2021-08-24T21:40:35,631 Created temporary directory: /tmp/pip-ephem-wheel-cache-r987t8_7
2021-08-24T21:40:35,635 Created temporary directory: /tmp/pip-req-tracker-5chpqg4g
2021-08-24T21:40:35,635 Initialized build tracking at /tmp/pip-req-tracker-5chpqg4g
2021-08-24T21:40:35,635 Created build tracker: /tmp/pip-req-tracker-5chpqg4g
2021-08-24T21:40:35,636 Entered build tracker: /tmp/pip-req-tracker-5chpqg4g
2021-08-24T21:40:35,636 Created temporary directory: /tmp/pip-wheel-016wx89o
2021-08-24T21:40:35,664 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2021-08-24T21:40:35,667 2 location(s) to search for versions of ont-bonito-cuda111:
2021-08-24T21:40:35,667 * https://pypi.org/simple/ont-bonito-cuda111/
2021-08-24T21:40:35,667 * https://www.piwheels.org/simple/ont-bonito-cuda111/
2021-08-24T21:40:35,668 Fetching project page and analyzing links: https://pypi.org/simple/ont-bonito-cuda111/
2021-08-24T21:40:35,669 Getting page https://pypi.org/simple/ont-bonito-cuda111/
2021-08-24T21:40:35,670 Found index url https://pypi.org/simple
2021-08-24T21:40:35,757   Found link https://files.pythonhosted.org/packages/4b/e9/326d358ab1d32037c760b9f7b1010edf4eb9de07b68af8e0fdd8bdc5c0c7/ont-bonito-cuda111-0.4.0a0.tar.gz#sha256=ed1d55117b8295e2bce313b195623d2a3ae111242e7e74dd0daaabfc348eb02e (from https://pypi.org/simple/ont-bonito-cuda111/), version: 0.4.0a0
2021-08-24T21:40:35,758   Found link https://files.pythonhosted.org/packages/a1/9f/19c6571eb24457fa6ed8cf7699f2586a4b376cf875c58f0c26ced182f6a1/ont-bonito-cuda111-0.4.0a1.tar.gz#sha256=7d920614f050aba11b20ccfa082e290c24b79c963445c64a6f5691cb98004e4e (from https://pypi.org/simple/ont-bonito-cuda111/), version: 0.4.0a1
2021-08-24T21:40:35,758   Found link https://files.pythonhosted.org/packages/25/8c/28c43178094cb5cdae8df6c80d47e232a3e3013fba61f0bcdc02c5ca42f2/ont-bonito-cuda111-0.4.0a2.tar.gz#sha256=87a95bb62b6e1c5abe647d56732842d7fd7e84c2bdc0a96e427acba969d6879d (from https://pypi.org/simple/ont-bonito-cuda111/), version: 0.4.0a2
2021-08-24T21:40:35,758   Found link https://files.pythonhosted.org/packages/b4/03/d3afcda7d932e31137dd77b3e7cdf4ddfee7e207ebe455410f65be8ad79a/ont-bonito-cuda111-0.4.0a4.tar.gz#sha256=abc1cf5a51a4bc0b5d35357ba26c7cbd690ac79f71f757b195e8e35736ee7bdf (from https://pypi.org/simple/ont-bonito-cuda111/), version: 0.4.0a4
2021-08-24T21:40:35,759   Found link https://files.pythonhosted.org/packages/2e/c0/01dfa9cd140ab87acd038089bf3c9719a7e2794ef50c17c9796a719f2fb7/ont-bonito-cuda111-0.4.0.tar.gz#sha256=f0459988b8d21a07033ddd1919c351d50badf9fb9a2e4f55f77c607561d8d31f (from https://pypi.org/simple/ont-bonito-cuda111/), version: 0.4.0
2021-08-24T21:40:35,759 Fetching project page and analyzing links: https://www.piwheels.org/simple/ont-bonito-cuda111/
2021-08-24T21:40:35,759 Getting page https://www.piwheels.org/simple/ont-bonito-cuda111/
2021-08-24T21:40:35,761 Found index url https://www.piwheels.org/simple
2021-08-24T21:40:35,872 Skipping link: not a file: https://www.piwheels.org/simple/ont-bonito-cuda111/
2021-08-24T21:40:35,873 Skipping link: not a file: https://pypi.org/simple/ont-bonito-cuda111/
2021-08-24T21:40:35,891 Given no hashes to check 1 links for project 'ont-bonito-cuda111': discarding no candidates
2021-08-24T21:40:35,905 Collecting ont-bonito-cuda111==0.4.0a4
