2021-08-24T21:44:22,552 Created temporary directory: /tmp/pip-ephem-wheel-cache-bkwi6s4g
2021-08-24T21:44:22,555 Created temporary directory: /tmp/pip-req-tracker-ia6hh1i6
2021-08-24T21:44:22,555 Initialized build tracking at /tmp/pip-req-tracker-ia6hh1i6
2021-08-24T21:44:22,555 Created build tracker: /tmp/pip-req-tracker-ia6hh1i6
2021-08-24T21:44:22,556 Entered build tracker: /tmp/pip-req-tracker-ia6hh1i6
2021-08-24T21:44:22,556 Created temporary directory: /tmp/pip-wheel-9myolq2m
2021-08-24T21:44:22,588 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2021-08-24T21:44:22,591 2 location(s) to search for versions of ont-bonito-cuda111:
2021-08-24T21:44:22,591 * https://pypi.org/simple/ont-bonito-cuda111/
2021-08-24T21:44:22,591 * https://www.piwheels.org/simple/ont-bonito-cuda111/
2021-08-24T21:44:22,592 Fetching project page and analyzing links: https://pypi.org/simple/ont-bonito-cuda111/
2021-08-24T21:44:22,592 Getting page https://pypi.org/simple/ont-bonito-cuda111/
2021-08-24T21:44:22,594 Found index url https://pypi.org/simple
2021-08-24T21:44:22,711   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
2021-08-24T21:44:22,711   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
2021-08-24T21:44:22,711   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
2021-08-24T21:44:22,712   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
2021-08-24T21:44:22,712   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
2021-08-24T21:44:22,712 Fetching project page and analyzing links: https://www.piwheels.org/simple/ont-bonito-cuda111/
2021-08-24T21:44:22,713 Getting page https://www.piwheels.org/simple/ont-bonito-cuda111/
2021-08-24T21:44:22,713 Found index url https://www.piwheels.org/simple
2021-08-24T21:44:22,817 Skipping link: not a file: https://www.piwheels.org/simple/ont-bonito-cuda111/
2021-08-24T21:44:22,818 Skipping link: not a file: https://pypi.org/simple/ont-bonito-cuda111/
2021-08-24T21:44:22,836 Given no hashes to check 1 links for project 'ont-bonito-cuda111': discarding no candidates
2021-08-24T21:44:22,850 Collecting ont-bonito-cuda111==0.4.0
2021-08-24T21:44:22,852   Created temporary directory: /tmp/pip-unpack-nmpvgqqa
2021-08-24T21:44:22,892   Downloading ont-bonito-cuda111-0.4.0.tar.gz (43 kB)
2021-08-24T21:44:23,019   Added ont-bonito-cuda111==0.4.0 from https://files.pythonhosted.org/packages/2e/c0/01dfa9cd140ab87acd038089bf3c9719a7e2794ef50c17c9796a719f2fb7/ont-bonito-cuda111-0.4.0.tar.gz#sha256=f0459988b8d21a07033ddd1919c351d50badf9fb9a2e4f55f77c607561d8d31f to build tracker '/tmp/pip-req-tracker-ia6hh1i6'
2021-08-24T21:44:23,020     Running setup.py (path:/tmp/pip-wheel-9myolq2m/ont-bonito-cuda111_7d70fa17847649e1a2bf7bad6054d750/setup.py) egg_info for package ont-bonito-cuda111
2021-08-24T21:44:23,021     Created temporary directory: /tmp/pip-pip-egg-info-13_xz34a
2021-08-24T21:44:23,021     Running command python setup.py egg_info
2021-08-24T21:44:23,939     Building with CUDA 11.1
2021-08-24T21:44:23,939     running egg_info
2021-08-24T21:44:23,941     creating /tmp/pip-pip-egg-info-13_xz34a/ont_bonito_cuda111.egg-info
2021-08-24T21:44:23,942     writing /tmp/pip-pip-egg-info-13_xz34a/ont_bonito_cuda111.egg-info/PKG-INFO
2021-08-24T21:44:23,945     writing dependency_links to /tmp/pip-pip-egg-info-13_xz34a/ont_bonito_cuda111.egg-info/dependency_links.txt
2021-08-24T21:44:23,946     writing entry points to /tmp/pip-pip-egg-info-13_xz34a/ont_bonito_cuda111.egg-info/entry_points.txt
2021-08-24T21:44:23,947     writing requirements to /tmp/pip-pip-egg-info-13_xz34a/ont_bonito_cuda111.egg-info/requires.txt
2021-08-24T21:44:23,948     writing top-level names to /tmp/pip-pip-egg-info-13_xz34a/ont_bonito_cuda111.egg-info/top_level.txt
