2026-03-09T19:08:36,337 Created temporary directory: /tmp/pip-ephem-wheel-cache-v3_xcvv3 2026-03-09T19:08:36,339 Created temporary directory: /tmp/pip-build-tracker-_qyanr72 2026-03-09T19:08:36,340 Initialized build tracking at /tmp/pip-build-tracker-_qyanr72 2026-03-09T19:08:36,340 Created build tracker: /tmp/pip-build-tracker-_qyanr72 2026-03-09T19:08:36,341 Entered build tracker: /tmp/pip-build-tracker-_qyanr72 2026-03-09T19:08:36,342 Created temporary directory: /tmp/pip-wheel-rae7y6pv 2026-03-09T19:08:36,345 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-03-09T19:08:36,347 Created temporary directory: /tmp/pip-ephem-wheel-cache-74dfl5x8 2026-03-09T19:08:36,372 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-03-09T19:08:36,375 2 location(s) to search for versions of galaxy-app: 2026-03-09T19:08:36,375 * https://pypi.org/simple/galaxy-app/ 2026-03-09T19:08:36,375 * https://www.piwheels.org/simple/galaxy-app/ 2026-03-09T19:08:36,376 Fetching project page and analyzing links: https://pypi.org/simple/galaxy-app/ 2026-03-09T19:08:36,377 Getting page https://pypi.org/simple/galaxy-app/ 2026-03-09T19:08:36,378 Found index url https://pypi.org/simple 2026-03-09T19:08:36,589 Fetched page https://pypi.org/simple/galaxy-app/ as application/vnd.pypi.simple.v1+json 2026-03-09T19:08:36,604 Found link https://files.pythonhosted.org/packages/cd/3d/994b7f4faaee2a95a31af125e96734f3daa9f39e6decd0f7a09950ef686c/galaxy-app-20.5.0.tar.gz (from 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2026-03-09T19:08:36,654 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) 2026-03-09T19:08:36,655 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 2026-03-09T19:08:36,656 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) 2026-03-09T19:08:36,657 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 2026-03-09T19:08:36,658 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) 2026-03-09T19:08:36,659 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 2026-03-09T19:08:36,659 Skipping link: No binaries permitted for galaxy-app: https://files.pythonhosted.org/packages/51/7f/a5520e446153a7ffe588d08a9808da189ffce5a6a1bc7c46e62fc2880754/galaxy_app-25.1.1-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2026-03-09T19:08:36,660 Found link https://files.pythonhosted.org/packages/45/a7/76ba5e233d7828531073073b9a2491137b4420e536537ba5b410aef1ab44/galaxy_app-25.1.1.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.1.1 2026-03-09T19:08:36,661 Skipping link: No binaries permitted for galaxy-app: https://files.pythonhosted.org/packages/b7/01/4fd550fb22b85840cf3741fd99fa631724dd956ad66d2e17c7c408abbc4f/galaxy_app-25.1.2-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2026-03-09T19:08:36,661 Found link https://files.pythonhosted.org/packages/3c/7e/ef85205d291604410e6b45db4ff424961aa98be054f7a206b8533b6d4921/galaxy_app-25.1.2.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.1.2 2026-03-09T19:08:36,662 Fetching project page and analyzing links: https://www.piwheels.org/simple/galaxy-app/ 2026-03-09T19:08:36,663 Getting page https://www.piwheels.org/simple/galaxy-app/ 2026-03-09T19:08:36,664 Found index url 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https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.9) 2026-03-09T19:08:36,841 Skipping link: No binaries permitted for galaxy-app: https://archive1.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) 2026-03-09T19:08:36,842 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) 2026-03-09T19:08:36,842 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-25.0.2-py3-none-any.whl#sha256=1e3f189cee180e2fb5873cfebb1a4a809f2ee29b3ab97d58f8dd4cec10c58f88 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.9) 2026-03-09T19:08:36,843 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-25.0.1-py3-none-any.whl#sha256=db65704931391b255be6095318fcea22959466ef8c965457afd4c1772a310ce2 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.9) 2026-03-09T19:08:36,843 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-25.0.0-py3-none-any.whl#sha256=cd1b1be2caf5332d4378212d6ca6e225b967ea44c56934a31156ebb75a2d3bea (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.9) 2026-03-09T19:08:36,844 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-24.2.4-py3-none-any.whl#sha256=b96734c33f37549375a1182d6741d5e83f6a48278f7bed5f8e0787ebcbf34cdd (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.8) 2026-03-09T19:08:36,844 Skipping link: No binaries permitted for galaxy-app: 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https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-20.9.0-py2.py3-none-any.whl#sha256=d6b3897be5b3c63e0c7f914f9ce7df087cb3df8fa6d55b1475c7d933cdb09a29 (from https://www.piwheels.org/simple/galaxy-app/) 2026-03-09T19:08:36,857 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-20.5.0-py2.py3-none-any.whl#sha256=2aa533c8296a5843fd06ce934c7c817845b12286e6b62fb94bb685f0259d9ad0 (from https://www.piwheels.org/simple/galaxy-app/) 2026-03-09T19:08:36,857 Skipping link: not a file: https://www.piwheels.org/simple/galaxy-app/ 2026-03-09T19:08:36,858 Skipping link: not a file: https://pypi.org/simple/galaxy-app/ 2026-03-09T19:08:36,882 Given no hashes to check 1 links for project 'galaxy-app': discarding no candidates 2026-03-09T19:08:36,902 Collecting galaxy-app==25.1.2 2026-03-09T19:08:36,904 Created temporary directory: /tmp/pip-unpack-uifahjll 2026-03-09T19:08:37,035 Downloading galaxy_app-25.1.2.tar.gz (1.3 MB) 2026-03-09T19:08:38,535 Added galaxy-app==25.1.2 from https://files.pythonhosted.org/packages/3c/7e/ef85205d291604410e6b45db4ff424961aa98be054f7a206b8533b6d4921/galaxy_app-25.1.2.tar.gz to build tracker '/tmp/pip-build-tracker-_qyanr72' 2026-03-09T19:08:38,538 Created temporary directory: /tmp/pip-build-env-ayg7u9ul 2026-03-09T19:08:38,543 Installing build dependencies: started 2026-03-09T19:08:38,544 Running command pip subprocess to install build dependencies 2026-03-09T19:08:39,680 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-03-09T19:08:40,250 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-03-09T19:08:40,274 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-03-09T19:08:42,020 Collecting setuptools 2026-03-09T19:08:42,096 Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB) 2026-03-09T19:08:45,080 Installing collected packages: setuptools 2026-03-09T19:08:48,164 Successfully installed setuptools-82.0.1 2026-03-09T19:08:48,430 Installing build dependencies: finished with status 'done' 2026-03-09T19:08:48,436 Getting requirements to build wheel: started 2026-03-09T19:08:48,437 Running command Getting requirements to build wheel 2026-03-09T19:08:49,044 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-03-09T19:08:49,045 !! 2026-03-09T19:08:49,046 ******************************************************************************** 2026-03-09T19:08:49,046 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-03-09T19:08:49,048 License :: OSI Approved :: Academic Free License (AFL) 2026-03-09T19:08:49,049 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-03-09T19:08:49,049 ******************************************************************************** 2026-03-09T19:08:49,051 !! 2026-03-09T19:08:49,051 self._finalize_license_expression() 2026-03-09T19:08:49,125 running egg_info 2026-03-09T19:08:49,131 writing galaxy_app.egg-info/PKG-INFO 2026-03-09T19:08:49,144 writing dependency_links to galaxy_app.egg-info/dependency_links.txt 2026-03-09T19:08:49,146 writing entry points to galaxy_app.egg-info/entry_points.txt 2026-03-09T19:08:49,148 writing requirements to galaxy_app.egg-info/requires.txt 2026-03-09T19:08:49,150 writing top-level names to galaxy_app.egg-info/top_level.txt 2026-03-09T19:08:49,244 reading manifest file 'galaxy_app.egg-info/SOURCES.txt' 2026-03-09T19:08:49,313 reading manifest template 'MANIFEST.in' 2026-03-09T19:08:49,827 adding license file 'LICENSE' 2026-03-09T19:08:49,857 writing manifest file 'galaxy_app.egg-info/SOURCES.txt' 2026-03-09T19:08:49,949 Getting requirements to build wheel: finished with status 'done' 2026-03-09T19:08:49,953 Created temporary directory: /tmp/pip-modern-metadata-1gvu6qg5 2026-03-09T19:08:49,955 Preparing metadata (pyproject.toml): started 2026-03-09T19:08:49,956 Running command Preparing metadata (pyproject.toml) 2026-03-09T19:08:50,561 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-03-09T19:08:50,561 !! 2026-03-09T19:08:50,562 ******************************************************************************** 2026-03-09T19:08:50,563 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-03-09T19:08:50,564 License :: OSI Approved :: Academic Free License (AFL) 2026-03-09T19:08:50,564 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-03-09T19:08:50,565 ******************************************************************************** 2026-03-09T19:08:50,566 !! 2026-03-09T19:08:50,566 self._finalize_license_expression() 2026-03-09T19:08:50,585 running dist_info 2026-03-09T19:08:50,596 creating /tmp/pip-modern-metadata-1gvu6qg5/galaxy_app.egg-info 2026-03-09T19:08:50,597 writing /tmp/pip-modern-metadata-1gvu6qg5/galaxy_app.egg-info/PKG-INFO 2026-03-09T19:08:50,608 writing dependency_links to /tmp/pip-modern-metadata-1gvu6qg5/galaxy_app.egg-info/dependency_links.txt 2026-03-09T19:08:50,610 writing entry points to /tmp/pip-modern-metadata-1gvu6qg5/galaxy_app.egg-info/entry_points.txt 2026-03-09T19:08:50,612 writing requirements to /tmp/pip-modern-metadata-1gvu6qg5/galaxy_app.egg-info/requires.txt 2026-03-09T19:08:50,613 writing top-level names to /tmp/pip-modern-metadata-1gvu6qg5/galaxy_app.egg-info/top_level.txt 2026-03-09T19:08:50,614 writing manifest file '/tmp/pip-modern-metadata-1gvu6qg5/galaxy_app.egg-info/SOURCES.txt' 2026-03-09T19:08:50,693 reading manifest file '/tmp/pip-modern-metadata-1gvu6qg5/galaxy_app.egg-info/SOURCES.txt' 2026-03-09T19:08:50,695 reading manifest template 'MANIFEST.in' 2026-03-09T19:08:51,213 adding license file 'LICENSE' 2026-03-09T19:08:51,235 writing manifest file '/tmp/pip-modern-metadata-1gvu6qg5/galaxy_app.egg-info/SOURCES.txt' 2026-03-09T19:08:51,236 creating '/tmp/pip-modern-metadata-1gvu6qg5/galaxy_app-25.1.2.dist-info' 2026-03-09T19:08:51,370 Preparing metadata (pyproject.toml): finished with status 'done' 2026-03-09T19:08:51,386 Source in /tmp/pip-wheel-rae7y6pv/galaxy-app_18a97e64ba894fd0b3fbd5b47726be19 has version 25.1.2, which satisfies requirement galaxy-app==25.1.2 from https://files.pythonhosted.org/packages/3c/7e/ef85205d291604410e6b45db4ff424961aa98be054f7a206b8533b6d4921/galaxy_app-25.1.2.tar.gz 2026-03-09T19:08:51,387 Removed galaxy-app==25.1.2 from https://files.pythonhosted.org/packages/3c/7e/ef85205d291604410e6b45db4ff424961aa98be054f7a206b8533b6d4921/galaxy_app-25.1.2.tar.gz from build tracker '/tmp/pip-build-tracker-_qyanr72' 2026-03-09T19:08:51,415 Created temporary directory: /tmp/pip-unpack-skd23cet 2026-03-09T19:08:51,416 Building wheels for collected packages: galaxy-app 2026-03-09T19:08:51,420 Created temporary directory: /tmp/pip-wheel-mkgibxdz 2026-03-09T19:08:51,421 Destination directory: /tmp/pip-wheel-mkgibxdz 2026-03-09T19:08:51,423 Building wheel for galaxy-app (pyproject.toml): started 2026-03-09T19:08:51,424 Running command Building wheel for galaxy-app (pyproject.toml) 2026-03-09T19:08:51,992 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-03-09T19:08:51,992 !! 