2025-12-17T14:20:33,869 Created temporary directory: /tmp/pip-ephem-wheel-cache-utrn8zfr 2025-12-17T14:20:33,871 Created temporary directory: /tmp/pip-build-tracker-qywpdmvg 2025-12-17T14:20:33,872 Initialized build tracking at /tmp/pip-build-tracker-qywpdmvg 2025-12-17T14:20:33,872 Created build tracker: /tmp/pip-build-tracker-qywpdmvg 2025-12-17T14:20:33,873 Entered build tracker: /tmp/pip-build-tracker-qywpdmvg 2025-12-17T14:20:33,874 Created temporary directory: /tmp/pip-wheel-7a0pw6b4 2025-12-17T14:20:33,877 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 2025-12-17T14:20:33,879 Created temporary directory: /tmp/pip-ephem-wheel-cache-eqghwh1o 2025-12-17T14:20:33,901 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-12-17T14:20:33,905 2 location(s) to search for versions of galaxy-app: 2025-12-17T14:20:33,905 * https://pypi.org/simple/galaxy-app/ 2025-12-17T14:20:33,905 * https://www.piwheels.org/simple/galaxy-app/ 2025-12-17T14:20:33,906 Fetching project page and analyzing links: https://pypi.org/simple/galaxy-app/ 2025-12-17T14:20:33,906 Getting page https://pypi.org/simple/galaxy-app/ 2025-12-17T14:20:33,908 Found index url https://pypi.org/simple 2025-12-17T14:20:34,120 Fetched page https://pypi.org/simple/galaxy-app/ as application/vnd.pypi.simple.v1+json 2025-12-17T14:20:34,134 Found link https://files.pythonhosted.org/packages/cd/3d/994b7f4faaee2a95a31af125e96734f3daa9f39e6decd0f7a09950ef686c/galaxy-app-20.5.0.tar.gz (from 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https://files.pythonhosted.org/packages/9a/54/07919f089225f319e85643152c58d577fc01d0e568cb9110cf434ca5b4ee/galaxy_app-25.0.2-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-12-17T14:20:34,185 Found link https://files.pythonhosted.org/packages/53/9c/8d5cdb3013e508ef0c76b277ba5e1695e4d430bd04156f97977cb7895488/galaxy_app-25.0.2.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.0.2 2025-12-17T14:20:34,186 Skipping link: No binaries permitted for galaxy-app: https://files.pythonhosted.org/packages/ff/e5/d8a099afeecad5902fcb02320137c1abc050befa10d53e45861d7f984aaf/galaxy_app-25.0.3-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-12-17T14:20:34,187 Found link https://files.pythonhosted.org/packages/73/3e/df92e253e067efb5d36c0b31c0adc0cff9d417cebe10e87c17df702f92a9/galaxy_app-25.0.3.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.0.3 2025-12-17T14:20:34,187 Skipping link: No binaries permitted for galaxy-app: https://files.pythonhosted.org/packages/79/de/90757d51467b4fb3834f2fb2ebf9781d28060fe19aec53465216c01f606b/galaxy_app-25.0.4-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-12-17T14:20:34,188 Found link https://files.pythonhosted.org/packages/66/ad/5c2f9df1f257e9630a000bb154271e4d681f2b90bec2bd242782e127fcdf/galaxy_app-25.0.4.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.0.4 2025-12-17T14:20:34,189 Skipping link: No binaries permitted for galaxy-app: https://files.pythonhosted.org/packages/cb/4d/fa2a56f4958bf22a88998a1ab0d85c0d78082956b921eb6f0559f943d373/galaxy_app-25.1.dev0-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-12-17T14:20:34,190 Found link https://files.pythonhosted.org/packages/84/c1/ad38ac89ae8245180b76113b4c3086dd4da22d4094e752fb5a1f9fba8425/galaxy_app-25.1.dev0.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.1.dev0 2025-12-17T14:20:34,191 Skipping link: No binaries permitted for galaxy-app: https://files.pythonhosted.org/packages/d3/48/39f108b5edd2537999e65765e3c7c79e8d2a0ffccc33033e04ccf5c0f61d/galaxy_app-25.1.0-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-12-17T14:20:34,192 Found link https://files.pythonhosted.org/packages/da/d5/995e5c17d2321d004186b2d3ca2f3f72f22effa774117ea51150ed7eb78e/galaxy_app-25.1.0.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.1.0 2025-12-17T14:20:34,193 Fetching project page and analyzing links: https://www.piwheels.org/simple/galaxy-app/ 2025-12-17T14:20:34,193 Getting page https://www.piwheels.org/simple/galaxy-app/ 2025-12-17T14:20:34,194 Found index url https://www.piwheels.org/simple 2025-12-17T14:20:34,379 Fetched page https://www.piwheels.org/simple/galaxy-app/ as text/html 2025-12-17T14:20:34,389 Skipping link: No binaries permitted for galaxy-app: https://www.piwheels.org/simple/galaxy-app/galaxy_app-25.1.dev0-py3-none-any.whl#sha256=61192b47a8f5aa09dfa50eab6cc409838da6a6c65b1bc2362ee8b549a053800d (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-12-17T14:20:34,390 Skipping link: No binaries permitted for galaxy-app: https://www.piwheels.org/simple/galaxy-app/galaxy_app-25.0.4-py3-none-any.whl#sha256=40c9bde9c5eb59f49ac82777c9bede1957b6314d53817cd0f36aa3b06711c6c5 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-12-17T14:20:34,390 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-25.0.3-py3-none-any.whl#sha256=dda69dddcadfe72dd1cbe1bf11446f4b3570ebdceb35e31de9c036bc7bdd22d4 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-12-17T14:20:34,391 Skipping link: No binaries permitted for galaxy-app: 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2025-12-17T14:20:34,432 Given no hashes to check 1 links for project 'galaxy-app': discarding no candidates 2025-12-17T14:20:34,450 Collecting galaxy-app==25.1.0 2025-12-17T14:20:34,452 Created temporary directory: /tmp/pip-unpack-zvfvih31 2025-12-17T14:20:34,665 Downloading galaxy_app-25.1.0.tar.gz (1.3 MB) 2025-12-17T14:20:36,219 Added galaxy-app==25.1.0 from https://files.pythonhosted.org/packages/da/d5/995e5c17d2321d004186b2d3ca2f3f72f22effa774117ea51150ed7eb78e/galaxy_app-25.1.0.tar.gz to build tracker '/tmp/pip-build-tracker-qywpdmvg' 2025-12-17T14:20:36,222 Created temporary directory: /tmp/pip-build-env-8mfxmp3f 2025-12-17T14:20:36,227 Installing build dependencies: started 2025-12-17T14:20:36,228 Running command pip subprocess to install build dependencies 2025-12-17T14:20:37,393 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2025-12-17T14:20:38,244 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 2025-12-17T14:20:38,268 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-12-17T14:20:39,983 Collecting setuptools 2025-12-17T14:20:40,076 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2025-12-17T14:20:43,013 Installing collected packages: setuptools 2025-12-17T14:20:46,618 Successfully installed setuptools-80.9.0 2025-12-17T14:20:46,883 Installing build dependencies: finished with status 'done' 2025-12-17T14:20:46,889 Getting requirements to build wheel: started 2025-12-17T14:20:46,890 Running command Getting requirements to build wheel 2025-12-17T14:20:47,523 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-12-17T14:20:47,523 !! 2025-12-17T14:20:47,524 ******************************************************************************** 2025-12-17T14:20:47,525 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-12-17T14:20:47,526 License :: OSI Approved :: Academic Free License (AFL) 2025-12-17T14:20:47,527 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-12-17T14:20:47,528 ******************************************************************************** 2025-12-17T14:20:47,529 !! 2025-12-17T14:20:47,529 self._finalize_license_expression() 2025-12-17T14:20:47,608 running egg_info 2025-12-17T14:20:47,615 writing galaxy_app.egg-info/PKG-INFO 2025-12-17T14:20:47,628 writing dependency_links to galaxy_app.egg-info/dependency_links.txt 2025-12-17T14:20:47,630 writing entry points to galaxy_app.egg-info/entry_points.txt 2025-12-17T14:20:47,632 writing requirements to galaxy_app.egg-info/requires.txt 2025-12-17T14:20:47,634 writing top-level names to galaxy_app.egg-info/top_level.txt 2025-12-17T14:20:47,735 reading manifest file 'galaxy_app.egg-info/SOURCES.txt' 2025-12-17T14:20:47,809 reading manifest template 'MANIFEST.in' 2025-12-17T14:20:48,372 adding license file 'LICENSE' 2025-12-17T14:20:48,402 writing manifest file 'galaxy_app.egg-info/SOURCES.txt' 2025-12-17T14:20:48,493 Getting requirements to build wheel: finished with status 'done' 2025-12-17T14:20:48,496 Created temporary directory: /tmp/pip-modern-metadata-gif1mumy 2025-12-17T14:20:48,498 Preparing metadata (pyproject.toml): started 2025-12-17T14:20:48,499 Running command Preparing metadata (pyproject.toml) 2025-12-17T14:20:49,119 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-12-17T14:20:49,119 !! 2025-12-17T14:20:49,120 ******************************************************************************** 2025-12-17T14:20:49,121 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-12-17T14:20:49,123 License :: OSI Approved :: Academic Free License (AFL) 2025-12-17T14:20:49,124 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-12-17T14:20:49,124 ******************************************************************************** 2025-12-17T14:20:49,126 !! 2025-12-17T14:20:49,126 self._finalize_license_expression() 2025-12-17T14:20:49,146 running dist_info 2025-12-17T14:20:49,158 creating /tmp/pip-modern-metadata-gif1mumy/galaxy_app.egg-info 2025-12-17T14:20:49,159 writing /tmp/pip-modern-metadata-gif1mumy/galaxy_app.egg-info/PKG-INFO 2025-12-17T14:20:49,170 writing dependency_links to /tmp/pip-modern-metadata-gif1mumy/galaxy_app.egg-info/dependency_links.txt 2025-12-17T14:20:49,172 writing entry points to /tmp/pip-modern-metadata-gif1mumy/galaxy_app.egg-info/entry_points.txt 2025-12-17T14:20:49,174 writing requirements to /tmp/pip-modern-metadata-gif1mumy/galaxy_app.egg-info/requires.txt 2025-12-17T14:20:49,176 writing top-level names to /tmp/pip-modern-metadata-gif1mumy/galaxy_app.egg-info/top_level.txt 2025-12-17T14:20:49,177 writing manifest file '/tmp/pip-modern-metadata-gif1mumy/galaxy_app.egg-info/SOURCES.txt' 2025-12-17T14:20:49,261 reading manifest file '/tmp/pip-modern-metadata-gif1mumy/galaxy_app.egg-info/SOURCES.txt' 2025-12-17T14:20:49,263 reading manifest template 'MANIFEST.in' 2025-12-17T14:20:49,830 adding license file 'LICENSE' 2025-12-17T14:20:49,852 writing manifest file '/tmp/pip-modern-metadata-gif1mumy/galaxy_app.egg-info/SOURCES.txt' 2025-12-17T14:20:49,854 creating '/tmp/pip-modern-metadata-gif1mumy/galaxy_app-25.1.0.dist-info' 2025-12-17T14:20:50,006 Preparing metadata (pyproject.toml): finished with status 'done' 2025-12-17T14:20:50,021 Source in /tmp/pip-wheel-7a0pw6b4/galaxy-app_fcd71b32333f4666bd47c21aa96d0ca6 has version 25.1.0, which satisfies requirement galaxy-app==25.1.0 from https://files.pythonhosted.org/packages/da/d5/995e5c17d2321d004186b2d3ca2f3f72f22effa774117ea51150ed7eb78e/galaxy_app-25.1.0.tar.gz 2025-12-17T14:20:50,022 Removed galaxy-app==25.1.0 from https://files.pythonhosted.org/packages/da/d5/995e5c17d2321d004186b2d3ca2f3f72f22effa774117ea51150ed7eb78e/galaxy_app-25.1.0.tar.gz from build tracker '/tmp/pip-build-tracker-qywpdmvg' 2025-12-17T14:20:50,049 Created temporary directory: /tmp/pip-unpack-ua5c2ujc 2025-12-17T14:20:50,050 Building wheels for collected packages: galaxy-app 2025-12-17T14:20:50,056 Created temporary directory: /tmp/pip-wheel-hwj97k8q 2025-12-17T14:20:50,056 Destination directory: /tmp/pip-wheel-hwj97k8q 2025-12-17T14:20:50,059 Building wheel for galaxy-app (pyproject.toml): started 2025-12-17T14:20:50,060 Running command Building wheel for galaxy-app (pyproject.toml) 2025-12-17T14:20:50,674 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-12-17T14:20:50,674 !! 2025-12-17T14:20:50,676 ******************************************************************************** 2025-12-17T14:20:50,676 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-12-17T14:20:50,677 License :: OSI Approved :: Academic Free License (AFL) 2025-12-17T14:20:50,678 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-12-17T14:20:50,679 ******************************************************************************** 2025-12-17T14:20:50,681 !! 2025-12-17T14:20:50,681 self._finalize_license_expression() 2025-12-17T14:20:50,706 running bdist_wheel 2025-12-17T14:20:50,737 running build 2025-12-17T14:20:50,738 running build_py 2025-12-17T14:20:50,747 creating build/lib/tool_shed_client 2025-12-17T14:20:50,749 copying tool_shed_client/__init__.py -> build/lib/tool_shed_client 2025-12-17T14:20:50,751 copying tool_shed_client/trs_util.py -> build/lib/tool_shed_client 2025-12-17T14:20:50,754 creating build/lib/galaxy_ext 2025-12-17T14:20:50,755 copying galaxy_ext/__init__.py -> build/lib/galaxy_ext 2025-12-17T14:20:50,757 creating build/lib/galaxy 2025-12-17T14:20:50,758 copying galaxy/main.py -> build/lib/galaxy 2025-12-17T14:20:50,761 copying galaxy/queue_worker.py -> build/lib/galaxy 2025-12-17T14:20:50,763 copying galaxy/queues.py -> build/lib/galaxy 2025-12-17T14:20:50,765 copying galaxy/main_config.py -> build/lib/galaxy 2025-12-17T14:20:50,767 copying galaxy/app.py -> build/lib/galaxy 2025-12-17T14:20:50,770 copying galaxy/structured_app.py -> build/lib/galaxy 2025-12-17T14:20:50,772 copying galaxy/__init__.py -> build/lib/galaxy 2025-12-17T14:20:50,774 copying galaxy/config_watchers.py -> build/lib/galaxy 2025-12-17T14:20:50,776 copying galaxy/di.py -> build/lib/galaxy 2025-12-17T14:20:50,779 creating build/lib/tool_shed_client/schema 2025-12-17T14:20:50,780 copying tool_shed_client/schema/__init__.py -> build/lib/tool_shed_client/schema 2025-12-17T14:20:50,782 copying tool_shed_client/schema/trs.py -> build/lib/tool_shed_client/schema 2025-12-17T14:20:50,784 copying tool_shed_client/schema/trs_service_info.py -> build/lib/tool_shed_client/schema 2025-12-17T14:20:50,786 creating build/lib/galaxy_ext/expressions 2025-12-17T14:20:50,788 copying galaxy_ext/expressions/__init__.py -> build/lib/galaxy_ext/expressions 2025-12-17T14:20:50,789 copying galaxy_ext/expressions/handle_job.py -> build/lib/galaxy_ext/expressions 2025-12-17T14:20:50,791 creating build/lib/galaxy_ext/metadata 2025-12-17T14:20:50,792 copying galaxy_ext/metadata/__init__.py -> build/lib/galaxy_ext/metadata 2025-12-17T14:20:50,795 copying galaxy_ext/metadata/set_metadata.py -> build/lib/galaxy_ext/metadata 2025-12-17T14:20:50,797 creating build/lib/galaxy_ext/container_monitor 2025-12-17T14:20:50,798 copying galaxy_ext/container_monitor/monitor.py -> build/lib/galaxy_ext/container_monitor 2025-12-17T14:20:50,800 copying galaxy_ext/container_monitor/__init__.py -> build/lib/galaxy_ext/container_monitor 2025-12-17T14:20:50,802 creating build/lib/galaxy/dependencies 2025-12-17T14:20:50,803 copying galaxy/dependencies/script.py -> build/lib/galaxy/dependencies 2025-12-17T14:20:50,805 copying galaxy/dependencies/__init__.py -> build/lib/galaxy/dependencies 2025-12-17T14:20:50,808 creating build/lib/galaxy/authnz 2025-12-17T14:20:50,809 copying galaxy/authnz/util.py -> build/lib/galaxy/authnz 2025-12-17T14:20:50,811 copying galaxy/authnz/managers.py -> build/lib/galaxy/authnz 2025-12-17T14:20:50,814 copying galaxy/authnz/psa_authnz.py -> build/lib/galaxy/authnz 2025-12-17T14:20:50,816 copying galaxy/authnz/__init__.py -> build/lib/galaxy/authnz 2025-12-17T14:20:50,818 copying galaxy/authnz/tapis.py -> build/lib/galaxy/authnz 2025-12-17T14:20:50,821 copying galaxy/authnz/custos_authnz.py -> build/lib/galaxy/authnz 2025-12-17T14:20:50,824 creating build/lib/galaxy/work 2025-12-17T14:20:50,825 copying galaxy/work/__init__.py -> build/lib/galaxy/work 2025-12-17T14:20:50,826 copying galaxy/work/context.py -> build/lib/galaxy/work 2025-12-17T14:20:50,829 creating build/lib/galaxy/webhooks 2025-12-17T14:20:50,830 copying galaxy/webhooks/__init__.py -> build/lib/galaxy/webhooks 2025-12-17T14:20:50,833 creating build/lib/galaxy/tools 2025-12-17T14:20:50,834 copying galaxy/tools/repositories.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,836 copying galaxy/tools/data_fetch.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,839 copying galaxy/tools/execution_helpers.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,841 copying galaxy/tools/stock.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,843 copying galaxy/tools/biotools.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,844 copying galaxy/tools/cache.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,847 copying galaxy/tools/_types.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,849 copying galaxy/tools/recommendations.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,851 copying galaxy/tools/execute.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,854 copying galaxy/tools/remote_tool_eval.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,856 copying galaxy/tools/special_tools.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,858 copying galaxy/tools/wrappers.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,861 copying galaxy/tools/errors.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,863 copying galaxy/tools/__init__.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,869 copying galaxy/tools/evaluation.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,872 copying galaxy/tools/exception_handling.py -> build/lib/galaxy/tools 2025-12-17T14:20:50,874 creating build/lib/galaxy/forms 2025-12-17T14:20:50,875 copying galaxy/forms/__init__.py -> build/lib/galaxy/forms 2025-12-17T14:20:50,877 copying galaxy/forms/forms.py -> build/lib/galaxy/forms 2025-12-17T14:20:50,880 creating build/lib/galaxy/actions 2025-12-17T14:20:50,881 copying galaxy/actions/library.py -> build/lib/galaxy/actions 2025-12-17T14:20:50,883 copying galaxy/actions/__init__.py -> build/lib/galaxy/actions 2025-12-17T14:20:50,885 creating build/lib/galaxy/tool_shed 2025-12-17T14:20:50,886 copying galaxy/tool_shed/repository_type.py -> build/lib/galaxy/tool_shed 2025-12-17T14:20:50,888 copying galaxy/tool_shed/cache.py -> build/lib/galaxy/tool_shed 2025-12-17T14:20:50,890 copying galaxy/tool_shed/__init__.py -> build/lib/galaxy/tool_shed 2025-12-17T14:20:50,892 creating build/lib/galaxy/app_unittest_utils 2025-12-17T14:20:50,893 copying galaxy/app_unittest_utils/toolbox_support.py -> build/lib/galaxy/app_unittest_utils 2025-12-17T14:20:50,895 copying galaxy/app_unittest_utils/tools_support.py -> build/lib/galaxy/app_unittest_utils 2025-12-17T14:20:50,897 copying galaxy/app_unittest_utils/__init__.py -> build/lib/galaxy/app_unittest_utils 2025-12-17T14:20:50,898 copying galaxy/app_unittest_utils/galaxy_mock.py -> build/lib/galaxy/app_unittest_utils 2025-12-17T14:20:50,901 creating build/lib/galaxy/carbon_emissions 2025-12-17T14:20:50,902 copying galaxy/carbon_emissions/__init__.py -> build/lib/galaxy/carbon_emissions 2025-12-17T14:20:50,905 creating build/lib/galaxy/visualization 2025-12-17T14:20:50,906 copying galaxy/visualization/genomes.py -> build/lib/galaxy/visualization 2025-12-17T14:20:50,908 copying galaxy/visualization/__init__.py -> build/lib/galaxy/visualization 2025-12-17T14:20:50,910 creating build/lib/galaxy/celery 2025-12-17T14:20:50,911 copying galaxy/celery/base_task.py -> build/lib/galaxy/celery 2025-12-17T14:20:50,913 copying galaxy/celery/tasks.py -> build/lib/galaxy/celery 2025-12-17T14:20:50,916 copying galaxy/celery/_serialization.py -> build/lib/galaxy/celery 2025-12-17T14:20:50,918 copying galaxy/celery/__init__.py -> build/lib/galaxy/celery 2025-12-17T14:20:50,921 creating build/lib/galaxy/jobs 2025-12-17T14:20:50,922 copying galaxy/jobs/stock_rules.py -> build/lib/galaxy/jobs 2025-12-17T14:20:50,924 copying galaxy/jobs/rule_helper.py -> build/lib/galaxy/jobs 2025-12-17T14:20:50,926 copying galaxy/jobs/handler.py -> build/lib/galaxy/jobs 2025-12-17T14:20:50,929 copying galaxy/jobs/command_factory.py -> build/lib/galaxy/jobs 2025-12-17T14:20:50,932 copying galaxy/jobs/dynamic_tool_destination.py -> build/lib/galaxy/jobs 2025-12-17T14:20:50,936 copying galaxy/jobs/mapper.py -> build/lib/galaxy/jobs 2025-12-17T14:20:50,938 copying galaxy/jobs/__init__.py -> build/lib/galaxy/jobs 2025-12-17T14:20:50,943 copying galaxy/jobs/manager.py -> build/lib/galaxy/jobs 2025-12-17T14:20:50,945 creating build/lib/galaxy/short_term_storage 2025-12-17T14:20:50,946 copying galaxy/short_term_storage/__init__.py -> build/lib/galaxy/short_term_storage 2025-12-17T14:20:50,951 creating build/lib/galaxy/managers 2025-12-17T14:20:50,952 copying galaxy/managers/workflows.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,957 copying galaxy/managers/interactivetool.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,959 copying galaxy/managers/landing.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,962 copying galaxy/managers/base.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,965 copying galaxy/managers/library_datasets.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,968 copying galaxy/managers/tasks.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,970 copying galaxy/managers/datasets.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,973 copying galaxy/managers/job_connections.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,975 copying galaxy/managers/session.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,977 copying galaxy/managers/chat.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,979 copying galaxy/managers/histories.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,981 copying galaxy/managers/annotatable.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,984 copying galaxy/managers/genomes.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,986 copying galaxy/managers/markdown_util.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,989 copying galaxy/managers/collections_util.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,991 copying galaxy/managers/taggable.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,993 copying galaxy/managers/tools.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,995 copying galaxy/managers/rbac_secured.py -> build/lib/galaxy/managers 2025-12-17T14:20:50,998 copying galaxy/managers/metrics.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,000 copying galaxy/managers/credentials.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,002 copying galaxy/managers/dbkeys.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,004 copying galaxy/managers/hdcas.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,006 copying galaxy/managers/sharable.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,009 copying galaxy/managers/collections.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,012 copying galaxy/managers/executables.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,014 copying galaxy/managers/groups.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,017 copying galaxy/managers/__init__.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,019 copying galaxy/managers/model_stores.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,022 copying galaxy/managers/item_tags.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,024 copying galaxy/managers/display_applications.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,026 copying galaxy/managers/quotas.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,029 copying galaxy/managers/notification.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,033 copying galaxy/managers/visualizations.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,037 copying galaxy/managers/roles.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,039 copying galaxy/managers/datatypes.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,042 copying galaxy/managers/lddas.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,045 copying galaxy/managers/pages.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,049 copying galaxy/managers/jobs.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,056 copying galaxy/managers/group_users.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,059 copying galaxy/managers/configuration.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,063 copying galaxy/managers/file_source_instances.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,066 copying galaxy/managers/markdown_parse.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,069 copying galaxy/managers/folders.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,071 copying galaxy/managers/citations.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,073 copying galaxy/managers/users.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,076 copying galaxy/managers/_config_templates.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,079 copying galaxy/managers/api_keys.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,081 copying galaxy/managers/remote_files.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,083 copying galaxy/managers/export_tracker.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,085 copying galaxy/managers/forms.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,087 copying galaxy/managers/deletable.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,089 copying galaxy/managers/libraries.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,092 copying galaxy/managers/secured.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,094 copying galaxy/managers/licenses.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,096 copying galaxy/managers/ratable.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,098 copying galaxy/managers/history_contents.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,101 copying galaxy/managers/object_store_instances.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,103 copying galaxy/managers/tool_data.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,105 copying galaxy/managers/tags.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,107 copying galaxy/managers/hdas.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,110 copying galaxy/managers/tours.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,112 copying galaxy/managers/group_roles.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,114 copying galaxy/managers/context.py -> build/lib/galaxy/managers 2025-12-17T14:20:51,117 creating build/lib/galaxy/workflow 2025-12-17T14:20:51,117 copying galaxy/workflow/run_request.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,120 copying galaxy/workflow/render.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,122 copying galaxy/workflow/run.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,125 copying galaxy/workflow/scheduling_manager.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,127 copying galaxy/workflow/modules.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,131 copying galaxy/workflow/workflow_parameter_input_definitions.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,133 copying galaxy/workflow/trs_proxy.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,135 copying galaxy/workflow/errors.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,137 copying galaxy/workflow/__init__.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,139 copying galaxy/workflow/steps.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,141 copying galaxy/workflow/extract.py -> build/lib/galaxy/workflow 2025-12-17T14:20:51,144 creating build/lib/galaxy/tools/filters 2025-12-17T14:20:51,145 copying galaxy/tools/filters/__init__.py -> build/lib/galaxy/tools/filters 2025-12-17T14:20:51,148 creating build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,148 copying galaxy/tools/parameters/workflow_utils.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,150 copying galaxy/tools/parameters/dynamic_options.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,153 copying galaxy/tools/parameters/validation.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,156 copying galaxy/tools/parameters/cancelable_request.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,158 copying galaxy/tools/parameters/options.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,160 copying galaxy/tools/parameters/meta.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,162 copying galaxy/tools/parameters/dataset_matcher.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,165 copying galaxy/tools/parameters/wrapped.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,167 copying galaxy/tools/parameters/__init__.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,170 copying galaxy/tools/parameters/basic.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,175 copying galaxy/tools/parameters/populate_model.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,177 copying galaxy/tools/parameters/grouping.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,180 copying galaxy/tools/parameters/sanitize.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,182 copying galaxy/tools/parameters/input_translation.