2021-08-24T21:44:23,950     writing manifest file '/tmp/pip-pip-egg-info-13_xz34a/ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:44:24,092     reading manifest file '/tmp/pip-pip-egg-info-13_xz34a/ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:44:24,094     reading manifest template 'MANIFEST.in'
2021-08-24T21:44:24,097     adding license file 'LICENCE.txt'
2021-08-24T21:44:24,100     writing manifest file '/tmp/pip-pip-egg-info-13_xz34a/ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:44:24,165   Source in /tmp/pip-wheel-9myolq2m/ont-bonito-cuda111_7d70fa17847649e1a2bf7bad6054d750 has version 0.4.0, which satisfies requirement ont-bonito-cuda111==0.4.0 from https://files.pythonhosted.org/packages/2e/c0/01dfa9cd140ab87acd038089bf3c9719a7e2794ef50c17c9796a719f2fb7/ont-bonito-cuda111-0.4.0.tar.gz#sha256=f0459988b8d21a07033ddd1919c351d50badf9fb9a2e4f55f77c607561d8d31f
2021-08-24T21:44:24,166   Removed ont-bonito-cuda111==0.4.0 from https://files.pythonhosted.org/packages/2e/c0/01dfa9cd140ab87acd038089bf3c9719a7e2794ef50c17c9796a719f2fb7/ont-bonito-cuda111-0.4.0.tar.gz#sha256=f0459988b8d21a07033ddd1919c351d50badf9fb9a2e4f55f77c607561d8d31f from build tracker '/tmp/pip-req-tracker-ia6hh1i6'
2021-08-24T21:44:24,171 Created temporary directory: /tmp/pip-unpack-4ubevy4j
2021-08-24T21:44:24,171 Building wheels for collected packages: ont-bonito-cuda111
2021-08-24T21:44:24,176   Created temporary directory: /tmp/pip-wheel-f1ymdtqt
2021-08-24T21:44:24,177   Building wheel for ont-bonito-cuda111 (setup.py): started
2021-08-24T21:44:24,177   Destination directory: /tmp/pip-wheel-f1ymdtqt
2021-08-24T21:44:24,178   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-9myolq2m/ont-bonito-cuda111_7d70fa17847649e1a2bf7bad6054d750/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-9myolq2m/ont-bonito-cuda111_7d70fa17847649e1a2bf7bad6054d750/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-f1ymdtqt
2021-08-24T21:44:24,877   Building with CUDA 11.1
2021-08-24T21:44:25,100   running bdist_wheel
2021-08-24T21:44:25,105   running build
2021-08-24T21:44:25,105   running build_py
2021-08-24T21:44:25,230   creating build
2021-08-24T21:44:25,231   creating build/lib
2021-08-24T21:44:25,231   creating build/lib/bonito
2021-08-24T21:44:25,232   copying bonito/__init__.py -> build/lib/bonito
2021-08-24T21:44:25,234   copying bonito/fast5.py -> build/lib/bonito
2021-08-24T21:44:25,237   copying bonito/multiprocessing.py -> build/lib/bonito
2021-08-24T21:44:25,239   copying bonito/util.py -> build/lib/bonito
2021-08-24T21:44:25,241   copying bonito/io.py -> build/lib/bonito
2021-08-24T21:44:25,244   copying bonito/aligner.py -> build/lib/bonito
2021-08-24T21:44:25,246   copying bonito/nn.py -> build/lib/bonito
2021-08-24T21:44:25,248   copying bonito/training.py -> build/lib/bonito
2021-08-24T21:44:25,251   creating build/lib/bonito/cli
2021-08-24T21:44:25,252   copying bonito/cli/view.py -> build/lib/bonito/cli
2021-08-24T21:44:25,254   copying bonito/cli/__init__.py -> build/lib/bonito/cli
2021-08-24T21:44:25,255   copying bonito/cli/evaluate.py -> build/lib/bonito/cli
2021-08-24T21:44:25,257   copying bonito/cli/train.py -> build/lib/bonito/cli
2021-08-24T21:44:25,260   copying bonito/cli/basecaller.py -> build/lib/bonito/cli
2021-08-24T21:44:25,262   copying bonito/cli/export.py -> build/lib/bonito/cli
2021-08-24T21:44:25,264   copying bonito/cli/download.py -> build/lib/bonito/cli
2021-08-24T21:44:25,267   copying bonito/cli/convert.py -> build/lib/bonito/cli
2021-08-24T21:44:25,269   copying bonito/cli/duplex.py -> build/lib/bonito/cli
2021-08-24T21:44:25,273   creating build/lib/bonito/crf
2021-08-24T21:44:25,274   copying bonito/crf/__init__.py -> build/lib/bonito/crf
2021-08-24T21:44:25,276   copying bonito/crf/model.py -> build/lib/bonito/crf
2021-08-24T21:44:25,279   copying bonito/crf/basecall.py -> build/lib/bonito/crf
2021-08-24T21:44:25,282   creating build/lib/bonito/ctc