2026-03-09T19:08:51,993 ******************************************************************************** 2026-03-09T19:08:51,994 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-03-09T19:08:51,996 License :: OSI Approved :: Academic Free License (AFL) 2026-03-09T19:08:51,997 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-03-09T19:08:51,997 ******************************************************************************** 2026-03-09T19:08:51,998 !! 2026-03-09T19:08:51,999 self._finalize_license_expression() 2026-03-09T19:08:52,018 running bdist_wheel 2026-03-09T19:08:52,044 running build 2026-03-09T19:08:52,045 running build_py 2026-03-09T19:08:52,054 creating build/lib/galaxy 2026-03-09T19:08:52,056 copying galaxy/queue_worker.py -> build/lib/galaxy 2026-03-09T19:08:52,059 copying galaxy/config_watchers.py -> build/lib/galaxy 2026-03-09T19:08:52,061 copying galaxy/structured_app.py -> build/lib/galaxy 2026-03-09T19:08:52,063 copying galaxy/queues.py -> build/lib/galaxy 2026-03-09T19:08:52,065 copying galaxy/main_config.py -> build/lib/galaxy 2026-03-09T19:08:52,067 copying galaxy/__init__.py -> build/lib/galaxy 2026-03-09T19:08:52,069 copying galaxy/app.py -> build/lib/galaxy 2026-03-09T19:08:52,071 copying galaxy/di.py -> build/lib/galaxy 2026-03-09T19:08:52,073 copying galaxy/main.py -> build/lib/galaxy 2026-03-09T19:08:52,076 creating build/lib/galaxy_ext 2026-03-09T19:08:52,077 copying galaxy_ext/__init__.py -> build/lib/galaxy_ext 2026-03-09T19:08:52,079 creating build/lib/tool_shed_client 2026-03-09T19:08:52,080 copying tool_shed_client/__init__.py -> build/lib/tool_shed_client 2026-03-09T19:08:52,082 copying tool_shed_client/trs_util.py -> build/lib/tool_shed_client 2026-03-09T19:08:52,084 creating build/lib/galaxy/tool_shed 2026-03-09T19:08:52,085 copying galaxy/tool_shed/repository_type.py -> build/lib/galaxy/tool_shed 2026-03-09T19:08:52,088 copying galaxy/tool_shed/cache.py -> build/lib/galaxy/tool_shed 2026-03-09T19:08:52,089 copying galaxy/tool_shed/__init__.py -> build/lib/galaxy/tool_shed 2026-03-09T19:08:52,092 creating build/lib/galaxy/carbon_emissions 2026-03-09T19:08:52,093 copying galaxy/carbon_emissions/__init__.py -> build/lib/galaxy/carbon_emissions 2026-03-09T19:08:52,095 creating build/lib/galaxy/jobs 2026-03-09T19:08:52,096 copying galaxy/jobs/stock_rules.py -> build/lib/galaxy/jobs 2026-03-09T19:08:52,099 copying galaxy/jobs/mapper.py -> build/lib/galaxy/jobs 2026-03-09T19:08:52,101 copying galaxy/jobs/handler.py -> build/lib/galaxy/jobs 2026-03-09T19:08:52,105 copying galaxy/jobs/rule_helper.py -> build/lib/galaxy/jobs 2026-03-09T19:08:52,107 copying galaxy/jobs/__init__.py -> build/lib/galaxy/jobs 2026-03-09T19:08:52,150 copying galaxy/jobs/dynamic_tool_destination.py -> build/lib/galaxy/jobs 2026-03-09T19:08:52,154 copying galaxy/jobs/manager.py -> build/lib/galaxy/jobs 2026-03-09T19:08:52,156 copying galaxy/jobs/command_factory.py -> build/lib/galaxy/jobs 2026-03-09T19:08:52,159 creating build/lib/galaxy/webhooks 2026-03-09T19:08:52,160 copying galaxy/webhooks/__init__.py -> build/lib/galaxy/webhooks 2026-03-09T19:08:52,162 creating build/lib/galaxy/dependencies 2026-03-09T19:08:52,163 copying galaxy/dependencies/script.py -> build/lib/galaxy/dependencies 2026-03-09T19:08:52,165 copying galaxy/dependencies/__init__.py -> build/lib/galaxy/dependencies 2026-03-09T19:08:52,168 creating build/lib/galaxy/celery 2026-03-09T19:08:52,169 copying galaxy/celery/_serialization.py -> build/lib/galaxy/celery 2026-03-09T19:08:52,171 copying galaxy/celery/tasks.py -> build/lib/galaxy/celery 2026-03-09T19:08:52,174 copying galaxy/celery/__init__.py -> build/lib/galaxy/celery 2026-03-09T19:08:52,176 copying galaxy/celery/base_task.py -> build/lib/galaxy/celery 2026-03-09T19:08:52,179 creating build/lib/galaxy/app_unittest_utils 2026-03-09T19:08:52,180 copying galaxy/app_unittest_utils/tools_support.py -> build/lib/galaxy/app_unittest_utils 2026-03-09T19:08:52,182 copying galaxy/app_unittest_utils/__init__.py -> build/lib/galaxy/app_unittest_utils 2026-03-09T19:08:52,184 copying galaxy/app_unittest_utils/galaxy_mock.py -> build/lib/galaxy/app_unittest_utils 2026-03-09T19:08:52,187 copying galaxy/app_unittest_utils/toolbox_support.py -> build/lib/galaxy/app_unittest_utils 2026-03-09T19:08:52,190 creating build/lib/galaxy/actions 2026-03-09T19:08:52,191 copying galaxy/actions/__init__.py -> build/lib/galaxy/actions 2026-03-09T19:08:52,193 copying galaxy/actions/library.py -> build/lib/galaxy/actions 2026-03-09T19:08:52,197 creating build/lib/galaxy/work 2026-03-09T19:08:52,199 copying galaxy/work/__init__.py -> build/lib/galaxy/work 2026-03-09T19:08:52,201 copying galaxy/work/context.py -> build/lib/galaxy/work 2026-03-09T19:08:52,204 creating build/lib/galaxy/authnz 2026-03-09T19:08:52,205 copying galaxy/authnz/tapis.py -> build/lib/galaxy/authnz 2026-03-09T19:08:52,208 copying galaxy/authnz/psa_authnz.py -> build/lib/galaxy/authnz 2026-03-09T19:08:52,211 copying galaxy/authnz/custos_authnz.py -> build/lib/galaxy/authnz 2026-03-09T19:08:52,214 copying galaxy/authnz/managers.py -> build/lib/galaxy/authnz 2026-03-09T19:08:52,217 copying galaxy/authnz/util.py -> build/lib/galaxy/authnz 2026-03-09T19:08:52,222 copying galaxy/authnz/__init__.py -> build/lib/galaxy/authnz 2026-03-09T19:08:52,224 creating build/lib/galaxy/forms 2026-03-09T19:08:52,225 copying galaxy/forms/__init__.py -> build/lib/galaxy/forms 2026-03-09T19:08:52,227 copying galaxy/forms/forms.py -> build/lib/galaxy/forms 2026-03-09T19:08:52,230 creating build/lib/galaxy/workflow 2026-03-09T19:08:52,231 copying galaxy/workflow/run.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,234 copying galaxy/workflow/run_request.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,236 copying galaxy/workflow/render.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,238 copying galaxy/workflow/workflow_parameter_input_definitions.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,240 copying galaxy/workflow/trs_proxy.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,243 copying galaxy/workflow/steps.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,245 copying galaxy/workflow/extract.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,247 copying galaxy/workflow/modules.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,251 copying galaxy/workflow/__init__.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,253 copying galaxy/workflow/scheduling_manager.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,255 copying galaxy/workflow/errors.py -> build/lib/galaxy/workflow 2026-03-09T19:08:52,258 creating build/lib/galaxy/visualization 2026-03-09T19:08:52,259 copying galaxy/visualization/genomes.py -> build/lib/galaxy/visualization 2026-03-09T19:08:52,262 copying galaxy/visualization/__init__.py -> build/lib/galaxy/visualization 2026-03-09T19:08:52,264 creating build/lib/galaxy/short_term_storage 2026-03-09T19:08:52,265 copying galaxy/short_term_storage/__init__.py -> build/lib/galaxy/short_term_storage 2026-03-09T19:08:52,270 creating build/lib/galaxy/managers 2026-03-09T19:08:52,271 copying galaxy/managers/remote_files.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,274 copying galaxy/managers/collections_util.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,276 copying galaxy/managers/item_tags.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,278 copying galaxy/managers/citations.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,281 copying galaxy/managers/group_roles.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,283 copying galaxy/managers/secured.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,285 copying galaxy/managers/landing.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,288 copying galaxy/managers/base.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,291 copying galaxy/managers/annotatable.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,293 copying galaxy/managers/visualizations.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,296 copying galaxy/managers/tool_data.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,298 copying galaxy/managers/rbac_secured.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,301 copying galaxy/managers/markdown_parse.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,303 copying galaxy/managers/deletable.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,305 copying galaxy/managers/tours.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,308 copying galaxy/managers/configuration.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,310 copying galaxy/managers/session.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,312 copying galaxy/managers/_config_templates.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,315 copying galaxy/managers/genomes.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,317 copying galaxy/managers/tags.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,319 copying galaxy/managers/sharable.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,321 copying galaxy/managers/group_users.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,323 copying galaxy/managers/dbkeys.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,326 copying galaxy/managers/quotas.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,328 copying galaxy/managers/notification.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,331 copying galaxy/managers/collections.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,335 copying galaxy/managers/jobs.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,339 copying galaxy/managers/roles.