2026-04-30T12:13:40,298 Created temporary directory: /tmp/pip-ephem-wheel-cache-s6dwa4ao 2026-04-30T12:13:40,300 Created temporary directory: /tmp/pip-build-tracker-3qvk3ebf 2026-04-30T12:13:40,300 Initialized build tracking at /tmp/pip-build-tracker-3qvk3ebf 2026-04-30T12:13:40,301 Created build tracker: /tmp/pip-build-tracker-3qvk3ebf 2026-04-30T12:13:40,301 Entered build tracker: /tmp/pip-build-tracker-3qvk3ebf 2026-04-30T12:13:40,302 Created temporary directory: /tmp/pip-wheel-r5md63xl 2026-04-30T12:13:40,305 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-04-30T12:13:40,307 Created temporary directory: /tmp/pip-ephem-wheel-cache-f3gh4rdh 2026-04-30T12:13:40,329 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-04-30T12:13:40,332 2 location(s) to search for versions of netam: 2026-04-30T12:13:40,332 * https://pypi.org/simple/netam/ 2026-04-30T12:13:40,332 * https://www.piwheels.org/simple/netam/ 2026-04-30T12:13:40,333 Fetching project page and analyzing links: https://pypi.org/simple/netam/ 2026-04-30T12:13:40,334 Getting page https://pypi.org/simple/netam/ 2026-04-30T12:13:40,335 Found index url https://pypi.org/simple 2026-04-30T12:13:40,576 Fetched page https://pypi.org/simple/netam/ as application/vnd.pypi.simple.v1+json 2026-04-30T12:13:40,579 Skipping link: No binaries permitted for netam: https://files.pythonhosted.org/packages/88/e5/f60c6c996af0140bf8d10614b33daf5174710d8f74391c5e75dcbad593fe/netam-0.0.0-py3-none-any.whl (from https://pypi.org/simple/netam/) (requires-python:<3.14,>=3.9) 2026-04-30T12:13:40,580 Found link https://files.pythonhosted.org/packages/dd/ca/0cfb658ffa6cc1fa6f1e331337227d73264edfd628b8b8592ef371fbe060/netam-0.0.0.tar.gz (from https://pypi.org/simple/netam/) (requires-python:<3.14,>=3.9), version: 0.0.0 2026-04-30T12:13:40,581 Skipping link: No binaries permitted for netam: https://files.pythonhosted.org/packages/cb/3d/911053d8211735ccb7777cfea147558a0538ccbb62f6fa190953f94b9d25/netam-0.2.0-py3-none-any.whl (from https://pypi.org/simple/netam/) (requires-python:<3.12,>=3.8) 2026-04-30T12:13:40,582 Found link https://files.pythonhosted.org/packages/59/4d/4282d52ccfe6238e0f1111fdce48f18e15e4050595e3da182a710c434f58/netam-0.2.0.tar.gz (from https://pypi.org/simple/netam/) (requires-python:<3.12,>=3.8), version: 0.2.0 2026-04-30T12:13:40,583 Skipping link: No binaries permitted for netam: https://files.pythonhosted.org/packages/02/1e/77a7e0cb9bf438649efb9deb5cb687bf5e467e5904c619f3159ec63cb17c/netam-0.2.1-py3-none-any.whl (from https://pypi.org/simple/netam/) (requires-python:<3.12,>=3.9) 2026-04-30T12:13:40,584 Found link https://files.pythonhosted.org/packages/d1/fb/ca9720cd9c44ad9a022e30ffc6966effd44459dcd4e6be774b020b4e57d3/netam-0.2.1.tar.gz (from https://pypi.org/simple/netam/) (requires-python:<3.12,>=3.9), version: 0.2.1 2026-04-30T12:13:40,585 Skipping link: No binaries permitted for netam: https://files.pythonhosted.org/packages/1f/82/0611589e613965fb682c2e23a9332fa7766faa9463e09205d29c144d3c7d/netam-0.2.5-py3-none-any.whl (from https://pypi.org/simple/netam/) (requires-python:<3.14,>=3.9) 2026-04-30T12:13:40,586 Found link https://files.pythonhosted.org/packages/bc/0a/e4789ef944378bed2f8d343c7c011c3d808c09a4ed8f3a20e6447027047d/netam-0.2.5.tar.gz (from https://pypi.org/simple/netam/) (requires-python:<3.14,>=3.9), version: 0.2.5 2026-04-30T12:13:40,587 Fetching project page and analyzing links: https://www.piwheels.org/simple/netam/ 2026-04-30T12:13:40,587 Getting page https://www.piwheels.org/simple/netam/ 2026-04-30T12:13:40,589 Found index url https://www.piwheels.org/simple 2026-04-30T12:13:40,809 Fetched page