2021-08-24T20:47:39,883 Created temporary directory: /tmp/pip-ephem-wheel-cache-2lbkr7hg 2021-08-24T20:47:39,886 Created temporary directory: /tmp/pip-req-tracker-tgewd7pt 2021-08-24T20:47:39,887 Initialized build tracking at /tmp/pip-req-tracker-tgewd7pt 2021-08-24T20:47:39,887 Created build tracker: /tmp/pip-req-tracker-tgewd7pt 2021-08-24T20:47:39,887 Entered build tracker: /tmp/pip-req-tracker-tgewd7pt 2021-08-24T20:47:39,888 Created temporary directory: /tmp/pip-wheel-e94n8opn 2021-08-24T20:47:39,922 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2021-08-24T20:47:39,925 2 location(s) to search for versions of ont-bonito-cuda111: 2021-08-24T20:47:39,925 * https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T20:47:39,925 * https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T20:47:39,926 Fetching project page and analyzing links: https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T20:47:39,926 Getting page https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T20:47:39,928 Found index url https://pypi.org/simple 2021-08-24T20:47:40,018 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 2021-08-24T20:47:40,018 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 2021-08-24T20:47:40,018 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 2021-08-24T20:47:40,019 Fetching project page and analyzing links: https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T20:47:40,019 Getting page https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T20:47:40,020 Found index url https://www.piwheels.org/simple 2021-08-24T20:47:40,138 Skipping link: not a file: https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T20:47:40,138 Skipping link: not a file: https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T20:47:40,157 Given no hashes to check 1 links for project 'ont-bonito-cuda111': discarding no candidates 2021-08-24T20:47:40,176 Collecting ont-bonito-cuda111==0.4.0a2 2021-08-24T20:47:40,178 Created temporary directory: /tmp/pip-unpack-tlhqi_lp 2021-08-24T20:47:40,220 Downloading ont-bonito-cuda111-0.4.0a2.tar.gz (43 kB) 2021-08-24T20:47:40,341 Added ont-bonito-cuda111==0.4.0a2 from https://files.pythonhosted.org/packages/25/8c/28c43178094cb5cdae8df6c80d47e232a3e3013fba61f0bcdc02c5ca42f2/ont-bonito-cuda111-0.4.0a2.tar.gz#sha256=87a95bb62b6e1c5abe647d56732842d7fd7e84c2bdc0a96e427acba969d6879d to build tracker '/tmp/pip-req-tracker-tgewd7pt' 2021-08-24T20:47:40,342 Running setup.py (path:/tmp/pip-wheel-e94n8opn/ont-bonito-cuda111_74d4ab31a3854c8e91406adcffa87d32/setup.py) egg_info for package ont-bonito-cuda111 2021-08-24T20:47:40,343 Created temporary directory: /tmp/pip-pip-egg-info-i2ofbx4v 2021-08-24T20:47:40,343 Running command python setup.py egg_info 2021-08-24T20:47:41,234 Building with CUDA 11.1 2021-08-24T20:47:41,235 running egg_info 2021-08-24T20:47:41,237 creating /tmp/pip-pip-egg-info-i2ofbx4v/ont_bonito_cuda111.egg-info 2021-08-24T20:47:41,238 writing /tmp/pip-pip-egg-info-i2ofbx4v/ont_bonito_cuda111.egg-info/PKG-INFO 2021-08-24T20:47:41,241 writing dependency_links to /tmp/pip-pip-egg-info-i2ofbx4v/ont_bonito_cuda111.egg-info/dependency_links.txt 2021-08-24T20:47:41,242 writing entry points to /tmp/pip-pip-egg-info-i2ofbx4v/ont_bonito_cuda111.egg-info/entry_points.txt 2021-08-24T20:47:41,244 writing requirements to /tmp/pip-pip-egg-info-i2ofbx4v/ont_bonito_cuda111.egg-info/requires.txt 2021-08-24T20:47:41,245 writing top-level names to /tmp/pip-pip-egg-info-i2ofbx4v/ont_bonito_cuda111.egg-info/top_level.txt 2021-08-24T20:47:41,247 writing manifest file '/tmp/pip-pip-egg-info-i2ofbx4v/ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:47:41,422 