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,341 copying galaxy/managers/tasks.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,343 copying galaxy/managers/credentials.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,346 copying galaxy/managers/groups.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,348 copying galaxy/managers/metrics.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,350 copying galaxy/managers/histories.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,353 copying galaxy/managers/lddas.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,355 copying galaxy/managers/executables.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,357 copying galaxy/managers/__init__.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,359 copying galaxy/managers/licenses.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,361 copying galaxy/managers/forms.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,363 copying galaxy/managers/api_keys.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,364 copying galaxy/managers/tools.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,367 copying galaxy/managers/context.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,369 copying galaxy/managers/library_datasets.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,372 copying galaxy/managers/hdcas.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,375 copying galaxy/managers/datasets.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,378 copying galaxy/managers/users.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,381 copying galaxy/managers/model_stores.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,384 copying galaxy/managers/object_store_instances.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,386 copying galaxy/managers/export_tracker.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,388 copying galaxy/managers/hdas.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,391 copying galaxy/managers/workflows.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,395 copying galaxy/managers/pages.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,397 copying galaxy/managers/interactivetool.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,400 copying galaxy/managers/folders.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,403 copying galaxy/managers/display_applications.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,405 copying galaxy/managers/job_connections.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,407 copying galaxy/managers/file_source_instances.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,411 copying galaxy/managers/markdown_util.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,414 copying galaxy/managers/chat.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,416 copying galaxy/managers/ratable.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,418 copying galaxy/managers/taggable.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,420 copying galaxy/managers/libraries.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,422 copying galaxy/managers/history_contents.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,426 copying galaxy/managers/datatypes.py -> build/lib/galaxy/managers 2026-03-09T19:08:52,429 creating build/lib/galaxy/tools 2026-03-09T19:08:52,430 copying galaxy/tools/evaluation.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,434 copying galaxy/tools/wrappers.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,437 copying galaxy/tools/execution_helpers.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,439 copying galaxy/tools/exception_handling.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,440 copying galaxy/tools/remote_tool_eval.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,443 copying galaxy/tools/special_tools.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,444 copying galaxy/tools/execute.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,449 copying galaxy/tools/cache.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,451 copying galaxy/tools/data_fetch.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,454 copying galaxy/tools/biotools.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,456 copying galaxy/tools/__init__.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,463 copying galaxy/tools/recommendations.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,467 copying galaxy/tools/stock.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,469 copying galaxy/tools/_types.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,471 copying galaxy/tools/errors.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,474 copying galaxy/tools/repositories.py -> build/lib/galaxy/tools 2026-03-09T19:08:52,476 creating build/lib/galaxy/tool_shed/unittest_utils 2026-03-09T19:08:52,477 copying galaxy/tool_shed/unittest_utils/__init__.py -> build/lib/galaxy/tool_shed/unittest_utils 2026-03-09T19:08:52,480 creating build/lib/galaxy/tool_shed/tools 2026-03-09T19:08:52,481 copying galaxy/tool_shed/tools/__init__.py -> build/lib/galaxy/tool_shed/tools 2026-03-09T19:08:52,483 copying galaxy/tool_shed/tools/tool_validator.py -> build/lib/galaxy/tool_shed/tools 2026-03-09T19:08:52,486 copying galaxy/tool_shed/tools/data_table_manager.py -> build/lib/galaxy/tool_shed/tools 2026-03-09T19:08:52,489 creating build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,490 copying galaxy/tool_shed/util/hg_util.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,493 copying galaxy/tool_shed/util/container_util.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,495 copying galaxy/tool_shed/util/utility_container_manager.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,498 copying galaxy/tool_shed/util/repository_util.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,501 copying galaxy/tool_shed/util/shed_util_common.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,503 copying galaxy/tool_shed/util/__init__.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,505 copying galaxy/tool_shed/util/tool_util.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,508 copying galaxy/tool_shed/util/metadata_util.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,510 copying galaxy/tool_shed/util/dependency_display.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,513 copying galaxy/tool_shed/util/tool_dependency_util.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,515 copying galaxy/tool_shed/util/basic_util.py -> build/lib/galaxy/tool_shed/util 2026-03-09T19:08:52,518 creating build/lib/galaxy/tool_shed/metadata 2026-03-09T19:08:52,519 copying galaxy/tool_shed/metadata/metadata_generator.py -> build/lib/galaxy/tool_shed/metadata 2026-03-09T19:08:52,524 copying galaxy/tool_shed/metadata/__init__.py -> build/lib/galaxy/tool_shed/metadata 2026-03-09T19:08:52,526 creating build/lib/galaxy/tool_shed/galaxy_install 2026-03-09T19:08:52,527 copying galaxy/tool_shed/galaxy_install/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-03-09T19:08:52,529 copying galaxy/tool_shed/galaxy_install/install_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-03-09T19:08:52,532 copying galaxy/tool_shed/galaxy_install/installed_repository_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-03-09T19:08:52,536 copying galaxy/tool_shed/galaxy_install/client.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-03-09T19:08:52,538 copying galaxy/tool_shed/galaxy_install/update_repository_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-03-09T19:08:52,541 creating build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2026-03-09T19:08:52,542 copying galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2026-03-09T19:08:52,543 copying galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2026-03-09T19:08:52,547 creating build/lib/galaxy/tool_shed/galaxy_install/tools 2026-03-09T19:08:52,548 copying galaxy/tool_shed/galaxy_install/tools/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2026-03-09T19:08:52,550 copying galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2026-03-09T19:08:52,553 copying galaxy/tool_shed/galaxy_install/tools/data_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2026-03-09T19:08:52,556 creating build/lib/galaxy/tool_shed/galaxy_install/metadata 2026-03-09T19:08:52,557 copying galaxy/tool_shed/galaxy_install/metadata/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/metadata 2026-03-09T19:08:52,558 copying galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/metadata 2026-03-09T19:08:52,561 creating build/lib/galaxy/jobs/splitters 2026-03-09T19:08:52,562 copying galaxy/jobs/splitters/multi.py -> build/lib/galaxy/jobs/splitters 2026-03-09T19:08:52,565 copying galaxy/jobs/splitters/__init__.py -> build/lib/galaxy/jobs/splitters 2026-03-09T19:08:52,567 copying galaxy/jobs/splitters/basic.py -> build/lib/galaxy/jobs/splitters 2026-03-09T19:08:52,569 creating build/lib/galaxy/jobs/rules 2026-03-09T19:08:52,570 copying galaxy/jobs/rules/__init__.py -> build/lib/galaxy/jobs/rules 2026-03-09T19:08:52,573 creating build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,574 copying galaxy/jobs/runners/univa.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,578 copying galaxy/jobs/runners/cli.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,580 copying galaxy/jobs/runners/godocker.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,583 copying galaxy/jobs/runners/tasks.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,585 copying galaxy/jobs/runners/condor.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,588 copying galaxy/jobs/runners/pbs.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,591 copying galaxy/jobs/runners/local.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,593 copying galaxy/jobs/runners/kubernetes.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,597 copying galaxy/jobs/runners/__init__.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,599 copying galaxy/jobs/runners/aws.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,602 copying galaxy/jobs/runners/pulsar.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,605 copying galaxy/jobs/runners/drmaa.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,608 copying galaxy/jobs/runners/chronos.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,611 copying galaxy/jobs/runners/state_handler_factory.