2021-08-24T20:41:00,794 Created temporary directory: /tmp/pip-ephem-wheel-cache-eb7gpwyq 2021-08-24T20:41:00,797 Created temporary directory: /tmp/pip-req-tracker-jm57tvxg 2021-08-24T20:41:00,798 Initialized build tracking at /tmp/pip-req-tracker-jm57tvxg 2021-08-24T20:41:00,798 Created build tracker: /tmp/pip-req-tracker-jm57tvxg 2021-08-24T20:41:00,798 Entered build tracker: /tmp/pip-req-tracker-jm57tvxg 2021-08-24T20:41:00,799 Created temporary directory: /tmp/pip-wheel-h4qijbk_ 2021-08-24T20:41:00,830 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2021-08-24T20:41:00,833 2 location(s) to search for versions of ont-bonito-cuda111: 2021-08-24T20:41:00,833 * https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T20:41:00,833 * https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T20:41:00,833 Fetching project page and analyzing links: https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T20:41:00,834 Getting page https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T20:41:00,835 Found index url https://pypi.org/simple 2021-08-24T20:41:00,922 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 2021-08-24T20:41:00,923 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 2021-08-24T20:41:00,923 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 2021-08-24T20:41:00,924 Fetching project page and analyzing links: https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T20:41:00,924 Getting page https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T20:41:00,925 Found index url https://www.piwheels.org/simple 2021-08-24T20:41:01,038 Skipping link: not a file: https://www.piwheels.org/simple/ont-bonito-cuda111/ 2021-08-24T20:41:01,038 Skipping link: not a file: https://pypi.org/simple/ont-bonito-cuda111/ 2021-08-24T20:41:01,057 Given no hashes to check 1 links for project 'ont-bonito-cuda111': discarding no candidates 2021-08-24T20:41:01,071 Collecting ont-bonito-cuda111==0.4.0a2 2021-08-24T20:41:01,073 Created temporary directory: /tmp/pip-unpack-azqvrrib 2021-08-24T20:41:01,113 Downloading ont-bonito-cuda111-0.4.0a2.tar.gz (43 kB) 2021-08-24T20:41:01,233 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-jm57tvxg' 2021-08-24T20:41:01,235 Running setup.py (path:/tmp/pip-wheel-h4qijbk_/ont-bonito-cuda111_44d9081ca61d48b482b5b85321bb1d1e/setup.py) egg_info for package ont-bonito-cuda111 2021-08-24T20:41:01,235 Created temporary directory: /tmp/pip-pip-egg-info-io3trrq8 2021-08-24T20:41:01,236 Running command python setup.py egg_info 2021-08-24T20:41:02,176 Building with CUDA 11.1 2021-08-24T20:41:02,177 running egg_info 2021-08-24T20:41:02,179 creating /tmp/pip-pip-egg-info-io3trrq8/ont_bonito_cuda111.egg-info 2021-08-24T20:41:02,179 writing /tmp/pip-pip-egg-info-io3trrq8/ont_bonito_cuda111.egg-info/PKG-INFO 2021-08-24T20:41:02,182 writing dependency_links to /tmp/pip-pip-egg-info-io3trrq8/ont_bonito_cuda111.egg-info/dependency_links.txt 2021-08-24T20:41:02,183 writing entry points to /tmp/pip-pip-egg-info-io3trrq8/ont_bonito_cuda111.egg-info/entry_points.txt 2021-08-24T20:41:02,184 writing requirements to /tmp/pip-pip-egg-info-io3trrq8/ont_bonito_cuda111.egg-info/requires.txt 2021-08-24T20:41:02,185 writing top-level names to /tmp/pip-pip-egg-info-io3trrq8/ont_bonito_cuda111.egg-info/top_level.txt 2021-08-24T20:41:02,187 writing manifest file '/tmp/pip-pip-egg-info-io3trrq8/ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:41:02,328 reading manifest file '/tmp/pip-pip-egg-info-io3trrq8/ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:41:02,329 reading manifest template 'MANIFEST.in' 2021-08-24T20:41:02,333 adding license file 'LICENCE.txt' 2021-08-24T20:41:02,336 writing manifest file '/tmp/pip-pip-egg-info-io3trrq8/ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:41:02,399 Source in /tmp/pip-wheel-h4qijbk_/ont-bonito-cuda111_44d9081ca61d48b482b5b85321bb1d1e 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 2021-08-24T20:41:02,400 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-jm57tvxg' 2021-08-24T20:41:02,405 Created temporary directory: /tmp/pip-unpack-mfvhxk_m 2021-08-24T20:41:02,405 Building wheels for collected packages: ont-bonito-cuda111 2021-08-24T20:41:02,410 Created temporary directory: /tmp/pip-wheel-vv76_oww 2021-08-24T20:41:02,411 Building wheel for ont-bonito-cuda111 (setup.py): started 2021-08-24T20:41:02,411 Destination directory: /tmp/pip-wheel-vv76_oww 2021-08-24T20:41:02,411 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-h4qijbk_/ont-bonito-cuda111_44d9081ca61d48b482b5b85321bb1d1e/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-h4qijbk_/ont-bonito-cuda111_44d9081ca61d48b482b5b85321bb1d1e/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-vv76_oww 2021-08-24T20:41:03,101 