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,184 copying galaxy/tools/parameters/wrapped_json.py -> build/lib/galaxy/tools/parameters 2025-12-17T14:20:51,187 creating build/lib/galaxy/tools/data_manager 2025-12-17T14:20:51,188 copying galaxy/tools/data_manager/__init__.py -> build/lib/galaxy/tools/data_manager 2025-12-17T14:20:51,190 copying galaxy/tools/data_manager/manager.py -> build/lib/galaxy/tools/data_manager 2025-12-17T14:20:51,193 creating build/lib/galaxy/tools/actions 2025-12-17T14:20:51,194 copying galaxy/tools/actions/data_source.py -> build/lib/galaxy/tools/actions 2025-12-17T14:20:51,196 copying galaxy/tools/actions/metadata.py -> build/lib/galaxy/tools/actions 2025-12-17T14:20:51,199 copying galaxy/tools/actions/__init__.py -> build/lib/galaxy/tools/actions 2025-12-17T14:20:51,202 copying galaxy/tools/actions/model_operations.py -> build/lib/galaxy/tools/actions 2025-12-17T14:20:51,205 copying galaxy/tools/actions/upload.py -> build/lib/galaxy/tools/actions 2025-12-17T14:20:51,207 copying galaxy/tools/actions/history_imp_exp.py -> build/lib/galaxy/tools/actions 2025-12-17T14:20:51,210 copying galaxy/tools/actions/upload_common.py -> build/lib/galaxy/tools/actions 2025-12-17T14:20:51,213 copying galaxy/tools/actions/data_manager.py -> build/lib/galaxy/tools/actions 2025-12-17T14:20:51,215 creating build/lib/galaxy/tools/fetch 2025-12-17T14:20:51,217 copying galaxy/tools/fetch/__init__.py -> build/lib/galaxy/tools/fetch 2025-12-17T14:20:51,219 copying galaxy/tools/fetch/workbooks.py -> build/lib/galaxy/tools/fetch 2025-12-17T14:20:51,222 creating build/lib/galaxy/tools/expressions 2025-12-17T14:20:51,224 copying galaxy/tools/expressions/util.py -> build/lib/galaxy/tools/expressions 2025-12-17T14:20:51,226 copying galaxy/tools/expressions/script.py -> build/lib/galaxy/tools/expressions 2025-12-17T14:20:51,228 copying galaxy/tools/expressions/__init__.py -> build/lib/galaxy/tools/expressions 2025-12-17T14:20:51,230 copying galaxy/tools/expressions/evaluation.py -> build/lib/galaxy/tools/expressions 2025-12-17T14:20:51,232 creating build/lib/galaxy/tools/data 2025-12-17T14:20:51,234 copying galaxy/tools/data/__init__.py -> build/lib/galaxy/tools/data 2025-12-17T14:20:51,237 creating build/lib/galaxy/tools/error_reports 2025-12-17T14:20:51,238 copying galaxy/tools/error_reports/__init__.py -> build/lib/galaxy/tools/error_reports 2025-12-17T14:20:51,241 creating build/lib/galaxy/tools/util 2025-12-17T14:20:51,243 copying galaxy/tools/util/__init__.py -> build/lib/galaxy/tools/util 2025-12-17T14:20:51,245 copying galaxy/tools/util/maf_utilities.py -> build/lib/galaxy/tools/util 2025-12-17T14:20:51,248 creating build/lib/galaxy/tools/search 2025-12-17T14:20:51,249 copying galaxy/tools/search/__init__.py -> build/lib/galaxy/tools/search 2025-12-17T14:20:51,253 creating build/lib/galaxy/tools/imp_exp 2025-12-17T14:20:51,254 copying galaxy/tools/imp_exp/unpack_tar_gz_archive.py -> build/lib/galaxy/tools/imp_exp 2025-12-17T14:20:51,256 copying galaxy/tools/imp_exp/export_history.py -> build/lib/galaxy/tools/imp_exp 2025-12-17T14:20:51,259 copying galaxy/tools/imp_exp/__init__.py -> build/lib/galaxy/tools/imp_exp 2025-12-17T14:20:51,262 creating build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,263 copying galaxy/tools/error_reports/plugins/github.py -> build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,266 copying galaxy/tools/error_reports/plugins/email.py -> build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,268 copying galaxy/tools/error_reports/plugins/sentry.py -> build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,271 copying galaxy/tools/error_reports/plugins/gitlab.py -> build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,274 copying galaxy/tools/error_reports/plugins/base_git.py -> build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,276 copying galaxy/tools/error_reports/plugins/json.py -> build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,278 copying galaxy/tools/error_reports/plugins/__init__.py -> build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,280 copying galaxy/tools/error_reports/plugins/influxdb.py -> build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,283 copying galaxy/tools/error_reports/plugins/slack.py -> build/lib/galaxy/tools/error_reports/plugins 2025-12-17T14:20:51,286 creating build/lib/galaxy/tools/util/galaxyops 2025-12-17T14:20:51,287 copying galaxy/tools/util/galaxyops/__init__.py -> build/lib/galaxy/tools/util/galaxyops 2025-12-17T14:20:51,290 creating build/lib/galaxy/tool_shed/tools 2025-12-17T14:20:51,291 copying galaxy/tool_shed/tools/tool_validator.py -> build/lib/galaxy/tool_shed/tools 2025-12-17T14:20:51,294 copying galaxy/tool_shed/tools/data_table_manager.py -> build/lib/galaxy/tool_shed/tools 2025-12-17T14:20:51,296 copying galaxy/tool_shed/tools/__init__.py -> build/lib/galaxy/tool_shed/tools 2025-12-17T14:20:51,299 creating build/lib/galaxy/tool_shed/unittest_utils 2025-12-17T14:20:51,300 copying galaxy/tool_shed/unittest_utils/__init__.py -> build/lib/galaxy/tool_shed/unittest_utils 2025-12-17T14:20:51,303 creating build/lib/galaxy/tool_shed/metadata 2025-12-17T14:20:51,304 copying galaxy/tool_shed/metadata/__init__.py -> build/lib/galaxy/tool_shed/metadata 2025-12-17T14:20:51,306 copying galaxy/tool_shed/metadata/metadata_generator.py -> build/lib/galaxy/tool_shed/metadata 2025-12-17T14:20:51,311 creating build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,312 copying galaxy/tool_shed/util/utility_container_manager.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,315 copying galaxy/tool_shed/util/tool_util.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,318 copying galaxy/tool_shed/util/metadata_util.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,320 copying galaxy/tool_shed/util/shed_util_common.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,323 copying galaxy/tool_shed/util/container_util.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,325 copying galaxy/tool_shed/util/hg_util.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,328 copying galaxy/tool_shed/util/__init__.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,330 copying galaxy/tool_shed/util/tool_dependency_util.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,332 copying galaxy/tool_shed/util/repository_util.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,336 copying galaxy/tool_shed/util/basic_util.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,338 copying galaxy/tool_shed/util/dependency_display.py -> build/lib/galaxy/tool_shed/util 2025-12-17T14:20:51,342 creating build/lib/galaxy/tool_shed/galaxy_install 2025-12-17T14:20:51,343 copying galaxy/tool_shed/galaxy_install/client.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-12-17T14:20:51,345 copying galaxy/tool_shed/galaxy_install/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-12-17T14:20:51,347 copying galaxy/tool_shed/galaxy_install/install_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-12-17T14:20:51,351 copying galaxy/tool_shed/galaxy_install/installed_repository_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-12-17T14:20:51,355 copying galaxy/tool_shed/galaxy_install/update_repository_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-12-17T14:20:51,358 creating build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2025-12-17T14:20:51,359 copying galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2025-12-17T14:20:51,363 copying galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2025-12-17T14:20:51,365 creating build/lib/galaxy/tool_shed/galaxy_install/tools 2025-12-17T14:20:51,367 copying galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2025-12-17T14:20:51,370 copying galaxy/tool_shed/galaxy_install/tools/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2025-12-17T14:20:51,372 copying galaxy/tool_shed/galaxy_install/tools/data_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2025-12-17T14:20:51,375 creating build/lib/galaxy/tool_shed/galaxy_install/metadata 2025-12-17T14:20:51,377 copying galaxy/tool_shed/galaxy_install/metadata/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/metadata 2025-12-17T14:20:51,379 copying galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/metadata 2025-12-17T14:20:51,382 creating build/lib/galaxy/visualization/data_providers 2025-12-17T14:20:51,383 copying galaxy/visualization/data_providers/registry.py -> build/lib/galaxy/visualization/data_providers 2025-12-17T14:20:51,386 copying galaxy/visualization/data_providers/__init__.py -> build/lib/galaxy/visualization/data_providers 2025-12-17T14:20:51,388 copying galaxy/visualization/data_providers/cigar.py -> build/lib/galaxy/visualization/data_providers 2025-12-17T14:20:51,390 copying galaxy/visualization/data_providers/basic.py -> build/lib/galaxy/visualization/data_providers 2025-12-17T14:20:51,393 copying galaxy/visualization/data_providers/genome.py -> build/lib/galaxy/visualization/data_providers 2025-12-17T14:20:51,397 creating build/lib/galaxy/visualization/genome 2025-12-17T14:20:51,398 copying galaxy/visualization/genome/__init__.py -> build/lib/galaxy/visualization/genome 2025-12-17T14:20:51,401 creating build/lib/galaxy/visualization/plugins 2025-12-17T14:20:51,402 copying galaxy/visualization/plugins/datasource_testing.py -> build/lib/galaxy/visualization/plugins 2025-12-17T14:20:51,405 copying galaxy/visualization/plugins/utils.py -> build/lib/galaxy/visualization/plugins 2025-12-17T14:20:51,407 copying galaxy/visualization/plugins/config_parser.py -> build/lib/galaxy/visualization/plugins 2025-12-17T14:20:51,410 copying galaxy/visualization/plugins/registry.py -> build/lib/galaxy/visualization/plugins 2025-12-17T14:20:51,412 copying galaxy/visualization/plugins/__init__.py -> build/lib/galaxy/visualization/plugins 2025-12-17T14:20:51,413 copying galaxy/visualization/plugins/plugin.py -> build/lib/galaxy/visualization/plugins 2025-12-17T14:20:51,416 copying galaxy/visualization/plugins/resource_parser.py -> build/lib/galaxy/visualization/plugins 2025-12-17T14:20:51,419 creating build/lib/galaxy/visualization/tracks 2025-12-17T14:20:51,420 copying galaxy/visualization/tracks/__init__.py -> build/lib/galaxy/visualization/tracks 2025-12-17T14:20:51,422 creating build/lib/galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:51,423 copying galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:51,425 copying galaxy/visualization/data_providers/phyloviz/nexusparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:51,427 copying galaxy/visualization/data_providers/phyloviz/newickparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:51,429 copying galaxy/visualization/data_providers/phyloviz/baseparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:51,432 copying galaxy/visualization/data_providers/phyloviz/__init__.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:51,434 creating build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,435 copying galaxy/jobs/runners/state_handler_factory.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,437 copying galaxy/jobs/runners/drmaa.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,440 copying galaxy/jobs/runners/condor.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,442 copying galaxy/jobs/runners/tasks.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,445 copying galaxy/jobs/runners/pulsar.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,448 copying galaxy/jobs/runners/aws.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,451 copying galaxy/jobs/runners/univa.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,454 copying galaxy/jobs/runners/chronos.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,456 copying galaxy/jobs/runners/godocker.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,459 copying galaxy/jobs/runners/pbs.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,461 copying galaxy/jobs/runners/__init__.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,464 copying galaxy/jobs/runners/local.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,467 copying galaxy/jobs/runners/kubernetes.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,470 copying galaxy/jobs/runners/cli.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,472 copying galaxy/jobs/runners/slurm.py -> build/lib/galaxy/jobs/runners 2025-12-17T14:20:51,475 creating build/lib/galaxy/jobs/splitters 2025-12-17T14:20:51,476 copying galaxy/jobs/splitters/__init__.py -> build/lib/galaxy/jobs/splitters 2025-12-17T14:20:51,478 copying galaxy/jobs/splitters/multi.py -> build/lib/galaxy/jobs/splitters 2025-12-17T14:20:51,480 copying galaxy/jobs/splitters/basic.py -> build/lib/galaxy/jobs/splitters 2025-12-17T14:20:51,482 creating build/lib/galaxy/jobs/rules 2025-12-17T14:20:51,483 copying galaxy/jobs/rules/__init__.py -> build/lib/galaxy/jobs/rules 2025-12-17T14:20:51,485 creating build/lib/galaxy/jobs/runners/state_handlers 2025-12-17T14:20:51,486 copying galaxy/jobs/runners/state_handlers/__init__.py -> build/lib/galaxy/jobs/runners/state_handlers 2025-12-17T14:20:51,488 copying galaxy/jobs/runners/state_handlers/_safe_eval.py -> build/lib/galaxy/jobs/runners/state_handlers 2025-12-17T14:20:51,490 copying galaxy/jobs/runners/state_handlers/resubmit.py -> build/lib/galaxy/jobs/runners/state_handlers 2025-12-17T14:20:51,493 creating build/lib/galaxy/jobs/runners/util 2025-12-17T14:20:51,494 copying galaxy/jobs/runners/util/process_groups.py -> build/lib/galaxy/jobs/runners/util 2025-12-17T14:20:51,496 copying galaxy/jobs/runners/util/external.py -> build/lib/galaxy/jobs/runners/util 2025-12-17T14:20:51,498 copying galaxy/jobs/runners/util/sudo.py -> build/lib/galaxy/jobs/runners/util 2025-12-17T14:20:51,500 copying galaxy/jobs/runners/util/pykube_util.py -> build/lib/galaxy/jobs/runners/util 2025-12-17T14:20:51,502 copying galaxy/jobs/runners/util/__init__.py -> build/lib/galaxy/jobs/runners/util 2025-12-17T14:20:51,504 copying galaxy/jobs/runners/util/fork_safe_write.py -> build/lib/galaxy/jobs/runners/util 2025-12-17T14:20:51,506 copying galaxy/jobs/runners/util/env.py -> build/lib/galaxy/jobs/runners/util 2025-12-17T14:20:51,508 copying galaxy/jobs/runners/util/kill.py -> build/lib/galaxy/jobs/runners/util 2025-12-17T14:20:51,510 creating build/lib/galaxy/jobs/runners/util/condor 2025-12-17T14:20:51,511 copying galaxy/jobs/runners/util/condor/__init__.py -> build/lib/galaxy/jobs/runners/util/condor 2025-12-17T14:20:51,513 creating build/lib/galaxy/jobs/runners/util/job_script 2025-12-17T14:20:51,515 copying galaxy/jobs/runners/util/job_script/__init__.py -> build/lib/galaxy/jobs/runners/util/job_script 2025-12-17T14:20:51,517 creating build/lib/galaxy/jobs/runners/util/cli 2025-12-17T14:20:51,518 copying galaxy/jobs/runners/util/cli/factory.py -> build/lib/galaxy/jobs/runners/util/cli 2025-12-17T14:20:51,520 copying galaxy/jobs/runners/util/cli/__init__.py -> build/lib/galaxy/jobs/runners/util/cli 2025-12-17T14:20:51,523 creating build/lib/galaxy/jobs/runners/util/cli/shell 2025-12-17T14:20:51,524 copying galaxy/jobs/runners/util/cli/shell/rsh.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2025-12-17T14:20:51,526 copying galaxy/jobs/runners/util/cli/shell/__init__.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2025-12-17T14:20:51,528 copying galaxy/jobs/runners/util/cli/shell/local.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2025-12-17T14:20:51,530 creating build/lib/galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:51,531 copying galaxy/jobs/runners/util/cli/job/torque.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:51,534 copying galaxy/jobs/runners/util/cli/job/slurm_torque.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:51,535 copying galaxy/jobs/runners/util/cli/job/lsf.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:51,538 copying galaxy/jobs/runners/util/cli/job/pbs.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:51,540 copying galaxy/jobs/runners/util/cli/job/__init__.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:51,542 copying galaxy/jobs/runners/util/cli/job/slurm.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:51,544 creating build/lib/galaxy/workflow/schedulers 2025-12-17T14:20:51,546 copying galaxy/workflow/schedulers/core.py -> build/lib/galaxy/workflow/schedulers 2025-12-17T14:20:51,547 copying galaxy/workflow/schedulers/__init__.py -> build/lib/galaxy/workflow/schedulers 2025-12-17T14:20:51,549 creating build/lib/galaxy/workflow/resources 2025-12-17T14:20:51,550 copying galaxy/workflow/resources/__init__.py -> build/lib/galaxy/workflow/resources 2025-12-17T14:20:51,553 creating build/lib/galaxy/workflow/refactor 2025-12-17T14:20:51,554 copying galaxy/workflow/refactor/schema.py -> build/lib/galaxy/workflow/refactor 2025-12-17T14:20:51,557 copying galaxy/workflow/refactor/execute.py -> build/lib/galaxy/workflow/refactor 2025-12-17T14:20:51,560 copying galaxy/workflow/refactor/__init__.py -> build/lib/galaxy/workflow/refactor 2025-12-17T14:20:51,562 creating build/lib/galaxy/workflow/reports 2025-12-17T14:20:51,563 copying galaxy/workflow/reports/__init__.py -> build/lib/galaxy/workflow/reports 2025-12-17T14:20:51,566 creating build/lib/galaxy/workflow/reports/generators 2025-12-17T14:20:51,567 copying galaxy/workflow/reports/generators/__init__.py -> build/lib/galaxy/workflow/reports/generators 2025-12-17T14:20:51,570 copying galaxy/workflow/reports/generators/markdown.py -> build/lib/galaxy/workflow/reports/generators 2025-12-17T14:20:51,573 running egg_info 2025-12-17T14:20:51,587 writing galaxy_app.egg-info/PKG-INFO 2025-12-17T14:20:51,645 writing dependency_links to galaxy_app.egg-info/dependency_links.txt 2025-12-17T14:20:51,646 writing entry points to galaxy_app.egg-info/entry_points.txt 2025-12-17T14:20:51,648 writing requirements to galaxy_app.egg-info/requires.txt 2025-12-17T14:20:51,649 writing top-level names to galaxy_app.egg-info/top_level.txt 2025-12-17T14:20:51,713 reading manifest file 'galaxy_app.egg-info/SOURCES.txt' 2025-12-17T14:20:51,746 reading manifest template 'MANIFEST.in' 2025-12-17T14:20:52,326 adding license file 'LICENSE' 2025-12-17T14:20:52,357 writing manifest file 'galaxy_app.egg-info/SOURCES.txt' 2025-12-17T14:20:52,362 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled' is absent from the `packages` configuration. 2025-12-17T14:20:52,363 !! 2025-12-17T14:20:52,364 ******************************************************************************** 2025-12-17T14:20:52,364 ############################ 2025-12-17T14:20:52,365 # Package would be ignored # 2025-12-17T14:20:52,365 ############################ 2025-12-17T14:20:52,366 Python recognizes 'galaxy.tools.bundled' as an importable package[^1], 2025-12-17T14:20:52,367 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,368 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,368 package, please make sure that 'galaxy.tools.bundled' is explicitly added 2025-12-17T14:20:52,369 to the `packages` configuration field. 2025-12-17T14:20:52,370 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,370 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,371 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,372 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,373 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,375 If you don't want 'galaxy.tools.bundled' to be distributed and are 2025-12-17T14:20:52,375 already explicitly excluding 'galaxy.tools.bundled' via 2025-12-17T14:20:52,376 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,376 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,377 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,378 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,379 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,380 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,380 even if it does not contain any `.py` files. 2025-12-17T14:20:52,381 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,381 directory, all directories are treated like packages. 2025-12-17T14:20:52,382 ******************************************************************************** 2025-12-17T14:20:52,383 !! 2025-12-17T14:20:52,383 check.warn(importable) 2025-12-17T14:20:52,384 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.data_export' is absent from the `packages` configuration. 2025-12-17T14:20:52,384 !! 2025-12-17T14:20:52,385 ******************************************************************************** 2025-12-17T14:20:52,385 ############################ 2025-12-17T14:20:52,386 # Package would be ignored # 2025-12-17T14:20:52,386 ############################ 2025-12-17T14:20:52,387 Python recognizes 'galaxy.tools.bundled.data_export' as an importable package[^1], 2025-12-17T14:20:52,387 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,388 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,389 package, please make sure that 'galaxy.tools.bundled.data_export' is explicitly added 2025-12-17T14:20:52,389 to the `packages` configuration field. 2025-12-17T14:20:52,390 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,391 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,391 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,392 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,394 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,395 If you don't want 'galaxy.tools.bundled.data_export' to be distributed and are 2025-12-17T14:20:52,395 already explicitly excluding 'galaxy.tools.bundled.data_export' via 2025-12-17T14:20:52,396 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,396 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,397 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,398 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,399 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,401 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,401 even if it does not contain any `.py` files. 2025-12-17T14:20:52,402 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,402 directory, all directories are treated like packages. 2025-12-17T14:20:52,403 ******************************************************************************** 2025-12-17T14:20:52,404 !! 2025-12-17T14:20:52,405 check.warn(importable) 2025-12-17T14:20:52,406 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.data_source' is absent from the `packages` configuration. 2025-12-17T14:20:52,406 !! 2025-12-17T14:20:52,407 ******************************************************************************** 2025-12-17T14:20:52,407 ############################ 2025-12-17T14:20:52,407 # Package would be ignored # 2025-12-17T14:20:52,408 ############################ 2025-12-17T14:20:52,408 Python recognizes 'galaxy.tools.bundled.data_source' as an importable package[^1], 2025-12-17T14:20:52,409 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,409 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,410 package, please make sure that 'galaxy.tools.bundled.data_source' is explicitly added 2025-12-17T14:20:52,410 to the `packages` configuration field. 2025-12-17T14:20:52,411 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,412 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,412 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,413 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,414 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,415 If you don't want 'galaxy.tools.bundled.data_source' to be distributed and are 2025-12-17T14:20:52,416 already explicitly excluding 'galaxy.tools.bundled.data_source' via 2025-12-17T14:20:52,416 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,417 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,417 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,418 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,419 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,421 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,422 even if it does not contain any `.py` files. 2025-12-17T14:20:52,422 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,423 directory, all directories are treated like packages. 2025-12-17T14:20:52,423 ******************************************************************************** 2025-12-17T14:20:52,424 !! 2025-12-17T14:20:52,425 check.warn(importable) 2025-12-17T14:20:52,425 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.expression_tools' is absent from the `packages` configuration. 2025-12-17T14:20:52,426 !! 2025-12-17T14:20:52,427 ******************************************************************************** 2025-12-17T14:20:52,428 ############################ 2025-12-17T14:20:52,428 # Package would be ignored # 2025-12-17T14:20:52,429 ############################ 2025-12-17T14:20:52,429 Python recognizes 'galaxy.tools.bundled.expression_tools' as an importable package[^1], 2025-12-17T14:20:52,430 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,431 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,431 package, please make sure that 'galaxy.tools.bundled.expression_tools' is explicitly added 2025-12-17T14:20:52,432 to the `packages` configuration field. 2025-12-17T14:20:52,433 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,433 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,434 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,435 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,436 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,437 If you don't want 'galaxy.tools.bundled.expression_tools' to be distributed and are 2025-12-17T14:20:52,437 already explicitly excluding 'galaxy.tools.bundled.expression_tools' via 2025-12-17T14:20:52,438 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,438 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,439 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,440 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,441 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,442 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,443 even if it does not contain any `.py` files. 2025-12-17T14:20:52,443 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,443 directory, all directories are treated like packages. 2025-12-17T14:20:52,444 ******************************************************************************** 2025-12-17T14:20:52,445 !! 2025-12-17T14:20:52,445 check.warn(importable) 2025-12-17T14:20:52,446 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.extract' is absent from the `packages` configuration. 2025-12-17T14:20:52,446 !! 2025-12-17T14:20:52,447 ******************************************************************************** 2025-12-17T14:20:52,448 ############################ 2025-12-17T14:20:52,448 # Package would be ignored # 2025-12-17T14:20:52,449 ############################ 2025-12-17T14:20:52,450 Python recognizes 'galaxy.tools.bundled.extract' as an importable package[^1], 2025-12-17T14:20:52,450 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,451 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,452 package, please make sure that 'galaxy.tools.bundled.extract' is explicitly added 2025-12-17T14:20:52,452 to the `packages` configuration field. 2025-12-17T14:20:52,453 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,454 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,454 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,455 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,456 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,457 If you don't want 'galaxy.tools.bundled.extract' to be distributed and are 2025-12-17T14:20:52,458 already explicitly excluding 'galaxy.tools.bundled.extract' via 2025-12-17T14:20:52,459 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,459 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,460 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,461 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,462 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,464 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,464 even if it does not contain any `.py` files. 2025-12-17T14:20:52,464 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,465 directory, all directories are treated like packages. 2025-12-17T14:20:52,465 ******************************************************************************** 2025-12-17T14:20:52,466 !! 2025-12-17T14:20:52,467 check.warn(importable) 2025-12-17T14:20:52,467 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.filters' is absent from the `packages` configuration. 2025-12-17T14:20:52,468 !! 2025-12-17T14:20:52,469 ******************************************************************************** 2025-12-17T14:20:52,469 ############################ 2025-12-17T14:20:52,470 # Package would be ignored # 2025-12-17T14:20:52,470 ############################ 2025-12-17T14:20:52,471 Python recognizes 'galaxy.tools.bundled.filters' as an importable package[^1], 2025-12-17T14:20:52,471 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,472 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,472 package, please make sure that 'galaxy.tools.bundled.filters' is explicitly added 2025-12-17T14:20:52,473 to the `packages` configuration field. 2025-12-17T14:20:52,474 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,474 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,475 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,476 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,477 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,478 If you don't want 'galaxy.tools.bundled.filters' to be distributed and are 2025-12-17T14:20:52,478 already explicitly excluding 'galaxy.tools.bundled.filters' via 2025-12-17T14:20:52,479 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,479 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,480 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,481 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,482 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,483 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,484 even if it does not contain any `.py` files. 2025-12-17T14:20:52,484 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,485 directory, all directories are treated like packages. 2025-12-17T14:20:52,486 ******************************************************************************** 2025-12-17T14:20:52,487 !! 2025-12-17T14:20:52,487 check.warn(importable) 2025-12-17T14:20:52,488 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.filters.gff' is absent from the `packages` configuration. 2025-12-17T14:20:52,488 !! 2025-12-17T14:20:52,490 ******************************************************************************** 2025-12-17T14:20:52,490 ############################ 2025-12-17T14:20:52,491 # Package would be ignored # 2025-12-17T14:20:52,491 ############################ 2025-12-17T14:20:52,492 Python recognizes 'galaxy.tools.bundled.filters.gff' as an importable package[^1], 2025-12-17T14:20:52,493 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,493 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,494 package, please make sure that 'galaxy.tools.bundled.filters.gff' is explicitly added 2025-12-17T14:20:52,495 to the `packages` configuration field. 2025-12-17T14:20:52,496 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,496 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,496 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,497 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,498 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,499 If you don't want 'galaxy.tools.bundled.filters.gff' to be distributed and are 2025-12-17T14:20:52,500 already explicitly excluding 'galaxy.tools.bundled.filters.gff' via 2025-12-17T14:20:52,500 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,501 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,502 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,503 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,504 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,506 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,506 even if it does not contain any `.py` files. 2025-12-17T14:20:52,507 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,507 directory, all directories are treated like packages. 2025-12-17T14:20:52,508 ******************************************************************************** 2025-12-17T14:20:52,509 !! 2025-12-17T14:20:52,509 check.warn(importable) 2025-12-17T14:20:52,510 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.interactive' is absent from the `packages` configuration. 2025-12-17T14:20:52,511 !! 2025-12-17T14:20:52,512 ******************************************************************************** 2025-12-17T14:20:52,512 ############################ 2025-12-17T14:20:52,513 # Package would be ignored # 2025-12-17T14:20:52,513 ############################ 2025-12-17T14:20:52,514 Python recognizes 'galaxy.tools.bundled.interactive' as an importable package[^1], 2025-12-17T14:20:52,515 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,516 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,517 package, please make sure that 'galaxy.tools.bundled.interactive' is explicitly added 2025-12-17T14:20:52,517 to the `packages` configuration field. 