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,613 copying galaxy/jobs/runners/slurm.py -> build/lib/galaxy/jobs/runners 2026-03-09T19:08:52,617 creating build/lib/galaxy/jobs/runners/util 2026-03-09T19:08:52,618 copying galaxy/jobs/runners/util/external.py -> build/lib/galaxy/jobs/runners/util 2026-03-09T19:08:52,621 copying galaxy/jobs/runners/util/kill.py -> build/lib/galaxy/jobs/runners/util 2026-03-09T19:08:52,623 copying galaxy/jobs/runners/util/pykube_util.py -> build/lib/galaxy/jobs/runners/util 2026-03-09T19:08:52,625 copying galaxy/jobs/runners/util/__init__.py -> build/lib/galaxy/jobs/runners/util 2026-03-09T19:08:52,627 copying galaxy/jobs/runners/util/env.py -> build/lib/galaxy/jobs/runners/util 2026-03-09T19:08:52,629 copying galaxy/jobs/runners/util/process_groups.py -> build/lib/galaxy/jobs/runners/util 2026-03-09T19:08:52,631 copying galaxy/jobs/runners/util/fork_safe_write.py -> build/lib/galaxy/jobs/runners/util 2026-03-09T19:08:52,632 copying galaxy/jobs/runners/util/sudo.py -> build/lib/galaxy/jobs/runners/util 2026-03-09T19:08:52,635 creating build/lib/galaxy/jobs/runners/state_handlers 2026-03-09T19:08:52,636 copying galaxy/jobs/runners/state_handlers/resubmit.py -> build/lib/galaxy/jobs/runners/state_handlers 2026-03-09T19:08:52,639 copying galaxy/jobs/runners/state_handlers/_safe_eval.py -> build/lib/galaxy/jobs/runners/state_handlers 2026-03-09T19:08:52,641 copying galaxy/jobs/runners/state_handlers/__init__.py -> build/lib/galaxy/jobs/runners/state_handlers 2026-03-09T19:08:52,643 creating build/lib/galaxy/jobs/runners/util/job_script 2026-03-09T19:08:52,644 copying galaxy/jobs/runners/util/job_script/__init__.py -> build/lib/galaxy/jobs/runners/util/job_script 2026-03-09T19:08:52,646 creating build/lib/galaxy/jobs/runners/util/cli 2026-03-09T19:08:52,647 copying galaxy/jobs/runners/util/cli/factory.py -> build/lib/galaxy/jobs/runners/util/cli 2026-03-09T19:08:52,650 copying galaxy/jobs/runners/util/cli/__init__.py -> build/lib/galaxy/jobs/runners/util/cli 2026-03-09T19:08:52,653 creating build/lib/galaxy/jobs/runners/util/condor 2026-03-09T19:08:52,654 copying galaxy/jobs/runners/util/condor/__init__.py -> build/lib/galaxy/jobs/runners/util/condor 2026-03-09T19:08:52,657 creating build/lib/galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:52,658 copying galaxy/jobs/runners/util/cli/job/lsf.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:52,660 copying galaxy/jobs/runners/util/cli/job/pbs.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:52,663 copying galaxy/jobs/runners/util/cli/job/__init__.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:52,665 copying galaxy/jobs/runners/util/cli/job/slurm_torque.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:52,667 copying galaxy/jobs/runners/util/cli/job/torque.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:52,668 copying galaxy/jobs/runners/util/cli/job/slurm.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:52,671 creating build/lib/galaxy/jobs/runners/util/cli/shell 2026-03-09T19:08:52,672 copying galaxy/jobs/runners/util/cli/shell/local.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2026-03-09T19:08:52,674 copying galaxy/jobs/runners/util/cli/shell/__init__.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2026-03-09T19:08:52,677 copying galaxy/jobs/runners/util/cli/shell/rsh.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2026-03-09T19:08:52,679 creating build/lib/galaxy/workflow/refactor 2026-03-09T19:08:52,680 copying galaxy/workflow/refactor/schema.py -> build/lib/galaxy/workflow/refactor 2026-03-09T19:08:52,682 copying galaxy/workflow/refactor/execute.py -> build/lib/galaxy/workflow/refactor 2026-03-09T19:08:52,685 copying galaxy/workflow/refactor/__init__.py -> build/lib/galaxy/workflow/refactor 2026-03-09T19:08:52,688 creating build/lib/galaxy/workflow/schedulers 2026-03-09T19:08:52,689 copying galaxy/workflow/schedulers/__init__.py -> build/lib/galaxy/workflow/schedulers 2026-03-09T19:08:52,691 copying galaxy/workflow/schedulers/core.py -> build/lib/galaxy/workflow/schedulers 2026-03-09T19:08:52,694 creating build/lib/galaxy/workflow/reports 2026-03-09T19:08:52,694 copying galaxy/workflow/reports/__init__.py -> build/lib/galaxy/workflow/reports 2026-03-09T19:08:52,697 creating build/lib/galaxy/workflow/resources 2026-03-09T19:08:52,698 copying galaxy/workflow/resources/__init__.py -> build/lib/galaxy/workflow/resources 2026-03-09T19:08:52,701 creating build/lib/galaxy/workflow/reports/generators 2026-03-09T19:08:52,702 copying galaxy/workflow/reports/generators/__init__.py -> build/lib/galaxy/workflow/reports/generators 2026-03-09T19:08:52,704 copying galaxy/workflow/reports/generators/markdown.py -> build/lib/galaxy/workflow/reports/generators 2026-03-09T19:08:52,707 creating build/lib/galaxy/visualization/genome 2026-03-09T19:08:52,708 copying galaxy/visualization/genome/__init__.py -> build/lib/galaxy/visualization/genome 2026-03-09T19:08:52,710 creating build/lib/galaxy/visualization/data_providers 2026-03-09T19:08:52,712 copying galaxy/visualization/data_providers/genome.py -> build/lib/galaxy/visualization/data_providers 2026-03-09T19:08:52,715 copying galaxy/visualization/data_providers/__init__.py -> build/lib/galaxy/visualization/data_providers 2026-03-09T19:08:52,717 copying galaxy/visualization/data_providers/basic.py -> build/lib/galaxy/visualization/data_providers 2026-03-09T19:08:52,719 copying galaxy/visualization/data_providers/registry.py -> build/lib/galaxy/visualization/data_providers 2026-03-09T19:08:52,722 copying galaxy/visualization/data_providers/cigar.py -> build/lib/galaxy/visualization/data_providers 2026-03-09T19:08:52,724 creating build/lib/galaxy/visualization/plugins 2026-03-09T19:08:52,725 copying galaxy/visualization/plugins/utils.py -> build/lib/galaxy/visualization/plugins 2026-03-09T19:08:52,728 copying galaxy/visualization/plugins/config_parser.py -> build/lib/galaxy/visualization/plugins 2026-03-09T19:08:52,730 copying galaxy/visualization/plugins/__init__.py -> build/lib/galaxy/visualization/plugins 2026-03-09T19:08:52,732 copying galaxy/visualization/plugins/resource_parser.py -> build/lib/galaxy/visualization/plugins 2026-03-09T19:08:52,735 copying galaxy/visualization/plugins/plugin.py -> build/lib/galaxy/visualization/plugins 2026-03-09T19:08:52,737 copying galaxy/visualization/plugins/datasource_testing.py -> build/lib/galaxy/visualization/plugins 2026-03-09T19:08:52,740 copying galaxy/visualization/plugins/registry.py -> build/lib/galaxy/visualization/plugins 2026-03-09T19:08:52,742 creating build/lib/galaxy/visualization/tracks 2026-03-09T19:08:52,743 copying galaxy/visualization/tracks/__init__.py -> build/lib/galaxy/visualization/tracks 2026-03-09T19:08:52,746 creating build/lib/galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:52,747 copying galaxy/visualization/data_providers/phyloviz/baseparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:52,750 copying galaxy/visualization/data_providers/phyloviz/__init__.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:52,752 copying galaxy/visualization/data_providers/phyloviz/newickparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:52,754 copying galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:52,757 copying galaxy/visualization/data_providers/phyloviz/nexusparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:52,760 creating build/lib/galaxy/tools/imp_exp 2026-03-09T19:08:52,761 copying galaxy/tools/imp_exp/unpack_tar_gz_archive.py -> build/lib/galaxy/tools/imp_exp 2026-03-09T19:08:52,764 copying galaxy/tools/imp_exp/__init__.py -> build/lib/galaxy/tools/imp_exp 2026-03-09T19:08:52,766 copying galaxy/tools/imp_exp/export_history.py -> build/lib/galaxy/tools/imp_exp 2026-03-09T19:08:52,768 creating build/lib/galaxy/tools/expressions 2026-03-09T19:08:52,769 copying galaxy/tools/expressions/evaluation.py -> build/lib/galaxy/tools/expressions 2026-03-09T19:08:52,771 copying galaxy/tools/expressions/util.py -> build/lib/galaxy/tools/expressions 2026-03-09T19:08:52,773 copying galaxy/tools/expressions/script.py -> build/lib/galaxy/tools/expressions 2026-03-09T19:08:52,775 copying galaxy/tools/expressions/__init__.py -> build/lib/galaxy/tools/expressions 2026-03-09T19:08:52,777 creating build/lib/galaxy/tools/filters 2026-03-09T19:08:52,778 copying galaxy/tools/filters/__init__.py -> build/lib/galaxy/tools/filters 2026-03-09T19:08:52,781 creating build/lib/galaxy/tools/error_reports 2026-03-09T19:08:52,782 copying galaxy/tools/error_reports/__init__.py -> build/lib/galaxy/tools/error_reports 2026-03-09T19:08:52,784 creating build/lib/galaxy/tools/fetch 2026-03-09T19:08:52,785 copying galaxy/tools/fetch/__init__.py -> build/lib/galaxy/tools/fetch 2026-03-09T19:08:52,787 copying galaxy/tools/fetch/workbooks.py -> build/lib/galaxy/tools/fetch 2026-03-09T19:08:52,790 creating build/lib/galaxy/tools/actions 2026-03-09T19:08:52,791 copying galaxy/tools/actions/upload.py -> build/lib/galaxy/tools/actions 2026-03-09T19:08:52,793 copying galaxy/tools/actions/upload_common.py -> build/lib/galaxy/tools/actions 2026-03-09T19:08:52,796 copying galaxy/tools/actions/__init__.py -> build/lib/galaxy/tools/actions 2026-03-09T19:08:52,800 copying galaxy/tools/actions/metadata.py -> build/lib/galaxy/tools/actions 2026-03-09T19:08:52,803 copying galaxy/tools/actions/history_imp_exp.py -> build/lib/galaxy/tools/actions 2026-03-09T19:08:52,805 copying galaxy/tools/actions/data_manager.py -> build/lib/galaxy/tools/actions 2026-03-09T19:08:52,807 copying galaxy/tools/actions/model_operations.py -> build/lib/galaxy/tools/actions 2026-03-09T19:08:52,810 copying galaxy/tools/actions/data_source.py -> build/lib/galaxy/tools/actions 2026-03-09T19:08:52,812 creating build/lib/galaxy/tools/search 2026-03-09T19:08:52,813 copying galaxy/tools/search/__init__.py -> build/lib/galaxy/tools/search 2026-03-09T19:08:52,816 creating build/lib/galaxy/tools/data 2026-03-09T19:08:52,817 copying galaxy/tools/data/__init__.py -> build/lib/galaxy/tools/data 2026-03-09T19:08:52,821 creating build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,822 copying galaxy/tools/parameters/input_translation.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,824 copying galaxy/tools/parameters/grouping.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,828 copying galaxy/tools/parameters/sanitize.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,830 copying galaxy/tools/parameters/cancelable_request.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,832 copying galaxy/tools/parameters/validation.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,835 copying galaxy/tools/parameters/options.