https://www.piwheels.org/simple/netam/ as text/html 2026-04-30T12:13:40,811 Skipping link: No binaries permitted for netam: https://archive1.piwheels.org/simple/netam/netam-0.2.1-py3-none-any.whl#sha256=f6f9eda28b40bc48aa9e62a730c2a0e157d9019e7387d3842489d7aabd19195d (from https://www.piwheels.org/simple/netam/) (requires-python:>=3.9,<3.12) 2026-04-30T12:13:40,812 Skipping link: No binaries permitted for netam: https://archive1.piwheels.org/simple/netam/netam-0.2.0-py3-none-any.whl#sha256=a2182829d2a51205d8799e8e8ab739fe2997de41689c0ffb0bd565c23531659e (from https://www.piwheels.org/simple/netam/) (requires-python:>=3.8,<3.12) 2026-04-30T12:13:40,813 Skipping link: No binaries permitted for netam: https://archive1.piwheels.org/simple/netam/netam-0.0.0-py3-none-any.whl#sha256=b00f0dbb8256d4d3b35cba3cb15077e237bbaba69fefe212d4a6970970a05d41 (from https://www.piwheels.org/simple/netam/) (requires-python:<3.14,>=3.9) 2026-04-30T12:13:40,813 Skipping link: not a file: https://www.piwheels.org/simple/netam/ 2026-04-30T12:13:40,814 Skipping link: not a file: https://pypi.org/simple/netam/ 2026-04-30T12:13:40,834 Given no hashes to check 1 links for project 'netam': discarding no candidates 2026-04-30T12:13:40,854 Collecting netam==0.2.5 2026-04-30T12:13:40,856 Created temporary directory: /tmp/pip-unpack-sycj84i3 2026-04-30T12:13:41,108 Downloading netam-0.2.5.tar.gz (1.3 MB) 2026-04-30T12:13:41,565 Added netam==0.2.5 from https://files.pythonhosted.org/packages/bc/0a/e4789ef944378bed2f8d343c7c011c3d808c09a4ed8f3a20e6447027047d/netam-0.2.5.tar.gz to build tracker '/tmp/pip-build-tracker-3qvk3ebf' 2026-04-30T12:13:41,571 Created temporary directory: /tmp/pip-build-env-l1jyy25l 2026-04-30T12:13:41,575 Installing build dependencies: started 2026-04-30T12:13:41,577 Running command pip subprocess to install build dependencies 2026-04-30T12:13:42,710 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-04-30T12:13:43,145 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-04-30T12:13:43,169 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-04-30T12:13:45,112 Collecting setuptools>=64 2026-04-30T12:13:45,188 Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB) 2026-04-30T12:13:45,469 Collecting wheel 2026-04-30T12:13:45,648 Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB) 2026-04-30T12:13:46,262 Collecting setuptools-scm>=8 2026-04-30T12:13:46,281 Using cached https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-10.0.5-py3-none-any.whl (21 kB) 2026-04-30T12:13:46,470 Collecting packaging>=24.0 2026-04-30T12:13:46,494 Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB) 2026-04-30T12:13:46,580 Collecting vcs-versioning>=1.0.0.dev0 2026-04-30T12:13:46,598 Using cached https://www.piwheels.org/simple/vcs-versioning/vcs_versioning-1.1.1-py3-none-any.whl (79 kB) 2026-04-30T12:13:49,665 Installing collected packages: setuptools, packaging, wheel, vcs-versioning, setuptools-scm 2026-04-30T12:13:53,064 Creating /tmp/pip-build-env-l1jyy25l/overlay/local/bin 2026-04-30T12:13:53,066 changing mode of /tmp/pip-build-env-l1jyy25l/overlay/local/bin/wheel to 755 2026-04-30T12:13:53,366 changing mode of /tmp/pip-build-env-l1jyy25l/overlay/local/bin/vcs-versioning to 755 2026-04-30T12:13:53,471 changing mode of /tmp/pip-build-env-l1jyy25l/overlay/local/bin/setuptools-scm to 755 2026-04-30T12:13:53,506 Successfully installed packaging-26.2 setuptools-82.0.1 setuptools-scm-10.0.5 vcs-versioning-1.1.1 wheel-0.47.0 2026-04-30T12:13:53,793 Installing build dependencies: finished with status 'done' 2026-04-30T12:13:53,800 Getting requirements to build wheel: started 2026-04-30T12:13:53,801 Running command Getting requirements to build wheel 2026-04-30T12:13:54,510 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated 2026-04-30T12:13:54,510 !! 