Building with CUDA 11.1 2021-08-24T20:41:03,318 running bdist_wheel 2021-08-24T20:41:03,322 running build 2021-08-24T20:41:03,323 running build_py 2021-08-24T20:41:03,448 creating build 2021-08-24T20:41:03,449 creating build/lib 2021-08-24T20:41:03,450 creating build/lib/bonito 2021-08-24T20:41:03,451 copying bonito/__init__.py -> build/lib/bonito 2021-08-24T20:41:03,453 copying bonito/fast5.py -> build/lib/bonito 2021-08-24T20:41:03,456 copying bonito/multiprocessing.py -> build/lib/bonito 2021-08-24T20:41:03,458 copying bonito/util.py -> build/lib/bonito 2021-08-24T20:41:03,461 copying bonito/io.py -> build/lib/bonito 2021-08-24T20:41:03,464 copying bonito/aligner.py -> build/lib/bonito 2021-08-24T20:41:03,466 copying bonito/nn.py -> build/lib/bonito 2021-08-24T20:41:03,469 copying bonito/training.py -> build/lib/bonito 2021-08-24T20:41:03,472 creating build/lib/bonito/cli 2021-08-24T20:41:03,473 copying bonito/cli/view.py -> build/lib/bonito/cli 2021-08-24T20:41:03,476 copying bonito/cli/__init__.py -> build/lib/bonito/cli 2021-08-24T20:41:03,477 copying bonito/cli/evaluate.py -> build/lib/bonito/cli 2021-08-24T20:41:03,480 copying bonito/cli/train.py -> build/lib/bonito/cli 2021-08-24T20:41:03,482 copying bonito/cli/basecaller.py -> build/lib/bonito/cli 2021-08-24T20:41:03,485 copying bonito/cli/export.py -> build/lib/bonito/cli 2021-08-24T20:41:03,487 copying bonito/cli/download.py -> build/lib/bonito/cli 2021-08-24T20:41:03,490 copying bonito/cli/convert.py -> build/lib/bonito/cli 2021-08-24T20:41:03,493 copying bonito/cli/duplex.py -> build/lib/bonito/cli 2021-08-24T20:41:03,497 creating build/lib/bonito/crf 2021-08-24T20:41:03,498 copying bonito/crf/__init__.py -> build/lib/bonito/crf 2021-08-24T20:41:03,501 copying bonito/crf/model.py -> build/lib/bonito/crf 2021-08-24T20:41:03,503 copying bonito/crf/basecall.py -> build/lib/bonito/crf 2021-08-24T20:41:03,507 creating build/lib/bonito/ctc 2021-08-24T20:41:03,508 copying bonito/ctc/__init__.py -> build/lib/bonito/ctc 2021-08-24T20:41:03,510 copying bonito/ctc/model.py -> build/lib/bonito/ctc 2021-08-24T20:41:03,513 copying bonito/ctc/basecall.py -> build/lib/bonito/ctc 2021-08-24T20:41:03,515 running egg_info 2021-08-24T20:41:03,531 writing ont_bonito_cuda111.egg-info/PKG-INFO 2021-08-24T20:41:03,533 writing dependency_links to ont_bonito_cuda111.egg-info/dependency_links.txt 2021-08-24T20:41:03,536 writing entry points to ont_bonito_cuda111.egg-info/entry_points.txt 2021-08-24T20:41:03,537 writing requirements to ont_bonito_cuda111.egg-info/requires.txt 2021-08-24T20:41:03,539 writing top-level names to ont_bonito_cuda111.egg-info/top_level.txt 2021-08-24T20:41:03,546 reading manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:41:03,549 reading manifest template 'MANIFEST.in' 2021-08-24T20:41:03,553 adding license file 'LICENCE.txt' 2021-08-24T20:41:03,557 writing manifest file 'ont_bonito_cuda111.egg-info/SOURCES.txt' 2021-08-24T20:41:03,561 creating build/lib/bonito/data 2021-08-24T20:41:03,562 copying bonito/data/README.md -> build/lib/bonito/data 2021-08-24T20:41:03,565 creating build/lib/bonito/models 2021-08-24T20:41:03,566 copying bonito/models/README.md -> build/lib/bonito/models 2021-08-24T20:41:03,568 creating build/lib/bonito/models/configs 2021-08-24T20:41:03,569 copying bonito/models/configs/dna_r9.4.1@v1.toml -> build/lib/bonito/models/configs 2021-08-24T20:41:03,572 copying bonito/models/configs/dna_r9.4.1@v2.toml -> build/lib/bonito/models/configs 2021-08-24T20:41:03,574 copying bonito/models/configs/dna_r9.4.1@v3.toml -> build/lib/bonito/models/configs 2021-08-24T20:41:03,581 installing to build/bdist.linux-armv7l/wheel 2021-08-24T20:41:03,582 running install 2021-08-24T20:41:03,583 running install_lib 2021-08-24T20:41:03,588 creating build/bdist.linux-armv7l 2021-08-24T20:41:03,589 creating build/bdist.linux-armv7l/wheel 2021-08-24T20:41:03,591 creating build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:41:03,592 copying build/lib/bonito/__init__.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:41:03,595 creating build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,597 copying build/lib/bonito/cli/view.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,599 copying build/lib/bonito/cli/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,601 copying build/lib/bonito/cli/evaluate.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,603 copying build/lib/bonito/cli/train.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,606 copying build/lib/bonito/cli/basecaller.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,609 copying build/lib/bonito/cli/export.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,612 copying build/lib/bonito/cli/download.