2025-12-17T14:20:52,518 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,519 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,519 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,521 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,522 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,523 If you don't want 'galaxy.tools.bundled.interactive' to be distributed and are 2025-12-17T14:20:52,524 already explicitly excluding 'galaxy.tools.bundled.interactive' via 2025-12-17T14:20:52,525 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,526 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,527 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,528 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,529 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,531 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,532 even if it does not contain any `.py` files. 2025-12-17T14:20:52,532 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,533 directory, all directories are treated like packages. 2025-12-17T14:20:52,534 ******************************************************************************** 2025-12-17T14:20:52,535 !! 2025-12-17T14:20:52,535 check.warn(importable) 2025-12-17T14:20:52,536 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.maf' is absent from the `packages` configuration. 2025-12-17T14:20:52,536 !! 2025-12-17T14:20:52,538 ******************************************************************************** 2025-12-17T14:20:52,538 ############################ 2025-12-17T14:20:52,539 # Package would be ignored # 2025-12-17T14:20:52,540 ############################ 2025-12-17T14:20:52,541 Python recognizes 'galaxy.tools.bundled.maf' as an importable package[^1], 2025-12-17T14:20:52,541 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,543 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,544 package, please make sure that 'galaxy.tools.bundled.maf' is explicitly added 2025-12-17T14:20:52,545 to the `packages` configuration field. 2025-12-17T14:20:52,546 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,546 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,547 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,548 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,549 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,550 If you don't want 'galaxy.tools.bundled.maf' to be distributed and are 2025-12-17T14:20:52,550 already explicitly excluding 'galaxy.tools.bundled.maf' via 2025-12-17T14:20:52,551 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,551 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,552 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,553 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,554 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,555 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,556 even if it does not contain any `.py` files. 2025-12-17T14:20:52,556 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,557 directory, all directories are treated like packages. 2025-12-17T14:20:52,557 ******************************************************************************** 2025-12-17T14:20:52,559 !! 2025-12-17T14:20:52,559 check.warn(importable) 2025-12-17T14:20:52,560 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.meme' is absent from the `packages` configuration. 2025-12-17T14:20:52,561 !! 2025-12-17T14:20:52,562 ******************************************************************************** 2025-12-17T14:20:52,562 ############################ 2025-12-17T14:20:52,562 # Package would be ignored # 2025-12-17T14:20:52,563 ############################ 2025-12-17T14:20:52,563 Python recognizes 'galaxy.tools.bundled.meme' as an importable package[^1], 2025-12-17T14:20:52,564 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,564 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,565 package, please make sure that 'galaxy.tools.bundled.meme' is explicitly added 2025-12-17T14:20:52,565 to the `packages` configuration field. 2025-12-17T14:20:52,566 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,566 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,567 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,568 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,569 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,569 If you don't want 'galaxy.tools.bundled.meme' to be distributed and are 2025-12-17T14:20:52,570 already explicitly excluding 'galaxy.tools.bundled.meme' via 2025-12-17T14:20:52,570 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,571 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,571 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,572 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,573 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,575 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,575 even if it does not contain any `.py` files. 2025-12-17T14:20:52,576 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,576 directory, all directories are treated like packages. 2025-12-17T14:20:52,577 ******************************************************************************** 2025-12-17T14:20:52,578 !! 2025-12-17T14:20:52,578 check.warn(importable) 2025-12-17T14:20:52,579 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.metag_tools' is absent from the `packages` configuration. 2025-12-17T14:20:52,579 !! 2025-12-17T14:20:52,580 ******************************************************************************** 2025-12-17T14:20:52,581 ############################ 2025-12-17T14:20:52,581 # Package would be ignored # 2025-12-17T14:20:52,582 ############################ 2025-12-17T14:20:52,582 Python recognizes 'galaxy.tools.bundled.metag_tools' as an importable package[^1], 2025-12-17T14:20:52,583 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,584 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,584 package, please make sure that 'galaxy.tools.bundled.metag_tools' is explicitly added 2025-12-17T14:20:52,585 to the `packages` configuration field. 2025-12-17T14:20:52,586 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,586 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,587 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,588 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,589 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,590 If you don't want 'galaxy.tools.bundled.metag_tools' to be distributed and are 2025-12-17T14:20:52,590 already explicitly excluding 'galaxy.tools.bundled.metag_tools' via 2025-12-17T14:20:52,591 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,591 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,592 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,592 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,593 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,595 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,595 even if it does not contain any `.py` files. 2025-12-17T14:20:52,595 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,596 directory, all directories are treated like packages. 2025-12-17T14:20:52,596 ******************************************************************************** 2025-12-17T14:20:52,597 !! 2025-12-17T14:20:52,598 check.warn(importable) 2025-12-17T14:20:52,598 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.next_gen_conversion' is absent from the `packages` configuration. 2025-12-17T14:20:52,599 !! 2025-12-17T14:20:52,599 ******************************************************************************** 2025-12-17T14:20:52,600 ############################ 2025-12-17T14:20:52,600 # Package would be ignored # 2025-12-17T14:20:52,601 ############################ 2025-12-17T14:20:52,601 Python recognizes 'galaxy.tools.bundled.next_gen_conversion' as an importable package[^1], 2025-12-17T14:20:52,602 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,603 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,603 package, please make sure that 'galaxy.tools.bundled.next_gen_conversion' is explicitly added 2025-12-17T14:20:52,604 to the `packages` configuration field. 2025-12-17T14:20:52,605 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,605 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,606 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,607 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,608 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,609 If you don't want 'galaxy.tools.bundled.next_gen_conversion' to be distributed and are 2025-12-17T14:20:52,609 already explicitly excluding 'galaxy.tools.bundled.next_gen_conversion' via 2025-12-17T14:20:52,610 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,610 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,610 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,612 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,612 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,614 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,615 even if it does not contain any `.py` files. 2025-12-17T14:20:52,615 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,616 directory, all directories are treated like packages. 2025-12-17T14:20:52,616 ******************************************************************************** 2025-12-17T14:20:52,617 !! 2025-12-17T14:20:52,617 check.warn(importable) 2025-12-17T14:20:52,618 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.ngs_simulation' is absent from the `packages` configuration. 2025-12-17T14:20:52,618 !! 2025-12-17T14:20:52,619 ******************************************************************************** 2025-12-17T14:20:52,619 ############################ 2025-12-17T14:20:52,620 # Package would be ignored # 2025-12-17T14:20:52,620 ############################ 2025-12-17T14:20:52,621 Python recognizes 'galaxy.tools.bundled.ngs_simulation' as an importable package[^1], 2025-12-17T14:20:52,621 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,622 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,623 package, please make sure that 'galaxy.tools.bundled.ngs_simulation' is explicitly added 2025-12-17T14:20:52,623 to the `packages` configuration field. 2025-12-17T14:20:52,624 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,625 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,625 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,626 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,627 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,628 If you don't want 'galaxy.tools.bundled.ngs_simulation' to be distributed and are 2025-12-17T14:20:52,628 already explicitly excluding 'galaxy.tools.bundled.ngs_simulation' via 2025-12-17T14:20:52,629 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,630 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,630 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,631 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,632 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,633 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,634 even if it does not contain any `.py` files. 2025-12-17T14:20:52,634 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,635 directory, all directories are treated like packages. 2025-12-17T14:20:52,635 ******************************************************************************** 2025-12-17T14:20:52,637 !! 2025-12-17T14:20:52,637 check.warn(importable) 2025-12-17T14:20:52,638 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.phenotype_association' is absent from the `packages` configuration. 2025-12-17T14:20:52,638 !! 2025-12-17T14:20:52,639 ******************************************************************************** 2025-12-17T14:20:52,640 ############################ 2025-12-17T14:20:52,640 # Package would be ignored # 2025-12-17T14:20:52,641 ############################ 2025-12-17T14:20:52,641 Python recognizes 'galaxy.tools.bundled.phenotype_association' as an importable package[^1], 2025-12-17T14:20:52,642 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,643 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,643 package, please make sure that 'galaxy.tools.bundled.phenotype_association' is explicitly added 2025-12-17T14:20:52,643 to the `packages` configuration field. 2025-12-17T14:20:52,644 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,645 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,645 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,646 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,647 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,647 If you don't want 'galaxy.tools.bundled.phenotype_association' to be distributed and are 2025-12-17T14:20:52,648 already explicitly excluding 'galaxy.tools.bundled.phenotype_association' via 2025-12-17T14:20:52,648 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,649 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,649 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,650 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,651 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,653 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,653 even if it does not contain any `.py` files. 2025-12-17T14:20:52,654 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,654 directory, all directories are treated like packages. 2025-12-17T14:20:52,655 ******************************************************************************** 2025-12-17T14:20:52,656 !! 2025-12-17T14:20:52,656 check.warn(importable) 2025-12-17T14:20:52,657 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.plotting' is absent from the `packages` configuration. 2025-12-17T14:20:52,657 !! 2025-12-17T14:20:52,658 ******************************************************************************** 2025-12-17T14:20:52,659 ############################ 2025-12-17T14:20:52,660 # Package would be ignored # 2025-12-17T14:20:52,660 ############################ 2025-12-17T14:20:52,661 Python recognizes 'galaxy.tools.bundled.plotting' as an importable package[^1], 2025-12-17T14:20:52,661 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,662 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,663 package, please make sure that 'galaxy.tools.bundled.plotting' is explicitly added 2025-12-17T14:20:52,664 to the `packages` configuration field. 2025-12-17T14:20:52,665 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,665 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,666 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,667 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,668 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,669 If you don't want 'galaxy.tools.bundled.plotting' to be distributed and are 2025-12-17T14:20:52,670 already explicitly excluding 'galaxy.tools.bundled.plotting' via 2025-12-17T14:20:52,670 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,671 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,671 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,672 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,673 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,674 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,675 even if it does not contain any `.py` files. 2025-12-17T14:20:52,675 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,676 directory, all directories are treated like packages. 2025-12-17T14:20:52,676 ******************************************************************************** 2025-12-17T14:20:52,677 !! 2025-12-17T14:20:52,678 check.warn(importable) 2025-12-17T14:20:52,678 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.solid_tools' is absent from the `packages` configuration. 2025-12-17T14:20:52,679 !! 2025-12-17T14:20:52,680 ******************************************************************************** 2025-12-17T14:20:52,680 ############################ 2025-12-17T14:20:52,680 # Package would be ignored # 2025-12-17T14:20:52,681 ############################ 2025-12-17T14:20:52,681 Python recognizes 'galaxy.tools.bundled.solid_tools' as an importable package[^1], 2025-12-17T14:20:52,682 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,683 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,683 package, please make sure that 'galaxy.tools.bundled.solid_tools' is explicitly added 2025-12-17T14:20:52,684 to the `packages` configuration field. 2025-12-17T14:20:52,685 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,685 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,686 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,687 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,688 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,689 If you don't want 'galaxy.tools.bundled.solid_tools' to be distributed and are 2025-12-17T14:20:52,690 already explicitly excluding 'galaxy.tools.bundled.solid_tools' via 2025-12-17T14:20:52,690 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,691 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,691 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,692 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,693 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,695 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,696 even if it does not contain any `.py` files. 2025-12-17T14:20:52,696 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,697 directory, all directories are treated like packages. 2025-12-17T14:20:52,697 ******************************************************************************** 2025-12-17T14:20:52,699 !! 2025-12-17T14:20:52,699 check.warn(importable) 2025-12-17T14:20:52,700 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.sr_assembly' is absent from the `packages` configuration. 2025-12-17T14:20:52,700 !! 2025-12-17T14:20:52,701 ******************************************************************************** 2025-12-17T14:20:52,702 ############################ 2025-12-17T14:20:52,702 # Package would be ignored # 2025-12-17T14:20:52,703 ############################ 2025-12-17T14:20:52,703 Python recognizes 'galaxy.tools.bundled.sr_assembly' as an importable package[^1], 2025-12-17T14:20:52,704 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,704 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,705 package, please make sure that 'galaxy.tools.bundled.sr_assembly' is explicitly added 2025-12-17T14:20:52,705 to the `packages` configuration field. 2025-12-17T14:20:52,706 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,707 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,707 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,708 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,709 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,710 If you don't want 'galaxy.tools.bundled.sr_assembly' to be distributed and are 2025-12-17T14:20:52,710 already explicitly excluding 'galaxy.tools.bundled.sr_assembly' via 2025-12-17T14:20:52,711 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,711 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,712 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,713 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,714 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,715 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,716 even if it does not contain any `.py` files. 2025-12-17T14:20:52,716 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,717 directory, all directories are treated like packages. 2025-12-17T14:20:52,717 ******************************************************************************** 2025-12-17T14:20:52,718 !! 2025-12-17T14:20:52,719 check.warn(importable) 2025-12-17T14:20:52,719 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.sr_mapping' is absent from the `packages` configuration. 2025-12-17T14:20:52,720 !! 2025-12-17T14:20:52,721 ******************************************************************************** 2025-12-17T14:20:52,722 ############################ 2025-12-17T14:20:52,722 # Package would be ignored # 2025-12-17T14:20:52,723 ############################ 2025-12-17T14:20:52,723 Python recognizes 'galaxy.tools.bundled.sr_mapping' as an importable package[^1], 2025-12-17T14:20:52,724 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,725 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,725 package, please make sure that 'galaxy.tools.bundled.sr_mapping' is explicitly added 2025-12-17T14:20:52,726 to the `packages` configuration field. 2025-12-17T14:20:52,727 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,727 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,728 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,729 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,730 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,731 If you don't want 'galaxy.tools.bundled.sr_mapping' to be distributed and are 2025-12-17T14:20:52,731 already explicitly excluding 'galaxy.tools.bundled.sr_mapping' via 2025-12-17T14:20:52,731 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,732 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,732 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,733 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,734 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,735 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,736 even if it does not contain any `.py` files. 2025-12-17T14:20:52,736 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,737 directory, all directories are treated like packages. 2025-12-17T14:20:52,737 ******************************************************************************** 2025-12-17T14:20:52,738 !! 2025-12-17T14:20:52,739 check.warn(importable) 2025-12-17T14:20:52,739 /tmp/pip-build-env-8mfxmp3f/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.stats' is absent from the `packages` configuration. 2025-12-17T14:20:52,740 !! 2025-12-17T14:20:52,741 ******************************************************************************** 2025-12-17T14:20:52,741 ############################ 2025-12-17T14:20:52,742 # Package would be ignored # 2025-12-17T14:20:52,742 ############################ 2025-12-17T14:20:52,743 Python recognizes 'galaxy.tools.bundled.stats' as an importable package[^1], 2025-12-17T14:20:52,743 but it is absent from setuptools' `packages` configuration. 2025-12-17T14:20:52,744 This leads to an ambiguous overall configuration. If you want to distribute this 2025-12-17T14:20:52,745 package, please make sure that 'galaxy.tools.bundled.stats' is explicitly added 2025-12-17T14:20:52,745 to the `packages` configuration field. 2025-12-17T14:20:52,746 Alternatively, you can also rely on setuptools' discovery methods 2025-12-17T14:20:52,746 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-12-17T14:20:52,747 instead of `find_packages(...)`/`find:`). 2025-12-17T14:20:52,748 You can read more about "package discovery" on setuptools documentation page: 2025-12-17T14:20:52,749 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-12-17T14:20:52,750 If you don't want 'galaxy.tools.bundled.stats' to be distributed and are 2025-12-17T14:20:52,751 already explicitly excluding 'galaxy.tools.bundled.stats' via 2025-12-17T14:20:52,751 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-12-17T14:20:52,752 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-12-17T14:20:52,752 combination with a more fine grained `package-data` configuration. 2025-12-17T14:20:52,753 You can read more about "package data files" on setuptools documentation page: 2025-12-17T14:20:52,754 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-12-17T14:20:52,756 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-12-17T14:20:52,757 even if it does not contain any `.py` files. 2025-12-17T14:20:52,757 On the other hand, currently there is no concept of package data 2025-12-17T14:20:52,757 directory, all directories are treated like packages. 2025-12-17T14:20:52,758 ******************************************************************************** 2025-12-17T14:20:52,759 !! 2025-12-17T14:20:52,759 check.warn(importable) 2025-12-17T14:20:52,760 copying tool_shed_client/py.typed -> build/lib/tool_shed_client 2025-12-17T14:20:52,760 copying galaxy_ext/py.typed -> build/lib/galaxy_ext 2025-12-17T14:20:52,760 copying galaxy/py.typed -> build/lib/galaxy 2025-12-17T14:20:52,761 copying galaxy/dependencies/conditional-requirements.txt -> build/lib/galaxy/dependencies 2025-12-17T14:20:52,761 copying galaxy/dependencies/dev-requirements.txt -> build/lib/galaxy/dependencies 2025-12-17T14:20:52,762 copying galaxy/dependencies/lint-requirements.txt -> build/lib/galaxy/dependencies 2025-12-17T14:20:52,762 copying galaxy/dependencies/pinned-lint-requirements.txt -> build/lib/galaxy/dependencies 2025-12-17T14:20:52,763 copying galaxy/dependencies/pinned-requirements.txt -> build/lib/galaxy/dependencies 2025-12-17T14:20:52,763 copying galaxy/dependencies/pinned-test-requirements.txt -> build/lib/galaxy/dependencies 2025-12-17T14:20:52,764 copying galaxy/dependencies/pinned-typecheck-requirements.txt -> build/lib/galaxy/dependencies 2025-12-17T14:20:52,764 copying galaxy/dependencies/update.sh -> build/lib/galaxy/dependencies 2025-12-17T14:20:52,765 copying galaxy/dependencies/update_lint_requirements.sh -> build/lib/galaxy/dependencies 2025-12-17T14:20:52,765 copying galaxy/tools/apply_rules.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,766 copying galaxy/tools/build_list.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,766 copying galaxy/tools/build_list_1.2.0.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,767 copying galaxy/tools/cross_product_flat.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,767 copying galaxy/tools/cross_product_nested.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,768 copying galaxy/tools/data_fetch.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,768 copying galaxy/tools/duplicate_file_to_collection.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,769 copying galaxy/tools/extract_dataset.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,770 copying galaxy/tools/filter_empty_collection.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,770 copying galaxy/tools/filter_empty_collection_1.1.0.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,771 copying galaxy/tools/filter_failed_collection.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,771 copying galaxy/tools/filter_from_file.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,772 copying galaxy/tools/filter_from_file_1.1.0.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,772 copying galaxy/tools/filter_null.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,773 copying galaxy/tools/filter_null_1.1.0.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,773 copying galaxy/tools/flatten_collection.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,774 copying galaxy/tools/harmonize_two_collections_list.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,774 copying galaxy/tools/keep_success_collection.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,775 copying galaxy/tools/keep_success_collection_1.1.0.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,775 copying galaxy/tools/merge_collection.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,776 copying galaxy/tools/model_operation_macros.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,776 copying galaxy/tools/nest_collection.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,777 copying galaxy/tools/relabel_from_file.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,778 copying galaxy/tools/sample_sheet_to_tabular.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,778 copying galaxy/tools/sort_collection_list.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,779 copying galaxy/tools/split_paired_and_unpaired.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,779 copying galaxy/tools/tag_collection_from_file.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,779 copying galaxy/tools/unzip_collection.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,780 copying galaxy/tools/zip_collection.xml -> build/lib/galaxy/tools 2025-12-17T14:20:52,780 creating build/lib/galaxy/tools/bundled 2025-12-17T14:20:52,780 copying galaxy/tools/bundled/__init__.py -> build/lib/galaxy/tools/bundled 2025-12-17T14:20:52,781 creating build/lib/galaxy/tools/bundled/data_export 2025-12-17T14:20:52,781 copying galaxy/tools/bundled/data_export/export_remote.py -> build/lib/galaxy/tools/bundled/data_export 2025-12-17T14:20:52,782 copying galaxy/tools/bundled/data_export/export_remote.xml -> build/lib/galaxy/tools/bundled/data_export 2025-12-17T14:20:52,782 creating build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,783 copying galaxy/tools/bundled/data_source/__init__.py -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,783 copying galaxy/tools/bundled/data_source/access_libraries.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,784 copying galaxy/tools/bundled/data_source/biomart.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,784 copying galaxy/tools/bundled/data_source/biomart_test.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,785 copying galaxy/tools/bundled/data_source/cbi_rice_mart.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,785 copying galaxy/tools/bundled/data_source/data_source.py -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,786 copying galaxy/tools/bundled/data_source/diced.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,786 copying galaxy/tools/bundled/data_source/ebi_sra.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,787 copying galaxy/tools/bundled/data_source/eupathdb.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,787 copying galaxy/tools/bundled/data_source/fly_modencode.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,788 copying galaxy/tools/bundled/data_source/flymine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,788 copying galaxy/tools/bundled/data_source/flymine_test.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,789 copying galaxy/tools/bundled/data_source/genbank.py -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,789 copying galaxy/tools/bundled/data_source/genbank.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,789 copying galaxy/tools/bundled/data_source/gramene_mart.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,790 copying galaxy/tools/bundled/data_source/hapmapmart.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,790 copying galaxy/tools/bundled/data_source/hbvar.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,791 copying galaxy/tools/bundled/data_source/import.py -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,791 copying galaxy/tools/bundled/data_source/import.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,792 copying galaxy/tools/bundled/data_source/intermine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,792 copying galaxy/tools/bundled/data_source/metabolicmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,793 copying galaxy/tools/bundled/data_source/microbial_import.py -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,793 copying galaxy/tools/bundled/data_source/microbial_import.