2025-09-08T04:07:08,294 Created temporary directory: /tmp/pip-build-tracker-gm0jd61e 2025-09-08T04:07:08,295 Initialized build tracking at /tmp/pip-build-tracker-gm0jd61e 2025-09-08T04:07:08,295 Created build tracker: /tmp/pip-build-tracker-gm0jd61e 2025-09-08T04:07:08,295 Entered build tracker: /tmp/pip-build-tracker-gm0jd61e 2025-09-08T04:07:08,295 Created temporary directory: /tmp/pip-wheel-7ewqgkci 2025-09-08T04:07:08,298 Created temporary directory: /tmp/pip-ephem-wheel-cache-a5ala2fk 2025-09-08T04:07:08,356 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-08T04:07:08,358 2 location(s) to search for versions of pygenes: 2025-09-08T04:07:08,358 * https://pypi.org/simple/pygenes/ 2025-09-08T04:07:08,358 * https://www.piwheels.org/simple/pygenes/ 2025-09-08T04:07:08,359 Fetching project page and analyzing links: https://pypi.org/simple/pygenes/ 2025-09-08T04:07:08,359 Getting page https://pypi.org/simple/pygenes/ 2025-09-08T04:07:08,360 Found index url https://pypi.org/simple/ 2025-09-08T04:07:08,506 Fetched page https://pypi.org/simple/pygenes/ as application/vnd.pypi.simple.v1+json 2025-09-08T04:07:08,508 Found link https://files.pythonhosted.org/packages/09/c3/2ee39b07b48010736cac2acf032d9f7e1ec0ad47d7eabe1554bf77f9c51f/pygenes-0.0.3.tar.gz (from https://pypi.org/simple/pygenes/), version: 0.0.3 2025-09-08T04:07:08,508 Found link https://files.pythonhosted.org/packages/72/6c/f8905d2587c9c099db7f0fc57018a3bbc1ab85833362c7dc6fb71e65e82f/pygenes-0.0.5.post2.tar.gz (from https://pypi.org/simple/pygenes/), version: 0.0.5.post2 2025-09-08T04:07:08,509 Found link https://files.pythonhosted.org/packages/31/5d/0415bf33a44bb6d4a1e978e89fa04f714da326911fe4339607668abba6b7/pygenes-0.0.5.post3.tar.gz (from https://pypi.org/simple/pygenes/), version: 0.0.5.post3 2025-09-08T04:07:08,509 Fetching project page and analyzing links: https://www.piwheels.org/simple/pygenes/ 2025-09-08T04:07:08,510 Getting page https://www.piwheels.org/simple/pygenes/ 2025-09-08T04:07:08,511 Found index url https://www.piwheels.org/simple/ 2025-09-08T04:07:08,610 Fetched page https://www.piwheels.org/simple/pygenes/ as text/html 2025-09-08T04:07:08,614 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post3-cp39-cp39-linux_armv6l.whl#sha256=84ec12c881e83e84a8a3989f671e46eb102a569a031ec0a320155fc306a7ef76 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,614 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post3-cp39-cp39-linux_armv7l.whl#sha256=84ec12c881e83e84a8a3989f671e46eb102a569a031ec0a320155fc306a7ef76 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,614 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post3-cp35-cp35m-linux_armv6l.whl#sha256=697193e9627906bc51186d169ade26819be1a96a71a3fc932a5a7a218babd635 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,614 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post3-cp35-cp35m-linux_armv7l.whl#sha256=697193e9627906bc51186d169ade26819be1a96a71a3fc932a5a7a218babd635 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,615 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post3-cp37-cp37m-linux_armv7l.whl#sha256=c429ef3513446b4904501c6c9469811bd10ee842569ff6b6ae84a906dc5d1894 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,615 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post3-cp37-cp37m-linux_armv6l.whl#sha256=c429ef3513446b4904501c6c9469811bd10ee842569ff6b6ae84a906dc5d1894 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,615 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post2-cp39-cp39-linux_armv6l.whl#sha256=b3b63bd1e459e17dd6abcb5572da0abcca35682ba79ee67c0d84295ce27d4a92 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,615 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post2-cp39-cp39-linux_armv7l.whl#sha256=b3b63bd1e459e17dd6abcb5572da0abcca35682ba79ee67c0d84295ce27d4a92 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,615 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post2-cp34-cp34m-linux_armv7l.whl#sha256=24860be40a6cbed87306a441c7cedc921118e79134024da178ebc1bc0044efa0 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,615 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post2-cp34-cp34m-linux_armv6l.whl#sha256=24860be40a6cbed87306a441c7cedc921118e79134024da178ebc1bc0044efa0 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,616 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post2-cp37-cp37m-linux_armv6l.whl#sha256=4552462bcbae1231b132d3debdcae716479e4b5514aebdd44684523bd9d26926 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,616 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post2-cp37-cp37m-linux_armv7l.whl#sha256=4552462bcbae1231b132d3debdcae716479e4b5514aebdd44684523bd9d26926 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,616 