2021-08-24T21:49:40,198 Created temporary directory: /tmp/pip-ephem-wheel-cache-m3ygn5ch 2021-08-24T21:49:40,202 Created temporary directory: /tmp/pip-req-tracker-5la5gnfb 2021-08-24T21:49:40,202 Initialized build tracking at /tmp/pip-req-tracker-5la5gnfb 2021-08-24T21:49:40,202 Created build tracker: /tmp/pip-req-tracker-5la5gnfb 2021-08-24T21:49:40,203 Entered build tracker: /tmp/pip-req-tracker-5la5gnfb 2021-08-24T21:49:40,203 Created temporary directory: /tmp/pip-wheel-479uyb4z 2021-08-24T21:49:40,239 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2021-08-24T21:49:40,242 2 location(s) to search for versions of ont-bonito-cuda111: 2021-08-24T21:49:40,242 * https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T21:49:40,242 * https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T21:49:40,242 Fetching project page and analyzing links: https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T21:49:40,243 Getting page https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T21:49:40,244 Found index url https://pypi.org/simple 2021-08-24T21:49:40,336 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 2021-08-24T21:49:40,337 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 2021-08-24T21:49:40,337 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 2021-08-24T21:49:40,337 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 2021-08-24T21:49:40,338 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 2021-08-24T21:49:40,338 Fetching project page and analyzing links: https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T21:49:40,338 Getting page https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T21:49:40,339 Found index url https://www.piwheels.org/simple 2021-08-24T21:49:40,452 Skipping link: not a file: https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T21:49:40,453 Skipping link: not a file: https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T21:49:40,473 Given no hashes to check 1 links for project 'ont-bonito-cuda111': discarding no candidates 2021-08-24T21:49:40,491 Collecting ont-bonito-cuda111==0.4.0a4 2021-08-24T21:49:40,493 Created temporary directory: /tmp/pip-unpack-_72me48e 2021-08-24T21:49:40,533 Downloading ont-bonito-cuda111-0.4.0a4.tar.gz (43 kB) 2021-08-24T21:49:40,661 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-5la5gnfb' 2021-08-24T21:49:40,662 Running setup.py (path:/tmp/pip-wheel-479uyb4z/ont-bonito-cuda111_3f721309b795483189be88ef3a9e682b/setup.py) egg_info for package ont-bonito-cuda111 2021-08-24T21:49:40,663 Created temporary directory: /tmp/pip-pip-egg-info-4t97u2qp 2021-08-24T21:49:40,663 Running command python setup.py egg_info 2021-08-24T21:49:41,550 Building with CUDA 11.1 2021-08-24T21:49:41,551 running egg_info 2021-08-24T21:49:41,552 creating /tmp/pip-pip-egg-info-4t97u2qp/ont_bonito_cuda111.egg-info 2021-08-24T21:49:41,553 writing /tmp/pip-pip-egg-info-4t97u2qp/ont_bonito_cuda111.egg-info/PKG-INFO 2021-08-24T21:49:41,556 writing dependency_links to /tmp/pip-pip-egg-info-4t97u2qp/ont_bonito_cuda111.egg-info/dependency_links.txt 2021-08-24T21:49:41,557 writing entry points to /tmp/pip-pip-egg-info-4t97u2qp/ont_bonito_cuda111.egg-info/entry_points.txt 2021-08-24T21:49:41,559 writing requirements to /tmp/pip-pip-egg-info-4t97u2qp/ont_bonito_cuda111.egg-info/requires.txt 2021-08-24T21:49:41,560 writing top-level names to /tmp/pip-pip-egg-info-4t97u2qp/ont_bonito_cuda111.egg-info/top_level.txt 2021-08-24T21:49:41,561 writing manifest file '/tmp/pip-pip-egg-info-4t97u2qp/ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T21:49:41,716 reading manifest file '/tmp/pip-pip-egg-info-4t97u2qp/ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T21:49:41,717 reading manifest template 'MANIFEST.in' 2021-08-24T21:49:41,720 adding license file 'LICENCE.txt' 2021-08-24T21:49:41,723 writing manifest file '/tmp/pip-pip-egg-info-4t97u2qp/ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T21:49:41,786 Source in /tmp/pip-wheel-479uyb4z/ont-bonito-cuda111_3f721309b795483189be88ef3a9e682b 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 2021-08-24T21:49:41,787 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-5la5gnfb' 2021-08-24T21:49:41,792 Created temporary directory: /tmp/pip-unpack-de2m3uc_ 2021-08-24T21:49:41,792 Building wheels for collected packages: ont-bonito-cuda111 2021-08-24T21:49:41,797 Created temporary directory: /tmp/pip-wheel-86hfl06r 2021-08-24T21:49:41,797 Building wheel for ont-bonito-cuda111 (setup.py): started 2021-08-24T21:49:41,797 Destination directory: /tmp/pip-wheel-86hfl06r 2021-08-24T21:49:41,797 