2020-09-12T02:43:45,683 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 Please upgrade your Python as Python 3.5 is no longer maintained.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.
2020-09-12T02:43:46,258 Created temporary directory: /tmp/pip-ephem-wheel-cache-10nncjn7
2020-09-12T02:43:46,263 Created temporary directory: /tmp/pip-req-tracker-ihjsf3gs
2020-09-12T02:43:46,263 Initialized build tracking at /tmp/pip-req-tracker-ihjsf3gs
2020-09-12T02:43:46,264 Created build tracker: /tmp/pip-req-tracker-ihjsf3gs
2020-09-12T02:43:46,264 Entered build tracker: /tmp/pip-req-tracker-ihjsf3gs
2020-09-12T02:43:46,265 Created temporary directory: /tmp/pip-wheel-s79dhjt3
2020-09-12T02:43:46,280 1 location(s) to search for versions of oncodrivefml:
2020-09-12T02:43:46,280 * https://pypi.org/simple/oncodrivefml/
2020-09-12T02:43:46,281 Fetching project page and analyzing links: https://pypi.org/simple/oncodrivefml/
2020-09-12T02:43:46,283 Getting page https://pypi.org/simple/oncodrivefml/
2020-09-12T02:43:46,286 Found index url https://pypi.org/simple
2020-09-12T02:43:46,489   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
2020-09-12T02:43:46,490   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
2020-09-12T02:43:46,491   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
2020-09-12T02:43:46,492   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
2020-09-12T02:43:46,492   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
2020-09-12T02:43:46,493   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
2020-09-12T02:43:46,494   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
2020-09-12T02:43:46,495   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
2020-09-12T02:43:46,505 Given no hashes to check 1 links for project 'oncodrivefml': discarding no candidates
2020-09-12T02:43:46,507 Using version 2.2.0 (newest of versions: 2.2.0)
2020-09-12T02:43:46,514 Collecting oncodrivefml==2.2.0
2020-09-12T02:43:46,518   Created temporary directory: /tmp/pip-unpack-9o_t79_7
2020-09-12T02:43:46,751   Downloading oncodrivefml-2.2.0.tar.gz (608 kB)
2020-09-12T02:43:47,137   Added oncodrivefml==2.2.0 from https://files.pythonhosted.org/packages/27/6c/5b59d3c305a25b56ec31627ba1c5fbbebe98525ffd68a242b20d448e92b6/oncodrivefml-2.2.0.tar.gz#sha256=62c63c09424e4992c3d501b81a62fa496ae96ceae5f5358636f414d2eb55ac3f to build tracker '/tmp/pip-req-tracker-ihjsf3gs'
2020-09-12T02:43:47,139     Running setup.py (path:/tmp/pip-wheel-s79dhjt3/oncodrivefml/setup.py) egg_info for package oncodrivefml
2020-09-12T02:43:47,141     Created temporary directory: /tmp/pip-pip-egg-info-1kj_2b32
2020-09-12T02:43:47,141     Running command python setup.py egg_info
2020-09-12T02:43:49,048     running egg_info
2020-09-12T02:43:49,054     creating /tmp/pip-pip-egg-info-1kj_2b32/oncodrivefml.egg-info
2020-09-12T02:43:49,055     writing requirements to /tmp/pip-pip-egg-info-1kj_2b32/oncodrivefml.egg-info/requires.txt
2020-09-12T02:43:49,057     writing top-level names to /tmp/pip-pip-egg-info-1kj_2b32/oncodrivefml.egg-info/top_level.txt
2020-09-12T02:43:49,060     writing entry points to /tmp/pip-pip-egg-info-1kj_2b32/oncodrivefml.egg-info/entry_points.txt
2020-09-12T02:43:49,061     writing /tmp/pip-pip-egg-info-1kj_2b32/oncodrivefml.egg-info/PKG-INFO
2020-09-12T02:43:49,064     writing dependency_links to /tmp/pip-pip-egg-info-1kj_2b32/oncodrivefml.egg-info/dependency_links.txt
2020-09-12T02:43:49,068     writing manifest file '/tmp/pip-pip-egg-info-1kj_2b32/oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T02:43:49,742     reading manifest file '/tmp/pip-pip-egg-info-1kj_2b32/oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T02:43:49,745     reading manifest template 'MANIFEST.in'
2020-09-12T02:43:49,748     warning: no previously-included files matching '*.c' found anywhere in distribution
2020-09-12T02:43:49,749     warning: no previously-included files matching '*.so' found anywhere in distribution
2020-09-12T02:43:49,755     writing manifest file '/tmp/pip-pip-egg-info-1kj_2b32/oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T02:43:49,901   Source in /tmp/pip-wheel-s79dhjt3/oncodrivefml has version 2.2.0, which satisfies requirement oncodrivefml==2.2.0 from https://files.pythonhosted.org/packages/27/6c/5b59d3c305a25b56ec31627ba1c5fbbebe98525ffd68a242b20d448e92b6/oncodrivefml-2.2.0.tar.gz#sha256=62c63c09424e4992c3d501b81a62fa496ae96ceae5f5358636f414d2eb55ac3f
2020-09-12T02:43:49,903   Removed oncodrivefml==2.2.0 from https://files.pythonhosted.org/packages/27/6c/5b59d3c305a25b56ec31627ba1c5fbbebe98525ffd68a242b20d448e92b6/oncodrivefml-2.2.0.tar.gz#sha256=62c63c09424e4992c3d501b81a62fa496ae96ceae5f5358636f414d2eb55ac3f from build tracker '/tmp/pip-req-tracker-ihjsf3gs'
2020-09-12T02:43:49,906 Building wheels for collected packages: oncodrivefml
2020-09-12T02:43:49,912   Created temporary directory: /tmp/pip-wheel-e796p67v