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post2-cp35-cp35m-linux_armv7l.whl#sha256=92231b768d6bbf7f2a3ef742212a12b777e291db9011c728cc63ab12ca139f84 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,616 Skipping link: No binaries permitted for pygenes: https://archive1.piwheels.org/simple/pygenes/pygenes-0.0.5.post2-cp35-cp35m-linux_armv6l.whl#sha256=92231b768d6bbf7f2a3ef742212a12b777e291db9011c728cc63ab12ca139f84 (from https://www.piwheels.org/simple/pygenes/) 2025-09-08T04:07:08,616 Skipping link: not a file: https://www.piwheels.org/simple/pygenes/ 2025-09-08T04:07:08,616 Skipping link: not a file: https://pypi.org/simple/pygenes/ 2025-09-08T04:07:08,645 Given no hashes to check 1 links for project 'pygenes': discarding no candidates 2025-09-08T04:07:08,646 Collecting pygenes==0.0.3 2025-09-08T04:07:08,647 Created temporary directory: /tmp/pip-unpack-40_f2jbm 2025-09-08T04:07:08,784 Downloading pygenes-0.0.3.tar.gz (15 kB) 2025-09-08T04:07:08,815 Added pygenes==0.0.3 from https://files.pythonhosted.org/packages/09/c3/2ee39b07b48010736cac2acf032d9f7e1ec0ad47d7eabe1554bf77f9c51f/pygenes-0.0.3.tar.gz to build tracker '/tmp/pip-build-tracker-gm0jd61e' 2025-09-08T04:07:08,817 Running setup.py (path:/tmp/pip-wheel-7ewqgkci/pygenes_6affc80d25f94e8390cd0c1d722a24f5/setup.py) egg_info for package pygenes 2025-09-08T04:07:08,817 Created temporary directory: /tmp/pip-pip-egg-info-6_tvk524 2025-09-08T04:07:08,817 Preparing metadata (setup.py): started 2025-09-08T04:07:08,818 Running command python setup.py egg_info 2025-09-08T04:07:09,832 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. 2025-09-08T04:07:09,832 !! 2025-09-08T04:07:09,832 ******************************************************************************** 2025-09-08T04:07:09,832 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T04:07:09,832 versions. Please use the underscore name 'description_file' instead. 2025-09-08T04:07:09,832 (Affected: pygenes). 2025-09-08T04:07:09,833 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T04:07:09,833 or your builds will no longer be supported. 2025-09-08T04:07:09,833 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T04:07:09,833 ******************************************************************************** 2025-09-08T04:07:09,833 !! 2025-09-08T04:07:09,833 opt = self._enforce_underscore(opt, section) 2025-09-08T04:07:10,321 Preparing metadata (setup.py): finished with status 'done' 2025-09-08T04:07:10,325 Source in /tmp/pip-wheel-7ewqgkci/pygenes_6affc80d25f94e8390cd0c1d722a24f5 has version 0.0.3, which satisfies requirement pygenes==0.0.3 from https://files.pythonhosted.org/packages/09/c3/2ee39b07b48010736cac2acf032d9f7e1ec0ad47d7eabe1554bf77f9c51f/pygenes-0.0.3.tar.gz 2025-09-08T04:07:10,325 Removed pygenes==0.0.3 from https://files.pythonhosted.org/packages/09/c3/2ee39b07b48010736cac2acf032d9f7e1ec0ad47d7eabe1554bf77f9c51f/pygenes-0.0.3.tar.gz from build tracker '/tmp/pip-build-tracker-gm0jd61e' 2025-09-08T04:07:10,328 Created temporary directory: /tmp/pip-unpack-luqopyrr 2025-09-08T04:07:10,328 Created temporary directory: /tmp/pip-unpack-ntu7e8m0 2025-09-08T04:07:10,328 Building wheels for collected packages: pygenes 2025-09-08T04:07:10,330 Created temporary directory: /tmp/pip-wheel-a_ktkyhb 2025-09-08T04:07:10,330 DEPRECATION: Building 'pygenes' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'pygenes'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-08T04:07:10,331 Building wheel for pygenes (setup.py): started 2025-09-08T04:07:10,332 Destination directory: /tmp/pip-wheel-a_ktkyhb 2025-09-08T04:07:10,332 Running command python setup.py bdist_wheel 2025-09-08T04:07:11,344 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. 2025-09-08T04:07:11,344 !! 2025-09-08T04:07:11,344 ******************************************************************************** 2025-09-08T04:07:11,344 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T04:07:11,344 versions. Please use the underscore name 'description_file' instead. 2025-09-08T04:07:11,344 (Affected: pygenes). 2025-09-08T04:07:11,345 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T04:07:11,345 or your builds will no longer be supported. 2025-09-08T04:07:11,345 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T04:07:11,345 ******************************************************************************** 2025-09-08T04:07:11,345 !! 2025-09-08T04:07:11,345 opt = self._enforce_underscore(opt, section) 2025-09-08T04:07:12,432 In file included from src/pygenes.cpp:2: 2025-09-08T04:07:12,432 src/IntervalTree/IntervalTree.h:9:10: fatal error: boost/serialization/serialization.hpp: No such file or directory 2025-09-08T04:07:12,432 9 | #include 2025-09-08T04:07:12,433 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-08T04:07:12,433 compilation terminated. 