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-479uyb4z/ont-bonito-cuda111_3f721309b795483189be88ef3a9e682b/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-479uyb4z/ont-bonito-cuda111_3f721309b795483189be88ef3a9e682b/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-86hfl06r 2021-08-24T21:49:42,454 Building with CUDA 11.1 2021-08-24T21:49:42,674 running bdist_wheel 2021-08-24T21:49:42,843 running build 2021-08-24T21:49:42,843 running build_py 2021-08-24T21:49:42,982 creating build 2021-08-24T21:49:42,982 creating build/lib 2021-08-24T21:49:42,983 creating build/lib/bonito 2021-08-24T21:49:42,984 copying bonito/multiprocessing.py -> build/lib/bonito 2021-08-24T21:49:42,987 copying bonito/io.py -> build/lib/bonito 2021-08-24T21:49:42,989 copying bonito/aligner.py -> build/lib/bonito 2021-08-24T21:49:42,991 copying bonito/training.py -> build/lib/bonito 2021-08-24T21:49:42,994 copying bonito/fast5.py -> build/lib/bonito 2021-08-24T21:49:42,996 copying bonito/__init__.py -> build/lib/bonito 2021-08-24T21:49:42,998 copying bonito/nn.py -> build/lib/bonito 2021-08-24T21:49:43,000 copying bonito/util.py -> build/lib/bonito 2021-08-24T21:49:43,003 creating build/lib/bonito/crf 2021-08-24T21:49:43,004 copying bonito/crf/__init__.py -> build/lib/bonito/crf 2021-08-24T21:49:43,007 copying bonito/crf/model.py -> build/lib/bonito/crf 2021-08-24T21:49:43,009 copying bonito/crf/basecall.py -> build/lib/bonito/crf 2021-08-24T21:49:43,013 creating build/lib/bonito/cli 2021-08-24T21:49:43,013 copying bonito/cli/evaluate.py -> build/lib/bonito/cli 2021-08-24T21:49:43,016 copying bonito/cli/download.py -> build/lib/bonito/cli 2021-08-24T21:49:43,018 copying bonito/cli/train.py -> build/lib/bonito/cli 2021-08-24T21:49:43,021 copying bonito/cli/view.py -> build/lib/bonito/cli 2021-08-24T21:49:43,023 copying bonito/cli/__init__.py -> build/lib/bonito/cli 2021-08-24T21:49:43,024 copying bonito/cli/export.py -> build/lib/bonito/cli 2021-08-24T21:49:43,026 copying bonito/cli/duplex.py -> build/lib/bonito/cli 2021-08-24T21:49:43,029 copying bonito/cli/convert.py -> build/lib/bonito/cli 2021-08-24T21:49:43,032 copying bonito/cli/basecaller.py -> build/lib/bonito/cli 2021-08-24T21:49:43,034 creating build/lib/bonito/ctc 2021-08-24T21:49:43,035 copying bonito/ctc/__init__.py -> build/lib/bonito/ctc 2021-08-24T21:49:43,038 copying bonito/ctc/model.py -> build/lib/bonito/ctc 2021-08-24T21:49:43,040 copying bonito/ctc/basecall.py -> build/lib/bonito/ctc 2021-08-24T21:49:43,042 running egg_info 2021-08-24T21:49:43,057 writing ont_bonito_cuda111.egg-info/PKG-INFO 2021-08-24T21:49:43,059 writing dependency_links to ont_bonito_cuda111.egg-info/dependency_links.txt 2021-08-24T21:49:43,061 writing entry points to ont_bonito_cuda111.egg-info/entry_points.txt 2021-08-24T21:49:43,062 writing requirements to ont_bonito_cuda111.egg-info/requires.txt 2021-08-24T21:49:43,063 writing top-level names to ont_bonito_cuda111.egg-info/top_level.txt 2021-08-24T21:49:43,070 reading manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T21:49:43,073 reading manifest template 'MANIFEST.in' 2021-08-24T21:49:43,076 adding license file 'LICENCE.txt' 2021-08-24T21:49:43,080 writing manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T21:49:43,082 creating build/lib/bonito/data 2021-08-24T21:49:43,083 copying bonito/data/README.md -> build/lib/bonito/data 2021-08-24T21:49:43,086 creating build/lib/bonito/models 2021-08-24T21:49:43,087 copying bonito/models/README.md -> build/lib/bonito/models 2021-08-24T21:49:43,089 creating build/lib/bonito/models/configs 2021-08-24T21:49:43,090 copying bonito/models/configs/dna_r9.4.1@v1.toml -> build/lib/bonito/models/configs 2021-08-24T21:49:43,092 copying bonito/models/configs/dna_r9.4.1@v2.toml -> build/lib/bonito/models/configs 2021-08-24T21:49:43,095 copying bonito/models/configs/dna_r9.4.1@v3.toml -> build/lib/bonito/models/configs 2021-08-24T21:49:43,103 installing to build/bdist.linux-armv7l/wheel 2021-08-24T21:49:43,103 running install 2021-08-24T21:49:43,104 running install_lib 2021-08-24T21:49:43,107 creating build/bdist.linux-armv7l 2021-08-24T21:49:43,108 creating build/bdist.linux-armv7l/wheel 2021-08-24T21:49:43,110 creating build/bdist.linux-armv7l/wheel/bonito 2021-08-24T21:49:43,111 copying build/lib/bonito/multiprocessing.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T21:49:43,114 creating build/bdist.linux-armv7l/wheel/bonito/data 2021-08-24T21:49:43,115 copying build/lib/bonito/data/README.md -> build/bdist.linux-armv7l/wheel/bonito/data 2021-08-24T21:49:43,117 copying build/lib/bonito/io.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T21:49:43,120 copying build/lib/bonito/aligner.