2026-04-30T12:13:54,511 ******************************************************************************** 2026-04-30T12:13:54,511 Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). 2026-04-30T12:13:54,512 By 2027-Feb-18, you need to update your project and remove deprecated calls 2026-04-30T12:13:54,513 or your builds will no longer be supported. 2026-04-30T12:13:54,514 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-30T12:13:54,514 ******************************************************************************** 2026-04-30T12:13:54,515 !! 2026-04-30T12:13:54,516 corresp(dist, value, root_dir) 2026-04-30T12:13:54,585 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-30T12:13:54,585 !! 2026-04-30T12:13:54,586 ******************************************************************************** 2026-04-30T12:13:54,587 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-30T12:13:54,588 License :: OSI Approved :: MIT License 2026-04-30T12:13:54,589 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-30T12:13:54,589 ******************************************************************************** 2026-04-30T12:13:54,590 !! 2026-04-30T12:13:54,591 dist._finalize_license_expression() 2026-04-30T12:13:54,592 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-30T12:13:54,592 !! 2026-04-30T12:13:54,594 ******************************************************************************** 2026-04-30T12:13:54,594 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-30T12:13:54,595 License :: OSI Approved :: MIT License 2026-04-30T12:13:54,597 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-30T12:13:54,597 ******************************************************************************** 2026-04-30T12:13:54,598 !! 2026-04-30T12:13:54,599 self._finalize_license_expression() 2026-04-30T12:13:54,600 running egg_info 2026-04-30T12:13:54,607 writing netam.egg-info/PKG-INFO 2026-04-30T12:13:54,613 writing dependency_links to netam.egg-info/dependency_links.txt 2026-04-30T12:13:54,615 writing entry points to netam.egg-info/entry_points.txt 2026-04-30T12:13:54,618 writing requirements to netam.egg-info/requires.txt 2026-04-30T12:13:54,619 writing top-level names to netam.egg-info/top_level.txt 2026-04-30T12:13:54,656 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/vcs_versioning/overrides.py:609: UserWarning: No GlobalOverrides context is active. Auto-creating one with SETUPTOOLS_SCM prefix for backwards compatibility. Consider using 'with GlobalOverrides.from_env("YOUR_TOOL"):' explicitly. 2026-04-30T12:13:54,657 return get_active_overrides().subprocess_timeout 2026-04-30T12:13:54,665 listing git files failed - pretending there aren't any 2026-04-30T12:13:54,670 reading manifest file 'netam.egg-info/SOURCES.txt' 2026-04-30T12:13:54,679 adding license file 'LICENSE' 2026-04-30T12:13:54,684 writing manifest file 'netam.egg-info/SOURCES.txt' 2026-04-30T12:13:54,787 Getting requirements to build wheel: finished with status 'done' 2026-04-30T12:13:54,791 Created temporary directory: /tmp/pip-modern-metadata-evsdbn69 2026-04-30T12:13:54,793 Preparing metadata (pyproject.toml): started 2026-04-30T12:13:54,795 Running command Preparing metadata (pyproject.toml) 2026-04-30T12:13:55,491 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated 2026-04-30T12:13:55,491 !! 2026-04-30T12:13:55,492 ******************************************************************************** 2026-04-30T12:13:55,493 Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). 