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'