2021-08-24T21:40:35,907   Created temporary directory: /tmp/pip-unpack-vln4yjtk
2021-08-24T21:40:35,945   Downloading ont-bonito-cuda111-0.4.0a4.tar.gz (43 kB)
2021-08-24T21:40:36,067   Added ont-bonito-cuda111==0.4.0a4 from https://files.pythonhosted.org/packages/b4/03/d3afcda7d932e31137dd77b3e7cdf4ddfee7e207ebe455410f65be8ad79a/ont-bonito-cuda111-0.4.0a4.tar.gz#sha256=abc1cf5a51a4bc0b5d35357ba26c7cbd690ac79f71f757b195e8e35736ee7bdf to build tracker '/tmp/pip-req-tracker-5chpqg4g'
2021-08-24T21:40:36,068     Running setup.py (path:/tmp/pip-wheel-016wx89o/ont-bonito-cuda111_18ff37fcc80c46d38c8bf185ac533760/setup.py) egg_info for package ont-bonito-cuda111
2021-08-24T21:40:36,069     Created temporary directory: /tmp/pip-pip-egg-info-wxuqqofs
2021-08-24T21:40:36,069     Running command python setup.py egg_info
2021-08-24T21:40:37,017     Building with CUDA 11.1
2021-08-24T21:40:37,017     running egg_info
2021-08-24T21:40:37,019     creating /tmp/pip-pip-egg-info-wxuqqofs/ont_bonito_cuda111.egg-info
2021-08-24T21:40:37,021     writing /tmp/pip-pip-egg-info-wxuqqofs/ont_bonito_cuda111.egg-info/PKG-INFO
2021-08-24T21:40:37,023     writing dependency_links to /tmp/pip-pip-egg-info-wxuqqofs/ont_bonito_cuda111.egg-info/dependency_links.txt
2021-08-24T21:40:37,025     writing entry points to /tmp/pip-pip-egg-info-wxuqqofs/ont_bonito_cuda111.egg-info/entry_points.txt
2021-08-24T21:40:37,026     writing requirements to /tmp/pip-pip-egg-info-wxuqqofs/ont_bonito_cuda111.egg-info/requires.txt
2021-08-24T21:40:37,028     writing top-level names to /tmp/pip-pip-egg-info-wxuqqofs/ont_bonito_cuda111.egg-info/top_level.txt
2021-08-24T21:40:37,029     writing manifest file '/tmp/pip-pip-egg-info-wxuqqofs/ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:40:37,164     reading manifest file '/tmp/pip-pip-egg-info-wxuqqofs/ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:40:37,165     reading manifest template 'MANIFEST.in'
2021-08-24T21:40:37,169     adding license file 'LICENCE.txt'
2021-08-24T21:40:37,172     writing manifest file '/tmp/pip-pip-egg-info-wxuqqofs/ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:40:37,236   Source in /tmp/pip-wheel-016wx89o/ont-bonito-cuda111_18ff37fcc80c46d38c8bf185ac533760 has version 0.4.0a4, which satisfies requirement ont-bonito-cuda111==0.4.0a4 from https://files.pythonhosted.org/packages/b4/03/d3afcda7d932e31137dd77b3e7cdf4ddfee7e207ebe455410f65be8ad79a/ont-bonito-cuda111-0.4.0a4.tar.gz#sha256=abc1cf5a51a4bc0b5d35357ba26c7cbd690ac79f71f757b195e8e35736ee7bdf
2021-08-24T21:40:37,237   Removed ont-bonito-cuda111==0.4.0a4 from https://files.pythonhosted.org/packages/b4/03/d3afcda7d932e31137dd77b3e7cdf4ddfee7e207ebe455410f65be8ad79a/ont-bonito-cuda111-0.4.0a4.tar.gz#sha256=abc1cf5a51a4bc0b5d35357ba26c7cbd690ac79f71f757b195e8e35736ee7bdf from build tracker '/tmp/pip-req-tracker-5chpqg4g'
2021-08-24T21:40:37,241 Created temporary directory: /tmp/pip-unpack-sdarbc9r
2021-08-24T21:40:37,242 Building wheels for collected packages: ont-bonito-cuda111
2021-08-24T21:40:37,248   Created temporary directory: /tmp/pip-wheel-nzbyhjda
2021-08-24T21:40:37,248   Building wheel for ont-bonito-cuda111 (setup.py): started
2021-08-24T21:40:37,248   Destination directory: /tmp/pip-wheel-nzbyhjda