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,615 copying build/lib/bonito/cli/convert.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,617 copying build/lib/bonito/cli/duplex.py -> build/bdist.linux-armv7l/wheel/bonito/cli 2021-08-24T20:41:03,621 copying build/lib/bonito/fast5.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:41:03,623 copying build/lib/bonito/multiprocessing.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:41:03,627 creating build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T20:41:03,628 copying build/lib/bonito/crf/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T20:41:03,631 copying build/lib/bonito/crf/model.py -> build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T20:41:03,634 copying build/lib/bonito/crf/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/crf 2021-08-24T20:41:03,637 copying build/lib/bonito/util.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:41:03,641 copying build/lib/bonito/io.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:41:03,645 creating build/bdist.linux-armv7l/wheel/bonito/models 2021-08-24T20:41:03,647 creating build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T20:41:03,649 copying build/lib/bonito/models/configs/dna_r9.4.1@v2.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T20:41:03,651 copying build/lib/bonito/models/configs/dna_r9.4.1@v1.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T20:41:03,654 copying build/lib/bonito/models/configs/dna_r9.4.1@v3.toml -> build/bdist.linux-armv7l/wheel/bonito/models/configs 2021-08-24T20:41:03,656 copying build/lib/bonito/models/README.md -> build/bdist.linux-armv7l/wheel/bonito/models 2021-08-24T20:41:03,659 creating build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T20:41:03,660 copying build/lib/bonito/ctc/__init__.py -> build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T20:41:03,663 copying build/lib/bonito/ctc/model.py -> build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T20:41:03,666 copying build/lib/bonito/ctc/basecall.py -> build/bdist.linux-armv7l/wheel/bonito/ctc 2021-08-24T20:41:03,669 creating build/bdist.linux-armv7l/wheel/bonito/data 2021-08-24T20:41:03,670 copying build/lib/bonito/data/README.md -> build/bdist.linux-armv7l/wheel/bonito/data 2021-08-24T20:41:03,672 copying build/lib/bonito/aligner.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:41:03,675 copying build/lib/bonito/nn.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:41:03,677 copying build/lib/bonito/training.py -> build/bdist.linux-armv7l/wheel/bonito 2021-08-24T20:41:03,680 running install_egg_info 2021-08-24T20:41:03,689 Copying ont_bonito_cuda111.egg-info to build/bdist.linux-armv7l/wheel/ont_bonito_cuda111-0.4.0a2-py3.7.egg-info 2021-08-24T20:41:03,702 running install_scripts 2021-08-24T20:41:03,766 error: [Errno 2] No such file or directory: 'bonito': 'bonito' 2021-08-24T20:41:03,841 Building wheel for ont-bonito-cuda111 (setup.py): finished with status 'error' 2021-08-24T20:41:03,842 ERROR: Failed building wheel for ont-bonito-cuda111 2021-08-24T20:41:03,843 Running setup.py clean for ont-bonito-cuda111 2021-08-24T20:41:03,843 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-h4qijbk_/ont-bonito-cuda111_44d9081ca61d48b482b5b85321bb1d1e/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-h4qijbk_/ont-bonito-cuda111_44d9081ca61d48b482b5b85321bb1d1e/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 2021-08-24T20:41:04,515 Building with CUDA 11.1 2021-08-24T20:41:04,707 running clean 2021-08-24T20:41:04,709 removing 'build/lib' (and everything under it) 2021-08-24T20:41:04,722 removing 'build/bdist.linux-armv7l' (and everything under it) 2021-08-24T20:41:04,741 'build/scripts-3.7' does not exist -- can't clean it 2021-08-24T20:41:04,741 removing 'build' 2021-08-24T20:41:04,800 Failed to build ont-bonito-cuda111 2021-08-24T20:41:04,800 ERROR: Failed to build one or more wheels 2021-08-24T20:41:04,801 Exception information: 2021-08-24T20:41:04,801 Traceback (most recent call last): 2021-08-24T20:41:04,801 File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/base_command.py", line 180, in _main 2021-08-24T20:41:04,801 status = self.run(options, args) 2021-08-24T20:41:04,801 File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/req_command.py", line 205, in wrapper 2021-08-24T20:41:04,801 return func(self, options, args) 2021-08-24T20:41:04,801 File "/usr/local/lib/python3.7/dist-packages/pip/_internal/commands/wheel.py", line 175, in run 2021-08-24T20:41:04,801 "Failed to build one or more wheels" 2021-08-24T20:41:04,801 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2021-08-24T20:41:04,804 Removed build tracker: '/tmp/pip-req-tracker-jm57tvxg'