2020-09-12T02:43:49,913   Building wheel for oncodrivefml (setup.py): started
2020-09-12T02:43:49,914   Destination directory: /tmp/pip-wheel-e796p67v
2020-09-12T02:43:49,914   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-s79dhjt3/oncodrivefml/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-s79dhjt3/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-e796p67v
2020-09-12T02:43:51,812   running bdist_wheel
2020-09-12T02:43:51,825   running build
2020-09-12T02:43:51,826   running build_py
2020-09-12T02:43:52,114   creating build
2020-09-12T02:43:52,115   creating build/lib.linux-armv7l-3.5
2020-09-12T02:43:52,116   creating build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,119   copying oncodrivefml/walker.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,122   copying oncodrivefml/reference.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,126   copying oncodrivefml/error.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,129   copying oncodrivefml/config.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,132   copying oncodrivefml/stats.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,136   copying oncodrivefml/mtc.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,141   copying oncodrivefml/store.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,147   copying oncodrivefml/oncodrivefml.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,153   copying oncodrivefml/scores.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,158   copying oncodrivefml/indels.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,162   copying oncodrivefml/signature.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,165   copying oncodrivefml/__init__.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,168   copying oncodrivefml/load.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,172   copying oncodrivefml/main.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,176   copying oncodrivefml/utils.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,180   copying oncodrivefml/compute.py -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,188   creating build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T02:43:52,190   copying oncodrivefml/executors/element.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T02:43:52,196   copying oncodrivefml/executors/sig2probs.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T02:43:52,200   copying oncodrivefml/executors/bysample.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T02:43:52,203   copying oncodrivefml/executors/__init__.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T02:43:52,206   copying oncodrivefml/executors/bymutation.py -> build/lib.linux-armv7l-3.5/oncodrivefml/executors
2020-09-12T02:43:52,218   copying oncodrivefml/ensembl_genes_75.txt.gz -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,247   copying oncodrivefml/oncodrivefml_v2.conf.template -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,251   copying oncodrivefml/oncodrivefml_v2.conf.template.spec -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,255   copying oncodrivefml/walker_cython.pyx -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,260   copying oncodrivefml/genome.json.gz -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,266   copying oncodrivefml/exome.json.gz -> build/lib.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:52,278   running build_ext
2020-09-12T02:43:52,634   cythoning oncodrivefml/walker_cython.pyx to oncodrivefml/walker_cython.c
2020-09-12T02:43:54,036   /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-s79dhjt3/oncodrivefml/oncodrivefml/walker_cython.pyx
2020-09-12T02:43:54,038     tree = Parsing.p_module(s, pxd, full_module_name)
2020-09-12T02:43:59,905   building 'oncodrivefml.walker_cython' extension
2020-09-12T02:43:59,906   creating build/temp.linux-armv7l-3.5
2020-09-12T02:43:59,906   creating build/temp.linux-armv7l-3.5/oncodrivefml
2020-09-12T02:43:59,907   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
2020-09-12T02:44:17,505   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
2020-09-12T02:44:17,745   installing to build/bdist.linux-armv7l/wheel
2020-09-12T02:44:17,746   running install
2020-09-12T02:44:17,749   running install_lib
2020-09-12T02:44:17,760   creating build/bdist.linux-armv7l
2020-09-12T02:44:17,762   creating build/bdist.linux-armv7l/wheel