2021-08-24T21:40:37,249   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-016wx89o/ont-bonito-cuda111_18ff37fcc80c46d38c8bf185ac533760/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-016wx89o/ont-bonito-cuda111_18ff37fcc80c46d38c8bf185ac533760/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-nzbyhjda
2021-08-24T21:40:37,940   Building with CUDA 11.1
2021-08-24T21:40:38,156   running bdist_wheel
2021-08-24T21:40:38,160   running build
2021-08-24T21:40:38,160   running build_py
2021-08-24T21:40:38,286   creating build
2021-08-24T21:40:38,287   creating build/lib
2021-08-24T21:40:38,289   creating build/lib/bonito
2021-08-24T21:40:38,290   copying bonito/__init__.py -> build/lib/bonito
2021-08-24T21:40:38,291   copying bonito/fast5.py -> build/lib/bonito
2021-08-24T21:40:38,293   copying bonito/util.py -> build/lib/bonito
2021-08-24T21:40:38,295   copying bonito/training.py -> build/lib/bonito
2021-08-24T21:40:38,297   copying bonito/nn.py -> build/lib/bonito
2021-08-24T21:40:38,300   copying bonito/io.py -> build/lib/bonito
2021-08-24T21:40:38,302   copying bonito/multiprocessing.py -> build/lib/bonito
2021-08-24T21:40:38,304   copying bonito/aligner.py -> build/lib/bonito
2021-08-24T21:40:38,307   creating build/lib/bonito/cli
2021-08-24T21:40:38,308   copying bonito/cli/convert.py -> build/lib/bonito/cli
2021-08-24T21:40:38,311   copying bonito/cli/train.py -> build/lib/bonito/cli
2021-08-24T21:40:38,314   copying bonito/cli/view.py -> build/lib/bonito/cli
2021-08-24T21:40:38,316   copying bonito/cli/basecaller.py -> build/lib/bonito/cli
2021-08-24T21:40:38,318   copying bonito/cli/duplex.py -> build/lib/bonito/cli
2021-08-24T21:40:38,321   copying bonito/cli/__init__.py -> build/lib/bonito/cli
2021-08-24T21:40:38,322   copying bonito/cli/evaluate.py -> build/lib/bonito/cli
2021-08-24T21:40:38,324   copying bonito/cli/export.py -> build/lib/bonito/cli
2021-08-24T21:40:38,326   copying bonito/cli/download.py -> build/lib/bonito/cli
2021-08-24T21:40:38,329   creating build/lib/bonito/ctc
2021-08-24T21:40:38,329   copying bonito/ctc/basecall.py -> build/lib/bonito/ctc
2021-08-24T21:40:38,331   copying bonito/ctc/__init__.py -> build/lib/bonito/ctc
2021-08-24T21:40:38,333   copying bonito/ctc/model.py -> build/lib/bonito/ctc
2021-08-24T21:40:38,335   creating build/lib/bonito/crf
2021-08-24T21:40:38,336   copying bonito/crf/basecall.py -> build/lib/bonito/crf
2021-08-24T21:40:38,338   copying bonito/crf/__init__.py -> build/lib/bonito/crf
2021-08-24T21:40:38,340   copying bonito/crf/model.py -> build/lib/bonito/crf
2021-08-24T21:40:38,342   running egg_info
2021-08-24T21:40:38,356   writing ont_bonito_cuda111.egg-info/PKG-INFO
2021-08-24T21:40:38,359   writing dependency_links to ont_bonito_cuda111.egg-info/dependency_links.txt
2021-08-24T21:40:38,360   writing entry points to ont_bonito_cuda111.egg-info/entry_points.txt
2021-08-24T21:40:38,362   writing requirements to ont_bonito_cuda111.egg-info/requires.txt
2021-08-24T21:40:38,363   writing top-level names to ont_bonito_cuda111.egg-info/top_level.txt
2021-08-24T21:40:38,369   reading manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:40:38,372   reading manifest template 'MANIFEST.in'
2021-08-24T21:40:38,375   adding license file 'LICENCE.txt'
2021-08-24T21:40:38,378   writing manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:40:38,381   creating build/lib/bonito/data