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,794 copying galaxy/tools/bundled/data_source/microbial_import_code.py -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,795 copying galaxy/tools/bundled/data_source/modmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,795 copying galaxy/tools/bundled/data_source/mousemine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,796 copying galaxy/tools/bundled/data_source/ncbi_datasets.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,796 copying galaxy/tools/bundled/data_source/ratmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,796 copying galaxy/tools/bundled/data_source/sra.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,797 copying galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,797 copying galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,798 copying galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,798 copying galaxy/tools/bundled/data_source/upload.py -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,798 copying galaxy/tools/bundled/data_source/upload.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,799 copying galaxy/tools/bundled/data_source/worm_modencode.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,799 copying galaxy/tools/bundled/data_source/wormbase.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,800 copying galaxy/tools/bundled/data_source/wormbase_test.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,800 copying galaxy/tools/bundled/data_source/yeastmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,801 copying galaxy/tools/bundled/data_source/zebrafishmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-12-17T14:20:52,801 creating build/lib/galaxy/tools/bundled/expression_tools 2025-12-17T14:20:52,802 copying galaxy/tools/bundled/expression_tools/expression_macros.xml -> build/lib/galaxy/tools/bundled/expression_tools 2025-12-17T14:20:52,802 copying galaxy/tools/bundled/expression_tools/parse_values_from_file.xml -> build/lib/galaxy/tools/bundled/expression_tools 2025-12-17T14:20:52,803 copying galaxy/tools/bundled/expression_tools/pick_value.xml -> build/lib/galaxy/tools/bundled/expression_tools 2025-12-17T14:20:52,803 creating build/lib/galaxy/tools/bundled/extract 2025-12-17T14:20:52,804 copying galaxy/tools/bundled/extract/__init__.py -> build/lib/galaxy/tools/bundled/extract 2025-12-17T14:20:52,804 copying galaxy/tools/bundled/extract/extract_genomic_dna.py -> build/lib/galaxy/tools/bundled/extract 2025-12-17T14:20:52,805 copying galaxy/tools/bundled/extract/extract_genomic_dna.xml -> build/lib/galaxy/tools/bundled/extract 2025-12-17T14:20:52,805 copying galaxy/tools/bundled/extract/liftOver_wrapper.py -> build/lib/galaxy/tools/bundled/extract 2025-12-17T14:20:52,806 copying galaxy/tools/bundled/extract/liftOver_wrapper.xml -> build/lib/galaxy/tools/bundled/extract 2025-12-17T14:20:52,806 creating build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,806 copying galaxy/tools/bundled/filters/CreateInterval.pl -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,807 copying galaxy/tools/bundled/filters/CreateInterval.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,807 copying galaxy/tools/bundled/filters/__init__.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,808 copying galaxy/tools/bundled/filters/axt_to_concat_fasta.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,808 copying galaxy/tools/bundled/filters/axt_to_concat_fasta.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,809 copying galaxy/tools/bundled/filters/axt_to_fasta.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,809 copying galaxy/tools/bundled/filters/axt_to_fasta.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,810 copying galaxy/tools/bundled/filters/axt_to_lav.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,811 copying galaxy/tools/bundled/filters/axt_to_lav.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,811 copying galaxy/tools/bundled/filters/axt_to_lav_code.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,812 copying galaxy/tools/bundled/filters/bed2gff.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,812 copying galaxy/tools/bundled/filters/bed_to_bigbed.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,812 copying galaxy/tools/bundled/filters/bed_to_gff_converter.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,813 copying galaxy/tools/bundled/filters/catWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,813 copying galaxy/tools/bundled/filters/changeCase.pl -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,814 copying galaxy/tools/bundled/filters/changeCase.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,814 copying galaxy/tools/bundled/filters/commWrapper.pl -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,815 copying galaxy/tools/bundled/filters/commWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,815 copying galaxy/tools/bundled/filters/compare.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,815 copying galaxy/tools/bundled/filters/condense_characters.pl -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,816 copying galaxy/tools/bundled/filters/condense_characters.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,816 copying galaxy/tools/bundled/filters/convert_characters.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,817 copying galaxy/tools/bundled/filters/convert_characters.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,817 copying galaxy/tools/bundled/filters/cutWrapper.pl -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,818 copying galaxy/tools/bundled/filters/cutWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,818 copying galaxy/tools/bundled/filters/fileGrep.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,819 copying galaxy/tools/bundled/filters/fixedValueColumn.pl -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,819 copying galaxy/tools/bundled/filters/fixedValueColumn.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,820 copying galaxy/tools/bundled/filters/gff2bed.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,820 copying galaxy/tools/bundled/filters/gff_to_bed_converter.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,821 copying galaxy/tools/bundled/filters/grep.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,821 copying galaxy/tools/bundled/filters/grep_1.0.1.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,822 copying galaxy/tools/bundled/filters/gtf2bedgraph.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,822 copying galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,823 copying galaxy/tools/bundled/filters/headWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,823 copying galaxy/tools/bundled/filters/join.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,824 copying galaxy/tools/bundled/filters/joiner.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,824 copying galaxy/tools/bundled/filters/joiner2.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,825 copying galaxy/tools/bundled/filters/lav_to_bed.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,825 copying galaxy/tools/bundled/filters/lav_to_bed.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,826 copying galaxy/tools/bundled/filters/lav_to_bed_code.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,826 copying galaxy/tools/bundled/filters/mergeCols.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,827 copying galaxy/tools/bundled/filters/mergeCols.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,827 copying galaxy/tools/bundled/filters/pasteWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,827 copying galaxy/tools/bundled/filters/random_lines_two_pass.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,828 copying galaxy/tools/bundled/filters/randomlines.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,828 copying galaxy/tools/bundled/filters/randomlines.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,831 copying galaxy/tools/bundled/filters/remove_beginning.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,833 copying galaxy/tools/bundled/filters/secure_hash_message_digest.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,835 copying galaxy/tools/bundled/filters/secure_hash_message_digest.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,837 copying galaxy/tools/bundled/filters/sff_extract.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,840 copying galaxy/tools/bundled/filters/sff_extractor.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,843 copying galaxy/tools/bundled/filters/sorter.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,845 copying galaxy/tools/bundled/filters/tailWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,847 copying galaxy/tools/bundled/filters/trimmer.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,849 copying galaxy/tools/bundled/filters/trimmer.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,852 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,855 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,857 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,859 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,861 copying galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,864 copying galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,866 copying galaxy/tools/bundled/filters/uniq.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,869 copying galaxy/tools/bundled/filters/uniq.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,871 copying galaxy/tools/bundled/filters/wc_gnu.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,873 copying galaxy/tools/bundled/filters/wig_to_bigwig.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,875 copying galaxy/tools/bundled/filters/wiggle_to_simple.py -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,877 copying galaxy/tools/bundled/filters/wiggle_to_simple.xml -> build/lib/galaxy/tools/bundled/filters 2025-12-17T14:20:52,879 creating build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,880 copying galaxy/tools/bundled/filters/gff/__init__.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,882 copying galaxy/tools/bundled/filters/gff/extract_GFF_Features.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,884 copying galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml -> build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,887 copying galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,890 copying galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml -> build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,892 copying galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,895 copying galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml -> build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,897 copying galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,899 copying galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml -> build/lib/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:52,901 creating build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,902 copying galaxy/tools/bundled/interactive/Rprofile.R -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,904 copying galaxy/tools/bundled/interactive/default_notebook.ipynb -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,906 copying galaxy/tools/bundled/interactive/interactivetool_askomics.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,909 copying galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,911 copying galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,913 copying galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,915 copying galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,918 copying galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,920 copying galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,922 copying galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,925 copying galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,927 copying galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,929 copying galaxy/tools/bundled/interactive/interactivetool_higlass.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,932 copying galaxy/tools/bundled/interactive/interactivetool_ilastik.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,936 copying galaxy/tools/bundled/interactive/interactivetool_isee.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,939 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,942 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,946 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,950 copying galaxy/tools/bundled/interactive/interactivetool_metashark.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,953 copying galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,956 copying galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,960 copying galaxy/tools/bundled/interactive/interactivetool_neo4j.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,963 copying galaxy/tools/bundled/interactive/interactivetool_openrefine.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,966 copying galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,970 copying galaxy/tools/bundled/interactive/interactivetool_panoply.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,973 copying galaxy/tools/bundled/interactive/interactivetool_paraview.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,975 copying galaxy/tools/bundled/interactive/interactivetool_pavian.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,978 copying galaxy/tools/bundled/interactive/interactivetool_phinch.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,981 copying galaxy/tools/bundled/interactive/interactivetool_pyiron.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,985 copying galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,987 copying galaxy/tools/bundled/interactive/interactivetool_radiant.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,989 copying galaxy/tools/bundled/interactive/interactivetool_rstudio.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,992 copying galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,994 copying galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,996 copying galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:52,999 copying galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:53,001 copying galaxy/tools/bundled/interactive/interactivetool_wallace.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:53,003 copying galaxy/tools/bundled/interactive/interactivetool_wilson.xml -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:53,005 copying galaxy/tools/bundled/interactive/simtext_app.R -> build/lib/galaxy/tools/bundled/interactive 2025-12-17T14:20:53,008 creating build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,009 copying galaxy/tools/bundled/maf/__init__.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,011 copying galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,014 copying galaxy/tools/bundled/maf/interval2maf.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,016 copying galaxy/tools/bundled/maf/interval2maf.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,019 copying galaxy/tools/bundled/maf/interval2maf_pairwise.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,022 copying galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,024 copying galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,027 copying galaxy/tools/bundled/maf/macros.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,029 copying galaxy/tools/bundled/maf/maf_by_block_number.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,032 copying galaxy/tools/bundled/maf/maf_by_block_number.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,034 copying galaxy/tools/bundled/maf/maf_filter.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,036 copying galaxy/tools/bundled/maf/maf_filter.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,039 copying galaxy/tools/bundled/maf/maf_limit_size.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,041 copying galaxy/tools/bundled/maf/maf_limit_size.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,043 copying galaxy/tools/bundled/maf/maf_limit_to_species.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,046 copying galaxy/tools/bundled/maf/maf_limit_to_species.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,048 copying galaxy/tools/bundled/maf/maf_reverse_complement.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,050 copying galaxy/tools/bundled/maf/maf_reverse_complement.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,052 copying galaxy/tools/bundled/maf/maf_split_by_species.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,054 copying galaxy/tools/bundled/maf/maf_split_by_species.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,057 copying galaxy/tools/bundled/maf/maf_stats.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,059 copying galaxy/tools/bundled/maf/maf_stats.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,062 copying galaxy/tools/bundled/maf/maf_thread_for_species.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,064 copying galaxy/tools/bundled/maf/maf_thread_for_species.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,066 copying galaxy/tools/bundled/maf/maf_to_bed.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,069 copying galaxy/tools/bundled/maf/maf_to_bed.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,071 copying galaxy/tools/bundled/maf/maf_to_bed_code.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,073 copying galaxy/tools/bundled/maf/maf_to_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,076 copying galaxy/tools/bundled/maf/maf_to_fasta_concat.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,078 copying galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,080 copying galaxy/tools/bundled/maf/maf_to_interval.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,083 copying galaxy/tools/bundled/maf/maf_to_interval.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,085 copying galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,088 copying galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml -> build/lib/galaxy/tools/bundled/maf 2025-12-17T14:20:53,090 creating build/lib/galaxy/tools/bundled/meme 2025-12-17T14:20:53,091 copying galaxy/tools/bundled/meme/meme.xml -> build/lib/galaxy/tools/bundled/meme 2025-12-17T14:20:53,094 creating build/lib/galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,095 copying galaxy/tools/bundled/metag_tools/__init__.py -> build/lib/galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,097 copying galaxy/tools/bundled/metag_tools/blat_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,099 copying galaxy/tools/bundled/metag_tools/blat_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,102 copying galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,104 copying galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,107 copying galaxy/tools/bundled/metag_tools/shrimp_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,110 copying galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,113 creating build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,113 copying galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,116 copying galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,118 copying galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,120 copying galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,123 copying galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,125 copying galaxy/tools/bundled/next_gen_conversion/solid2fastq.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,128 copying galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,130 copying galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,132 copying galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,135 creating build/lib/galaxy/tools/bundled/ngs_simulation 2025-12-17T14:20:53,136 copying galaxy/tools/bundled/ngs_simulation/__init__.py -> build/lib/galaxy/tools/bundled/ngs_simulation 2025-12-17T14:20:53,138 copying galaxy/tools/bundled/ngs_simulation/ngs_simulation.py -> build/lib/galaxy/tools/bundled/ngs_simulation 2025-12-17T14:20:53,140 copying galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml -> build/lib/galaxy/tools/bundled/ngs_simulation 2025-12-17T14:20:53,143 creating build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,144 copying galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,146 copying galaxy/tools/bundled/phenotype_association/__init__.py -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,148 copying galaxy/tools/bundled/phenotype_association/beam.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,150 copying galaxy/tools/bundled/phenotype_association/gpass.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,153 copying galaxy/tools/bundled/phenotype_association/gpass.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,155 copying galaxy/tools/bundled/phenotype_association/ldtools.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,157 copying galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,159 copying galaxy/tools/bundled/phenotype_association/linkToDavid.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,162 copying galaxy/tools/bundled/phenotype_association/linkToDavid.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,164 copying galaxy/tools/bundled/phenotype_association/linkToGProfile.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,166 copying galaxy/tools/bundled/phenotype_association/linkToGProfile.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,169 copying galaxy/tools/bundled/phenotype_association/lped_to_geno.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,171 copying galaxy/tools/bundled/phenotype_association/lps.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,174 copying galaxy/tools/bundled/phenotype_association/lps_tool_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,176 copying galaxy/tools/bundled/phenotype_association/master2gd_snp.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,179 copying galaxy/tools/bundled/phenotype_association/master2gd_snp.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,181 copying galaxy/tools/bundled/phenotype_association/master2pg.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,184 copying galaxy/tools/bundled/phenotype_association/master2pg.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,186 copying galaxy/tools/bundled/phenotype_association/mergeSnps.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,189 copying galaxy/tools/bundled/phenotype_association/pagetag.py -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,191 copying galaxy/tools/bundled/phenotype_association/pass.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,194 copying galaxy/tools/bundled/phenotype_association/pass_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,196 copying galaxy/tools/bundled/phenotype_association/senatag.py -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,198 copying galaxy/tools/bundled/phenotype_association/sift.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,200 copying galaxy/tools/bundled/phenotype_association/sift_variants_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,203 creating build/lib/galaxy/tools/bundled/plotting 2025-12-17T14:20:53,204 copying galaxy/tools/bundled/plotting/bar_chart.py -> build/lib/galaxy/tools/bundled/plotting 2025-12-17T14:20:53,206 copying galaxy/tools/bundled/plotting/bar_chart.xml -> build/lib/galaxy/tools/bundled/plotting 2025-12-17T14:20:53,208 copying galaxy/tools/bundled/plotting/boxplot.xml -> build/lib/galaxy/tools/bundled/plotting 2025-12-17T14:20:53,211 creating build/lib/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:53,212 copying galaxy/tools/bundled/solid_tools/__init__.py -> build/lib/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:53,214 copying galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py -> build/lib/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:53,217 copying galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml -> build/lib/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:53,219 copying galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py -> build/lib/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:53,221 copying galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh -> build/lib/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:53,224 copying galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml -> build/lib/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:53,226 copying galaxy/tools/bundled/solid_tools/solid_qual_stats.py -> build/lib/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:53,229 copying galaxy/tools/bundled/solid_tools/solid_qual_stats.xml -> build/lib/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:53,231 creating build/lib/galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:53,232 copying galaxy/tools/bundled/sr_assembly/__init__.py -> build/lib/galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:53,234 copying galaxy/tools/bundled/sr_assembly/velvetg.xml -> build/lib/galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:53,237 copying galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py -> build/lib/galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:53,239 copying galaxy/tools/bundled/sr_assembly/velveth.xml -> build/lib/galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:53,241 copying galaxy/tools/bundled/sr_assembly/velveth_wrapper.py -> build/lib/galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:53,244 creating build/lib/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,245 copying galaxy/tools/bundled/sr_mapping/PerM.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,248 copying galaxy/tools/bundled/sr_mapping/__init__.py -> build/lib/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,250 copying galaxy/tools/bundled/sr_mapping/bfast_wrapper.py -> build/lib/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,253 copying galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,255 copying galaxy/tools/bundled/sr_mapping/fastq_statistics.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,258 copying galaxy/tools/bundled/sr_mapping/mosaik.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,260 copying galaxy/tools/bundled/sr_mapping/srma_wrapper.py -> build/lib/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,263 copying galaxy/tools/bundled/sr_mapping/srma_wrapper.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,266 creating build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,267 copying galaxy/tools/bundled/stats/__init__.py -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,269 copying galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,271 copying galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,273 copying galaxy/tools/bundled/stats/filtering.py -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,276 copying galaxy/tools/bundled/stats/filtering.xml -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,279 copying galaxy/tools/bundled/stats/filtering_1_1_0.xml -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,281 copying galaxy/tools/bundled/stats/grouping.py -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,284 copying galaxy/tools/bundled/stats/grouping.xml -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,286 copying galaxy/tools/bundled/stats/gsummary.py -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,289 copying galaxy/tools/bundled/stats/gsummary.xml -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,291 copying galaxy/tools/bundled/stats/r_wrapper.sh -> build/lib/galaxy/tools/bundled/stats 2025-12-17T14:20:53,293 copying galaxy/carbon_emissions/carbon_intensity.csv -> build/lib/galaxy/carbon_emissions 2025-12-17T14:20:53,296 copying galaxy/managers/licenses.json -> build/lib/galaxy/managers 2025-12-17T14:20:53,302 copying galaxy/managers/markdown_export_base.css -> build/lib/galaxy/managers 2025-12-17T14:20:53,304 copying galaxy/tools/expressions/cwlNodeEngine.js -> build/lib/galaxy/tools/expressions 2025-12-17T14:20:53,306 copying galaxy/tools/imp_exp/exp_history_to_archive.xml -> build/lib/galaxy/tools/imp_exp 2025-12-17T14:20:53,308 copying galaxy/tools/imp_exp/exp_history_to_uri.xml -> build/lib/galaxy/tools/imp_exp 2025-12-17T14:20:53,310 copying galaxy/tools/imp_exp/imp_history_from_archive.xml -> build/lib/galaxy/tools/imp_exp 2025-12-17T14:20:53,313 copying galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh -> build/lib/galaxy/jobs/runners/util/job_script 2025-12-17T14:20:53,315 copying galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh -> build/lib/galaxy/jobs/runners/util/job_script 2025-12-17T14:20:53,317 copying galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh -> build/lib/galaxy/jobs/runners/util/job_script 2025-12-17T14:20:53,319 copying galaxy/workflow/resources/example.py.sample -> build/lib/galaxy/workflow/resources 2025-12-17T14:20:53,385 installing to build/bdist.linux-armv7l/wheel 2025-12-17T14:20:53,386 running install 2025-12-17T14:20:53,425 running install_lib 2025-12-17T14:20:53,437 creating build/bdist.linux-armv7l/wheel 2025-12-17T14:20:53,439 creating build/bdist.linux-armv7l/wheel/tool_shed_client 2025-12-17T14:20:53,440 copying build/lib/tool_shed_client/py.typed -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2025-12-17T14:20:53,441 copying build/lib/tool_shed_client/__init__.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2025-12-17T14:20:53,443 copying build/lib/tool_shed_client/trs_util.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2025-12-17T14:20:53,445 creating build/bdist.linux-armv7l/wheel/tool_shed_client/schema 2025-12-17T14:20:53,446 copying build/lib/tool_shed_client/schema/__init__.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2025-12-17T14:20:53,449 copying build/lib/tool_shed_client/schema/trs.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2025-12-17T14:20:53,451 copying build/lib/tool_shed_client/schema/trs_service_info.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2025-12-17T14:20:53,454 creating build/bdist.linux-armv7l/wheel/galaxy_ext 2025-12-17T14:20:53,455 copying build/lib/galaxy_ext/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy_ext 2025-12-17T14:20:53,457 creating build/bdist.linux-armv7l/wheel/galaxy_ext/expressions 2025-12-17T14:20:53,458 copying build/lib/galaxy_ext/expressions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/expressions 2025-12-17T14:20:53,460 copying build/lib/galaxy_ext/expressions/handle_job.