2026-04-30T12:13:55,494 By 2027-Feb-18, you need to update your project and remove deprecated calls 2026-04-30T12:13:55,494 or your builds will no longer be supported. 2026-04-30T12:13:55,495 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-30T12:13:55,495 ******************************************************************************** 2026-04-30T12:13:55,496 !! 2026-04-30T12:13:55,497 corresp(dist, value, root_dir) 2026-04-30T12:13:55,561 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-30T12:13:55,562 !! 2026-04-30T12:13:55,563 ******************************************************************************** 2026-04-30T12:13:55,563 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-30T12:13:55,565 License :: OSI Approved :: MIT License 2026-04-30T12:13:55,566 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-30T12:13:55,566 ******************************************************************************** 2026-04-30T12:13:55,568 !! 2026-04-30T12:13:55,568 dist._finalize_license_expression() 2026-04-30T12:13:55,569 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-30T12:13:55,569 !! 2026-04-30T12:13:55,570 ******************************************************************************** 2026-04-30T12:13:55,571 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-30T12:13:55,572 License :: OSI Approved :: MIT License 2026-04-30T12:13:55,573 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-30T12:13:55,574 ******************************************************************************** 2026-04-30T12:13:55,575 !! 2026-04-30T12:13:55,575 self._finalize_license_expression() 2026-04-30T12:13:55,576 running dist_info 2026-04-30T12:13:55,588 creating /tmp/pip-modern-metadata-evsdbn69/netam.egg-info 2026-04-30T12:13:55,589 writing /tmp/pip-modern-metadata-evsdbn69/netam.egg-info/PKG-INFO 2026-04-30T12:13:55,595 writing dependency_links to /tmp/pip-modern-metadata-evsdbn69/netam.egg-info/dependency_links.txt 2026-04-30T12:13:55,596 writing entry points to /tmp/pip-modern-metadata-evsdbn69/netam.egg-info/entry_points.txt 2026-04-30T12:13:55,599 writing requirements to /tmp/pip-modern-metadata-evsdbn69/netam.egg-info/requires.txt 2026-04-30T12:13:55,600 writing top-level names to /tmp/pip-modern-metadata-evsdbn69/netam.egg-info/top_level.txt 2026-04-30T12:13:55,602 writing manifest file '/tmp/pip-modern-metadata-evsdbn69/netam.egg-info/SOURCES.txt' 2026-04-30T12:13:55,635 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/vcs_versioning/overrides.py:609: UserWarning: No GlobalOverrides context is active. Auto-creating one with SETUPTOOLS_SCM prefix for backwards compatibility. Consider using 'with GlobalOverrides.from_env("YOUR_TOOL"):' explicitly. 2026-04-30T12:13:55,636 return get_active_overrides().subprocess_timeout 2026-04-30T12:13:55,643 listing git files failed - pretending there aren't any 2026-04-30T12:13:55,647 reading manifest file '/tmp/pip-modern-metadata-evsdbn69/netam.egg-info/SOURCES.txt' 2026-04-30T12:13:55,649 adding license file 'LICENSE' 2026-04-30T12:13:55,653 writing manifest file '/tmp/pip-modern-metadata-evsdbn69/netam.egg-info/SOURCES.txt' 2026-04-30T12:13:55,654 creating '/tmp/pip-modern-metadata-evsdbn69/netam-0.2.5.dist-info' 2026-04-30T12:13:55,785 Preparing metadata (pyproject.toml): finished with status 'done' 2026-04-30T12:13:55,791 Source in /tmp/pip-wheel-r5md63xl/netam_600ca42983674445b2eae5d5985e0f5f has version 0.2.5, which satisfies requirement netam==0.2.5 from https://files.pythonhosted.org/packages/bc/0a/e4789ef944378bed2f8d343c7c011c3d808c09a4ed8f3a20e6447027047d/netam-0.2.5.tar.gz 2026-04-30T12:13:55,792 Removed netam==0.2.5 from