2021-08-24T21:40:38,382   copying bonito/data/README.md -> build/lib/bonito/data
2021-08-24T21:40:38,384   creating build/lib/bonito/models
2021-08-24T21:40:38,385   copying bonito/models/README.md -> build/lib/bonito/models
2021-08-24T21:40:38,387   creating build/lib/bonito/models/configs
2021-08-24T21:40:38,388   copying bonito/models/configs/dna_r9.4.1@v1.toml -> build/lib/bonito/models/configs
2021-08-24T21:40:38,390   copying bonito/models/configs/dna_r9.4.1@v2.toml -> build/lib/bonito/models/configs
2021-08-24T21:40:38,392   copying bonito/models/configs/dna_r9.4.1@v3.toml -> build/lib/bonito/models/configs
2021-08-24T21:40:38,398   installing to build/bdist.linux-armv7l/wheel
2021-08-24T21:40:38,398   running install
2021-08-24T21:40:38,399   running install_lib
2021-08-24T21:40:38,403   creating build/bdist.linux-armv7l
2021-08-24T21:40:38,403   creating build/bdist.linux-armv7l/wheel
2021-08-24T21:40:38,405   creating build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:40:38,406   creating build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,407   copying build/lib/bonito/cli/convert.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,410   copying build/lib/bonito/cli/train.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,412   copying build/lib/bonito/cli/view.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,414   copying build/lib/bonito/cli/basecaller.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,415   copying build/lib/bonito/cli/duplex.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,418   copying build/lib/bonito/cli/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,419   copying build/lib/bonito/cli/evaluate.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,421   copying build/lib/bonito/cli/export.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,423   copying build/lib/bonito/cli/download.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:40:38,425   copying build/lib/bonito/__init__.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:40:38,427   copying build/lib/bonito/fast5.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:40:38,429   copying build/lib/bonito/util.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:40:38,432   creating build/bdist.linux-armv7l/wheel/bonito/ctc
2021-08-24T21:40:38,433   copying build/lib/bonito/ctc/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/ctc
2021-08-24T21:40:38,435   copying build/lib/bonito/ctc/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/ctc
2021-08-24T21:40:38,437   copying build/lib/bonito/ctc/model.py -> build/bdist.linux-armv7l/wheel/bonito/ctc
2021-08-24T21:40:38,439   copying build/lib/bonito/training.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:40:38,442   creating build/bdist.linux-armv7l/wheel/bonito/crf
2021-08-24T21:40:38,443   copying build/lib/bonito/crf/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/crf
2021-08-24T21:40:38,445   copying build/lib/bonito/crf/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/crf
2021-08-24T21:40:38,447   copying build/lib/bonito/crf/model.py -> build/bdist.linux-armv7l/wheel/bonito/crf