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,836 copying galaxy/tools/parameters/dynamic_options.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,839 copying galaxy/tools/parameters/workflow_utils.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,841 copying galaxy/tools/parameters/__init__.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,844 copying galaxy/tools/parameters/basic.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,848 copying galaxy/tools/parameters/dataset_matcher.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,850 copying galaxy/tools/parameters/meta.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,853 copying galaxy/tools/parameters/wrapped.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,855 copying galaxy/tools/parameters/wrapped_json.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,858 copying galaxy/tools/parameters/populate_model.py -> build/lib/galaxy/tools/parameters 2026-03-09T19:08:52,860 creating build/lib/galaxy/tools/util 2026-03-09T19:08:52,861 copying galaxy/tools/util/maf_utilities.py -> build/lib/galaxy/tools/util 2026-03-09T19:08:52,864 copying galaxy/tools/util/__init__.py -> build/lib/galaxy/tools/util 2026-03-09T19:08:52,866 creating build/lib/galaxy/tools/data_manager 2026-03-09T19:08:52,867 copying galaxy/tools/data_manager/__init__.py -> build/lib/galaxy/tools/data_manager 2026-03-09T19:08:52,869 copying galaxy/tools/data_manager/manager.py -> build/lib/galaxy/tools/data_manager 2026-03-09T19:08:52,871 creating build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,872 copying galaxy/tools/error_reports/plugins/base_git.py -> build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,874 copying galaxy/tools/error_reports/plugins/slack.py -> build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,876 copying galaxy/tools/error_reports/plugins/github.py -> build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,878 copying galaxy/tools/error_reports/plugins/gitlab.py -> build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,880 copying galaxy/tools/error_reports/plugins/json.py -> build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,882 copying galaxy/tools/error_reports/plugins/email.py -> build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,884 copying galaxy/tools/error_reports/plugins/__init__.py -> build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,886 copying galaxy/tools/error_reports/plugins/influxdb.py -> build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,887 copying galaxy/tools/error_reports/plugins/sentry.py -> build/lib/galaxy/tools/error_reports/plugins 2026-03-09T19:08:52,890 creating build/lib/galaxy/tools/util/galaxyops 2026-03-09T19:08:52,891 copying galaxy/tools/util/galaxyops/__init__.py -> build/lib/galaxy/tools/util/galaxyops 2026-03-09T19:08:52,893 creating build/lib/galaxy_ext/expressions 2026-03-09T19:08:52,894 copying galaxy_ext/expressions/handle_job.py -> build/lib/galaxy_ext/expressions 2026-03-09T19:08:52,896 copying galaxy_ext/expressions/__init__.py -> build/lib/galaxy_ext/expressions 2026-03-09T19:08:52,898 creating build/lib/galaxy_ext/container_monitor 2026-03-09T19:08:52,899 copying galaxy_ext/container_monitor/__init__.py -> build/lib/galaxy_ext/container_monitor 2026-03-09T19:08:52,900 copying galaxy_ext/container_monitor/monitor.py -> build/lib/galaxy_ext/container_monitor 2026-03-09T19:08:52,902 creating build/lib/galaxy_ext/metadata 2026-03-09T19:08:52,903 copying galaxy_ext/metadata/__init__.py -> build/lib/galaxy_ext/metadata 2026-03-09T19:08:52,905 copying galaxy_ext/metadata/set_metadata.py -> build/lib/galaxy_ext/metadata 2026-03-09T19:08:52,907 creating build/lib/tool_shed_client/schema 2026-03-09T19:08:52,908 copying tool_shed_client/schema/trs_service_info.py -> build/lib/tool_shed_client/schema 2026-03-09T19:08:52,910 copying tool_shed_client/schema/__init__.py -> build/lib/tool_shed_client/schema 2026-03-09T19:08:52,913 copying tool_shed_client/schema/trs.py -> build/lib/tool_shed_client/schema 2026-03-09T19:08:52,915 running egg_info 2026-03-09T19:08:52,925 writing galaxy_app.egg-info/PKG-INFO 2026-03-09T19:08:53,019 writing dependency_links to galaxy_app.egg-info/dependency_links.txt 2026-03-09T19:08:53,020 writing entry points to galaxy_app.egg-info/entry_points.txt 2026-03-09T19:08:53,022 writing requirements to galaxy_app.egg-info/requires.txt 2026-03-09T19:08:53,024 writing top-level names to galaxy_app.egg-info/top_level.txt 2026-03-09T19:08:53,092 reading manifest file 'galaxy_app.egg-info/SOURCES.txt' 2026-03-09T19:08:53,126 reading manifest template 'MANIFEST.in' 2026-03-09T19:08:53,660 adding license file 'LICENSE' 2026-03-09T19:08:53,691 writing manifest file 'galaxy_app.egg-info/SOURCES.txt' 2026-03-09T19:08:53,697 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled' is absent from the `packages` configuration. 2026-03-09T19:08:53,697 !! 2026-03-09T19:08:53,698 ******************************************************************************** 2026-03-09T19:08:53,699 ############################ 2026-03-09T19:08:53,699 # Package would be ignored # 2026-03-09T19:08:53,699 ############################ 2026-03-09T19:08:53,700 Python recognizes 'galaxy.tools.bundled' as an importable package[^1], 2026-03-09T19:08:53,700 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,701 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,702 package, please make sure that 'galaxy.tools.bundled' is explicitly added 2026-03-09T19:08:53,702 to the `packages` configuration field. 2026-03-09T19:08:53,703 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,703 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,704 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,705 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,705 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,706 If you don't want 'galaxy.tools.bundled' to be distributed and are 2026-03-09T19:08:53,707 already explicitly excluding 'galaxy.tools.bundled' via 2026-03-09T19:08:53,707 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,708 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,708 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,709 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,710 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,712 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,712 even if it does not contain any `.py` files. 2026-03-09T19:08:53,713 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,713 directory, all directories are treated like packages. 2026-03-09T19:08:53,714 ******************************************************************************** 2026-03-09T19:08:53,715 !! 2026-03-09T19:08:53,716 check.warn(importable) 2026-03-09T19:08:53,716 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.data_export' is absent from the `packages` configuration. 2026-03-09T19:08:53,717 !! 2026-03-09T19:08:53,718 ******************************************************************************** 2026-03-09T19:08:53,719 ############################ 2026-03-09T19:08:53,719 # Package would be ignored # 2026-03-09T19:08:53,720 ############################ 2026-03-09T19:08:53,720 Python recognizes 'galaxy.tools.bundled.data_export' as an importable package[^1], 2026-03-09T19:08:53,721 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,722 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,723 package, please make sure that 'galaxy.tools.bundled.data_export' is explicitly added 2026-03-09T19:08:53,723 to the `packages` configuration field. 2026-03-09T19:08:53,724 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,725 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,726 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,727 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,728 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,728 If you don't want 'galaxy.tools.bundled.data_export' to be distributed and are 2026-03-09T19:08:53,729 already explicitly excluding 'galaxy.tools.bundled.data_export' via 2026-03-09T19:08:53,729 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,730 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,730 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,732 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,732 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,734 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,735 even if it does not contain any `.py` files. 2026-03-09T19:08:53,735 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,736 directory, all directories are treated like packages. 2026-03-09T19:08:53,736 ******************************************************************************** 2026-03-09T19:08:53,737 !! 2026-03-09T19:08:53,738 check.warn(importable) 2026-03-09T19:08:53,738 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.data_source' is absent from the `packages` configuration. 2026-03-09T19:08:53,738 !! 2026-03-09T19:08:53,739 ******************************************************************************** 2026-03-09T19:08:53,740 ############################ 2026-03-09T19:08:53,740 # Package would be ignored # 2026-03-09T19:08:53,741 ############################ 2026-03-09T19:08:53,741 Python recognizes 'galaxy.tools.bundled.data_source' as an importable package[^1], 2026-03-09T19:08:53,742 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,743 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,743 package, please make sure that 'galaxy.tools.bundled.data_source' is explicitly added 2026-03-09T19:08:53,744 to the `packages` configuration field. 2026-03-09T19:08:53,745 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,745 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,746 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,747 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,748 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,749 If you don't want 'galaxy.tools.bundled.data_source' to be distributed and are 2026-03-09T19:08:53,749 already explicitly excluding 'galaxy.tools.bundled.data_source' via 2026-03-09T19:08:53,750 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,750 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,751 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,752 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,753 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,755 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,755 even if it does not contain any `.py` files. 