2021-08-24T21:44:25,283   copying bonito/ctc/__init__.py -> build/lib/bonito/ctc
2021-08-24T21:44:25,285   copying bonito/ctc/model.py -> build/lib/bonito/ctc
2021-08-24T21:44:25,287   copying bonito/ctc/basecall.py -> build/lib/bonito/ctc
2021-08-24T21:44:25,289   running egg_info
2021-08-24T21:44:25,304   writing ont_bonito_cuda111.egg-info/PKG-INFO
2021-08-24T21:44:25,307   writing dependency_links to ont_bonito_cuda111.egg-info/dependency_links.txt
2021-08-24T21:44:25,309   writing entry points to ont_bonito_cuda111.egg-info/entry_points.txt
2021-08-24T21:44:25,310   writing requirements to ont_bonito_cuda111.egg-info/requires.txt
2021-08-24T21:44:25,311   writing top-level names to ont_bonito_cuda111.egg-info/top_level.txt
2021-08-24T21:44:25,319   reading manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:44:25,321   reading manifest template 'MANIFEST.in'
2021-08-24T21:44:25,325   adding license file 'LICENCE.txt'
2021-08-24T21:44:25,328   writing manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt'
2021-08-24T21:44:25,332   creating build/lib/bonito/data
2021-08-24T21:44:25,333   copying bonito/data/README.md -> build/lib/bonito/data
2021-08-24T21:44:25,335   creating build/lib/bonito/models
2021-08-24T21:44:25,336   copying bonito/models/README.md -> build/lib/bonito/models
2021-08-24T21:44:25,338   creating build/lib/bonito/models/configs
2021-08-24T21:44:25,339   copying bonito/models/configs/dna_r9.4.1@v1.toml -> build/lib/bonito/models/configs
2021-08-24T21:44:25,342   copying bonito/models/configs/dna_r9.4.1@v2.toml -> build/lib/bonito/models/configs
2021-08-24T21:44:25,344   copying bonito/models/configs/dna_r9.4.1@v3.toml -> build/lib/bonito/models/configs
2021-08-24T21:44:25,352   installing to build/bdist.linux-armv7l/wheel
2021-08-24T21:44:25,352   running install
2021-08-24T21:44:25,353   running install_lib
2021-08-24T21:44:25,357   creating build/bdist.linux-armv7l
2021-08-24T21:44:25,357   creating build/bdist.linux-armv7l/wheel
2021-08-24T21:44:25,359   creating build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:44:25,360   copying build/lib/bonito/__init__.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:44:25,363   creating build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,364   copying build/lib/bonito/cli/view.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,366   copying build/lib/bonito/cli/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,368   copying build/lib/bonito/cli/evaluate.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,370   copying build/lib/bonito/cli/train.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,372   copying build/lib/bonito/cli/basecaller.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,374   copying build/lib/bonito/cli/export.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,376   copying build/lib/bonito/cli/download.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,378   copying build/lib/bonito/cli/convert.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,381   copying build/lib/bonito/cli/duplex.py -> build/bdist.linux-armv7l/wheel/bonito/cli
2021-08-24T21:44:25,384   copying build/lib/bonito/fast5.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:44:25,386   copying build/lib/bonito/multiprocessing.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:44:25,389   creating build/bdist.linux-armv7l/wheel/bonito/crf
2021-08-24T21:44:25,390   copying build/lib/bonito/crf/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/crf
2021-08-24T21:44:25,392   copying build/lib/bonito/crf/model.py -> build/bdist.linux-armv7l/wheel/bonito/crf
2021-08-24T21:44:25,395   copying build/lib/bonito/crf/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/crf