https://files.pythonhosted.org/packages/bc/0a/e4789ef944378bed2f8d343c7c011c3d808c09a4ed8f3a20e6447027047d/netam-0.2.5.tar.gz from build tracker '/tmp/pip-build-tracker-3qvk3ebf' 2026-04-30T12:13:55,798 Created temporary directory: /tmp/pip-unpack-5fs02r_i 2026-04-30T12:13:55,799 Building wheels for collected packages: netam 2026-04-30T12:13:55,804 Created temporary directory: /tmp/pip-wheel-0vx8160l 2026-04-30T12:13:55,805 Destination directory: /tmp/pip-wheel-0vx8160l 2026-04-30T12:13:55,808 Building wheel for netam (pyproject.toml): started 2026-04-30T12:13:55,809 Running command Building wheel for netam (pyproject.toml) 2026-04-30T12:13:56,444 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:82: SetuptoolsDeprecationWarning: `project.license` as a TOML table is deprecated 2026-04-30T12:13:56,444 !! 2026-04-30T12:13:56,445 ******************************************************************************** 2026-04-30T12:13:56,446 Please use a simple string containing a SPDX expression for `project.license`. You can also use `project.license-files`. (Both options available on setuptools>=77.0.0). 2026-04-30T12:13:56,447 By 2027-Feb-18, you need to update your project and remove deprecated calls 2026-04-30T12:13:56,447 or your builds will no longer be supported. 2026-04-30T12:13:56,449 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-30T12:13:56,449 ******************************************************************************** 2026-04-30T12:13:56,451 !! 2026-04-30T12:13:56,451 corresp(dist, value, root_dir) 2026-04-30T12:13:56,508 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-30T12:13:56,508 !! 2026-04-30T12:13:56,509 ******************************************************************************** 2026-04-30T12:13:56,510 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-30T12:13:56,511 License :: OSI Approved :: MIT License 2026-04-30T12:13:56,512 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-30T12:13:56,513 ******************************************************************************** 2026-04-30T12:13:56,514 !! 2026-04-30T12:13:56,515 dist._finalize_license_expression() 2026-04-30T12:13:56,515 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-30T12:13:56,516 !! 2026-04-30T12:13:56,517 ******************************************************************************** 2026-04-30T12:13:56,518 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-30T12:13:56,519 License :: OSI Approved :: MIT License 2026-04-30T12:13:56,520 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-30T12:13:56,520 ******************************************************************************** 2026-04-30T12:13:56,521 !! 2026-04-30T12:13:56,522 self._finalize_license_expression() 2026-04-30T12:13:56,522 running bdist_wheel 2026-04-30T12:13:56,540 running build 2026-04-30T12:13:56,540 running build_py 2026-04-30T12:13:56,542 creating build/lib/netam 2026-04-30T12:13:56,544 copying netam/codon_table.py -> build/lib/netam 2026-04-30T12:13:56,547 copying netam/dnsm.py -> build/lib/netam 2026-04-30T12:13:56,549 copying netam/hyper_burrito.py -> build/lib/netam 2026-04-30T12:13:56,551 copying netam/whichmut_trainer.py -> build/lib/netam 2026-04-30T12:13:56,554 copying netam/molevol.py -> build/lib/netam 2026-04-30T12:13:56,557 copying netam/attention_map.py -> build/lib/netam 2026-04-30T12:13:56,559 copying netam/whichmut_dataset.py -> build/lib/netam 2026-04-30T12:13:56,561 copying netam/common.py -> build/lib/netam 2026-04-30T12:13:56,564 copying netam/data_format.py -> build/lib/netam 2026-04-30T12:13:56,566 copying netam/ddsm.py -> build/lib/netam 2026-04-30T12:13:56,568 copying