2021-08-24T21:40:38,449   copying build/lib/bonito/nn.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:40:38,452   copying build/lib/bonito/io.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:40:38,455   creating build/bdist.linux-armv7l/wheel/bonito/models
2021-08-24T21:40:38,456   copying build/lib/bonito/models/README.md -> build/bdist.linux-armv7l/wheel/bonito/models
2021-08-24T21:40:38,458   creating build/bdist.linux-armv7l/wheel/bonito/models/configs
2021-08-24T21:40:38,459   copying build/lib/bonito/models/configs/dna_r9.4.1@v1.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs
2021-08-24T21:40:38,461   copying build/lib/bonito/models/configs/dna_r9.4.1@v3.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs
2021-08-24T21:40:38,463   copying build/lib/bonito/models/configs/dna_r9.4.1@v2.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs
2021-08-24T21:40:38,465   copying build/lib/bonito/multiprocessing.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:40:38,468   copying build/lib/bonito/aligner.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:40:38,471   creating build/bdist.linux-armv7l/wheel/bonito/data
2021-08-24T21:40:38,472   copying build/lib/bonito/data/README.md -> build/bdist.linux-armv7l/wheel/bonito/data
2021-08-24T21:40:38,473   running install_egg_info
2021-08-24T21:40:38,482   Copying ont_bonito_cuda111.egg-info to build/bdist.linux-armv7l/wheel/ont_bonito_cuda111-0.4.0a4-py3.7.egg-info
2021-08-24T21:40:38,495   running install_scripts
2021-08-24T21:40:38,558   error: [Errno 2] No such file or directory: 'bonito': 'bonito'
2021-08-24T21:40:38,633   Building wheel for ont-bonito-cuda111 (setup.py): finished with status 'error'
2021-08-24T21:40:38,634   ERROR: Failed building wheel for ont-bonito-cuda111
2021-08-24T21:40:38,635   Running setup.py clean for ont-bonito-cuda111
2021-08-24T21:40:38,635   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-016wx89o/ont-bonito-cuda111_18ff37fcc80c46d38c8bf185ac533760/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-016wx89o/ont-bonito-cuda111_18ff37fcc80c46d38c8bf185ac533760/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' clean --all
2021-08-24T21:40:39,329   Building with CUDA 11.1
2021-08-24T21:40:39,526   running clean
2021-08-24T21:40:39,528   removing 'build/lib' (and everything under it)
2021-08-24T21:40:39,541   removing 'build/bdist.linux-armv7l' (and everything under it)
2021-08-24T21:40:39,561   'build/scripts-3.7' does not exist -- can't clean it
2021-08-24T21:40:39,561   removing 'build'
2021-08-24T21:40:39,619 Failed to build ont-bonito-cuda111
2021-08-24T21:40:39,620 ERROR: Failed to build one or more wheels
2021-08-24T21:40:39,621 Exception information:
2021-08-24T21:40:39,621 Traceback (most recent call last):
2021-08-24T21:40:39,621   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main
2021-08-24T21:40:39,621     status = self.run(options, args)
2021-08-24T21:40:39,621   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper
2021-08-24T21:40:39,621     return func(self, options, args)
2021-08-24T21:40:39,621   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/commands/wheel.py", line 175, in run
2021-08-24T21:40:39,621     "Failed to build one or more wheels"
2021-08-24T21:40:39,621 pip._internal.exceptions.CommandError: Failed to build one or more wheels
2021-08-24T21:40:39,624 Removed build tracker: '/tmp/pip-req-tracker-5chpqg4g'