reading manifest file '/tmp/pip-pip-egg-info-i2ofbx4v/ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:47:41,424 reading manifest template 'MANIFEST.in' 2021-08-24T20:47:41,429 adding license file 'LICENCE.txt' 2021-08-24T20:47:41,432 writing manifest file '/tmp/pip-pip-egg-info-i2ofbx4v/ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:47:41,504 Source in /tmp/pip-wheel-e94n8opn/ont-bonito-cuda111_74d4ab31a3854c8e91406adcffa87d32 has version 0.4.0a2, which satisfies requirement ont-bonito-cuda111==0.4.0a2 from https://files.pythonhosted.org/packages/25/8c/28c43178094cb5cdae8df6c80d47e232a3e3013fba61f0bcdc02c5ca42f2/ont-bonito-cuda111-0.4.0a2.tar.gz#sha256=87a95bb62b6e1c5abe647d56732842d7fd7e84c2bdc0a96e427acba969d6879d 2021-08-24T20:47:41,505 Removed ont-bonito-cuda111==0.4.0a2 from https://files.pythonhosted.org/packages/25/8c/28c43178094cb5cdae8df6c80d47e232a3e3013fba61f0bcdc02c5ca42f2/ont-bonito-cuda111-0.4.0a2.tar.gz#sha256=87a95bb62b6e1c5abe647d56732842d7fd7e84c2bdc0a96e427acba969d6879d from build tracker '/tmp/pip-req-tracker-tgewd7pt' 2021-08-24T20:47:41,510 Created temporary directory: /tmp/pip-unpack-6d5hi5wh 2021-08-24T20:47:41,511 Building wheels for collected packages: ont-bonito-cuda111 2021-08-24T20:47:41,516 Created temporary directory: /tmp/pip-wheel-uvyef32o 2021-08-24T20:47:41,517 Building wheel for ont-bonito-cuda111 (setup.py): started 2021-08-24T20:47:41,517 Destination directory: /tmp/pip-wheel-uvyef32o 2021-08-24T20:47:41,517 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-e94n8opn/ont-bonito-cuda111_74d4ab31a3854c8e91406adcffa87d32/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-e94n8opn/ont-bonito-cuda111_74d4ab31a3854c8e91406adcffa87d32/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-uvyef32o 2021-08-24T20:47:42,185 Building with CUDA 11.1 2021-08-24T20:47:42,409 running bdist_wheel 2021-08-24T20:47:42,585 running build 2021-08-24T20:47:42,585 running build_py 2021-08-24T20:47:42,727 creating build 2021-08-24T20:47:42,728 creating build/lib 2021-08-24T20:47:42,728 creating build/lib/bonito 2021-08-24T20:47:42,730 copying bonito/training.py -> build/lib/bonito 2021-08-24T20:47:42,732 copying bonito/util.py -> build/lib/bonito 2021-08-24T20:47:42,734 copying bonito/io.py -> build/lib/bonito 2021-08-24T20:47:42,737 copying bonito/fast5.py -> build/lib/bonito 2021-08-24T20:47:42,739 copying bonito/nn.py -> build/lib/bonito 2021-08-24T20:47:42,741 copying bonito/aligner.py -> build/lib/bonito 2021-08-24T20:47:42,743 copying bonito/__init__.py -> build/lib/bonito 2021-08-24T20:47:42,745 copying bonito/multiprocessing.py -> build/lib/bonito 2021-08-24T20:47:42,748 creating build/lib/bonito/cli 2021-08-24T20:47:42,749 copying bonito/cli/export.py -> build/lib/bonito/cli 2021-08-24T20:47:42,751 copying bonito/cli/evaluate.py -> build/lib/bonito/cli 2021-08-24T20:47:42,753 copying bonito/cli/convert.py -> build/lib/bonito/cli 2021-08-24T20:47:42,756 copying bonito/cli/train.py -> build/lib/bonito/cli 2021-08-24T20:47:42,759 copying bonito/cli/basecaller.py -> build/lib/bonito/cli 2021-08-24T20:47:42,761 copying bonito/cli/download.py -> build/lib/bonito/cli 2021-08-24T20:47:42,763 copying bonito/cli/__init__.py -> build/lib/bonito/cli 2021-08-24T20:47:42,765 copying bonito/cli/duplex.py -> build/lib/bonito/cli 2021-08-24T20:47:42,768 copying bonito/cli/view.py -> build/lib/bonito/cli 2021-08-24T20:47:42,771 creating build/lib/bonito/ctc 2021-08-24T20:47:42,772 copying bonito/ctc/basecall.py -> build/lib/bonito/ctc 2021-08-24T20:47:42,774 copying bonito/ctc/model.py -> build/lib/bonito/ctc 2021-08-24T20:47:42,777 copying bonito/ctc/__init__.py -> build/lib/bonito/ctc 