netam/sequences.py -> build/lib/netam 2026-04-30T12:13:56,570 copying netam/oe_plot.py -> build/lib/netam 2026-04-30T12:13:56,574 copying netam/model_factory.py -> build/lib/netam 2026-04-30T12:13:56,576 copying netam/__init__.py -> build/lib/netam 2026-04-30T12:13:56,578 copying netam/dasm.py -> build/lib/netam 2026-04-30T12:13:56,580 copying netam/models.py -> build/lib/netam 2026-04-30T12:13:56,583 copying netam/multihit.py -> build/lib/netam 2026-04-30T12:13:56,585 copying netam/hit_class.py -> build/lib/netam 2026-04-30T12:13:56,588 copying netam/framework.py -> build/lib/netam 2026-04-30T12:13:56,591 copying netam/dxsm.py -> build/lib/netam 2026-04-30T12:13:56,593 copying netam/pretrained.py -> build/lib/netam 2026-04-30T12:13:56,595 copying netam/cli.py -> build/lib/netam 2026-04-30T12:13:56,597 running egg_info 2026-04-30T12:13:56,610 writing netam.egg-info/PKG-INFO 2026-04-30T12:13:56,615 writing dependency_links to netam.egg-info/dependency_links.txt 2026-04-30T12:13:56,616 writing entry points to netam.egg-info/entry_points.txt 2026-04-30T12:13:56,618 writing requirements to netam.egg-info/requires.txt 2026-04-30T12:13:56,619 writing top-level names to netam.egg-info/top_level.txt 2026-04-30T12:13:56,646 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/vcs_versioning/overrides.py:609: UserWarning: No GlobalOverrides context is active. Auto-creating one with SETUPTOOLS_SCM prefix for backwards compatibility. Consider using 'with GlobalOverrides.from_env("YOUR_TOOL"):' explicitly. 2026-04-30T12:13:56,647 return get_active_overrides().subprocess_timeout 2026-04-30T12:13:56,653 listing git files failed - pretending there aren't any 2026-04-30T12:13:56,657 reading manifest file 'netam.egg-info/SOURCES.txt' 2026-04-30T12:13:56,662 adding license file 'LICENSE' 2026-04-30T12:13:56,667 writing manifest file 'netam.egg-info/SOURCES.txt' 2026-04-30T12:13:56,670 /tmp/pip-build-env-l1jyy25l/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'netam.model_configs' is absent from the `packages` configuration. 2026-04-30T12:13:56,670 !! 2026-04-30T12:13:56,671 ******************************************************************************** 2026-04-30T12:13:56,672 ############################ 2026-04-30T12:13:56,673 # Package would be ignored # 2026-04-30T12:13:56,673 ############################ 2026-04-30T12:13:56,674 Python recognizes 'netam.model_configs' as an importable package[^1], 2026-04-30T12:13:56,674 but it is absent from setuptools' `packages` configuration. 2026-04-30T12:13:56,675 This leads to an ambiguous overall configuration. If you want to distribute this 2026-04-30T12:13:56,676 package, please make sure that 'netam.model_configs' is explicitly added 2026-04-30T12:13:56,676 to the `packages` configuration field. 2026-04-30T12:13:56,677 Alternatively, you can also rely on setuptools' discovery methods 2026-04-30T12:13:56,677 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-04-30T12:13:56,678 instead of `find_packages(...)`/`find:`). 2026-04-30T12:13:56,679 You can read more about "package discovery" on setuptools documentation page: 2026-04-30T12:13:56,679 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-04-30T12:13:56,680 If you don't want 'netam.model_configs' to be distributed and are 2026-04-30T12:13:56,681 already explicitly excluding 'netam.model_configs' via 2026-04-30T12:13:56,681 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-04-30T12:13:56,681 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-04-30T12:13:56,682 combination with a more fine grained `package-data` configuration. 