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/expressions 2025-12-17T14:20:53,461 copying build/lib/galaxy_ext/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext 2025-12-17T14:20:53,464 creating build/bdist.linux-armv7l/wheel/galaxy_ext/metadata 2025-12-17T14:20:53,464 copying build/lib/galaxy_ext/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/metadata 2025-12-17T14:20:53,466 copying build/lib/galaxy_ext/metadata/set_metadata.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/metadata 2025-12-17T14:20:53,469 creating build/bdist.linux-armv7l/wheel/galaxy_ext/container_monitor 2025-12-17T14:20:53,470 copying build/lib/galaxy_ext/container_monitor/monitor.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/container_monitor 2025-12-17T14:20:53,472 copying build/lib/galaxy_ext/container_monitor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/container_monitor 2025-12-17T14:20:53,474 creating build/bdist.linux-armv7l/wheel/galaxy 2025-12-17T14:20:53,476 creating build/bdist.linux-armv7l/wheel/galaxy/dependencies 2025-12-17T14:20:53,478 copying build/lib/galaxy/dependencies/script.py -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,480 copying build/lib/galaxy/dependencies/update_lint_requirements.sh -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,482 copying build/lib/galaxy/dependencies/pinned-test-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,485 copying build/lib/galaxy/dependencies/dev-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,487 copying build/lib/galaxy/dependencies/pinned-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,489 copying build/lib/galaxy/dependencies/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,492 copying build/lib/galaxy/dependencies/pinned-typecheck-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,493 copying build/lib/galaxy/dependencies/pinned-lint-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,495 copying build/lib/galaxy/dependencies/lint-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,497 copying build/lib/galaxy/dependencies/update.sh -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,499 copying build/lib/galaxy/dependencies/conditional-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-12-17T14:20:53,501 copying build/lib/galaxy/main.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:53,503 copying build/lib/galaxy/queue_worker.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:53,506 creating build/bdist.linux-armv7l/wheel/galaxy/authnz 2025-12-17T14:20:53,507 copying build/lib/galaxy/authnz/util.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-12-17T14:20:53,509 copying build/lib/galaxy/authnz/managers.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-12-17T14:20:53,512 copying build/lib/galaxy/authnz/psa_authnz.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-12-17T14:20:53,515 copying build/lib/galaxy/authnz/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-12-17T14:20:53,517 copying build/lib/galaxy/authnz/tapis.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-12-17T14:20:53,519 copying build/lib/galaxy/authnz/custos_authnz.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-12-17T14:20:53,522 copying build/lib/galaxy/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:53,524 creating build/bdist.linux-armv7l/wheel/galaxy/work 2025-12-17T14:20:53,525 copying build/lib/galaxy/work/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/work 2025-12-17T14:20:53,527 copying build/lib/galaxy/work/context.py -> build/bdist.linux-armv7l/wheel/./galaxy/work 2025-12-17T14:20:53,529 creating build/bdist.linux-armv7l/wheel/galaxy/webhooks 2025-12-17T14:20:53,530 copying build/lib/galaxy/webhooks/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/webhooks 2025-12-17T14:20:53,532 copying build/lib/galaxy/queues.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:53,536 creating build/bdist.linux-armv7l/wheel/galaxy/tools 2025-12-17T14:20:53,536 copying build/lib/galaxy/tools/model_operation_macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:53,539 copying build/lib/galaxy/tools/apply_rules.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:53,541 copying build/lib/galaxy/tools/filter_null_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:53,543 creating build/bdist.linux-armv7l/wheel/galaxy/tools/filters 2025-12-17T14:20:53,544 copying build/lib/galaxy/tools/filters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/filters 2025-12-17T14:20:53,546 copying build/lib/galaxy/tools/data_fetch.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:53,548 copying build/lib/galaxy/tools/repositories.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:53,550 copying build/lib/galaxy/tools/keep_success_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:53,552 copying build/lib/galaxy/tools/data_fetch.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:53,554 copying build/lib/galaxy/tools/filter_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:53,557 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled 2025-12-17T14:20:53,559 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,560 copying build/lib/galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,562 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,564 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,566 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid2fastq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,569 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,571 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,573 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,575 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,577 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-12-17T14:20:53,580 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,581 copying build/lib/galaxy/tools/bundled/phenotype_association/beam.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,584 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToGProfile.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,585 copying build/lib/galaxy/tools/bundled/phenotype_association/sift_variants_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,587 copying build/lib/galaxy/tools/bundled/phenotype_association/gpass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,589 copying build/lib/galaxy/tools/bundled/phenotype_association/gpass.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,591 copying build/lib/galaxy/tools/bundled/phenotype_association/pass_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,593 copying build/lib/galaxy/tools/bundled/phenotype_association/pagetag.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,595 copying build/lib/galaxy/tools/bundled/phenotype_association/sift.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,597 copying build/lib/galaxy/tools/bundled/phenotype_association/master2gd_snp.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,599 copying build/lib/galaxy/tools/bundled/phenotype_association/mergeSnps.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,601 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToGProfile.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,603 copying build/lib/galaxy/tools/bundled/phenotype_association/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,605 copying build/lib/galaxy/tools/bundled/phenotype_association/master2pg.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,607 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToDavid.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,609 copying build/lib/galaxy/tools/bundled/phenotype_association/master2gd_snp.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,611 copying build/lib/galaxy/tools/bundled/phenotype_association/lps_tool_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,613 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToDavid.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,615 copying build/lib/galaxy/tools/bundled/phenotype_association/ldtools.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,617 copying build/lib/galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,619 copying build/lib/galaxy/tools/bundled/phenotype_association/senatag.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,621 copying build/lib/galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,623 copying build/lib/galaxy/tools/bundled/phenotype_association/master2pg.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,625 copying build/lib/galaxy/tools/bundled/phenotype_association/pass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,627 copying build/lib/galaxy/tools/bundled/phenotype_association/lps.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,629 copying build/lib/galaxy/tools/bundled/phenotype_association/lped_to_geno.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-12-17T14:20:53,633 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/filters 2025-12-17T14:20:53,634 copying build/lib/galaxy/tools/bundled/filters/wiggle_to_simple.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,635 copying build/lib/galaxy/tools/bundled/filters/fileGrep.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,637 copying build/lib/galaxy/tools/bundled/filters/grep.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,639 copying build/lib/galaxy/tools/bundled/filters/grep_1.0.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,642 copying build/lib/galaxy/tools/bundled/filters/join.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,644 copying build/lib/galaxy/tools/bundled/filters/bed2gff.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,647 copying build/lib/galaxy/tools/bundled/filters/cutWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,649 copying build/lib/galaxy/tools/bundled/filters/commWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,651 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,653 copying build/lib/galaxy/tools/bundled/filters/axt_to_concat_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,654 copying build/lib/galaxy/tools/bundled/filters/sorter.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,657 copying build/lib/galaxy/tools/bundled/filters/mergeCols.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,659 copying build/lib/galaxy/tools/bundled/filters/fixedValueColumn.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,661 copying build/lib/galaxy/tools/bundled/filters/convert_characters.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,662 copying build/lib/galaxy/tools/bundled/filters/condense_characters.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,664 copying build/lib/galaxy/tools/bundled/filters/random_lines_two_pass.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,667 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,669 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,671 copying build/lib/galaxy/tools/bundled/filters/bed_to_gff_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,673 copying build/lib/galaxy/tools/bundled/filters/axt_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,675 copying build/lib/galaxy/tools/bundled/filters/changeCase.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,677 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,679 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,681 copying build/lib/galaxy/tools/bundled/filters/condense_characters.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,683 copying build/lib/galaxy/tools/bundled/filters/joiner2.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,684 copying build/lib/galaxy/tools/bundled/filters/sff_extract.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,687 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,689 copying build/lib/galaxy/tools/bundled/filters/fixedValueColumn.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,691 copying build/lib/galaxy/tools/bundled/filters/uniq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,693 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,695 copying build/lib/galaxy/tools/bundled/filters/changeCase.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,697 copying build/lib/galaxy/tools/bundled/filters/axt_to_concat_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,699 copying build/lib/galaxy/tools/bundled/filters/gtf2bedgraph.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,701 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,703 copying build/lib/galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,704 copying build/lib/galaxy/tools/bundled/filters/wiggle_to_simple.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,706 copying build/lib/galaxy/tools/bundled/filters/randomlines.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,708 copying build/lib/galaxy/tools/bundled/filters/pasteWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,710 copying build/lib/galaxy/tools/bundled/filters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,712 copying build/lib/galaxy/tools/bundled/filters/joiner.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,714 copying build/lib/galaxy/tools/bundled/filters/compare.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,716 copying build/lib/galaxy/tools/bundled/filters/wc_gnu.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,718 copying build/lib/galaxy/tools/bundled/filters/remove_beginning.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,720 copying build/lib/galaxy/tools/bundled/filters/sff_extractor.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,722 copying build/lib/galaxy/tools/bundled/filters/secure_hash_message_digest.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,724 copying build/lib/galaxy/tools/bundled/filters/bed_to_bigbed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,726 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,727 copying build/lib/galaxy/tools/bundled/filters/CreateInterval.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,729 copying build/lib/galaxy/tools/bundled/filters/gff2bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,731 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,733 copying build/lib/galaxy/tools/bundled/filters/commWrapper.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,736 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,737 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,739 copying build/lib/galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,741 copying build/lib/galaxy/tools/bundled/filters/gff/extract_GFF_Features.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,743 copying build/lib/galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,745 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,747 copying build/lib/galaxy/tools/bundled/filters/gff/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,748 copying build/lib/galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,751 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,753 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-12-17T14:20:53,755 copying build/lib/galaxy/tools/bundled/filters/convert_characters.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,757 copying build/lib/galaxy/tools/bundled/filters/trimmer.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,759 copying build/lib/galaxy/tools/bundled/filters/headWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,761 copying build/lib/galaxy/tools/bundled/filters/randomlines.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,763 copying build/lib/galaxy/tools/bundled/filters/mergeCols.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,764 copying build/lib/galaxy/tools/bundled/filters/gff_to_bed_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,767 copying build/lib/galaxy/tools/bundled/filters/trimmer.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,769 copying build/lib/galaxy/tools/bundled/filters/tailWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,770 copying build/lib/galaxy/tools/bundled/filters/secure_hash_message_digest.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,772 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,775 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,776 copying build/lib/galaxy/tools/bundled/filters/cutWrapper.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,778 copying build/lib/galaxy/tools/bundled/filters/wig_to_bigwig.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,780 copying build/lib/galaxy/tools/bundled/filters/catWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,782 copying build/lib/galaxy/tools/bundled/filters/axt_to_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,784 copying build/lib/galaxy/tools/bundled/filters/CreateInterval.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,786 copying build/lib/galaxy/tools/bundled/filters/uniq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-12-17T14:20:53,789 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/data_source 2025-12-17T14:20:53,790 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,793 copying build/lib/galaxy/tools/bundled/data_source/data_source.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,795 copying build/lib/galaxy/tools/bundled/data_source/wormbase.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,797 copying build/lib/galaxy/tools/bundled/data_source/access_libraries.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,800 copying build/lib/galaxy/tools/bundled/data_source/biomart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,803 copying build/lib/galaxy/tools/bundled/data_source/microbial_import_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,806 copying build/lib/galaxy/tools/bundled/data_source/modmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,809 copying build/lib/galaxy/tools/bundled/data_source/cbi_rice_mart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,811 copying build/lib/galaxy/tools/bundled/data_source/sra.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,814 copying build/lib/galaxy/tools/bundled/data_source/flymine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,816 copying build/lib/galaxy/tools/bundled/data_source/hbvar.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,819 copying build/lib/galaxy/tools/bundled/data_source/hapmapmart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,821 copying build/lib/galaxy/tools/bundled/data_source/microbial_import.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,824 copying build/lib/galaxy/tools/bundled/data_source/fly_modencode.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,826 copying build/lib/galaxy/tools/bundled/data_source/ratmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,829 copying build/lib/galaxy/tools/bundled/data_source/import.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,831 copying build/lib/galaxy/tools/bundled/data_source/intermine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,833 copying build/lib/galaxy/tools/bundled/data_source/genbank.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,836 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,838 copying build/lib/galaxy/tools/bundled/data_source/import.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,841 copying build/lib/galaxy/tools/bundled/data_source/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,843 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,845 copying build/lib/galaxy/tools/bundled/data_source/upload.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,847 copying build/lib/galaxy/tools/bundled/data_source/biomart_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,849 copying build/lib/galaxy/tools/bundled/data_source/genbank.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,850 copying build/lib/galaxy/tools/bundled/data_source/gramene_mart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,852 copying build/lib/galaxy/tools/bundled/data_source/ebi_sra.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,854 copying build/lib/galaxy/tools/bundled/data_source/metabolicmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,856 copying build/lib/galaxy/tools/bundled/data_source/mousemine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,857 copying build/lib/galaxy/tools/bundled/data_source/microbial_import.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,859 copying build/lib/galaxy/tools/bundled/data_source/diced.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,861 copying build/lib/galaxy/tools/bundled/data_source/eupathdb.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,863 copying build/lib/galaxy/tools/bundled/data_source/ncbi_datasets.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,865 copying build/lib/galaxy/tools/bundled/data_source/wormbase_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,866 copying build/lib/galaxy/tools/bundled/data_source/flymine_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,868 copying build/lib/galaxy/tools/bundled/data_source/zebrafishmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,870 copying build/lib/galaxy/tools/bundled/data_source/worm_modencode.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,872 copying build/lib/galaxy/tools/bundled/data_source/upload.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,874 copying build/lib/galaxy/tools/bundled/data_source/yeastmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-12-17T14:20:53,877 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,878 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,880 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,882 copying build/lib/galaxy/tools/bundled/metag_tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,884 copying build/lib/galaxy/tools/bundled/metag_tools/blat_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,886 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,888 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,891 copying build/lib/galaxy/tools/bundled/metag_tools/blat_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-12-17T14:20:53,893 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/extract 2025-12-17T14:20:53,894 copying build/lib/galaxy/tools/bundled/extract/extract_genomic_dna.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-12-17T14:20:53,897 copying build/lib/galaxy/tools/bundled/extract/liftOver_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-12-17T14:20:53,899 copying build/lib/galaxy/tools/bundled/extract/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-12-17T14:20:53,900 copying build/lib/galaxy/tools/bundled/extract/extract_genomic_dna.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-12-17T14:20:53,902 copying build/lib/galaxy/tools/bundled/extract/liftOver_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-12-17T14:20:53,905 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,906 copying build/lib/galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,908 copying build/lib/galaxy/tools/bundled/sr_mapping/PerM.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,911 copying build/lib/galaxy/tools/bundled/sr_mapping/bfast_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,913 copying build/lib/galaxy/tools/bundled/sr_mapping/fastq_statistics.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,916 copying build/lib/galaxy/tools/bundled/sr_mapping/mosaik.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,918 copying build/lib/galaxy/tools/bundled/sr_mapping/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,919 copying build/lib/galaxy/tools/bundled/sr_mapping/srma_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,921 copying build/lib/galaxy/tools/bundled/sr_mapping/srma_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-12-17T14:20:53,924 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/stats 2025-12-17T14:20:53,925 copying build/lib/galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,928 copying build/lib/galaxy/tools/bundled/stats/r_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,929 copying build/lib/galaxy/tools/bundled/stats/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,931 copying build/lib/galaxy/tools/bundled/stats/grouping.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,933 copying build/lib/galaxy/tools/bundled/stats/grouping.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,935 copying build/lib/galaxy/tools/bundled/stats/gsummary.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,937 copying build/lib/galaxy/tools/bundled/stats/filtering_1_1_0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,939 copying build/lib/galaxy/tools/bundled/stats/filtering.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,942 copying build/lib/galaxy/tools/bundled/stats/filtering.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,944 copying build/lib/galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,946 copying build/lib/galaxy/tools/bundled/stats/gsummary.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-12-17T14:20:53,949 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/maf 2025-12-17T14:20:53,950 copying build/lib/galaxy/tools/bundled/maf/maf_to_interval.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,952 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,954 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,956 copying build/lib/galaxy/tools/bundled/maf/maf_filter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,958 copying build/lib/galaxy/tools/bundled/maf/maf_thread_for_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,960 copying build/lib/galaxy/tools/bundled/maf/maf_stats.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,962 copying build/lib/galaxy/tools/bundled/maf/interval2maf.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,964 copying build/lib/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,966 copying build/lib/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,969 copying build/lib/galaxy/tools/bundled/maf/maf_limit_to_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,970 copying build/lib/galaxy/tools/bundled/maf/maf_split_by_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,972 copying build/lib/galaxy/tools/bundled/maf/maf_stats.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,974 copying build/lib/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,976 copying build/lib/galaxy/tools/bundled/maf/macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,978 copying build/lib/galaxy/tools/bundled/maf/maf_limit_size.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,980 copying build/lib/galaxy/tools/bundled/maf/maf_filter.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,983 copying build/lib/galaxy/tools/bundled/maf/maf_by_block_number.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,984 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,987 copying build/lib/galaxy/tools/bundled/maf/maf_reverse_complement.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,989 copying build/lib/galaxy/tools/bundled/maf/maf_thread_for_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,991 copying build/lib/galaxy/tools/bundled/maf/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,992 copying build/lib/galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,994 copying build/lib/galaxy/tools/bundled/maf/interval2maf.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,997 copying build/lib/galaxy/tools/bundled/maf/maf_limit_size.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:53,999 copying build/lib/galaxy/tools/bundled/maf/maf_reverse_complement.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,000 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,003 copying build/lib/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,005 copying build/lib/galaxy/tools/bundled/maf/interval2maf_pairwise.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,007 copying build/lib/galaxy/tools/bundled/maf/maf_by_block_number.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,009 copying build/lib/galaxy/tools/bundled/maf/maf_to_interval.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,011 copying build/lib/galaxy/tools/bundled/maf/maf_split_by_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,013 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta_concat.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,015 copying build/lib/galaxy/tools/bundled/maf/maf_limit_to_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,017 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-12-17T14:20:54,019 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/plotting 2025-12-17T14:20:54,020 copying build/lib/galaxy/tools/bundled/plotting/bar_chart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2025-12-17T14:20:54,022 copying build/lib/galaxy/tools/bundled/plotting/boxplot.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2025-12-17T14:20:54,024 copying build/lib/galaxy/tools/bundled/plotting/bar_chart.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2025-12-17T14:20:54,027 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/meme 2025-12-17T14:20:54,028 copying build/lib/galaxy/tools/bundled/meme/meme.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/meme 2025-12-17T14:20:54,031 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:54,032 copying build/lib/galaxy/tools/bundled/sr_assembly/velveth.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:54,034 copying build/lib/galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:54,036 copying build/lib/galaxy/tools/bundled/sr_assembly/velvetg.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:54,039 copying build/lib/galaxy/tools/bundled/sr_assembly/velveth_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:54,041 copying build/lib/galaxy/tools/bundled/sr_assembly/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-12-17T14:20:54,043 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/data_export 2025-12-17T14:20:54,044 copying build/lib/galaxy/tools/bundled/data_export/export_remote.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_export 2025-12-17T14:20:54,046 copying build/lib/galaxy/tools/bundled/data_export/export_remote.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_export 2025-12-17T14:20:54,048 copying build/lib/galaxy/tools/bundled/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled 2025-12-17T14:20:54,050 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/ngs_simulation 2025-12-17T14:20:54,051 copying build/lib/galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2025-12-17T14:20:54,054 copying build/lib/galaxy/tools/bundled/ngs_simulation/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2025-12-17T14:20:54,055 copying build/lib/galaxy/tools/bundled/ngs_simulation/ngs_simulation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2025-12-17T14:20:54,058 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/solid_tools 2025-12-17T14:20:54,059 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-12-17T14:20:54,062 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_stats.