2021-08-24T20:47:42,780 creating build/lib/bonito/crf 2021-08-24T20:47:42,780 copying bonito/crf/basecall.py -> build/lib/bonito/crf 2021-08-24T20:47:42,783 copying bonito/crf/model.py -> build/lib/bonito/crf 2021-08-24T20:47:42,785 copying bonito/crf/__init__.py -> build/lib/bonito/crf 2021-08-24T20:47:42,787 running egg_info 2021-08-24T20:47:42,803 writing ont_bonito_cuda111.egg-info/PKG-INFO 2021-08-24T20:47:42,805 writing dependency_links to ont_bonito_cuda111.egg-info/dependency_links.txt 2021-08-24T20:47:42,807 writing entry points to ont_bonito_cuda111.egg-info/entry_points.txt 2021-08-24T20:47:42,808 writing requirements to ont_bonito_cuda111.egg-info/requires.txt 2021-08-24T20:47:42,810 writing top-level names to ont_bonito_cuda111.egg-info/top_level.txt 2021-08-24T20:47:42,833 reading manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:47:42,836 reading manifest template 'MANIFEST.in' 2021-08-24T20:47:42,840 adding license file 'LICENCE.txt' 2021-08-24T20:47:42,844 writing manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:47:42,847 creating build/lib/bonito/data 2021-08-24T20:47:42,848 copying bonito/data/README.md -> build/lib/bonito/data 2021-08-24T20:47:42,851 creating build/lib/bonito/models 2021-08-24T20:47:42,852 copying bonito/models/README.md -> build/lib/bonito/models 2021-08-24T20:47:42,854 creating build/lib/bonito/models/configs 2021-08-24T20:47:42,855 copying bonito/models/configs/dna_r9.4.1@v1.toml -> build/lib/bonito/models/configs 2021-08-24T20:47:42,858 copying bonito/models/configs/dna_r9.4.1@v2.toml -> build/lib/bonito/models/configs 2021-08-24T20:47:42,860 copying bonito/models/configs/dna_r9.4.1@v3.toml -> build/lib/bonito/models/configs 2021-08-24T20:47:42,869 installing to build/bdist.linux-armv7l/wheel 2021-08-24T20:47:42,869 running install 2021-08-24T20:47:42,870 running install_lib 2021-08-24T20:47:42,875 creating build/bdist.linux-armv7l 2021-08-24T20:47:42,875 creating build/bdist.linux-armv7l/wheel 2021-08-24T20:47:42,878 creating build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:47:42,880 creating build/bdist.linux-armv7l/wheel/bonito/models 2021-08-24T20:47:42,882 creating build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T20:47:42,883 copying build/lib/bonito/models/configs/dna_r9.4.1@v2.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T20:47:42,885 copying build/lib/bonito/models/configs/dna_r9.4.1@v1.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T20:47:42,888 copying build/lib/bonito/models/configs/dna_r9.4.1@v3.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T20:47:42,890 copying build/lib/bonito/models/README.md -> build/bdist.linux-armv7l/wheel/bonito/models 2021-08-24T20:47:42,892 copying build/lib/bonito/training.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:47:42,894 copying build/lib/bonito/util.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:47:42,898 creating build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,899 copying build/lib/bonito/cli/export.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,901 copying build/lib/bonito/cli/evaluate.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,903 copying build/lib/bonito/cli/convert.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,906 copying build/lib/bonito/cli/train.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,909 copying build/lib/bonito/cli/basecaller.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,911 copying build/lib/bonito/cli/download.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,913 copying build/lib/bonito/cli/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,915 copying build/lib/bonito/cli/duplex.