2026-04-30T12:13:56,683 You can read more about "package data files" on setuptools documentation page: 2026-04-30T12:13:56,683 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-04-30T12:13:56,685 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-04-30T12:13:56,685 even if it does not contain any `.py` files. 2026-04-30T12:13:56,686 On the other hand, currently there is no concept of package data 2026-04-30T12:13:56,686 directory, all directories are treated like packages. 2026-04-30T12:13:56,687 ******************************************************************************** 2026-04-30T12:13:56,688 !! 2026-04-30T12:13:56,689 check.warn(importable) 2026-04-30T12:13:56,689 creating build/lib/netam/model_configs 2026-04-30T12:13:56,690 copying netam/model_configs/bidirectional_default.yaml -> build/lib/netam/model_configs 2026-04-30T12:13:56,690 copying netam/model_configs/parent_independent_default.yaml -> build/lib/netam/model_configs 2026-04-30T12:13:56,691 copying netam/model_configs/single_default.yaml -> build/lib/netam/model_configs 2026-04-30T12:13:56,691 copying netam/model_configs/transformer_large.yaml -> build/lib/netam/model_configs 2026-04-30T12:13:56,692 copying netam/model_configs/transformer_small.yaml -> build/lib/netam/model_configs 2026-04-30T12:13:56,701 installing to build/bdist.linux-armv7l/wheel 2026-04-30T12:13:56,701 running install 2026-04-30T12:13:56,724 running install_lib 2026-04-30T12:13:56,732 creating build/bdist.linux-armv7l/wheel 2026-04-30T12:13:56,734 creating build/bdist.linux-armv7l/wheel/netam 2026-04-30T12:13:56,735 copying build/lib/netam/codon_table.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,738 copying build/lib/netam/dnsm.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,740 copying build/lib/netam/hyper_burrito.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,742 copying build/lib/netam/whichmut_trainer.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,745 copying build/lib/netam/molevol.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,747 copying build/lib/netam/attention_map.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,749 copying build/lib/netam/whichmut_dataset.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,752 copying build/lib/netam/common.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,754 copying build/lib/netam/data_format.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,756 copying build/lib/netam/ddsm.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,758 copying build/lib/netam/sequences.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,761 copying build/lib/netam/oe_plot.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,764 creating build/bdist.linux-armv7l/wheel/netam/model_configs 2026-04-30T12:13:56,765 copying build/lib/netam/model_configs/transformer_large.yaml -> build/bdist.linux-armv7l/wheel/./netam/model_configs 2026-04-30T12:13:56,767 copying build/lib/netam/model_configs/single_default.yaml -> build/bdist.linux-armv7l/wheel/./netam/model_configs 2026-04-30T12:13:56,769 copying build/lib/netam/model_configs/parent_independent_default.yaml -> build/bdist.linux-armv7l/wheel/./netam/model_configs 2026-04-30T12:13:56,770 copying build/lib/netam/model_configs/bidirectional_default.yaml -> build/bdist.linux-armv7l/wheel/./netam/model_configs 2026-04-30T12:13:56,772 copying build/lib/netam/model_configs/transformer_small.yaml -> build/bdist.linux-armv7l/wheel/./netam/model_configs 2026-04-30T12:13:56,774 copying build/lib/netam/model_factory.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,776 copying build/lib/netam/__init__.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,778 copying build/lib/netam/dasm.