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'