2026-03-09T19:08:53,756 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,756 directory, all directories are treated like packages. 2026-03-09T19:08:53,756 ******************************************************************************** 2026-03-09T19:08:53,757 !! 2026-03-09T19:08:53,758 check.warn(importable) 2026-03-09T19:08:53,758 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.expression_tools' is absent from the `packages` configuration. 2026-03-09T19:08:53,759 !! 2026-03-09T19:08:53,759 ******************************************************************************** 2026-03-09T19:08:53,760 ############################ 2026-03-09T19:08:53,760 # Package would be ignored # 2026-03-09T19:08:53,761 ############################ 2026-03-09T19:08:53,761 Python recognizes 'galaxy.tools.bundled.expression_tools' as an importable package[^1], 2026-03-09T19:08:53,762 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,762 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,763 package, please make sure that 'galaxy.tools.bundled.expression_tools' is explicitly added 2026-03-09T19:08:53,763 to the `packages` configuration field. 2026-03-09T19:08:53,764 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,765 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,765 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,767 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,768 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,769 If you don't want 'galaxy.tools.bundled.expression_tools' to be distributed and are 2026-03-09T19:08:53,769 already explicitly excluding 'galaxy.tools.bundled.expression_tools' via 2026-03-09T19:08:53,770 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,770 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,771 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,772 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,773 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,774 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,775 even if it does not contain any `.py` files. 2026-03-09T19:08:53,775 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,776 directory, all directories are treated like packages. 2026-03-09T19:08:53,776 ******************************************************************************** 2026-03-09T19:08:53,777 !! 2026-03-09T19:08:53,778 check.warn(importable) 2026-03-09T19:08:53,778 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.extract' is absent from the `packages` configuration. 2026-03-09T19:08:53,779 !! 2026-03-09T19:08:53,780 ******************************************************************************** 2026-03-09T19:08:53,780 ############################ 2026-03-09T19:08:53,781 # Package would be ignored # 2026-03-09T19:08:53,782 ############################ 2026-03-09T19:08:53,782 Python recognizes 'galaxy.tools.bundled.extract' as an importable package[^1], 2026-03-09T19:08:53,783 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,784 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,784 package, please make sure that 'galaxy.tools.bundled.extract' is explicitly added 2026-03-09T19:08:53,785 to the `packages` configuration field. 2026-03-09T19:08:53,785 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,786 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,786 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,787 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,788 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,789 If you don't want 'galaxy.tools.bundled.extract' to be distributed and are 2026-03-09T19:08:53,789 already explicitly excluding 'galaxy.tools.bundled.extract' via 2026-03-09T19:08:53,790 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,790 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,791 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,791 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,792 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,794 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,794 even if it does not contain any `.py` files. 2026-03-09T19:08:53,795 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,795 directory, all directories are treated like packages. 2026-03-09T19:08:53,796 ******************************************************************************** 2026-03-09T19:08:53,797 !! 2026-03-09T19:08:53,797 check.warn(importable) 2026-03-09T19:08:53,798 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.filters' is absent from the `packages` configuration. 2026-03-09T19:08:53,798 !! 2026-03-09T19:08:53,799 ******************************************************************************** 2026-03-09T19:08:53,799 ############################ 2026-03-09T19:08:53,800 # Package would be ignored # 2026-03-09T19:08:53,800 ############################ 2026-03-09T19:08:53,801 Python recognizes 'galaxy.tools.bundled.filters' as an importable package[^1], 2026-03-09T19:08:53,801 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,802 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,803 package, please make sure that 'galaxy.tools.bundled.filters' is explicitly added 2026-03-09T19:08:53,803 to the `packages` configuration field. 2026-03-09T19:08:53,804 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,805 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,805 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,806 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,807 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,808 If you don't want 'galaxy.tools.bundled.filters' to be distributed and are 2026-03-09T19:08:53,810 already explicitly excluding 'galaxy.tools.bundled.filters' via 2026-03-09T19:08:53,811 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,812 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,812 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,813 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,814 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,815 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,816 even if it does not contain any `.py` files. 2026-03-09T19:08:53,816 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,816 directory, all directories are treated like packages. 2026-03-09T19:08:53,817 ******************************************************************************** 2026-03-09T19:08:53,818 !! 2026-03-09T19:08:53,818 check.warn(importable) 2026-03-09T19:08:53,819 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.filters.gff' is absent from the `packages` configuration. 2026-03-09T19:08:53,819 !! 2026-03-09T19:08:53,820 ******************************************************************************** 2026-03-09T19:08:53,820 ############################ 2026-03-09T19:08:53,821 # Package would be ignored # 2026-03-09T19:08:53,821 ############################ 2026-03-09T19:08:53,822 Python recognizes 'galaxy.tools.bundled.filters.gff' as an importable package[^1], 2026-03-09T19:08:53,822 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,824 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,824 package, please make sure that 'galaxy.tools.bundled.filters.gff' is explicitly added 2026-03-09T19:08:53,825 to the `packages` configuration field. 2026-03-09T19:08:53,826 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,826 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,827 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,828 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,828 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,829 If you don't want 'galaxy.tools.bundled.filters.gff' to be distributed and are 2026-03-09T19:08:53,830 already explicitly excluding 'galaxy.tools.bundled.filters.gff' via 2026-03-09T19:08:53,830 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,831 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,831 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,832 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,833 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,835 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,835 even if it does not contain any `.py` files. 2026-03-09T19:08:53,836 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,836 directory, all directories are treated like packages. 2026-03-09T19:08:53,837 ******************************************************************************** 2026-03-09T19:08:53,838 !! 2026-03-09T19:08:53,839 check.warn(importable) 2026-03-09T19:08:53,839 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.interactive' is absent from the `packages` configuration. 2026-03-09T19:08:53,840 !! 2026-03-09T19:08:53,840 ******************************************************************************** 2026-03-09T19:08:53,841 ############################ 2026-03-09T19:08:53,841 # Package would be ignored # 2026-03-09T19:08:53,841 ############################ 2026-03-09T19:08:53,842 Python recognizes 'galaxy.tools.bundled.interactive' as an importable package[^1], 2026-03-09T19:08:53,842 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,843 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,843 package, please make sure that 'galaxy.tools.bundled.interactive' is explicitly added 2026-03-09T19:08:53,844 to the `packages` configuration field. 2026-03-09T19:08:53,845 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,845 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,845 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,846 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,847 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,848 If you don't want 'galaxy.tools.bundled.interactive' to be distributed and are 2026-03-09T19:08:53,848 already explicitly excluding 'galaxy.tools.bundled.interactive' via 2026-03-09T19:08:53,849 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,849 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,850 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,851 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,852 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,853 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,854 even if it does not contain any `.py` files. 2026-03-09T19:08:53,854 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,855 directory, all directories are treated like packages. 2026-03-09T19:08:53,855 ******************************************************************************** 2026-03-09T19:08:53,856 !! 