2025-09-08T04:07:12,436 error: command '/usr/bin/arm-linux-gnueabihf-g++' failed with exit code 1 2025-09-08T04:07:12,581 ERROR: python setup.py bdist_wheel exited with 1 2025-09-08T04:07:12,592 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-08T04:07:12,592 exec(compile('"'"''"'"''"'"' 2025-09-08T04:07:12,592 # This is -- a caller that pip uses to run setup.py 2025-09-08T04:07:12,592 # 2025-09-08T04:07:12,592 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-08T04:07:12,592 # import from `distutils.core` to work with newer packaging standards. 2025-09-08T04:07:12,592 # - It provides a clear error message when setuptools is not installed. 2025-09-08T04:07:12,592 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-08T04:07:12,592 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-08T04:07:12,592 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-08T04:07:12,592 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-08T04:07:12,592 import os, sys, tokenize, traceback 2025-09-08T04:07:12,592 2025-09-08T04:07:12,592 try: 2025-09-08T04:07:12,592 import setuptools 2025-09-08T04:07:12,592 except ImportError: 2025-09-08T04:07:12,592 print( 2025-09-08T04:07:12,592 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-08T04:07:12,592 "the build environment with exception:", 2025-09-08T04:07:12,592 file=sys.stderr, 2025-09-08T04:07:12,592 ) 2025-09-08T04:07:12,592 traceback.print_exc() 2025-09-08T04:07:12,592 sys.exit(1) 2025-09-08T04:07:12,592 2025-09-08T04:07:12,592 __file__ = %r 2025-09-08T04:07:12,592 sys.argv[0] = __file__ 2025-09-08T04:07:12,592 2025-09-08T04:07:12,592 if os.path.exists(__file__): 2025-09-08T04:07:12,592 filename = __file__ 2025-09-08T04:07:12,592 with tokenize.open(__file__) as f: 2025-09-08T04:07:12,592 setup_py_code = f.read() 2025-09-08T04:07:12,592 else: 2025-09-08T04:07:12,592 filename = "" 2025-09-08T04:07:12,592 setup_py_code = "from setuptools import setup; setup()" 2025-09-08T04:07:12,592 2025-09-08T04:07:12,592 exec(compile(setup_py_code, filename, "exec")) 2025-09-08T04:07:12,592 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-7ewqgkci/pygenes_6affc80d25f94e8390cd0c1d722a24f5/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-a_ktkyhb[/] 2025-09-08T04:07:12,592 [bold magenta]cwd[/]: /tmp/pip-wheel-7ewqgkci/pygenes_6affc80d25f94e8390cd0c1d722a24f5/ 2025-09-08T04:07:12,593 Building wheel for pygenes (setup.py): finished with status 'error' 2025-09-08T04:07:12,593 ERROR: Failed building wheel for pygenes 2025-09-08T04:07:12,594 Running setup.py clean for pygenes 2025-09-08T04:07:12,595 Running command python setup.py clean 2025-09-08T04:07:13,616 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in 'metadata' (setup.cfg), please use the underscore name 'description_file' instead. 2025-09-08T04:07:13,616 !! 2025-09-08T04:07:13,617 ******************************************************************************** 2025-09-08T04:07:13,617 Usage of dash-separated 'description-file' will not be supported in future 2025-09-08T04:07:13,617 versions. Please use the underscore name 'description_file' instead. 2025-09-08T04:07:13,617 (Affected: pygenes). 2025-09-08T04:07:13,617 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-08T04:07:13,617 or your builds will no longer be supported. 2025-09-08T04:07:13,617 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-08T04:07:13,617 ******************************************************************************** 2025-09-08T04:07:13,618 !! 2025-09-08T04:07:13,618 opt = self._enforce_underscore(opt, section) 2025-09-08T04:07:13,842 'build/lib.linux-armv7l-cpython-313' does not exist -- can't clean it 2025-09-08T04:07:13,842 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-08T04:07:13,843 'build/scripts-3.13' does not exist -- can't clean it 2025-09-08T04:07:13,955 Failed to build pygenes 2025-09-08T04:07:13,956 ERROR: Failed to build one or more wheels 2025-09-08T04:07:13,957 Exception information: 2025-09-08T04:07:13,957 Traceback (most recent call last): 2025-09-08T04:07:13,957 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-08T04:07:13,957 status = _inner_run() 2025-09-08T04:07:13,957 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-08T04:07:13,957 return self.run(options, args) 2025-09-08T04:07:13,957 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-08T04:07:13,957 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-08T04:07:13,957 return func(self, options, args) 2025-09-08T04:07:13,957 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-08T04:07:13,957 raise CommandError("Failed to build one or more wheels") 2025-09-08T04:07:13,957 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-08T04:07:13,961 Removed build tracker: '/tmp/pip-build-tracker-gm0jd61e'