2020-09-12T02:44:17,767   creating build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,769   copying build/lib.linux-armv7l-3.5/oncodrivefml/walker.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,774   creating build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T02:44:17,775   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/element.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T02:44:17,780   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/sig2probs.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T02:44:17,783   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/bysample.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T02:44:17,786   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/__init__.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T02:44:17,790   copying build/lib.linux-armv7l-3.5/oncodrivefml/executors/bymutation.py -> build/bdist.linux-armv7l/wheel/oncodrivefml/executors
2020-09-12T02:44:17,796   copying build/lib.linux-armv7l-3.5/oncodrivefml/reference.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,801   copying build/lib.linux-armv7l-3.5/oncodrivefml/error.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,805   copying build/lib.linux-armv7l-3.5/oncodrivefml/config.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,809   copying build/lib.linux-armv7l-3.5/oncodrivefml/ensembl_genes_75.txt.gz -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,837   copying build/lib.linux-armv7l-3.5/oncodrivefml/stats.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,841   copying build/lib.linux-armv7l-3.5/oncodrivefml/mtc.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,844   copying build/lib.linux-armv7l-3.5/oncodrivefml/store.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,848   copying build/lib.linux-armv7l-3.5/oncodrivefml/oncodrivefml.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,852   copying build/lib.linux-armv7l-3.5/oncodrivefml/oncodrivefml_v2.conf.template -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,856   copying build/lib.linux-armv7l-3.5/oncodrivefml/scores.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,859   copying build/lib.linux-armv7l-3.5/oncodrivefml/genome.json.gz -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,862   copying build/lib.linux-armv7l-3.5/oncodrivefml/indels.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,866   copying build/lib.linux-armv7l-3.5/oncodrivefml/signature.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,871   copying build/lib.linux-armv7l-3.5/oncodrivefml/__init__.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,876   copying build/lib.linux-armv7l-3.5/oncodrivefml/walker_cython.cpython-35m-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,910   copying build/lib.linux-armv7l-3.5/oncodrivefml/load.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,913   copying build/lib.linux-armv7l-3.5/oncodrivefml/main.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,917   copying build/lib.linux-armv7l-3.5/oncodrivefml/walker_cython.pyx -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,920   copying build/lib.linux-armv7l-3.5/oncodrivefml/oncodrivefml_v2.conf.template.spec -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,923   copying build/lib.linux-armv7l-3.5/oncodrivefml/exome.json.gz -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,926   copying build/lib.linux-armv7l-3.5/oncodrivefml/utils.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,929   copying build/lib.linux-armv7l-3.5/oncodrivefml/compute.py -> build/bdist.linux-armv7l/wheel/oncodrivefml
2020-09-12T02:44:17,933   running install_egg_info
2020-09-12T02:44:17,999   running egg_info
2020-09-12T02:44:17,1000   writing top-level names to oncodrivefml.egg-info/top_level.txt
2020-09-12T02:44:18,002   writing oncodrivefml.egg-info/PKG-INFO
2020-09-12T02:44:18,005   writing requirements to oncodrivefml.egg-info/requires.txt
2020-09-12T02:44:18,008   writing entry points to oncodrivefml.egg-info/entry_points.txt
2020-09-12T02:44:18,010   writing dependency_links to oncodrivefml.egg-info/dependency_links.txt
2020-09-12T02:44:18,024   reading manifest file 'oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T02:44:18,029   reading manifest template 'MANIFEST.in'
2020-09-12T02:44:18,033   warning: no previously-included files matching '*.so' found anywhere in distribution
2020-09-12T02:44:18,040   writing manifest file 'oncodrivefml.egg-info/SOURCES.txt'
2020-09-12T02:44:18,044   Copying oncodrivefml.egg-info to build/bdist.linux-armv7l/wheel/oncodrivefml-2.2.0-py3.5.egg-info
2020-09-12T02:44:18,065   running install_scripts
2020-09-12T02:44:18,202   creating build/bdist.linux-armv7l/wheel/oncodrivefml-2.2.0.dist-info/WHEEL
2020-09-12T02:44:19,248   Building wheel for oncodrivefml (setup.py): finished with status 'done'
2020-09-12T02:44:19,263   Created wheel for oncodrivefml: filename=oncodrivefml-2.2.0-cp35-cp35m-linux_armv7l.whl size=838543 sha256=729248fc16415e981bfdfe14a3229de318c283e1ef5310615cb5b635bc899941
2020-09-12T02:44:19,264   Stored in directory: /tmp/pip-ephem-wheel-cache-10nncjn7/wheels/56/95/31/21bb65e12900729834004d4f1f4f76d2215be033540408434b
2020-09-12T02:44:19,267 Successfully built oncodrivefml
2020-09-12T02:44:19,594 Removed build tracker: '/tmp/pip-req-tracker-ihjsf3gs'