2026-03-09T19:08:53,857 check.warn(importable) 2026-03-09T19:08:53,857 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.maf' is absent from the `packages` configuration. 2026-03-09T19:08:53,857 !! 2026-03-09T19:08:53,858 ******************************************************************************** 2026-03-09T19:08:53,859 ############################ 2026-03-09T19:08:53,859 # Package would be ignored # 2026-03-09T19:08:53,860 ############################ 2026-03-09T19:08:53,860 Python recognizes 'galaxy.tools.bundled.maf' as an importable package[^1], 2026-03-09T19:08:53,861 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,862 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,862 package, please make sure that 'galaxy.tools.bundled.maf' is explicitly added 2026-03-09T19:08:53,863 to the `packages` configuration field. 2026-03-09T19:08:53,864 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,864 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,865 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,866 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,867 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,868 If you don't want 'galaxy.tools.bundled.maf' to be distributed and are 2026-03-09T19:08:53,868 already explicitly excluding 'galaxy.tools.bundled.maf' via 2026-03-09T19:08:53,868 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,869 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,869 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,870 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,871 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,872 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,873 even if it does not contain any `.py` files. 2026-03-09T19:08:53,873 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,874 directory, all directories are treated like packages. 2026-03-09T19:08:53,874 ******************************************************************************** 2026-03-09T19:08:53,875 !! 2026-03-09T19:08:53,875 check.warn(importable) 2026-03-09T19:08:53,876 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.meme' is absent from the `packages` configuration. 2026-03-09T19:08:53,876 !! 2026-03-09T19:08:53,877 ******************************************************************************** 2026-03-09T19:08:53,878 ############################ 2026-03-09T19:08:53,878 # Package would be ignored # 2026-03-09T19:08:53,879 ############################ 2026-03-09T19:08:53,879 Python recognizes 'galaxy.tools.bundled.meme' as an importable package[^1], 2026-03-09T19:08:53,880 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,881 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,881 package, please make sure that 'galaxy.tools.bundled.meme' is explicitly added 2026-03-09T19:08:53,882 to the `packages` configuration field. 2026-03-09T19:08:53,882 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,883 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,883 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,885 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,885 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,886 If you don't want 'galaxy.tools.bundled.meme' to be distributed and are 2026-03-09T19:08:53,887 already explicitly excluding 'galaxy.tools.bundled.meme' via 2026-03-09T19:08:53,887 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,888 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,889 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,890 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,891 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,892 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,893 even if it does not contain any `.py` files. 2026-03-09T19:08:53,893 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,894 directory, all directories are treated like packages. 2026-03-09T19:08:53,894 ******************************************************************************** 2026-03-09T19:08:53,895 !! 2026-03-09T19:08:53,895 check.warn(importable) 2026-03-09T19:08:53,896 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.metag_tools' is absent from the `packages` configuration. 2026-03-09T19:08:53,896 !! 2026-03-09T19:08:53,897 ******************************************************************************** 2026-03-09T19:08:53,897 ############################ 2026-03-09T19:08:53,898 # Package would be ignored # 2026-03-09T19:08:53,898 ############################ 2026-03-09T19:08:53,899 Python recognizes 'galaxy.tools.bundled.metag_tools' as an importable package[^1], 2026-03-09T19:08:53,899 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,900 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,900 package, please make sure that 'galaxy.tools.bundled.metag_tools' is explicitly added 2026-03-09T19:08:53,901 to the `packages` configuration field. 2026-03-09T19:08:53,902 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,902 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,903 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,904 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,905 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,905 If you don't want 'galaxy.tools.bundled.metag_tools' to be distributed and are 2026-03-09T19:08:53,906 already explicitly excluding 'galaxy.tools.bundled.metag_tools' via 2026-03-09T19:08:53,906 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,907 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,907 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,908 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,909 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,911 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,911 even if it does not contain any `.py` files. 2026-03-09T19:08:53,911 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,912 directory, all directories are treated like packages. 2026-03-09T19:08:53,912 ******************************************************************************** 2026-03-09T19:08:53,913 !! 2026-03-09T19:08:53,914 check.warn(importable) 2026-03-09T19:08:53,914 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.next_gen_conversion' is absent from the `packages` configuration. 2026-03-09T19:08:53,915 !! 2026-03-09T19:08:53,916 ******************************************************************************** 2026-03-09T19:08:53,916 ############################ 2026-03-09T19:08:53,917 # Package would be ignored # 2026-03-09T19:08:53,917 ############################ 2026-03-09T19:08:53,918 Python recognizes 'galaxy.tools.bundled.next_gen_conversion' as an importable package[^1], 2026-03-09T19:08:53,918 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,920 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,920 package, please make sure that 'galaxy.tools.bundled.next_gen_conversion' is explicitly added 2026-03-09T19:08:53,920 to the `packages` configuration field. 2026-03-09T19:08:53,921 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,922 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,922 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,923 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,924 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,924 If you don't want 'galaxy.tools.bundled.next_gen_conversion' to be distributed and are 2026-03-09T19:08:53,925 already explicitly excluding 'galaxy.tools.bundled.next_gen_conversion' via 2026-03-09T19:08:53,925 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,926 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,926 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,927 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,928 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,929 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,929 even if it does not contain any `.py` files. 2026-03-09T19:08:53,930 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,930 directory, all directories are treated like packages. 2026-03-09T19:08:53,931 ******************************************************************************** 2026-03-09T19:08:53,932 !! 2026-03-09T19:08:53,932 check.warn(importable) 2026-03-09T19:08:53,933 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.ngs_simulation' is absent from the `packages` configuration. 2026-03-09T19:08:53,933 !! 2026-03-09T19:08:53,934 ******************************************************************************** 2026-03-09T19:08:53,934 ############################ 2026-03-09T19:08:53,935 # Package would be ignored # 2026-03-09T19:08:53,935 ############################ 2026-03-09T19:08:53,936 Python recognizes 'galaxy.tools.bundled.ngs_simulation' as an importable package[^1], 2026-03-09T19:08:53,936 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,937 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,938 package, please make sure that 'galaxy.tools.bundled.ngs_simulation' is explicitly added 2026-03-09T19:08:53,938 to the `packages` configuration field. 2026-03-09T19:08:53,939 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,940 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,940 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,941 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,942 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,943 If you don't want 'galaxy.tools.bundled.ngs_simulation' to be distributed and are 2026-03-09T19:08:53,944 already explicitly excluding 'galaxy.tools.bundled.ngs_simulation' via 2026-03-09T19:08:53,944 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,945 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,946 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,947 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,948 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,949 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,950 even if it does not contain any `.py` files. 2026-03-09T19:08:53,950 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,950 directory, all directories are treated like packages. 2026-03-09T19:08:53,951 ******************************************************************************** 2026-03-09T19:08:53,952 !! 2026-03-09T19:08:53,952 check.warn(importable) 2026-03-09T19:08:53,953 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.phenotype_association' is absent from the `packages` configuration. 2026-03-09T19:08:53,953 !! 