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T21:49:43,122 creating build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T21:49:43,123 copying build/lib/bonito/crf/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T21:49:43,125 copying build/lib/bonito/crf/model.py -> build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T21:49:43,128 copying build/lib/bonito/crf/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T21:49:43,130 copying build/lib/bonito/training.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T21:49:43,133 copying build/lib/bonito/fast5.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T21:49:43,135 copying build/lib/bonito/__init__.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T21:49:43,138 creating build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,139 copying build/lib/bonito/cli/evaluate.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,141 copying build/lib/bonito/cli/download.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,143 copying build/lib/bonito/cli/train.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,146 copying build/lib/bonito/cli/view.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,148 copying build/lib/bonito/cli/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,149 copying build/lib/bonito/cli/export.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,152 copying build/lib/bonito/cli/duplex.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,154 copying build/lib/bonito/cli/convert.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,157 copying build/lib/bonito/cli/basecaller.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T21:49:43,160 creating build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T21:49:43,161 copying build/lib/bonito/ctc/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T21:49:43,163 copying build/lib/bonito/ctc/model.py -> build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T21:49:43,165 copying build/lib/bonito/ctc/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T21:49:43,168 creating build/bdist.linux-armv7l/wheel/bonito/models 2021-08-24T21:49:43,170 creating build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T21:49:43,171 copying build/lib/bonito/models/configs/dna_r9.4.1@v3.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T21:49:43,173 copying build/lib/bonito/models/configs/dna_r9.4.1@v1.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T21:49:43,175 copying build/lib/bonito/models/configs/dna_r9.4.1@v2.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T21:49:43,177 copying build/lib/bonito/models/README.md -> build/bdist.linux-armv7l/wheel/bonito/models 2021-08-24T21:49:43,179 copying build/lib/bonito/nn.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T21:49:43,181 copying build/lib/bonito/util.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T21:49:43,184 running install_egg_info 2021-08-24T21:49:43,193 Copying ont_bonito_cuda111.egg-info to build/bdist.linux-armv7l/wheel/ont_bonito_cuda111-0.4.0a4-py3.9.egg-info 2021-08-24T21:49:43,206 running install_scripts 2021-08-24T21:49:43,287 error: [Errno 2] No such file or directory: 'bonito' 2021-08-24T21:49:43,384 Building wheel for ont-bonito-cuda111 (setup.py): finished with status 'error' 2021-08-24T21:49:43,385 ERROR: Failed building wheel for ont-bonito-cuda111 2021-08-24T21:49:43,385 Running setup.py clean for ont-bonito-cuda111 2021-08-24T21:49:43,386 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-479uyb4z/ont-bonito-cuda111_3f721309b795483189be88ef3a9e682b/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-479uyb4z/ont-bonito-cuda111_3f721309b795483189be88ef3a9e682b/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 2021-08-24T21:49:44,053 Building with CUDA 11.1 2021-08-24T21:49:44,242 running clean 2021-08-24T21:49:44,244 removing 'build/lib' (and everything under it) 2021-08-24T21:49:44,256 removing 'build/bdist.linux-armv7l' (and everything under it) 2021-08-24T21:49:44,277 'build/scripts-3.9' does not exist -- can't clean it 2021-08-24T21:49:44,278 removing 'build' 2021-08-24T21:49:44,335 Failed to build ont-bonito-cuda111 2021-08-24T21:49:44,335 ERROR: Failed to build one or more wheels 2021-08-24T21:49:44,336 Exception information: 2021-08-24T21:49:44,336 Traceback (most recent call last): 2021-08-24T21:49:44,336 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-08-24T21:49:44,336 status = self.run(options, args) 2021-08-24T21:49:44,336 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-08-24T21:49:44,336 return func(self, options, args) 2021-08-24T21:49:44,336 File "/usr/local/lib/python3.9/dist-packages/pip/_internal/commands/wheel.py", line 174, in run 2021-08-24T21:49:44,336 raise CommandError( 2021-08-24T21:49:44,336 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-08-24T21:49:44,339 Removed build tracker: '/tmp/pip-req-tracker-5la5gnfb'