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-12-17T14:20:54,064 copying build/lib/galaxy/tools/bundled/solid_tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-12-17T14:20:54,065 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_stats.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-12-17T14:20:54,067 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-12-17T14:20:54,069 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-12-17T14:20:54,070 copying build/lib/galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-12-17T14:20:54,072 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-12-17T14:20:54,075 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/expression_tools 2025-12-17T14:20:54,076 copying build/lib/galaxy/tools/bundled/expression_tools/pick_value.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2025-12-17T14:20:54,079 copying build/lib/galaxy/tools/bundled/expression_tools/parse_values_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2025-12-17T14:20:54,081 copying build/lib/galaxy/tools/bundled/expression_tools/expression_macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2025-12-17T14:20:54,084 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/interactive 2025-12-17T14:20:54,085 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_phinch.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,087 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,088 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_panoply.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,090 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,093 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_openrefine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,094 copying build/lib/galaxy/tools/bundled/interactive/default_notebook.ipynb -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,096 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,098 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_metashark.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,100 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,102 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_rstudio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,104 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,106 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,108 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_wallace.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,110 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_isee.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,112 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pavian.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,114 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ilastik.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,116 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pyiron.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,118 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,120 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_radiant.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,122 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,124 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_askomics.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,126 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_higlass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,128 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,130 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_wilson.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,132 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,134 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,136 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,138 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,141 copying build/lib/galaxy/tools/bundled/interactive/simtext_app.R -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,145 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_neo4j.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,147 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,150 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,154 copying build/lib/galaxy/tools/bundled/interactive/Rprofile.R -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,156 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,159 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,163 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,166 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,168 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_paraview.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,171 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-12-17T14:20:54,175 copying build/lib/galaxy/tools/execution_helpers.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,178 copying build/lib/galaxy/tools/stock.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,180 copying build/lib/galaxy/tools/biotools.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,183 copying build/lib/galaxy/tools/cross_product_nested.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,187 creating build/bdist.linux-armv7l/wheel/galaxy/tools/parameters 2025-12-17T14:20:54,189 copying build/lib/galaxy/tools/parameters/workflow_utils.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,192 copying build/lib/galaxy/tools/parameters/dynamic_options.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,196 copying build/lib/galaxy/tools/parameters/validation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,201 copying build/lib/galaxy/tools/parameters/cancelable_request.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,204 copying build/lib/galaxy/tools/parameters/options.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,207 copying build/lib/galaxy/tools/parameters/meta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,211 copying build/lib/galaxy/tools/parameters/dataset_matcher.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,215 copying build/lib/galaxy/tools/parameters/wrapped.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,219 copying build/lib/galaxy/tools/parameters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,224 copying build/lib/galaxy/tools/parameters/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,230 copying build/lib/galaxy/tools/parameters/populate_model.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,233 copying build/lib/galaxy/tools/parameters/grouping.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,238 copying build/lib/galaxy/tools/parameters/sanitize.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,241 copying build/lib/galaxy/tools/parameters/input_translation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,244 copying build/lib/galaxy/tools/parameters/wrapped_json.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-12-17T14:20:54,248 copying build/lib/galaxy/tools/extract_dataset.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,253 creating build/bdist.linux-armv7l/wheel/galaxy/tools/data_manager 2025-12-17T14:20:54,255 copying build/lib/galaxy/tools/data_manager/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data_manager 2025-12-17T14:20:54,257 copying build/lib/galaxy/tools/data_manager/manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data_manager 2025-12-17T14:20:54,260 copying build/lib/galaxy/tools/cache.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,263 copying build/lib/galaxy/tools/_types.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,266 copying build/lib/galaxy/tools/recommendations.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,268 copying build/lib/galaxy/tools/sample_sheet_to_tabular.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,270 copying build/lib/galaxy/tools/filter_failed_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,273 creating build/bdist.linux-armv7l/wheel/galaxy/tools/actions 2025-12-17T14:20:54,274 copying build/lib/galaxy/tools/actions/data_source.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-12-17T14:20:54,276 copying build/lib/galaxy/tools/actions/metadata.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-12-17T14:20:54,279 copying build/lib/galaxy/tools/actions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-12-17T14:20:54,282 copying build/lib/galaxy/tools/actions/model_operations.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-12-17T14:20:54,285 copying build/lib/galaxy/tools/actions/upload.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-12-17T14:20:54,287 copying build/lib/galaxy/tools/actions/history_imp_exp.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-12-17T14:20:54,290 copying build/lib/galaxy/tools/actions/upload_common.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-12-17T14:20:54,293 copying build/lib/galaxy/tools/actions/data_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-12-17T14:20:54,294 copying build/lib/galaxy/tools/harmonize_two_collections_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,297 copying build/lib/galaxy/tools/execute.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,299 copying build/lib/galaxy/tools/nest_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,302 copying build/lib/galaxy/tools/remote_tool_eval.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,305 copying build/lib/galaxy/tools/cross_product_flat.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,308 creating build/bdist.linux-armv7l/wheel/galaxy/tools/fetch 2025-12-17T14:20:54,309 copying build/lib/galaxy/tools/fetch/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/fetch 2025-12-17T14:20:54,311 copying build/lib/galaxy/tools/fetch/workbooks.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/fetch 2025-12-17T14:20:54,314 copying build/lib/galaxy/tools/special_tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,316 copying build/lib/galaxy/tools/merge_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,319 creating build/bdist.linux-armv7l/wheel/galaxy/tools/expressions 2025-12-17T14:20:54,320 copying build/lib/galaxy/tools/expressions/util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-12-17T14:20:54,323 copying build/lib/galaxy/tools/expressions/script.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-12-17T14:20:54,325 copying build/lib/galaxy/tools/expressions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-12-17T14:20:54,327 copying build/lib/galaxy/tools/expressions/evaluation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-12-17T14:20:54,329 copying build/lib/galaxy/tools/expressions/cwlNodeEngine.js -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-12-17T14:20:54,332 copying build/lib/galaxy/tools/wrappers.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,335 copying build/lib/galaxy/tools/zip_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,337 copying build/lib/galaxy/tools/build_list_1.2.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,340 copying build/lib/galaxy/tools/errors.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,342 copying build/lib/galaxy/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,348 copying build/lib/galaxy/tools/evaluation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,351 copying build/lib/galaxy/tools/sort_collection_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,354 copying build/lib/galaxy/tools/flatten_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,356 creating build/bdist.linux-armv7l/wheel/galaxy/tools/data 2025-12-17T14:20:54,358 copying build/lib/galaxy/tools/data/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data 2025-12-17T14:20:54,360 copying build/lib/galaxy/tools/split_paired_and_unpaired.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,363 copying build/lib/galaxy/tools/filter_empty_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,366 creating build/bdist.linux-armv7l/wheel/galaxy/tools/error_reports 2025-12-17T14:20:54,367 copying build/lib/galaxy/tools/error_reports/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports 2025-12-17T14:20:54,370 creating build/bdist.linux-armv7l/wheel/galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,372 copying build/lib/galaxy/tools/error_reports/plugins/github.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,375 copying build/lib/galaxy/tools/error_reports/plugins/email.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,377 copying build/lib/galaxy/tools/error_reports/plugins/sentry.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,379 copying build/lib/galaxy/tools/error_reports/plugins/gitlab.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,382 copying build/lib/galaxy/tools/error_reports/plugins/base_git.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,384 copying build/lib/galaxy/tools/error_reports/plugins/json.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,386 copying build/lib/galaxy/tools/error_reports/plugins/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,388 copying build/lib/galaxy/tools/error_reports/plugins/influxdb.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,391 copying build/lib/galaxy/tools/error_reports/plugins/slack.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-12-17T14:20:54,393 copying build/lib/galaxy/tools/filter_empty_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,396 creating build/bdist.linux-armv7l/wheel/galaxy/tools/util 2025-12-17T14:20:54,398 creating build/bdist.linux-armv7l/wheel/galaxy/tools/util/galaxyops 2025-12-17T14:20:54,400 copying build/lib/galaxy/tools/util/galaxyops/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util/galaxyops 2025-12-17T14:20:54,402 copying build/lib/galaxy/tools/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util 2025-12-17T14:20:54,404 copying build/lib/galaxy/tools/util/maf_utilities.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util 2025-12-17T14:20:54,407 copying build/lib/galaxy/tools/relabel_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,411 creating build/bdist.linux-armv7l/wheel/galaxy/tools/search 2025-12-17T14:20:54,412 copying build/lib/galaxy/tools/search/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/search 2025-12-17T14:20:54,415 copying build/lib/galaxy/tools/filter_null.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,417 creating build/bdist.linux-armv7l/wheel/galaxy/tools/imp_exp 2025-12-17T14:20:54,420 copying build/lib/galaxy/tools/imp_exp/unpack_tar_gz_archive.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-12-17T14:20:54,422 copying build/lib/galaxy/tools/imp_exp/export_history.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-12-17T14:20:54,424 copying build/lib/galaxy/tools/imp_exp/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-12-17T14:20:54,426 copying build/lib/galaxy/tools/imp_exp/exp_history_to_uri.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-12-17T14:20:54,428 copying build/lib/galaxy/tools/imp_exp/exp_history_to_archive.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-12-17T14:20:54,430 copying build/lib/galaxy/tools/imp_exp/imp_history_from_archive.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-12-17T14:20:54,432 copying build/lib/galaxy/tools/unzip_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,434 copying build/lib/galaxy/tools/tag_collection_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,437 copying build/lib/galaxy/tools/exception_handling.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,439 copying build/lib/galaxy/tools/duplicate_file_to_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,442 copying build/lib/galaxy/tools/keep_success_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,445 copying build/lib/galaxy/tools/filter_from_file_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,448 copying build/lib/galaxy/tools/build_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-12-17T14:20:54,451 copying build/lib/galaxy/main_config.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:54,455 creating build/bdist.linux-armv7l/wheel/galaxy/forms 2025-12-17T14:20:54,456 copying build/lib/galaxy/forms/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/forms 2025-12-17T14:20:54,458 copying build/lib/galaxy/forms/forms.py -> build/bdist.linux-armv7l/wheel/./galaxy/forms 2025-12-17T14:20:54,461 creating build/bdist.linux-armv7l/wheel/galaxy/actions 2025-12-17T14:20:54,462 copying build/lib/galaxy/actions/library.py -> build/bdist.linux-armv7l/wheel/./galaxy/actions 2025-12-17T14:20:54,465 copying build/lib/galaxy/actions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/actions 2025-12-17T14:20:54,466 copying build/lib/galaxy/app.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:54,470 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed 2025-12-17T14:20:54,471 copying build/lib/galaxy/tool_shed/repository_type.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2025-12-17T14:20:54,473 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/tools 2025-12-17T14:20:54,474 copying build/lib/galaxy/tool_shed/tools/tool_validator.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2025-12-17T14:20:54,477 copying build/lib/galaxy/tool_shed/tools/data_table_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2025-12-17T14:20:54,479 copying build/lib/galaxy/tool_shed/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2025-12-17T14:20:54,480 copying build/lib/galaxy/tool_shed/cache.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2025-12-17T14:20:54,482 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/unittest_utils 2025-12-17T14:20:54,483 copying build/lib/galaxy/tool_shed/unittest_utils/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/unittest_utils 2025-12-17T14:20:54,486 copying build/lib/galaxy/tool_shed/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2025-12-17T14:20:54,488 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/metadata 2025-12-17T14:20:54,489 copying build/lib/galaxy/tool_shed/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/metadata 2025-12-17T14:20:54,491 copying build/lib/galaxy/tool_shed/metadata/metadata_generator.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/metadata 2025-12-17T14:20:54,494 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/util 2025-12-17T14:20:54,495 copying build/lib/galaxy/tool_shed/util/utility_container_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,498 copying build/lib/galaxy/tool_shed/util/tool_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,501 copying build/lib/galaxy/tool_shed/util/metadata_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,502 copying build/lib/galaxy/tool_shed/util/shed_util_common.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,505 copying build/lib/galaxy/tool_shed/util/container_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,506 copying build/lib/galaxy/tool_shed/util/hg_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,509 copying build/lib/galaxy/tool_shed/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,510 copying build/lib/galaxy/tool_shed/util/tool_dependency_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,512 copying build/lib/galaxy/tool_shed/util/repository_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,515 copying build/lib/galaxy/tool_shed/util/basic_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,517 copying build/lib/galaxy/tool_shed/util/dependency_display.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-12-17T14:20:54,519 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install 2025-12-17T14:20:54,521 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/repository_dependencies 2025-12-17T14:20:54,522 copying build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/repository_dependencies 2025-12-17T14:20:54,525 copying build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/repository_dependencies 2025-12-17T14:20:54,527 copying build/lib/galaxy/tool_shed/galaxy_install/client.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-12-17T14:20:54,529 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/tools 2025-12-17T14:20:54,530 copying build/lib/galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2025-12-17T14:20:54,533 copying build/lib/galaxy/tool_shed/galaxy_install/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2025-12-17T14:20:54,534 copying build/lib/galaxy/tool_shed/galaxy_install/tools/data_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2025-12-17T14:20:54,536 copying build/lib/galaxy/tool_shed/galaxy_install/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-12-17T14:20:54,538 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/metadata 2025-12-17T14:20:54,539 copying build/lib/galaxy/tool_shed/galaxy_install/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/metadata 2025-12-17T14:20:54,541 copying build/lib/galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/metadata 2025-12-17T14:20:54,543 copying build/lib/galaxy/tool_shed/galaxy_install/install_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-12-17T14:20:54,546 copying build/lib/galaxy/tool_shed/galaxy_install/installed_repository_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-12-17T14:20:54,549 copying build/lib/galaxy/tool_shed/galaxy_install/update_repository_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-12-17T14:20:54,552 creating build/bdist.linux-armv7l/wheel/galaxy/app_unittest_utils 2025-12-17T14:20:54,553 copying build/lib/galaxy/app_unittest_utils/toolbox_support.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2025-12-17T14:20:54,555 copying build/lib/galaxy/app_unittest_utils/tools_support.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2025-12-17T14:20:54,557 copying build/lib/galaxy/app_unittest_utils/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2025-12-17T14:20:54,559 copying build/lib/galaxy/app_unittest_utils/galaxy_mock.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2025-12-17T14:20:54,561 copying build/lib/galaxy/structured_app.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:54,564 creating build/bdist.linux-armv7l/wheel/galaxy/carbon_emissions 2025-12-17T14:20:54,565 copying build/lib/galaxy/carbon_emissions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/carbon_emissions 2025-12-17T14:20:54,567 copying build/lib/galaxy/carbon_emissions/carbon_intensity.csv -> build/bdist.linux-armv7l/wheel/./galaxy/carbon_emissions 2025-12-17T14:20:54,569 copying build/lib/galaxy/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:54,572 creating build/bdist.linux-armv7l/wheel/galaxy/visualization 2025-12-17T14:20:54,573 copying build/lib/galaxy/visualization/genomes.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization 2025-12-17T14:20:54,576 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/data_providers 2025-12-17T14:20:54,577 copying build/lib/galaxy/visualization/data_providers/registry.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-12-17T14:20:54,579 copying build/lib/galaxy/visualization/data_providers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-12-17T14:20:54,581 copying build/lib/galaxy/visualization/data_providers/cigar.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-12-17T14:20:54,583 copying build/lib/galaxy/visualization/data_providers/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-12-17T14:20:54,586 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:54,587 copying build/lib/galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:54,589 copying build/lib/galaxy/visualization/data_providers/phyloviz/nexusparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:54,591 copying build/lib/galaxy/visualization/data_providers/phyloviz/newickparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:54,594 copying build/lib/galaxy/visualization/data_providers/phyloviz/baseparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:54,596 copying build/lib/galaxy/visualization/data_providers/phyloviz/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-12-17T14:20:54,598 copying build/lib/galaxy/visualization/data_providers/genome.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-12-17T14:20:54,601 copying build/lib/galaxy/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization 2025-12-17T14:20:54,603 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/genome 2025-12-17T14:20:54,604 copying build/lib/galaxy/visualization/genome/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/genome 2025-12-17T14:20:54,607 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/plugins 2025-12-17T14:20:54,608 copying build/lib/galaxy/visualization/plugins/datasource_testing.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-12-17T14:20:54,610 copying build/lib/galaxy/visualization/plugins/utils.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-12-17T14:20:54,612 copying build/lib/galaxy/visualization/plugins/config_parser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-12-17T14:20:54,614 copying build/lib/galaxy/visualization/plugins/registry.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-12-17T14:20:54,616 copying build/lib/galaxy/visualization/plugins/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-12-17T14:20:54,617 copying build/lib/galaxy/visualization/plugins/plugin.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-12-17T14:20:54,620 copying build/lib/galaxy/visualization/plugins/resource_parser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-12-17T14:20:54,622 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/tracks 2025-12-17T14:20:54,623 copying build/lib/galaxy/visualization/tracks/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/tracks 2025-12-17T14:20:54,625 copying build/lib/galaxy/config_watchers.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:54,627 copying build/lib/galaxy/di.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-12-17T14:20:54,630 creating build/bdist.linux-armv7l/wheel/galaxy/celery 2025-12-17T14:20:54,631 copying build/lib/galaxy/celery/base_task.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2025-12-17T14:20:54,633 copying build/lib/galaxy/celery/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2025-12-17T14:20:54,636 copying build/lib/galaxy/celery/_serialization.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2025-12-17T14:20:54,638 copying build/lib/galaxy/celery/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2025-12-17T14:20:54,641 creating build/bdist.linux-armv7l/wheel/galaxy/jobs 2025-12-17T14:20:54,642 copying build/lib/galaxy/jobs/stock_rules.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-12-17T14:20:54,644 copying build/lib/galaxy/jobs/rule_helper.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-12-17T14:20:54,646 copying build/lib/galaxy/jobs/handler.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-12-17T14:20:54,649 copying build/lib/galaxy/jobs/command_factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-12-17T14:20:54,651 copying build/lib/galaxy/jobs/dynamic_tool_destination.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-12-17T14:20:54,656 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners 2025-12-17T14:20:54,657 copying build/lib/galaxy/jobs/runners/state_handler_factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,659 copying build/lib/galaxy/jobs/runners/drmaa.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,662 copying build/lib/galaxy/jobs/runners/condor.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,664 copying build/lib/galaxy/jobs/runners/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,667 copying build/lib/galaxy/jobs/runners/pulsar.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,670 copying build/lib/galaxy/jobs/runners/aws.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,673 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/state_handlers 2025-12-17T14:20:54,674 copying build/lib/galaxy/jobs/runners/state_handlers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2025-12-17T14:20:54,676 copying build/lib/galaxy/jobs/runners/state_handlers/_safe_eval.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2025-12-17T14:20:54,678 copying build/lib/galaxy/jobs/runners/state_handlers/resubmit.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2025-12-17T14:20:54,681 copying build/lib/galaxy/jobs/runners/univa.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,684 copying build/lib/galaxy/jobs/runners/chronos.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,686 copying build/lib/galaxy/jobs/runners/godocker.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,689 copying build/lib/galaxy/jobs/runners/pbs.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,692 copying build/lib/galaxy/jobs/runners/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,694 copying build/lib/galaxy/jobs/runners/local.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,698 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util 2025-12-17T14:20:54,698 copying build/lib/galaxy/jobs/runners/util/process_groups.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-12-17T14:20:54,700 copying build/lib/galaxy/jobs/runners/util/external.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-12-17T14:20:54,702 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/condor 2025-12-17T14:20:54,703 copying build/lib/galaxy/jobs/runners/util/condor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/condor 2025-12-17T14:20:54,705 copying build/lib/galaxy/jobs/runners/util/sudo.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-12-17T14:20:54,707 copying build/lib/galaxy/jobs/runners/util/pykube_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-12-17T14:20:54,710 copying build/lib/galaxy/jobs/runners/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-12-17T14:20:54,712 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/job_script 2025-12-17T14:20:54,713 copying build/lib/galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2025-12-17T14:20:54,715 copying build/lib/galaxy/jobs/runners/util/job_script/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2025-12-17T14:20:54,717 copying build/lib/galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2025-12-17T14:20:54,719 copying build/lib/galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2025-12-17T14:20:54,722 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli 2025-12-17T14:20:54,723 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli/shell 2025-12-17T14:20:54,724 copying build/lib/galaxy/jobs/runners/util/cli/shell/rsh.