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,918 copying build/lib/bonito/cli/view.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:47:42,920 copying build/lib/bonito/io.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:47:42,923 copying build/lib/bonito/fast5.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:47:42,927 creating build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T20:47:42,928 copying build/lib/bonito/ctc/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T20:47:42,930 copying build/lib/bonito/ctc/model.py -> build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T20:47:42,933 copying build/lib/bonito/ctc/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T20:47:42,936 creating build/bdist.linux-armv7l/wheel/bonito/data 2021-08-24T20:47:42,936 copying build/lib/bonito/data/README.md -> build/bdist.linux-armv7l/wheel/bonito/data 2021-08-24T20:47:42,939 copying build/lib/bonito/nn.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:47:42,941 copying build/lib/bonito/aligner.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:47:42,944 copying build/lib/bonito/__init__.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:47:42,946 copying build/lib/bonito/multiprocessing.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:47:42,949 creating build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T20:47:42,950 copying build/lib/bonito/crf/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T20:47:42,953 copying build/lib/bonito/crf/model.py -> build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T20:47:42,956 copying build/lib/bonito/crf/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T20:47:42,958 running install_egg_info 2021-08-24T20:47:42,969 Copying ont_bonito_cuda111.egg-info to build/bdist.linux-armv7l/wheel/ont_bonito_cuda111-0.4.0a2-py3.9.egg-info 2021-08-24T20:47:42,984 running install_scripts 2021-08-24T20:47:43,054 error: [Errno 2] No such file or directory: 'bonito' 2021-08-24T20:47:43,145 Building wheel for ont-bonito-cuda111 (setup.py): finished with status 'error' 2021-08-24T20:47:43,145 ERROR: Failed building wheel for ont-bonito-cuda111 2021-08-24T20:47:43,146 Running setup.py clean for ont-bonito-cuda111 2021-08-24T20:47:43,146 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-e94n8opn/ont-bonito-cuda111_74d4ab31a3854c8e91406adcffa87d32/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-e94n8opn/ont-bonito-cuda111_74d4ab31a3854c8e91406adcffa87d32/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 2021-08-24T20:47:43,804 Building with CUDA 11.1 2021-08-24T20:47:43,993 running clean 2021-08-24T20:47:43,996 removing 'build/lib' (and everything under it) 2021-08-24T20:47:44,008 removing 'build/bdist.linux-armv7l' (and everything under it) 2021-08-24T20:47:44,029 'build/scripts-3.9' does not exist -- can't clean it 2021-08-24T20:47:44,029 removing 'build' 2021-08-24T20:47:44,087 Failed to build ont-bonito-cuda111 2021-08-24T20:47:44,087 ERROR: Failed to build one or more wheels 2021-08-24T20:47:44,088 Exception information: 2021-08-24T20:47:44,088 Traceback (most recent call last): 2021-08-24T20:47:44,088 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-08-24T20:47:44,088 status = self.run(options, args) 2021-08-24T20:47:44,088 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-08-24T20:47:44,088 return func(self, options, args) 2021-08-24T20:47:44,088 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-08-24T20:47:44,088 raise CommandError( 2021-08-24T20:47:44,088 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-08-24T20:47:44,091 Removed build tracker: '/tmp/pip-req-tracker-tgewd7pt'