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,780 copying build/lib/netam/models.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,783 copying build/lib/netam/multihit.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,786 copying build/lib/netam/hit_class.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,788 copying build/lib/netam/framework.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,791 copying build/lib/netam/dxsm.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,794 copying build/lib/netam/pretrained.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,796 copying build/lib/netam/cli.py -> build/bdist.linux-armv7l/wheel/./netam 2026-04-30T12:13:56,797 running install_egg_info 2026-04-30T12:13:56,804 Copying netam.egg-info to build/bdist.linux-armv7l/wheel/./netam-0.2.5-py3.11.egg-info 2026-04-30T12:13:56,815 running install_scripts 2026-04-30T12:13:56,826 creating build/bdist.linux-armv7l/wheel/netam-0.2.5.dist-info/WHEEL 2026-04-30T12:13:56,829 creating '/tmp/pip-wheel-0vx8160l/.tmp-vahb9y4l/netam-0.2.5-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-04-30T12:13:56,831 adding 'netam/__init__.py' 2026-04-30T12:13:56,833 adding 'netam/attention_map.py' 2026-04-30T12:13:56,834 adding 'netam/cli.py' 2026-04-30T12:13:56,836 adding 'netam/codon_table.py' 2026-04-30T12:13:56,839 adding 'netam/common.py' 2026-04-30T12:13:56,841 adding 'netam/dasm.py' 2026-04-30T12:13:56,842 adding 'netam/data_format.py' 2026-04-30T12:13:56,844 adding 'netam/ddsm.py' 2026-04-30T12:13:56,846 adding 'netam/dnsm.py' 2026-04-30T12:13:56,849 adding 'netam/dxsm.py' 2026-04-30T12:13:56,855 adding 'netam/framework.py' 2026-04-30T12:13:56,856 adding 'netam/hit_class.py' 2026-04-30T12:13:56,858 adding 'netam/hyper_burrito.py' 2026-04-30T12:13:56,860 adding 'netam/model_factory.py' 2026-04-30T12:13:56,865 adding 'netam/models.py' 2026-04-30T12:13:56,870 adding 'netam/molevol.py' 2026-04-30T12:13:56,872 adding 'netam/multihit.py' 2026-04-30T12:13:56,878 adding 'netam/oe_plot.py' 2026-04-30T12:13:56,880 adding 'netam/pretrained.py' 2026-04-30T12:13:56,883 adding 'netam/sequences.py' 2026-04-30T12:13:56,886 adding 'netam/whichmut_dataset.py' 2026-04-30T12:13:56,890 adding 'netam/whichmut_trainer.py' 2026-04-30T12:13:56,892 adding 'netam/model_configs/bidirectional_default.yaml' 2026-04-30T12:13:56,893 adding 'netam/model_configs/parent_independent_default.yaml' 2026-04-30T12:13:56,894 adding 'netam/model_configs/single_default.yaml' 2026-04-30T12:13:56,895 adding 'netam/model_configs/transformer_large.yaml' 2026-04-30T12:13:56,896 adding 'netam/model_configs/transformer_small.yaml' 2026-04-30T12:13:56,899 adding 'netam-0.2.5.dist-info/licenses/LICENSE' 2026-04-30T12:13:56,900 adding 'netam-0.2.5.dist-info/METADATA' 2026-04-30T12:13:56,901 adding 'netam-0.2.5.dist-info/WHEEL' 2026-04-30T12:13:56,902 adding 'netam-0.2.5.dist-info/entry_points.txt' 2026-04-30T12:13:56,903 adding 'netam-0.2.5.dist-info/top_level.txt' 2026-04-30T12:13:56,904 adding 'netam-0.2.5.dist-info/RECORD' 2026-04-30T12:13:56,906 removing build/bdist.linux-armv7l/wheel 2026-04-30T12:13:57,018 Building wheel for netam (pyproject.toml): finished with status 'done' 2026-04-30T12:13:57,025 Created wheel for netam: filename=netam-0.2.5-py3-none-any.whl size=104808 sha256=310b5185e5d65608e130183a1a33b03ca82d9fcb5a3c0795253dfc283bb04322 2026-04-30T12:13:57,026 Stored in directory: /tmp/pip-ephem-wheel-cache-f3gh4rdh/wheels/62/be/27/399ae6e4ea59381c72f2134f3ed452238d6dcf7e64e477c6d9 2026-04-30T12:13:57,037 Successfully built netam 2026-04-30T12:13:57,044 Removed build tracker: '/tmp/pip-build-tracker-3qvk3ebf'