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2025-12-17T14:20:54,726 copying build/lib/galaxy/jobs/runners/util/cli/shell/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2025-12-17T14:20:54,728 copying build/lib/galaxy/jobs/runners/util/cli/shell/local.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2025-12-17T14:20:54,730 copying build/lib/galaxy/jobs/runners/util/cli/factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli 2025-12-17T14:20:54,732 copying build/lib/galaxy/jobs/runners/util/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli 2025-12-17T14:20:54,734 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:54,735 copying build/lib/galaxy/jobs/runners/util/cli/job/torque.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:54,737 copying build/lib/galaxy/jobs/runners/util/cli/job/slurm_torque.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:54,739 copying build/lib/galaxy/jobs/runners/util/cli/job/lsf.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:54,742 copying build/lib/galaxy/jobs/runners/util/cli/job/pbs.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:54,744 copying build/lib/galaxy/jobs/runners/util/cli/job/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:54,745 copying build/lib/galaxy/jobs/runners/util/cli/job/slurm.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-12-17T14:20:54,748 copying build/lib/galaxy/jobs/runners/util/fork_safe_write.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-12-17T14:20:54,750 copying build/lib/galaxy/jobs/runners/util/env.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-12-17T14:20:54,751 copying build/lib/galaxy/jobs/runners/util/kill.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-12-17T14:20:54,753 copying build/lib/galaxy/jobs/runners/kubernetes.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,756 copying build/lib/galaxy/jobs/runners/cli.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,758 copying build/lib/galaxy/jobs/runners/slurm.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-12-17T14:20:54,761 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/splitters 2025-12-17T14:20:54,762 copying build/lib/galaxy/jobs/splitters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2025-12-17T14:20:54,764 copying build/lib/galaxy/jobs/splitters/multi.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2025-12-17T14:20:54,766 copying build/lib/galaxy/jobs/splitters/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2025-12-17T14:20:54,768 copying build/lib/galaxy/jobs/mapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-12-17T14:20:54,770 copying build/lib/galaxy/jobs/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-12-17T14:20:54,775 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/rules 2025-12-17T14:20:54,776 copying build/lib/galaxy/jobs/rules/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/rules 2025-12-17T14:20:54,778 copying build/lib/galaxy/jobs/manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-12-17T14:20:54,781 creating build/bdist.linux-armv7l/wheel/galaxy/short_term_storage 2025-12-17T14:20:54,782 copying build/lib/galaxy/short_term_storage/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/short_term_storage 2025-12-17T14:20:54,786 creating build/bdist.linux-armv7l/wheel/galaxy/managers 2025-12-17T14:20:54,787 copying build/lib/galaxy/managers/workflows.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,791 copying build/lib/galaxy/managers/licenses.json -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,796 copying build/lib/galaxy/managers/interactivetool.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,798 copying build/lib/galaxy/managers/landing.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,801 copying build/lib/galaxy/managers/base.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,804 copying build/lib/galaxy/managers/library_datasets.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,806 copying build/lib/galaxy/managers/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,808 copying build/lib/galaxy/managers/datasets.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,811 copying build/lib/galaxy/managers/job_connections.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,813 copying build/lib/galaxy/managers/session.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,815 copying build/lib/galaxy/managers/chat.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,816 copying build/lib/galaxy/managers/histories.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,819 copying build/lib/galaxy/managers/annotatable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,821 copying build/lib/galaxy/managers/genomes.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,824 copying build/lib/galaxy/managers/markdown_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,828 copying build/lib/galaxy/managers/collections_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,830 copying build/lib/galaxy/managers/taggable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,832 copying build/lib/galaxy/managers/tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,835 copying build/lib/galaxy/managers/markdown_export_base.css -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,837 copying build/lib/galaxy/managers/rbac_secured.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,840 copying build/lib/galaxy/managers/metrics.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,842 copying build/lib/galaxy/managers/credentials.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,845 copying build/lib/galaxy/managers/dbkeys.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,848 copying build/lib/galaxy/managers/hdcas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,852 copying build/lib/galaxy/managers/sharable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,855 copying build/lib/galaxy/managers/collections.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,858 copying build/lib/galaxy/managers/executables.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,860 copying build/lib/galaxy/managers/groups.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,863 copying build/lib/galaxy/managers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,865 copying build/lib/galaxy/managers/model_stores.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,868 copying build/lib/galaxy/managers/item_tags.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,870 copying build/lib/galaxy/managers/display_applications.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,873 copying build/lib/galaxy/managers/quotas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,876 copying build/lib/galaxy/managers/notification.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,879 copying build/lib/galaxy/managers/visualizations.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,881 copying build/lib/galaxy/managers/roles.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,884 copying build/lib/galaxy/managers/datatypes.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,886 copying build/lib/galaxy/managers/lddas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,888 copying build/lib/galaxy/managers/pages.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,890 copying build/lib/galaxy/managers/jobs.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,894 copying build/lib/galaxy/managers/group_users.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,896 copying build/lib/galaxy/managers/configuration.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,899 copying build/lib/galaxy/managers/file_source_instances.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,901 copying build/lib/galaxy/managers/markdown_parse.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,903 copying build/lib/galaxy/managers/folders.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,906 copying build/lib/galaxy/managers/citations.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,908 copying build/lib/galaxy/managers/users.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,911 copying build/lib/galaxy/managers/_config_templates.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,914 copying build/lib/galaxy/managers/api_keys.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,916 copying build/lib/galaxy/managers/remote_files.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,918 copying build/lib/galaxy/managers/export_tracker.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,920 copying build/lib/galaxy/managers/forms.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,922 copying build/lib/galaxy/managers/deletable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,924 copying build/lib/galaxy/managers/libraries.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,927 copying build/lib/galaxy/managers/secured.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,929 copying build/lib/galaxy/managers/licenses.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,931 copying build/lib/galaxy/managers/ratable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,933 copying build/lib/galaxy/managers/history_contents.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,936 copying build/lib/galaxy/managers/object_store_instances.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,938 copying build/lib/galaxy/managers/tool_data.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,940 copying build/lib/galaxy/managers/tags.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,942 copying build/lib/galaxy/managers/hdas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,946 copying build/lib/galaxy/managers/tours.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,949 copying build/lib/galaxy/managers/group_roles.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,951 copying build/lib/galaxy/managers/context.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-12-17T14:20:54,955 creating build/bdist.linux-armv7l/wheel/galaxy/workflow 2025-12-17T14:20:54,957 copying build/lib/galaxy/workflow/run_request.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:54,960 copying build/lib/galaxy/workflow/render.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:54,963 copying build/lib/galaxy/workflow/run.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:54,968 copying build/lib/galaxy/workflow/scheduling_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:54,972 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/schedulers 2025-12-17T14:20:54,973 copying build/lib/galaxy/workflow/schedulers/core.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/schedulers 2025-12-17T14:20:54,976 copying build/lib/galaxy/workflow/schedulers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/schedulers 2025-12-17T14:20:54,978 copying build/lib/galaxy/workflow/modules.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:54,986 copying build/lib/galaxy/workflow/workflow_parameter_input_definitions.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:54,989 copying build/lib/galaxy/workflow/trs_proxy.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:54,992 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/resources 2025-12-17T14:20:54,993 copying build/lib/galaxy/workflow/resources/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/resources 2025-12-17T14:20:54,996 copying build/lib/galaxy/workflow/resources/example.py.sample -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/resources 2025-12-17T14:20:54,999 copying build/lib/galaxy/workflow/errors.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:55,001 copying build/lib/galaxy/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:55,004 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/refactor 2025-12-17T14:20:55,005 copying build/lib/galaxy/workflow/refactor/schema.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2025-12-17T14:20:55,008 copying build/lib/galaxy/workflow/refactor/execute.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2025-12-17T14:20:55,012 copying build/lib/galaxy/workflow/refactor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2025-12-17T14:20:55,014 copying build/lib/galaxy/workflow/steps.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:55,017 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/reports 2025-12-17T14:20:55,019 copying build/lib/galaxy/workflow/reports/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports 2025-12-17T14:20:55,022 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/reports/generators 2025-12-17T14:20:55,024 copying build/lib/galaxy/workflow/reports/generators/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports/generators 2025-12-17T14:20:55,026 copying build/lib/galaxy/workflow/reports/generators/markdown.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports/generators 2025-12-17T14:20:55,029 copying build/lib/galaxy/workflow/extract.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-12-17T14:20:55,032 running install_egg_info 2025-12-17T14:20:55,050 Copying galaxy_app.egg-info to build/bdist.linux-armv7l/wheel/./galaxy_app-25.1.0-py3.11.egg-info 2025-12-17T14:20:55,066 running install_scripts 2025-12-17T14:20:55,081 creating build/bdist.linux-armv7l/wheel/galaxy_app-25.1.0.dist-info/WHEEL 2025-12-17T14:20:55,084 creating '/tmp/pip-wheel-hwj97k8q/.tmp-6h8mde83/galaxy_app-25.1.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-12-17T14:20:55,087 adding 'galaxy/__init__.py' 2025-12-17T14:20:55,092 adding 'galaxy/app.py' 2025-12-17T14:20:55,094 adding 'galaxy/config_watchers.py' 2025-12-17T14:20:55,096 adding 'galaxy/di.py' 2025-12-17T14:20:55,098 adding 'galaxy/main.py' 2025-12-17T14:20:55,099 adding 'galaxy/main_config.py' 2025-12-17T14:20:55,100 adding 'galaxy/py.typed' 2025-12-17T14:20:55,103 adding 'galaxy/queue_worker.py' 2025-12-17T14:20:55,104 adding 'galaxy/queues.py' 2025-12-17T14:20:55,106 adding 'galaxy/structured_app.py' 2025-12-17T14:20:55,108 adding 'galaxy/actions/__init__.py' 2025-12-17T14:20:55,110 adding 'galaxy/actions/library.py' 2025-12-17T14:20:55,112 adding 'galaxy/app_unittest_utils/__init__.py' 2025-12-17T14:20:55,114 adding 'galaxy/app_unittest_utils/galaxy_mock.py' 2025-12-17T14:20:55,116 adding 'galaxy/app_unittest_utils/toolbox_support.py' 2025-12-17T14:20:55,118 adding 'galaxy/app_unittest_utils/tools_support.py' 2025-12-17T14:20:55,120 adding 'galaxy/authnz/__init__.py' 2025-12-17T14:20:55,124 adding 'galaxy/authnz/custos_authnz.py' 2025-12-17T14:20:55,126 adding 'galaxy/authnz/managers.py' 2025-12-17T14:20:55,130 adding 'galaxy/authnz/psa_authnz.py' 2025-12-17T14:20:55,131 adding 'galaxy/authnz/tapis.py' 2025-12-17T14:20:55,133 adding 'galaxy/authnz/util.py' 2025-12-17T14:20:55,134 adding 'galaxy/carbon_emissions/__init__.py' 2025-12-17T14:20:55,136 adding 'galaxy/carbon_emissions/carbon_intensity.csv' 2025-12-17T14:20:55,138 adding 'galaxy/celery/__init__.py' 2025-12-17T14:20:55,140 adding 'galaxy/celery/_serialization.py' 2025-12-17T14:20:55,141 adding 'galaxy/celery/base_task.py' 2025-12-17T14:20:55,144 adding 'galaxy/celery/tasks.py' 2025-12-17T14:20:55,146 adding 'galaxy/dependencies/__init__.py' 2025-12-17T14:20:55,148 adding 'galaxy/dependencies/conditional-requirements.txt' 2025-12-17T14:20:55,149 adding 'galaxy/dependencies/dev-requirements.txt' 2025-12-17T14:20:55,150 adding 'galaxy/dependencies/lint-requirements.txt' 2025-12-17T14:20:55,152 adding 'galaxy/dependencies/pinned-lint-requirements.txt' 2025-12-17T14:20:55,154 adding 'galaxy/dependencies/pinned-requirements.txt' 2025-12-17T14:20:55,155 adding 'galaxy/dependencies/pinned-test-requirements.txt' 2025-12-17T14:20:55,157 adding 'galaxy/dependencies/pinned-typecheck-requirements.txt' 2025-12-17T14:20:55,158 adding 'galaxy/dependencies/script.py' 2025-12-17T14:20:55,159 adding 'galaxy/dependencies/update.sh' 2025-12-17T14:20:55,160 adding 'galaxy/dependencies/update_lint_requirements.sh' 2025-12-17T14:20:55,162 adding 'galaxy/forms/__init__.py' 2025-12-17T14:20:55,164 adding 'galaxy/forms/forms.py' 2025-12-17T14:20:55,181 adding 'galaxy/jobs/__init__.py' 2025-12-17T14:20:55,184 adding 'galaxy/jobs/command_factory.py' 2025-12-17T14:20:55,192 adding 'galaxy/jobs/dynamic_tool_destination.py' 2025-12-17T14:20:55,199 adding 'galaxy/jobs/handler.py' 2025-12-17T14:20:55,201 adding 'galaxy/jobs/manager.py' 2025-12-17T14:20:55,203 adding 'galaxy/jobs/mapper.py' 2025-12-17T14:20:55,205 adding 'galaxy/jobs/rule_helper.py' 2025-12-17T14:20:55,206 adding 'galaxy/jobs/stock_rules.py' 2025-12-17T14:20:55,208 adding 'galaxy/jobs/rules/__init__.py' 2025-12-17T14:20:55,214 adding 'galaxy/jobs/runners/__init__.py' 2025-12-17T14:20:55,217 adding 'galaxy/jobs/runners/aws.py' 2025-12-17T14:20:55,219 adding 'galaxy/jobs/runners/chronos.py' 2025-12-17T14:20:55,221 adding 'galaxy/jobs/runners/cli.py' 2025-12-17T14:20:55,223 adding 'galaxy/jobs/runners/condor.py' 2025-12-17T14:20:55,226 adding 'galaxy/jobs/runners/drmaa.py' 2025-12-17T14:20:55,228 adding 'galaxy/jobs/runners/godocker.py' 2025-12-17T14:20:55,235 adding 'galaxy/jobs/runners/kubernetes.py' 2025-12-17T14:20:55,237 adding 'galaxy/jobs/runners/local.py' 2025-12-17T14:20:55,240 adding 'galaxy/jobs/runners/pbs.py' 2025-12-17T14:20:55,247 adding 'galaxy/jobs/runners/pulsar.py' 2025-12-17T14:20:55,249 adding 'galaxy/jobs/runners/slurm.py' 2025-12-17T14:20:55,251 adding 'galaxy/jobs/runners/state_handler_factory.py' 2025-12-17T14:20:55,253 adding 'galaxy/jobs/runners/tasks.py' 2025-12-17T14:20:55,257 adding 'galaxy/jobs/runners/univa.py' 2025-12-17T14:20:55,258 adding 'galaxy/jobs/runners/state_handlers/__init__.py' 2025-12-17T14:20:55,260 adding 'galaxy/jobs/runners/state_handlers/_safe_eval.py' 2025-12-17T14:20:55,261 adding 'galaxy/jobs/runners/state_handlers/resubmit.py' 2025-12-17T14:20:55,263 adding 'galaxy/jobs/runners/util/__init__.py' 2025-12-17T14:20:55,265 adding 'galaxy/jobs/runners/util/env.py' 2025-12-17T14:20:55,266 adding 'galaxy/jobs/runners/util/external.py' 2025-12-17T14:20:55,267 adding 'galaxy/jobs/runners/util/fork_safe_write.py' 2025-12-17T14:20:55,268 adding 'galaxy/jobs/runners/util/kill.py' 2025-12-17T14:20:55,270 adding 'galaxy/jobs/runners/util/process_groups.py' 2025-12-17T14:20:55,272 adding 'galaxy/jobs/runners/util/pykube_util.py' 2025-12-17T14:20:55,273 adding 'galaxy/jobs/runners/util/sudo.py' 2025-12-17T14:20:55,275 adding 'galaxy/jobs/runners/util/cli/__init__.py' 2025-12-17T14:20:55,276 adding 'galaxy/jobs/runners/util/cli/factory.py' 2025-12-17T14:20:55,278 adding 'galaxy/jobs/runners/util/cli/job/__init__.py' 2025-12-17T14:20:55,280 adding 'galaxy/jobs/runners/util/cli/job/lsf.py' 2025-12-17T14:20:55,281 adding 'galaxy/jobs/runners/util/cli/job/pbs.py' 2025-12-17T14:20:55,282 adding 'galaxy/jobs/runners/util/cli/job/slurm.py' 2025-12-17T14:20:55,284 adding 'galaxy/jobs/runners/util/cli/job/slurm_torque.py' 2025-12-17T14:20:55,285 adding 'galaxy/jobs/runners/util/cli/job/torque.py' 2025-12-17T14:20:55,286 adding 'galaxy/jobs/runners/util/cli/shell/__init__.py' 2025-12-17T14:20:55,288 adding 'galaxy/jobs/runners/util/cli/shell/local.py' 2025-12-17T14:20:55,289 adding 'galaxy/jobs/runners/util/cli/shell/rsh.py' 2025-12-17T14:20:55,291 adding 'galaxy/jobs/runners/util/condor/__init__.py' 2025-12-17T14:20:55,293 adding 'galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh' 2025-12-17T14:20:55,294 adding 'galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh' 2025-12-17T14:20:55,295 adding 'galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh' 2025-12-17T14:20:55,297 adding 'galaxy/jobs/runners/util/job_script/__init__.py' 2025-12-17T14:20:55,298 adding 'galaxy/jobs/splitters/__init__.py' 2025-12-17T14:20:55,300 adding 'galaxy/jobs/splitters/basic.py' 2025-12-17T14:20:55,301 adding 'galaxy/jobs/splitters/multi.py' 2025-12-17T14:20:55,304 adding 'galaxy/managers/__init__.py' 2025-12-17T14:20:55,307 adding 'galaxy/managers/_config_templates.py' 2025-12-17T14:20:55,308 adding 'galaxy/managers/annotatable.py' 2025-12-17T14:20:55,309 adding 'galaxy/managers/api_keys.py' 2025-12-17T14:20:55,316 adding 'galaxy/managers/base.py' 2025-12-17T14:20:55,318 adding 'galaxy/managers/chat.py' 2025-12-17T14:20:55,319 adding 'galaxy/managers/citations.py' 2025-12-17T14:20:55,324 adding 'galaxy/managers/collections.py' 2025-12-17T14:20:55,326 adding 'galaxy/managers/collections_util.py' 2025-12-17T14:20:55,328 adding 'galaxy/managers/configuration.py' 2025-12-17T14:20:55,330 adding 'galaxy/managers/context.py' 2025-12-17T14:20:55,332 adding 'galaxy/managers/credentials.py' 2025-12-17T14:20:55,337 adding 'galaxy/managers/datasets.py' 2025-12-17T14:20:55,339 adding 'galaxy/managers/datatypes.py' 2025-12-17T14:20:55,341 adding 'galaxy/managers/dbkeys.py' 2025-12-17T14:20:55,342 adding 'galaxy/managers/deletable.py' 2025-12-17T14:20:55,344 adding 'galaxy/managers/display_applications.py' 2025-12-17T14:20:55,345 adding 'galaxy/managers/executables.py' 2025-12-17T14:20:55,346 adding 'galaxy/managers/export_tracker.py' 2025-12-17T14:20:55,350 adding 'galaxy/managers/file_source_instances.py' 2025-12-17T14:20:55,353 adding 'galaxy/managers/folders.py' 2025-12-17T14:20:55,354 adding 'galaxy/managers/forms.py' 2025-12-17T14:20:55,355 adding 'galaxy/managers/genomes.py' 2025-12-17T14:20:55,357 adding 'galaxy/managers/group_roles.py' 2025-12-17T14:20:55,358 adding 'galaxy/managers/group_users.py' 2025-12-17T14:20:55,360 adding 'galaxy/managers/groups.py' 2025-12-17T14:20:55,363 adding 'galaxy/managers/hdas.py' 2025-12-17T14:20:55,365 adding 'galaxy/managers/hdcas.py' 2025-12-17T14:20:55,370 adding 'galaxy/managers/histories.py' 2025-12-17T14:20:55,374 adding 'galaxy/managers/history_contents.py' 2025-12-17T14:20:55,376 adding 'galaxy/managers/interactivetool.py' 2025-12-17T14:20:55,377 adding 'galaxy/managers/item_tags.py' 2025-12-17T14:20:55,379 adding 'galaxy/managers/job_connections.py' 2025-12-17T14:20:55,388 adding 'galaxy/managers/jobs.py' 2025-12-17T14:20:55,390 adding 'galaxy/managers/landing.py' 2025-12-17T14:20:55,392 adding 'galaxy/managers/lddas.py' 2025-12-17T14:20:55,394 adding 'galaxy/managers/libraries.py' 2025-12-17T14:20:55,396 adding 'galaxy/managers/library_datasets.py' 2025-12-17T14:20:55,407 adding 'galaxy/managers/licenses.json' 2025-12-17T14:20:55,410 adding 'galaxy/managers/licenses.py' 2025-12-17T14:20:55,411 adding 'galaxy/managers/markdown_export_base.css' 2025-12-17T14:20:55,413 adding 'galaxy/managers/markdown_parse.py' 2025-12-17T14:20:55,418 adding 'galaxy/managers/markdown_util.py' 2025-12-17T14:20:55,420 adding 'galaxy/managers/metrics.py' 2025-12-17T14:20:55,422 adding 'galaxy/managers/model_stores.py' 2025-12-17T14:20:55,426 adding 'galaxy/managers/notification.py' 2025-12-17T14:20:55,428 adding 'galaxy/managers/object_store_instances.py' 2025-12-17T14:20:55,431 adding 'galaxy/managers/pages.py' 2025-12-17T14:20:55,433 adding 'galaxy/managers/quotas.py' 2025-12-17T14:20:55,434 adding 'galaxy/managers/ratable.py' 2025-12-17T14:20:55,436 adding 'galaxy/managers/rbac_secured.py' 2025-12-17T14:20:55,437 adding 'galaxy/managers/remote_files.py' 2025-12-17T14:20:55,439 adding 'galaxy/managers/roles.py' 2025-12-17T14:20:55,440 adding 'galaxy/managers/secured.py' 2025-12-17T14:20:55,441 adding 'galaxy/managers/session.py' 2025-12-17T14:20:55,444 adding 'galaxy/managers/sharable.py' 2025-12-17T14:20:55,445 adding 'galaxy/managers/taggable.py' 2025-12-17T14:20:55,447 adding 'galaxy/managers/tags.py' 2025-12-17T14:20:55,448 adding 'galaxy/managers/tasks.py' 2025-12-17T14:20:55,449 adding 'galaxy/managers/tool_data.py' 2025-12-17T14:20:55,451 adding 'galaxy/managers/tools.py' 2025-12-17T14:20:55,453 adding 'galaxy/managers/tours.py' 2025-12-17T14:20:55,458 adding 'galaxy/managers/users.py' 2025-12-17T14:20:55,460 adding 'galaxy/managers/visualizations.py' 2025-12-17T14:20:55,472 adding 'galaxy/managers/workflows.py' 2025-12-17T14:20:55,475 adding 'galaxy/short_term_storage/__init__.py' 2025-12-17T14:20:55,477 adding 'galaxy/tool_shed/__init__.py' 2025-12-17T14:20:55,478 adding 'galaxy/tool_shed/cache.py' 2025-12-17T14:20:55,479 adding 'galaxy/tool_shed/repository_type.py' 2025-12-17T14:20:55,481 adding 'galaxy/tool_shed/galaxy_install/__init__.py' 2025-12-17T14:20:55,482 adding 'galaxy/tool_shed/galaxy_install/client.py' 2025-12-17T14:20:55,487 adding 'galaxy/tool_shed/galaxy_install/install_manager.py' 2025-12-17T14:20:55,493 adding 'galaxy/tool_shed/galaxy_install/installed_repository_manager.py' 2025-12-17T14:20:55,495 adding 'galaxy/tool_shed/galaxy_install/update_repository_manager.py' 2025-12-17T14:20:55,496 adding 'galaxy/tool_shed/galaxy_install/metadata/__init__.py' 2025-12-17T14:20:55,498 adding 'galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py' 2025-12-17T14:20:55,500 adding 'galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py' 2025-12-17T14:20:55,504 adding 'galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py' 2025-12-17T14:20:55,506 adding 'galaxy/tool_shed/galaxy_install/tools/__init__.py' 2025-12-17T14:20:55,507 adding 'galaxy/tool_shed/galaxy_install/tools/data_manager.py' 2025-12-17T14:20:55,511 adding 'galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py' 2025-12-17T14:20:55,513 adding 'galaxy/tool_shed/metadata/__init__.py' 2025-12-17T14:20:55,518 adding 'galaxy/tool_shed/metadata/metadata_generator.py' 2025-12-17T14:20:55,520 adding 'galaxy/tool_shed/tools/__init__.py' 2025-12-17T14:20:55,522 adding 'galaxy/tool_shed/tools/data_table_manager.py' 2025-12-17T14:20:55,524 adding 'galaxy/tool_shed/tools/tool_validator.py' 2025-12-17T14:20:55,526 adding 'galaxy/tool_shed/unittest_utils/__init__.py' 2025-12-17T14:20:55,528 adding 'galaxy/tool_shed/util/__init__.py' 2025-12-17T14:20:55,529 adding 'galaxy/tool_shed/util/basic_util.py' 2025-12-17T14:20:55,531 adding 'galaxy/tool_shed/util/container_util.py' 2025-12-17T14:20:55,533 adding 'galaxy/tool_shed/util/dependency_display.py' 2025-12-17T14:20:55,535 adding 'galaxy/tool_shed/util/hg_util.py' 2025-12-17T14:20:55,536 adding 'galaxy/tool_shed/util/metadata_util.py' 2025-12-17T14:20:55,540 adding 'galaxy/tool_shed/util/repository_util.py' 2025-12-17T14:20:55,542 adding 'galaxy/tool_shed/util/shed_util_common.py' 2025-12-17T14:20:55,544 adding 'galaxy/tool_shed/util/tool_dependency_util.py' 2025-12-17T14:20:55,546 adding 'galaxy/tool_shed/util/tool_util.py' 2025-12-17T14:20:55,549 adding 'galaxy/tool_shed/util/utility_container_manager.py' 2025-12-17T14:20:55,575 adding 'galaxy/tools/__init__.py' 2025-12-17T14:20:55,578 adding 'galaxy/tools/_types.py' 2025-12-17T14:20:55,579 adding 'galaxy/tools/apply_rules.xml' 2025-12-17T14:20:55,580 adding 'galaxy/tools/biotools.py' 2025-12-17T14:20:55,582 adding 'galaxy/tools/build_list.xml' 2025-12-17T14:20:55,583 adding 'galaxy/tools/build_list_1.2.0.xml' 2025-12-17T14:20:55,584 adding 'galaxy/tools/cache.py' 2025-12-17T14:20:55,586 adding 'galaxy/tools/cross_product_flat.xml' 2025-12-17T14:20:55,587 adding 'galaxy/tools/cross_product_nested.xml' 2025-12-17T14:20:55,590 adding 'galaxy/tools/data_fetch.py' 2025-12-17T14:20:55,592 adding 'galaxy/tools/data_fetch.xml' 2025-12-17T14:20:55,593 adding 'galaxy/tools/duplicate_file_to_collection.xml' 2025-12-17T14:20:55,595 adding 'galaxy/tools/errors.py' 2025-12-17T14:20:55,600 adding 'galaxy/tools/evaluation.py' 2025-12-17T14:20:55,602 adding 'galaxy/tools/exception_handling.py' 2025-12-17T14:20:55,605 adding 'galaxy/tools/execute.py' 2025-12-17T14:20:55,607 adding 'galaxy/tools/execution_helpers.py' 2025-12-17T14:20:55,608 adding 'galaxy/tools/extract_dataset.xml' 2025-12-17T14:20:55,610 adding 'galaxy/tools/filter_empty_collection.xml' 2025-12-17T14:20:55,611 adding 'galaxy/tools/filter_empty_collection_1.1.0.xml' 2025-12-17T14:20:55,612 adding 'galaxy/tools/filter_failed_collection.xml' 2025-12-17T14:20:55,614 adding 'galaxy/tools/filter_from_file.xml' 2025-12-17T14:20:55,615 adding 'galaxy/tools/filter_from_file_1.1.0.xml' 2025-12-17T14:20:55,616 adding 'galaxy/tools/filter_null.xml' 2025-12-17T14:20:55,618 adding 'galaxy/tools/filter_null_1.1.0.xml' 2025-12-17T14:20:55,619 adding 'galaxy/tools/flatten_collection.xml' 2025-12-17T14:20:55,620 adding 'galaxy/tools/harmonize_two_collections_list.xml' 2025-12-17T14:20:55,622 adding 'galaxy/tools/keep_success_collection.xml' 2025-12-17T14:20:55,623 adding 'galaxy/tools/keep_success_collection_1.1.0.xml' 2025-12-17T14:20:55,625 adding 'galaxy/tools/merge_collection.xml' 2025-12-17T14:20:55,626 adding 'galaxy/tools/model_operation_macros.xml' 2025-12-17T14:20:55,627 adding 'galaxy/tools/nest_collection.xml' 2025-12-17T14:20:55,630 adding 'galaxy/tools/recommendations.py' 2025-12-17T14:20:55,632 adding 'galaxy/tools/relabel_from_file.xml' 2025-12-17T14:20:55,633 adding 'galaxy/tools/remote_tool_eval.py' 2025-12-17T14:20:55,635 adding 'galaxy/tools/repositories.py' 2025-12-17T14:20:55,636 adding 'galaxy/tools/sample_sheet_to_tabular.xml' 2025-12-17T14:20:55,637 adding 'galaxy/tools/sort_collection_list.xml' 2025-12-17T14:20:55,639 adding 'galaxy/tools/special_tools.py' 2025-12-17T14:20:55,640 adding 'galaxy/tools/split_paired_and_unpaired.xml' 2025-12-17T14:20:55,641 adding 'galaxy/tools/stock.py' 2025-12-17T14:20:55,643 adding 'galaxy/tools/tag_collection_from_file.xml' 2025-12-17T14:20:55,644 adding 'galaxy/tools/unzip_collection.xml' 2025-12-17T14:20:55,647 adding 'galaxy/tools/wrappers.py' 2025-12-17T14:20:55,649 adding 'galaxy/tools/zip_collection.xml' 2025-12-17T14:20:55,658 adding 'galaxy/tools/actions/__init__.py' 2025-12-17T14:20:55,659 adding 'galaxy/tools/actions/data_manager.py' 2025-12-17T14:20:55,661 adding 'galaxy/tools/actions/data_source.py' 2025-12-17T14:20:55,662 adding 'galaxy/tools/actions/history_imp_exp.py' 2025-12-17T14:20:55,664 adding 'galaxy/tools/actions/metadata.py' 2025-12-17T14:20:55,666 adding 'galaxy/tools/actions/model_operations.py' 2025-12-17T14:20:55,668 adding 'galaxy/tools/actions/upload.py' 2025-12-17T14:20:55,670 adding 'galaxy/tools/actions/upload_common.py' 2025-12-17T14:20:55,672 adding 'galaxy/tools/bundled/__init__.py' 2025-12-17T14:20:55,674 adding 'galaxy/tools/bundled/data_export/export_remote.py' 2025-12-17T14:20:55,675 adding 'galaxy/tools/bundled/data_export/export_remote.xml' 2025-12-17T14:20:55,678 adding 'galaxy/tools/bundled/data_source/__init__.py' 2025-12-17T14:20:55,679 adding 'galaxy/tools/bundled/data_source/access_libraries.xml' 2025-12-17T14:20:55,680 adding 'galaxy/tools/bundled/data_source/biomart.xml' 2025-12-17T14:20:55,682 adding 'galaxy/tools/bundled/data_source/biomart_test.xml' 2025-12-17T14:20:55,683 adding 'galaxy/tools/bundled/data_source/cbi_rice_mart.xml' 2025-12-17T14:20:55,684 adding 'galaxy/tools/bundled/data_source/data_source.py' 2025-12-17T14:20:55,686 adding 'galaxy/tools/bundled/data_source/diced.xml' 2025-12-17T14:20:55,687 adding 'galaxy/tools/bundled/data_source/ebi_sra.xml' 2025-12-17T14:20:55,688 adding 'galaxy/tools/bundled/data_source/eupathdb.xml' 2025-12-17T14:20:55,689 adding 