2021-08-24T21:44:25,397   copying build/lib/bonito/util.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:44:25,400   copying build/lib/bonito/io.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:44:25,404   creating build/bdist.linux-armv7l/wheel/bonito/models
2021-08-24T21:44:25,405   creating build/bdist.linux-armv7l/wheel/bonito/models/configs
2021-08-24T21:44:25,406   copying build/lib/bonito/models/configs/dna_r9.4.1@v2.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs
2021-08-24T21:44:25,408   copying build/lib/bonito/models/configs/dna_r9.4.1@v1.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs
2021-08-24T21:44:25,410   copying build/lib/bonito/models/configs/dna_r9.4.1@v3.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs
2021-08-24T21:44:25,413   copying build/lib/bonito/models/README.md -> build/bdist.linux-armv7l/wheel/bonito/models
2021-08-24T21:44:25,415   creating build/bdist.linux-armv7l/wheel/bonito/ctc
2021-08-24T21:44:25,416   copying build/lib/bonito/ctc/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/ctc
2021-08-24T21:44:25,418   copying build/lib/bonito/ctc/model.py -> build/bdist.linux-armv7l/wheel/bonito/ctc
2021-08-24T21:44:25,421   copying build/lib/bonito/ctc/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/ctc
2021-08-24T21:44:25,424   creating build/bdist.linux-armv7l/wheel/bonito/data
2021-08-24T21:44:25,424   copying build/lib/bonito/data/README.md -> build/bdist.linux-armv7l/wheel/bonito/data
2021-08-24T21:44:25,427   copying build/lib/bonito/aligner.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:44:25,429   copying build/lib/bonito/nn.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:44:25,431   copying build/lib/bonito/training.py -> build/bdist.linux-armv7l/wheel/bonito
2021-08-24T21:44:25,433   running install_egg_info
2021-08-24T21:44:25,443   Copying ont_bonito_cuda111.egg-info to build/bdist.linux-armv7l/wheel/ont_bonito_cuda111-0.4.0-py3.7.egg-info
2021-08-24T21:44:25,456   running install_scripts
2021-08-24T21:44:25,518   error: [Errno 2] No such file or directory: 'bonito': 'bonito'
2021-08-24T21:44:25,593   Building wheel for ont-bonito-cuda111 (setup.py): finished with status 'error'
2021-08-24T21:44:25,594   ERROR: Failed building wheel for ont-bonito-cuda111
2021-08-24T21:44:25,595   Running setup.py clean for ont-bonito-cuda111
2021-08-24T21:44:25,595   Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-9myolq2m/ont-bonito-cuda111_7d70fa17847649e1a2bf7bad6054d750/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-9myolq2m/ont-bonito-cuda111_7d70fa17847649e1a2bf7bad6054d750/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
2021-08-24T21:44:26,295   Building with CUDA 11.1
2021-08-24T21:44:26,490   running clean
2021-08-24T21:44:26,492   removing 'build/lib' (and everything under it)
2021-08-24T21:44:26,505   removing 'build/bdist.linux-armv7l' (and everything under it)
2021-08-24T21:44:26,525   'build/scripts-3.7' does not exist -- can't clean it
2021-08-24T21:44:26,526   removing 'build'
2021-08-24T21:44:26,587 Failed to build ont-bonito-cuda111
2021-08-24T21:44:26,588 ERROR: Failed to build one or more wheels
2021-08-24T21:44:26,588 Exception information:
2021-08-24T21:44:26,588 Traceback (most recent call last):
2021-08-24T21:44:26,588   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main
2021-08-24T21:44:26,588     status = self.run(options, args)
2021-08-24T21:44:26,588   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper
2021-08-24T21:44:26,588     return func(self, options, args)
2021-08-24T21:44:26,588   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/commands/wheel.py", line 175, in run
2021-08-24T21:44:26,588     "Failed to build one or more wheels"
2021-08-24T21:44:26,588 pip._internal.exceptions.CommandError: Failed to build one or more wheels
2021-08-24T21:44:26,591 Removed build tracker: '/tmp/pip-req-tracker-ia6hh1i6'