build tracker '/tmp/pip-req-tracker-04370xep'
2020-09-12T04:41:00,003 Building wheels for collected packages: oncodrivefml
2020-09-12T04:41:00,042   Created temporary directory: /tmp/pip-wheel-ha8oj1l_
2020-09-12T04:41:00,043   Building wheel for oncodrivefml (setup.py): started
2020-09-12T04:41:00,045   Destination directory: /tmp/pip-wheel-ha8oj1l_
2020-09-12T04:41:00,046   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-rezw9fp7/oncodrivefml/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-rezw9fp7/oncodrivefml/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-ha8oj1l_
2020-09-12T04:41:02,397   running bdist_wheel
2020-09-12T04:41:02,413   running build
2020-09-12T04:41:02,414   running build_py
2020-09-12T04:41:02,754   creating build
2020-09-12T04:41:02,755   creating build/lib.linux-armv7l-3.5
2020-09-12T04:41:02,757   creating build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,760   copying oncodrivefml/stats.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,765   copying oncodrivefml/error.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,769   copying oncodrivefml/store.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,776   copying oncodrivefml/utils.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,780   copying oncodrivefml/signature.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,785   copying oncodrivefml/main.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,790   copying oncodrivefml/walker.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,796   copying oncodrivefml/reference.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,801   copying oncodrivefml/mtc.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,807   copying oncodrivefml/config.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,813   copying oncodrivefml/oncodrivefml.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,820   copying oncodrivefml/compute.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,826   copying oncodrivefml/__init__.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,835   copying oncodrivefml/indels.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,842   copying oncodrivefml/load.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,849   copying oncodrivefml/scores.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,862   creating build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T04:41:02,865   copying oncodrivefml/executors/element.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T04:41:02,872   copying oncodrivefml/executors/sig2probs.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T04:41:02,878   copying oncodrivefml/executors/__init__.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T04:41:02,883   copying oncodrivefml/executors/bysample.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T04:41:02,888   copying oncodrivefml/executors/bymutation.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T04:41:02,907   copying oncodrivefml/ensembl_genes_75.txt.gz -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,966   copying oncodrivefml/oncodrivefml_v2.conf.template -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,974   copying oncodrivefml/oncodrivefml_v2.conf.template.spec -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,980   copying oncodrivefml/walker_cython.pyx -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,986   copying oncodrivefml/exome.json.gz -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:02,993   copying oncodrivefml/genome.json.gz -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:03,006   running build_ext
2020-09-12T04:41:03,425   cythoning oncodrivefml/walker_cython.pyx to oncodrivefml/walker_cython.c
2020-09-12T04:41:05,080   /usr/local/lib/python3.5/dist-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-wheel-rezw9fp7/oncodrivefml/oncodrivefml/walker_cython.pyx
2020-09-12T04:41:05,081     tree = Parsing.p_module(s, pxd, full_module_name)
2020-09-12T04:41:11,924   building 'oncodrivefml.walker_cython' extension
2020-09-12T04:41:11,928   creating build/temp.linux-armv7l-3.5
2020-09-12T04:41:11,929   creating build/temp.linux-armv7l-3.5/oncodrivefml
2020-09-12T04:41:11,931   arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -g -fdebug-prefix-map=/build/python3.5-U0sDci/python3.5-3.5.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.5m -c oncodrivefml/walker_cython.c -o build/temp.linux-armv7l-3.5/oncodrivefml/walker_cython.o
2020-09-12T04:41:32,416   arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,relro -g -fdebug-prefix-map=/build/python3.5-U0sDci/python3.5-3.5.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.5/oncodrivefml/walker_cython.o -o build/lib.linux-armv7l-3.5/oncodrivefml/walker_cython.cpython-35m-arm-linux-gnueabihf.so
2020-09-12T04:41:32,759   installing to build/bdist.linux-armv7l/wheel
2020-09-12T04:41:32,760   running install
2020-09-12T04:41:32,764   running install_lib
2020-09-12T04:41:32,772   creating build/bdist.linux-armv7l
2020-09-12T04:41:32,773   creating build/bdist.linux-armv7l/wheel