'galaxy/tools/bundled/data_source/fly_modencode.xml' 2025-12-17T14:20:55,690 adding 'galaxy/tools/bundled/data_source/flymine.xml' 2025-12-17T14:20:55,691 adding 'galaxy/tools/bundled/data_source/flymine_test.xml' 2025-12-17T14:20:55,692 adding 'galaxy/tools/bundled/data_source/genbank.py' 2025-12-17T14:20:55,694 adding 'galaxy/tools/bundled/data_source/genbank.xml' 2025-12-17T14:20:55,695 adding 'galaxy/tools/bundled/data_source/gramene_mart.xml' 2025-12-17T14:20:55,696 adding 'galaxy/tools/bundled/data_source/hapmapmart.xml' 2025-12-17T14:20:55,697 adding 'galaxy/tools/bundled/data_source/hbvar.xml' 2025-12-17T14:20:55,699 adding 'galaxy/tools/bundled/data_source/import.py' 2025-12-17T14:20:55,700 adding 'galaxy/tools/bundled/data_source/import.xml' 2025-12-17T14:20:55,701 adding 'galaxy/tools/bundled/data_source/intermine.xml' 2025-12-17T14:20:55,702 adding 'galaxy/tools/bundled/data_source/metabolicmine.xml' 2025-12-17T14:20:55,704 adding 'galaxy/tools/bundled/data_source/microbial_import.py' 2025-12-17T14:20:55,705 adding 'galaxy/tools/bundled/data_source/microbial_import.xml' 2025-12-17T14:20:55,706 adding 'galaxy/tools/bundled/data_source/microbial_import_code.py' 2025-12-17T14:20:55,708 adding 'galaxy/tools/bundled/data_source/modmine.xml' 2025-12-17T14:20:55,709 adding 'galaxy/tools/bundled/data_source/mousemine.xml' 2025-12-17T14:20:55,710 adding 'galaxy/tools/bundled/data_source/ncbi_datasets.xml' 2025-12-17T14:20:55,711 adding 'galaxy/tools/bundled/data_source/ratmine.xml' 2025-12-17T14:20:55,712 adding 'galaxy/tools/bundled/data_source/sra.xml' 2025-12-17T14:20:55,714 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml' 2025-12-17T14:20:55,715 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml' 2025-12-17T14:20:55,716 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml' 2025-12-17T14:20:55,719 adding 'galaxy/tools/bundled/data_source/upload.py' 2025-12-17T14:20:55,720 adding 'galaxy/tools/bundled/data_source/upload.xml' 2025-12-17T14:20:55,722 adding 'galaxy/tools/bundled/data_source/worm_modencode.xml' 2025-12-17T14:20:55,723 adding 'galaxy/tools/bundled/data_source/wormbase.xml' 2025-12-17T14:20:55,724 adding 'galaxy/tools/bundled/data_source/wormbase_test.xml' 2025-12-17T14:20:55,726 adding 'galaxy/tools/bundled/data_source/yeastmine.xml' 2025-12-17T14:20:55,727 adding 'galaxy/tools/bundled/data_source/zebrafishmine.xml' 2025-12-17T14:20:55,728 adding 'galaxy/tools/bundled/expression_tools/expression_macros.xml' 2025-12-17T14:20:55,730 adding 'galaxy/tools/bundled/expression_tools/parse_values_from_file.xml' 2025-12-17T14:20:55,732 adding 'galaxy/tools/bundled/expression_tools/pick_value.xml' 2025-12-17T14:20:55,733 adding 'galaxy/tools/bundled/extract/__init__.py' 2025-12-17T14:20:55,735 adding 'galaxy/tools/bundled/extract/extract_genomic_dna.py' 2025-12-17T14:20:55,737 adding 'galaxy/tools/bundled/extract/extract_genomic_dna.xml' 2025-12-17T14:20:55,738 adding 'galaxy/tools/bundled/extract/liftOver_wrapper.py' 2025-12-17T14:20:55,740 adding 'galaxy/tools/bundled/extract/liftOver_wrapper.xml' 2025-12-17T14:20:55,743 adding 'galaxy/tools/bundled/filters/CreateInterval.pl' 2025-12-17T14:20:55,744 adding 'galaxy/tools/bundled/filters/CreateInterval.xml' 2025-12-17T14:20:55,745 adding 'galaxy/tools/bundled/filters/__init__.py' 2025-12-17T14:20:55,746 adding 'galaxy/tools/bundled/filters/axt_to_concat_fasta.py' 2025-12-17T14:20:55,748 adding 'galaxy/tools/bundled/filters/axt_to_concat_fasta.xml' 2025-12-17T14:20:55,749 adding 'galaxy/tools/bundled/filters/axt_to_fasta.py' 2025-12-17T14:20:55,750 adding 'galaxy/tools/bundled/filters/axt_to_fasta.xml' 2025-12-17T14:20:55,752 adding 'galaxy/tools/bundled/filters/axt_to_lav.py' 2025-12-17T14:20:55,754 adding 'galaxy/tools/bundled/filters/axt_to_lav.xml' 2025-12-17T14:20:55,755 adding 'galaxy/tools/bundled/filters/axt_to_lav_code.py' 2025-12-17T14:20:55,756 adding 'galaxy/tools/bundled/filters/bed2gff.xml' 2025-12-17T14:20:55,757 adding 'galaxy/tools/bundled/filters/bed_to_bigbed.xml' 2025-12-17T14:20:55,759 adding 'galaxy/tools/bundled/filters/bed_to_gff_converter.py' 2025-12-17T14:20:55,760 adding 'galaxy/tools/bundled/filters/catWrapper.xml' 2025-12-17T14:20:55,761 adding 'galaxy/tools/bundled/filters/changeCase.pl' 2025-12-17T14:20:55,762 adding 'galaxy/tools/bundled/filters/changeCase.xml' 2025-12-17T14:20:55,763 adding 'galaxy/tools/bundled/filters/commWrapper.pl' 2025-12-17T14:20:55,765 adding 'galaxy/tools/bundled/filters/commWrapper.xml' 2025-12-17T14:20:55,766 adding 'galaxy/tools/bundled/filters/compare.xml' 2025-12-17T14:20:55,767 adding 'galaxy/tools/bundled/filters/condense_characters.pl' 2025-12-17T14:20:55,769 adding 'galaxy/tools/bundled/filters/condense_characters.xml' 2025-12-17T14:20:55,770 adding 'galaxy/tools/bundled/filters/convert_characters.py' 2025-12-17T14:20:55,771 adding 'galaxy/tools/bundled/filters/convert_characters.xml' 2025-12-17T14:20:55,772 adding 'galaxy/tools/bundled/filters/cutWrapper.pl' 2025-12-17T14:20:55,774 adding 'galaxy/tools/bundled/filters/cutWrapper.xml' 2025-12-17T14:20:55,775 adding 'galaxy/tools/bundled/filters/fileGrep.xml' 2025-12-17T14:20:55,776 adding 'galaxy/tools/bundled/filters/fixedValueColumn.pl' 2025-12-17T14:20:55,778 adding 'galaxy/tools/bundled/filters/fixedValueColumn.xml' 2025-12-17T14:20:55,779 adding 'galaxy/tools/bundled/filters/gff2bed.xml' 2025-12-17T14:20:55,781 adding 'galaxy/tools/bundled/filters/gff_to_bed_converter.py' 2025-12-17T14:20:55,782 adding 'galaxy/tools/bundled/filters/grep.xml' 2025-12-17T14:20:55,784 adding 'galaxy/tools/bundled/filters/grep_1.0.1.xml' 2025-12-17T14:20:55,785 adding 'galaxy/tools/bundled/filters/gtf2bedgraph.xml' 2025-12-17T14:20:55,787 adding 'galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py' 2025-12-17T14:20:55,788 adding 'galaxy/tools/bundled/filters/headWrapper.xml' 2025-12-17T14:20:55,790 adding 'galaxy/tools/bundled/filters/join.py' 2025-12-17T14:20:55,792 adding 'galaxy/tools/bundled/filters/joiner.xml' 2025-12-17T14:20:55,793 adding 'galaxy/tools/bundled/filters/joiner2.xml' 2025-12-17T14:20:55,795 adding 'galaxy/tools/bundled/filters/lav_to_bed.py' 2025-12-17T14:20:55,796 adding 'galaxy/tools/bundled/filters/lav_to_bed.xml' 2025-12-17T14:20:55,797 adding 'galaxy/tools/bundled/filters/lav_to_bed_code.py' 2025-12-17T14:20:55,798 adding 'galaxy/tools/bundled/filters/mergeCols.py' 2025-12-17T14:20:55,800 adding 'galaxy/tools/bundled/filters/mergeCols.xml' 2025-12-17T14:20:55,801 adding 'galaxy/tools/bundled/filters/pasteWrapper.xml' 2025-12-17T14:20:55,803 adding 'galaxy/tools/bundled/filters/random_lines_two_pass.py' 2025-12-17T14:20:55,804 adding 'galaxy/tools/bundled/filters/randomlines.py' 2025-12-17T14:20:55,805 adding 'galaxy/tools/bundled/filters/randomlines.xml' 2025-12-17T14:20:55,807 adding 'galaxy/tools/bundled/filters/remove_beginning.xml' 2025-12-17T14:20:55,808 adding 'galaxy/tools/bundled/filters/secure_hash_message_digest.py' 2025-12-17T14:20:55,809 adding 'galaxy/tools/bundled/filters/secure_hash_message_digest.xml' 2025-12-17T14:20:55,815 adding 'galaxy/tools/bundled/filters/sff_extract.py' 2025-12-17T14:20:55,817 adding 'galaxy/tools/bundled/filters/sff_extractor.xml' 2025-12-17T14:20:55,818 adding 'galaxy/tools/bundled/filters/sorter.xml' 2025-12-17T14:20:55,820 adding 'galaxy/tools/bundled/filters/tailWrapper.xml' 2025-12-17T14:20:55,821 adding 'galaxy/tools/bundled/filters/trimmer.py' 2025-12-17T14:20:55,823 adding 'galaxy/tools/bundled/filters/trimmer.xml' 2025-12-17T14:20:55,824 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py' 2025-12-17T14:20:55,826 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml' 2025-12-17T14:20:55,827 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py' 2025-12-17T14:20:55,829 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml' 2025-12-17T14:20:55,830 adding 'galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py' 2025-12-17T14:20:55,831 adding 'galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml' 2025-12-17T14:20:55,833 adding 'galaxy/tools/bundled/filters/uniq.py' 2025-12-17T14:20:55,834 adding 'galaxy/tools/bundled/filters/uniq.xml' 2025-12-17T14:20:55,836 adding 'galaxy/tools/bundled/filters/wc_gnu.xml' 2025-12-17T14:20:55,837 adding 'galaxy/tools/bundled/filters/wig_to_bigwig.xml' 2025-12-17T14:20:55,838 adding 'galaxy/tools/bundled/filters/wiggle_to_simple.py' 2025-12-17T14:20:55,839 adding 'galaxy/tools/bundled/filters/wiggle_to_simple.xml' 2025-12-17T14:20:55,841 adding 'galaxy/tools/bundled/filters/gff/__init__.py' 2025-12-17T14:20:55,842 adding 'galaxy/tools/bundled/filters/gff/extract_GFF_Features.py' 2025-12-17T14:20:55,844 adding 'galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml' 2025-12-17T14:20:55,846 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py' 2025-12-17T14:20:55,847 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml' 2025-12-17T14:20:55,849 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py' 2025-12-17T14:20:55,850 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml' 2025-12-17T14:20:55,851 adding 'galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py' 2025-12-17T14:20:55,853 adding 'galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml' 2025-12-17T14:20:55,855 adding 'galaxy/tools/bundled/interactive/Rprofile.R' 2025-12-17T14:20:55,856 adding 'galaxy/tools/bundled/interactive/default_notebook.ipynb' 2025-12-17T14:20:55,858 adding 'galaxy/tools/bundled/interactive/interactivetool_askomics.xml' 2025-12-17T14:20:55,859 adding 'galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml' 2025-12-17T14:20:55,860 adding 'galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml' 2025-12-17T14:20:55,862 adding 'galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml' 2025-12-17T14:20:55,863 adding 'galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml' 2025-12-17T14:20:55,865 adding 'galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml' 2025-12-17T14:20:55,866 adding 'galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml' 2025-12-17T14:20:55,867 adding 'galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml' 2025-12-17T14:20:55,869 adding 'galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml' 2025-12-17T14:20:55,870 adding 'galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml' 2025-12-17T14:20:55,872 adding 'galaxy/tools/bundled/interactive/interactivetool_higlass.xml' 2025-12-17T14:20:55,874 adding 'galaxy/tools/bundled/interactive/interactivetool_ilastik.xml' 2025-12-17T14:20:55,875 adding 'galaxy/tools/bundled/interactive/interactivetool_isee.xml' 2025-12-17T14:20:55,877 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml' 2025-12-17T14:20:55,879 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml' 2025-12-17T14:20:55,881 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml' 2025-12-17T14:20:55,883 adding 'galaxy/tools/bundled/interactive/interactivetool_metashark.xml' 2025-12-17T14:20:55,884 adding 'galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml' 2025-12-17T14:20:55,886 adding 'galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml' 2025-12-17T14:20:55,888 adding 'galaxy/tools/bundled/interactive/interactivetool_neo4j.xml' 2025-12-17T14:20:55,889 adding 'galaxy/tools/bundled/interactive/interactivetool_openrefine.xml' 2025-12-17T14:20:55,890 adding 'galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml' 2025-12-17T14:20:55,892 adding 'galaxy/tools/bundled/interactive/interactivetool_panoply.xml' 2025-12-17T14:20:55,893 adding 'galaxy/tools/bundled/interactive/interactivetool_paraview.xml' 2025-12-17T14:20:55,894 adding 'galaxy/tools/bundled/interactive/interactivetool_pavian.xml' 2025-12-17T14:20:55,896 adding 'galaxy/tools/bundled/interactive/interactivetool_phinch.xml' 2025-12-17T14:20:55,897 adding 'galaxy/tools/bundled/interactive/interactivetool_pyiron.xml' 2025-12-17T14:20:55,900 adding 'galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml' 2025-12-17T14:20:55,901 adding 'galaxy/tools/bundled/interactive/interactivetool_radiant.xml' 2025-12-17T14:20:55,902 adding 'galaxy/tools/bundled/interactive/interactivetool_rstudio.xml' 2025-12-17T14:20:55,904 adding 'galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml' 2025-12-17T14:20:55,905 adding 'galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml' 2025-12-17T14:20:55,907 adding 'galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml' 2025-12-17T14:20:55,908 adding 'galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml' 2025-12-17T14:20:55,909 adding 'galaxy/tools/bundled/interactive/interactivetool_wallace.xml' 2025-12-17T14:20:55,911 adding 'galaxy/tools/bundled/interactive/interactivetool_wilson.xml' 2025-12-17T14:20:55,913 adding 'galaxy/tools/bundled/interactive/simtext_app.R' 2025-12-17T14:20:55,916 adding 'galaxy/tools/bundled/maf/__init__.py' 2025-12-17T14:20:55,917 adding 'galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml' 2025-12-17T14:20:55,919 adding 'galaxy/tools/bundled/maf/interval2maf.py' 2025-12-17T14:20:55,920 adding 'galaxy/tools/bundled/maf/interval2maf.xml' 2025-12-17T14:20:55,922 adding 'galaxy/tools/bundled/maf/interval2maf_pairwise.xml' 2025-12-17T14:20:55,924 adding 'galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py' 2025-12-17T14:20:55,925 adding 'galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml' 2025-12-17T14:20:55,926 adding 'galaxy/tools/bundled/maf/macros.xml' 2025-12-17T14:20:55,928 adding 'galaxy/tools/bundled/maf/maf_by_block_number.py' 2025-12-17T14:20:55,929 adding 'galaxy/tools/bundled/maf/maf_by_block_number.xml' 2025-12-17T14:20:55,930 adding 'galaxy/tools/bundled/maf/maf_filter.py' 2025-12-17T14:20:55,932 adding 'galaxy/tools/bundled/maf/maf_filter.xml' 2025-12-17T14:20:55,933 adding 'galaxy/tools/bundled/maf/maf_limit_size.py' 2025-12-17T14:20:55,934 adding 'galaxy/tools/bundled/maf/maf_limit_size.xml' 2025-12-17T14:20:55,936 adding 'galaxy/tools/bundled/maf/maf_limit_to_species.py' 2025-12-17T14:20:55,937 adding 'galaxy/tools/bundled/maf/maf_limit_to_species.xml' 2025-12-17T14:20:55,938 adding 'galaxy/tools/bundled/maf/maf_reverse_complement.py' 2025-12-17T14:20:55,940 adding 'galaxy/tools/bundled/maf/maf_reverse_complement.xml' 2025-12-17T14:20:55,941 adding 'galaxy/tools/bundled/maf/maf_split_by_species.py' 2025-12-17T14:20:55,943 adding 'galaxy/tools/bundled/maf/maf_split_by_species.xml' 2025-12-17T14:20:55,944 adding 'galaxy/tools/bundled/maf/maf_stats.py' 2025-12-17T14:20:55,946 adding 'galaxy/tools/bundled/maf/maf_stats.xml' 2025-12-17T14:20:55,947 adding 'galaxy/tools/bundled/maf/maf_thread_for_species.py' 2025-12-17T14:20:55,949 adding 'galaxy/tools/bundled/maf/maf_thread_for_species.xml' 2025-12-17T14:20:55,950 adding 'galaxy/tools/bundled/maf/maf_to_bed.py' 2025-12-17T14:20:55,952 adding 'galaxy/tools/bundled/maf/maf_to_bed.xml' 2025-12-17T14:20:55,953 adding 'galaxy/tools/bundled/maf/maf_to_bed_code.py' 2025-12-17T14:20:55,955 adding 'galaxy/tools/bundled/maf/maf_to_fasta.xml' 2025-12-17T14:20:55,956 adding 'galaxy/tools/bundled/maf/maf_to_fasta_concat.py' 2025-12-17T14:20:55,957 adding 'galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py' 2025-12-17T14:20:55,959 adding 'galaxy/tools/bundled/maf/maf_to_interval.py' 2025-12-17T14:20:55,960 adding 'galaxy/tools/bundled/maf/maf_to_interval.xml' 2025-12-17T14:20:55,962 adding 'galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py' 2025-12-17T14:20:55,963 adding 'galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml' 2025-12-17T14:20:55,966 adding 'galaxy/tools/bundled/meme/meme.xml' 2025-12-17T14:20:55,968 adding 'galaxy/tools/bundled/metag_tools/__init__.py' 2025-12-17T14:20:55,969 adding 'galaxy/tools/bundled/metag_tools/blat_wrapper.py' 2025-12-17T14:20:55,970 adding 'galaxy/tools/bundled/metag_tools/blat_wrapper.xml' 2025-12-17T14:20:55,972 adding 'galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py' 2025-12-17T14:20:55,974 adding 'galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml' 2025-12-17T14:20:55,977 adding 'galaxy/tools/bundled/metag_tools/shrimp_wrapper.py' 2025-12-17T14:20:55,979 adding 'galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml' 2025-12-17T14:20:55,981 adding 'galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl' 2025-12-17T14:20:55,982 adding 'galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py' 2025-12-17T14:20:55,984 adding 'galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml' 2025-12-17T14:20:55,985 adding 'galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py' 2025-12-17T14:20:55,987 adding 'galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml' 2025-12-17T14:20:55,989 adding 'galaxy/tools/bundled/next_gen_conversion/solid2fastq.py' 2025-12-17T14:20:55,990 adding 'galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml' 2025-12-17T14:20:55,992 adding 'galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py' 2025-12-17T14:20:55,993 adding 'galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml' 2025-12-17T14:20:55,995 adding 'galaxy/tools/bundled/ngs_simulation/__init__.py' 2025-12-17T14:20:55,997 adding 'galaxy/tools/bundled/ngs_simulation/ngs_simulation.py' 2025-12-17T14:20:55,999 adding 'galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml' 2025-12-17T14:20:56,001 adding 'galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh' 2025-12-17T14:20:56,002 adding 'galaxy/tools/bundled/phenotype_association/__init__.py' 2025-12-17T14:20:56,004 adding 'galaxy/tools/bundled/phenotype_association/beam.xml' 2025-12-17T14:20:56,005 adding 'galaxy/tools/bundled/phenotype_association/gpass.pl' 2025-12-17T14:20:56,006 adding 'galaxy/tools/bundled/phenotype_association/gpass.xml' 2025-12-17T14:20:56,008 adding 'galaxy/tools/bundled/phenotype_association/ldtools.xml' 2025-12-17T14:20:56,009 adding 'galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh' 2025-12-17T14:20:56,011 adding 'galaxy/tools/bundled/phenotype_association/linkToDavid.pl' 2025-12-17T14:20:56,012 adding 'galaxy/tools/bundled/phenotype_association/linkToDavid.xml' 2025-12-17T14:20:56,013 adding 'galaxy/tools/bundled/phenotype_association/linkToGProfile.pl' 2025-12-17T14:20:56,015 adding 'galaxy/tools/bundled/phenotype_association/linkToGProfile.xml' 2025-12-17T14:20:56,016 adding 'galaxy/tools/bundled/phenotype_association/lped_to_geno.pl' 2025-12-17T14:20:56,019 adding 'galaxy/tools/bundled/phenotype_association/lps.xml' 2025-12-17T14:20:56,020 adding 'galaxy/tools/bundled/phenotype_association/lps_tool_wrapper.sh' 2025-12-17T14:20:56,022 adding 'galaxy/tools/bundled/phenotype_association/master2gd_snp.pl' 2025-12-17T14:20:56,023 adding 'galaxy/tools/bundled/phenotype_association/master2gd_snp.xml' 2025-12-17T14:20:56,025 adding 'galaxy/tools/bundled/phenotype_association/master2pg.pl' 2025-12-17T14:20:56,026 adding 'galaxy/tools/bundled/phenotype_association/master2pg.xml' 2025-12-17T14:20:56,028 adding 'galaxy/tools/bundled/phenotype_association/mergeSnps.pl' 2025-12-17T14:20:56,030 adding 'galaxy/tools/bundled/phenotype_association/pagetag.py' 2025-12-17T14:20:56,031 adding 'galaxy/tools/bundled/phenotype_association/pass.xml' 2025-12-17T14:20:56,033 adding 'galaxy/tools/bundled/phenotype_association/pass_wrapper.sh' 2025-12-17T14:20:56,034 adding 'galaxy/tools/bundled/phenotype_association/senatag.py' 2025-12-17T14:20:56,036 adding 'galaxy/tools/bundled/phenotype_association/sift.xml' 2025-12-17T14:20:56,038 adding 'galaxy/tools/bundled/phenotype_association/sift_variants_wrapper.sh' 2025-12-17T14:20:56,040 adding 'galaxy/tools/bundled/plotting/bar_chart.py' 2025-12-17T14:20:56,041 adding 'galaxy/tools/bundled/plotting/bar_chart.xml' 2025-12-17T14:20:56,042 adding 'galaxy/tools/bundled/plotting/boxplot.xml' 2025-12-17T14:20:56,044 adding 'galaxy/tools/bundled/solid_tools/__init__.py' 2025-12-17T14:20:56,046 adding 'galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py' 2025-12-17T14:20:56,047 adding 'galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml' 2025-12-17T14:20:56,049 adding 'galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py' 2025-12-17T14:20:56,050 adding 'galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh' 2025-12-17T14:20:56,051 adding 'galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml' 2025-12-17T14:20:56,053 adding 'galaxy/tools/bundled/solid_tools/solid_qual_stats.py' 2025-12-17T14:20:56,054 adding 'galaxy/tools/bundled/solid_tools/solid_qual_stats.xml' 2025-12-17T14:20:56,056 adding 'galaxy/tools/bundled/sr_assembly/__init__.py' 2025-12-17T14:20:56,058 adding 'galaxy/tools/bundled/sr_assembly/velvetg.xml' 2025-12-17T14:20:56,060 adding 'galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py' 2025-12-17T14:20:56,061 adding 'galaxy/tools/bundled/sr_assembly/velveth.xml' 2025-12-17T14:20:56,063 adding 'galaxy/tools/bundled/sr_assembly/velveth_wrapper.py' 2025-12-17T14:20:56,066 adding 'galaxy/tools/bundled/sr_mapping/PerM.xml' 2025-12-17T14:20:56,067 adding 'galaxy/tools/bundled/sr_mapping/__init__.py' 2025-12-17T14:20:56,070 adding 'galaxy/tools/bundled/sr_mapping/bfast_wrapper.py' 2025-12-17T14:20:56,072 adding 'galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml' 2025-12-17T14:20:56,074 adding 'galaxy/tools/bundled/sr_mapping/fastq_statistics.xml' 2025-12-17T14:20:56,076 adding 'galaxy/tools/bundled/sr_mapping/mosaik.xml' 2025-12-17T14:20:56,077 adding 'galaxy/tools/bundled/sr_mapping/srma_wrapper.py' 2025-12-17T14:20:56,079 adding 'galaxy/tools/bundled/sr_mapping/srma_wrapper.xml' 2025-12-17T14:20:56,081 adding 'galaxy/tools/bundled/stats/__init__.py' 2025-12-17T14:20:56,082 adding 'galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml' 2025-12-17T14:20:56,084 adding 'galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py' 2025-12-17T14:20:56,086 adding 'galaxy/tools/bundled/stats/filtering.py' 2025-12-17T14:20:56,088 adding 'galaxy/tools/bundled/stats/filtering.xml' 2025-12-17T14:20:56,089 adding 'galaxy/tools/bundled/stats/filtering_1_1_0.xml' 2025-12-17T14:20:56,091 adding 'galaxy/tools/bundled/stats/grouping.py' 2025-12-17T14:20:56,092 adding 'galaxy/tools/bundled/stats/grouping.xml' 2025-12-17T14:20:56,094 adding 'galaxy/tools/bundled/stats/gsummary.py' 2025-12-17T14:20:56,096 adding 'galaxy/tools/bundled/stats/gsummary.xml' 2025-12-17T14:20:56,097 adding 'galaxy/tools/bundled/stats/r_wrapper.sh' 2025-12-17T14:20:56,099 adding 'galaxy/tools/data/__init__.py' 2025-12-17T14:20:56,101 adding 'galaxy/tools/data_manager/__init__.py' 2025-12-17T14:20:56,103 adding 'galaxy/tools/data_manager/manager.py' 2025-12-17T14:20:56,105 adding 'galaxy/tools/error_reports/__init__.py' 2025-12-17T14:20:56,107 adding 'galaxy/tools/error_reports/plugins/__init__.py' 2025-12-17T14:20:56,108 adding 'galaxy/tools/error_reports/plugins/base_git.py' 2025-12-17T14:20:56,110 adding 'galaxy/tools/error_reports/plugins/email.py' 2025-12-17T14:20:56,111 adding 'galaxy/tools/error_reports/plugins/github.py' 2025-12-17T14:20:56,113 adding 'galaxy/tools/error_reports/plugins/gitlab.py' 2025-12-17T14:20:56,115 adding 'galaxy/tools/error_reports/plugins/influxdb.py' 2025-12-17T14:20:56,116 adding 'galaxy/tools/error_reports/plugins/json.py' 2025-12-17T14:20:56,117 adding 'galaxy/tools/error_reports/plugins/sentry.py' 2025-12-17T14:20:56,119 adding 'galaxy/tools/error_reports/plugins/slack.py' 2025-12-17T14:20:56,120 adding 'galaxy/tools/expressions/__init__.py' 2025-12-17T14:20:56,122 adding 'galaxy/tools/expressions/cwlNodeEngine.js' 2025-12-17T14:20:56,123 adding 'galaxy/tools/expressions/evaluation.py' 2025-12-17T14:20:56,124 adding 'galaxy/tools/expressions/script.py' 2025-12-17T14:20:56,125 adding 'galaxy/tools/expressions/util.py' 2025-12-17T14:20:56,127 adding 'galaxy/tools/fetch/__init__.py' 2025-12-17T14:20:56,129 adding 'galaxy/tools/fetch/workbooks.py' 2025-12-17T14:20:56,131 adding 'galaxy/tools/filters/__init__.py' 2025-12-17T14:20:56,133 adding 'galaxy/tools/imp_exp/__init__.py' 2025-12-17T14:20:56,134 adding 'galaxy/tools/imp_exp/exp_history_to_archive.xml' 2025-12-17T14:20:56,135 adding 'galaxy/tools/imp_exp/exp_history_to_uri.xml' 2025-12-17T14:20:56,136 adding 'galaxy/tools/imp_exp/export_history.py' 2025-12-17T14:20:56,138 adding 'galaxy/tools/imp_exp/imp_history_from_archive.xml' 2025-12-17T14:20:56,139 adding 'galaxy/tools/imp_exp/unpack_tar_gz_archive.py' 2025-12-17T14:20:56,143 adding 'galaxy/tools/parameters/__init__.py' 2025-12-17T14:20:56,156 adding 'galaxy/tools/parameters/basic.py' 2025-12-17T14:20:56,158 adding 'galaxy/tools/parameters/cancelable_request.py' 2025-12-17T14:20:56,160 adding 'galaxy/tools/parameters/dataset_matcher.py' 2025-12-17T14:20:56,165 adding 'galaxy/tools/parameters/dynamic_options.py' 2025-12-17T14:20:56,169 adding 'galaxy/tools/parameters/grouping.py' 2025-12-17T14:20:56,171 adding 'galaxy/tools/parameters/input_translation.py' 2025-12-17T14:20:56,173 adding 'galaxy/tools/parameters/meta.py' 2025-12-17T14:20:56,174 adding 'galaxy/tools/parameters/options.py' 2025-12-17T14:20:56,176 adding 'galaxy/tools/parameters/populate_model.py' 2025-12-17T14:20:56,177 adding 'galaxy/tools/parameters/sanitize.py' 2025-12-17T14:20:56,179 adding 'galaxy/tools/parameters/validation.py' 2025-12-17T14:20:56,181 adding 'galaxy/tools/parameters/workflow_utils.py' 2025-12-17T14:20:56,182 adding 'galaxy/tools/parameters/wrapped.py' 2025-12-17T14:20:56,184 adding 'galaxy/tools/parameters/wrapped_json.py' 2025-12-17T14:20:56,187 adding 'galaxy/tools/search/__init__.py' 2025-12-17T14:20:56,189 adding 'galaxy/tools/util/__init__.py' 2025-12-17T14:20:56,193 adding 'galaxy/tools/util/maf_utilities.py' 2025-12-17T14:20:56,195 adding 'galaxy/tools/util/galaxyops/__init__.py' 2025-12-17T14:20:56,197 adding 'galaxy/visualization/__init__.py' 2025-12-17T14:20:56,199 adding 'galaxy/visualization/genomes.py' 2025-12-17T14:20:56,200 adding 'galaxy/visualization/data_providers/__init__.py' 2025-12-17T14:20:56,202 adding 'galaxy/visualization/data_providers/basic.py' 2025-12-17T14:20:56,203 adding 'galaxy/visualization/data_providers/cigar.py' 2025-12-17T14:20:56,210 adding 'galaxy/visualization/data_providers/genome.py' 2025-12-17T14:20:56,212 adding 'galaxy/visualization/data_providers/registry.py' 2025-12-17T14:20:56,214 adding 'galaxy/visualization/data_providers/phyloviz/__init__.py' 2025-12-17T14:20:56,216 adding 'galaxy/visualization/data_providers/phyloviz/baseparser.py' 2025-12-17T14:20:56,217 adding 'galaxy/visualization/data_providers/phyloviz/newickparser.py' 2025-12-17T14:20:56,219 adding 'galaxy/visualization/data_providers/phyloviz/nexusparser.py' 2025-12-17T14:20:56,220 adding 'galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py' 2025-12-17T14:20:56,222 adding 'galaxy/visualization/genome/__init__.py' 2025-12-17T14:20:56,224 adding 'galaxy/visualization/plugins/__init__.py' 2025-12-17T14:20:56,227 adding 'galaxy/visualization/plugins/config_parser.py' 2025-12-17T14:20:56,228 adding 'galaxy/visualization/plugins/datasource_testing.py' 2025-12-17T14:20:56,230 adding 'galaxy/visualization/plugins/plugin.py' 2025-12-17T14:20:56,232 adding 'galaxy/visualization/plugins/registry.py' 2025-12-17T14:20:56,234 adding 'galaxy/visualization/plugins/resource_parser.py' 2025-12-17T14:20:56,235 adding 'galaxy/visualization/plugins/utils.py' 2025-12-17T14:20:56,237 adding 'galaxy/visualization/tracks/__init__.py' 2025-12-17T14:20:56,239 adding 'galaxy/webhooks/__init__.py' 2025-12-17T14:20:56,240 adding 'galaxy/work/__init__.py' 2025-12-17T14:20:56,242 adding 'galaxy/work/context.py' 2025-12-17T14:20:56,243 adding 'galaxy/workflow/__init__.py' 2025-12-17T14:20:56,245 adding 'galaxy/workflow/errors.py' 2025-12-17T14:20:56,247 adding 'galaxy/workflow/extract.py' 2025-12-17T14:20:56,262 adding 'galaxy/workflow/modules.py' 2025-12-17T14:20:56,264 adding 'galaxy/workflow/render.py' 2025-12-17T14:20:56,268 adding 'galaxy/workflow/run.py' 2025-12-17T14:20:56,272 adding 'galaxy/workflow/run_request.py' 2025-12-17T14:20:56,274 adding 'galaxy/workflow/scheduling_manager.py' 2025-12-17T14:20:56,276 adding 'galaxy/workflow/steps.py' 2025-12-17T14:20:56,277 adding 'galaxy/workflow/trs_proxy.py' 2025-12-17T14:20:56,279 adding 'galaxy/workflow/workflow_parameter_input_definitions.py' 2025-12-17T14:20:56,280 adding 'galaxy/workflow/refactor/__init__.py' 2025-12-17T14:20:56,284 adding 'galaxy/workflow/refactor/execute.py' 2025-12-17T14:20:56,286 adding 'galaxy/workflow/refactor/schema.py' 2025-12-17T14:20:56,287 adding 'galaxy/workflow/reports/__init__.py' 2025-12-17T14:20:56,289 adding 'galaxy/workflow/reports/generators/__init__.py' 2025-12-17T14:20:56,290 adding 'galaxy/workflow/reports/generators/markdown.py' 2025-12-17T14:20:56,292 adding 'galaxy/workflow/resources/__init__.py' 2025-12-17T14:20:56,294 adding 'galaxy/workflow/resources/example.py.sample' 2025-12-17T14:20:56,295 adding 'galaxy/workflow/schedulers/__init__.py' 2025-12-17T14:20:56,297 adding 'galaxy/workflow/schedulers/core.py' 2025-12-17T14:20:56,300 adding 'galaxy_app-25.1.0.dist-info/licenses/LICENSE' 2025-12-17T14:20:56,302 adding 'galaxy_ext/__init__.py' 2025-12-17T14:20:56,303 adding 'galaxy_ext/py.typed' 2025-12-17T14:20:56,305 adding 'galaxy_ext/container_monitor/__init__.py' 2025-12-17T14:20:56,306 adding 'galaxy_ext/container_monitor/monitor.py' 2025-12-17T14:20:56,307 adding 'galaxy_ext/expressions/__init__.py' 2025-12-17T14:20:56,308 adding 'galaxy_ext/expressions/handle_job.py' 2025-12-17T14:20:56,310 adding 'galaxy_ext/metadata/__init__.py' 2025-12-17T14:20:56,311 adding 'galaxy_ext/metadata/set_metadata.py' 2025-12-17T14:20:56,313 adding 'tool_shed_client/__init__.py' 2025-12-17T14:20:56,314 adding 'tool_shed_client/py.typed' 2025-12-17T14:20:56,315 adding 'tool_shed_client/trs_util.py' 2025-12-17T14:20:56,318 adding 'tool_shed_client/schema/__init__.py' 2025-12-17T14:20:56,320 adding 'tool_shed_client/schema/trs.py' 2025-12-17T14:20:56,321 adding 'tool_shed_client/schema/trs_service_info.py' 2025-12-17T14:20:56,335 adding 'galaxy_app-25.1.0.dist-info/METADATA' 2025-12-17T14:20:56,337 adding 'galaxy_app-25.1.0.dist-info/WHEEL' 2025-12-17T14:20:56,338 adding 'galaxy_app-25.1.0.dist-info/entry_points.txt' 2025-12-17T14:20:56,339 adding 'galaxy_app-25.1.0.dist-info/top_level.txt' 2025-12-17T14:20:56,349 adding 'galaxy_app-25.1.0.dist-info/RECORD' 2025-12-17T14:20:56,372 removing build/bdist.linux-armv7l/wheel 2025-12-17T14:20:56,651 Building wheel for galaxy-app (pyproject.toml): finished with status 'done' 2025-12-17T14:20:56,686 Created wheel for galaxy-app: filename=galaxy_app-25.1.0-py3-none-any.whl size=1575147 sha256=c29efe70b9321aabf3211b8d2989ffcd791cf8f68f30e2b1bec4deac58d3afca 2025-12-17T14:20:56,687 Stored in directory: /tmp/pip-ephem-wheel-cache-eqghwh1o/wheels/11/81/dc/a6500ded49e8677ece3dd8be7fc8ccae04291c8380c1e15463 2025-12-17T14:20:56,751 Successfully built galaxy-app 2025-12-17T14:20:56,790 Removed build tracker: '/tmp/pip-build-tracker-qywpdmvg'