2020-09-12T04:41:32,778   creating build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,780   copying build/lib.linux-armv7l-3.5/oncodrivefml/stats.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,786   copying build/lib.linux-armv7l-3.5/oncodrivefml/error.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,792   creating build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T04:41:32,794   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/element.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T04:41:32,799   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/sig2probs.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T04:41:32,804   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/__init__.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T04:41:32,808   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/bysample.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T04:41:32,814   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/bymutation.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T04:41:32,820   copying build/lib.linux-armv7l-3.5/oncodrivefml/walker_cython.cpython-35m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,879   copying build/lib.linux-armv7l-3.5/oncodrivefml/store.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,886   copying build/lib.linux-armv7l-3.5/oncodrivefml/ensembl_genes_75.txt.gz -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,946   copying build/lib.linux-armv7l-3.5/oncodrivefml/utils.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,951   copying build/lib.linux-armv7l-3.5/oncodrivefml/signature.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,955   copying build/lib.linux-armv7l-3.5/oncodrivefml/main.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,960   copying build/lib.linux-armv7l-3.5/oncodrivefml/walker.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,964   copying build/lib.linux-armv7l-3.5/oncodrivefml/oncodrivefml_v2.conf.template.spec -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,969   copying build/lib.linux-armv7l-3.5/oncodrivefml/reference.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,975   copying build/lib.linux-armv7l-3.5/oncodrivefml/mtc.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,981   copying build/lib.linux-armv7l-3.5/oncodrivefml/walker_cython.pyx -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,986   copying build/lib.linux-armv7l-3.5/oncodrivefml/config.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,991   copying build/lib.linux-armv7l-3.5/oncodrivefml/oncodrivefml_v2.conf.template -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:32,996   copying build/lib.linux-armv7l-3.5/oncodrivefml/oncodrivefml.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:33,002   copying build/lib.linux-armv7l-3.5/oncodrivefml/exome.json.gz -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:33,006   copying build/lib.linux-armv7l-3.5/oncodrivefml/genome.json.gz -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:33,011   copying build/lib.linux-armv7l-3.5/oncodrivefml/compute.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:33,017   copying build/lib.linux-armv7l-3.5/oncodrivefml/__init__.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:33,022   copying build/lib.linux-armv7l-3.5/oncodrivefml/indels.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:33,029   copying build/lib.linux-armv7l-3.5/oncodrivefml/load.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:33,037   copying build/lib.linux-armv7l-3.5/oncodrivefml/scores.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T04:41:33,043   running install_egg_info
2020-09-12T04:41:33,090   running egg_info
2020-09-12T04:41:33,092   writing dependency_links to oncodrivefml.egg-info/dependency_links.txt
2020-09-12T04:41:33,095   writing oncodrivefml.egg-info/PKG-INFO
2020-09-12T04:41:33,103   writing requirements to oncodrivefml.egg-info/requires.txt
2020-09-12T04:41:33,106   writing top-level names to oncodrivefml.egg-info/top_level.txt
2020-09-12T04:41:33,108   writing entry points to oncodrivefml.egg-info/entry_points.txt
2020-09-12T04:41:33,133   reading manifest file 'oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T04:41:33,139   reading manifest template 'MANIFEST.in'
2020-09-12T04:41:33,145   warning: no previously-included files matching '*.so' found anywhere in distribution
2020-09-12T04:41:33,153   writing manifest file 'oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T04:41:33,156   Copying oncodrivefml.egg-info to build/bdist.linux-armv7l/wheel/oncodrivefml-2.3.0-py3.5.egg-info
2020-09-12T04:41:33,188   running install_scripts
2020-09-12T04:41:33,367   creating build/bdist.linux-armv7l/wheel/oncodrivefml-2.3.0.dist-info/WHEEL
2020-09-12T04:41:34,609   Building wheel for oncodrivefml (setup.py): finished with status 'done'
2020-09-12T04:41:34,635   Created wheel for oncodrivefml: filename=oncodrivefml-2.3.0-cp35-cp35m-linux_armv7l.whl size=838733 sha256=e5db33b3bf867e3a2d26f2a17d1f82f4eb5409880b803e8a38d7304b85340f13
2020-09-12T04:41:34,637   Stored in directory: /tmp/pip-ephem-wheel-cache-91tksb8i/wheels/3b/f3/f5/4cd33cc5cc11d8d750ac9274c74b83ed95b2a71c705a652610
2020-09-12T04:41:34,642 Successfully built oncodrivefml
2020-09-12T04:41:34,795 Removed build tracker: '/tmp/pip-req-tracker-04370xep'