2026-03-09T19:08:53,954 ******************************************************************************** 2026-03-09T19:08:53,955 ############################ 2026-03-09T19:08:53,955 # Package would be ignored # 2026-03-09T19:08:53,956 ############################ 2026-03-09T19:08:53,956 Python recognizes 'galaxy.tools.bundled.phenotype_association' as an importable package[^1], 2026-03-09T19:08:53,956 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,957 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,958 package, please make sure that 'galaxy.tools.bundled.phenotype_association' is explicitly added 2026-03-09T19:08:53,958 to the `packages` configuration field. 2026-03-09T19:08:53,959 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,960 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,960 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,961 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,962 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,963 If you don't want 'galaxy.tools.bundled.phenotype_association' to be distributed and are 2026-03-09T19:08:53,964 already explicitly excluding 'galaxy.tools.bundled.phenotype_association' via 2026-03-09T19:08:53,964 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,965 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,965 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,966 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,967 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,969 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,969 even if it does not contain any `.py` files. 2026-03-09T19:08:53,970 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,970 directory, all directories are treated like packages. 2026-03-09T19:08:53,971 ******************************************************************************** 2026-03-09T19:08:53,972 !! 2026-03-09T19:08:53,973 check.warn(importable) 2026-03-09T19:08:53,973 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.plotting' is absent from the `packages` configuration. 2026-03-09T19:08:53,974 !! 2026-03-09T19:08:53,975 ******************************************************************************** 2026-03-09T19:08:53,975 ############################ 2026-03-09T19:08:53,976 # Package would be ignored # 2026-03-09T19:08:53,976 ############################ 2026-03-09T19:08:53,977 Python recognizes 'galaxy.tools.bundled.plotting' as an importable package[^1], 2026-03-09T19:08:53,977 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,978 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,978 package, please make sure that 'galaxy.tools.bundled.plotting' is explicitly added 2026-03-09T19:08:53,979 to the `packages` configuration field. 2026-03-09T19:08:53,980 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:53,980 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:53,981 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:53,981 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:53,982 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:53,983 If you don't want 'galaxy.tools.bundled.plotting' to be distributed and are 2026-03-09T19:08:53,984 already explicitly excluding 'galaxy.tools.bundled.plotting' via 2026-03-09T19:08:53,984 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:53,984 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:53,985 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:53,986 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:53,987 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:53,988 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:53,989 even if it does not contain any `.py` files. 2026-03-09T19:08:53,989 On the other hand, currently there is no concept of package data 2026-03-09T19:08:53,990 directory, all directories are treated like packages. 2026-03-09T19:08:53,990 ******************************************************************************** 2026-03-09T19:08:53,991 !! 2026-03-09T19:08:53,992 check.warn(importable) 2026-03-09T19:08:53,992 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.solid_tools' is absent from the `packages` configuration. 2026-03-09T19:08:53,993 !! 2026-03-09T19:08:53,994 ******************************************************************************** 2026-03-09T19:08:53,994 ############################ 2026-03-09T19:08:53,995 # Package would be ignored # 2026-03-09T19:08:53,995 ############################ 2026-03-09T19:08:53,996 Python recognizes 'galaxy.tools.bundled.solid_tools' as an importable package[^1], 2026-03-09T19:08:53,996 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:53,997 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:53,998 package, please make sure that 'galaxy.tools.bundled.solid_tools' is explicitly added 2026-03-09T19:08:53,998 to the `packages` configuration field. 2026-03-09T19:08:53,999 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:54,000 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:54,000 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:54,001 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:54,002 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:54,003 If you don't want 'galaxy.tools.bundled.solid_tools' to be distributed and are 2026-03-09T19:08:54,003 already explicitly excluding 'galaxy.tools.bundled.solid_tools' via 2026-03-09T19:08:54,003 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:54,004 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:54,004 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:54,005 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:54,006 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:54,007 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:54,008 even if it does not contain any `.py` files. 2026-03-09T19:08:54,008 On the other hand, currently there is no concept of package data 2026-03-09T19:08:54,009 directory, all directories are treated like packages. 2026-03-09T19:08:54,009 ******************************************************************************** 2026-03-09T19:08:54,010 !! 2026-03-09T19:08:54,010 check.warn(importable) 2026-03-09T19:08:54,011 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.sr_assembly' is absent from the `packages` configuration. 2026-03-09T19:08:54,011 !! 2026-03-09T19:08:54,012 ******************************************************************************** 2026-03-09T19:08:54,012 ############################ 2026-03-09T19:08:54,013 # Package would be ignored # 2026-03-09T19:08:54,013 ############################ 2026-03-09T19:08:54,014 Python recognizes 'galaxy.tools.bundled.sr_assembly' as an importable package[^1], 2026-03-09T19:08:54,014 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:54,015 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:54,016 package, please make sure that 'galaxy.tools.bundled.sr_assembly' is explicitly added 2026-03-09T19:08:54,016 to the `packages` configuration field. 2026-03-09T19:08:54,018 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:54,018 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:54,019 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:54,019 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:54,020 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:54,021 If you don't want 'galaxy.tools.bundled.sr_assembly' to be distributed and are 2026-03-09T19:08:54,022 already explicitly excluding 'galaxy.tools.bundled.sr_assembly' via 2026-03-09T19:08:54,022 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:54,023 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:54,024 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:54,025 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:54,026 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:54,028 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:54,028 even if it does not contain any `.py` files. 2026-03-09T19:08:54,028 On the other hand, currently there is no concept of package data 2026-03-09T19:08:54,029 directory, all directories are treated like packages. 2026-03-09T19:08:54,029 ******************************************************************************** 2026-03-09T19:08:54,030 !! 2026-03-09T19:08:54,031 check.warn(importable) 2026-03-09T19:08:54,031 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.sr_mapping' is absent from the `packages` configuration. 2026-03-09T19:08:54,031 !! 2026-03-09T19:08:54,032 ******************************************************************************** 2026-03-09T19:08:54,033 ############################ 2026-03-09T19:08:54,033 # Package would be ignored # 2026-03-09T19:08:54,033 ############################ 2026-03-09T19:08:54,034 Python recognizes 'galaxy.tools.bundled.sr_mapping' as an importable package[^1], 2026-03-09T19:08:54,034 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:54,035 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:54,036 package, please make sure that 'galaxy.tools.bundled.sr_mapping' is explicitly added 2026-03-09T19:08:54,036 to the `packages` configuration field. 2026-03-09T19:08:54,037 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:54,038 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:54,038 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:54,039 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:54,040 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:54,041 If you don't want 'galaxy.tools.bundled.sr_mapping' to be distributed and are 2026-03-09T19:08:54,042 already explicitly excluding 'galaxy.tools.bundled.sr_mapping' via 2026-03-09T19:08:54,042 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:54,042 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:54,043 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:54,044 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:54,045 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:54,047 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:54,047 even if it does not contain any `.py` files. 2026-03-09T19:08:54,048 On the other hand, currently there is no concept of package data 2026-03-09T19:08:54,048 directory, all directories are treated like packages. 2026-03-09T19:08:54,049 ******************************************************************************** 2026-03-09T19:08:54,050 !! 2026-03-09T19:08:54,050 check.warn(importable) 2026-03-09T19:08:54,051 /tmp/pip-build-env-ayg7u9ul/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.stats' is absent from the `packages` configuration. 2026-03-09T19:08:54,052 !! 2026-03-09T19:08:54,053 ******************************************************************************** 2026-03-09T19:08:54,053 ############################ 2026-03-09T19:08:54,054 # Package would be ignored # 2026-03-09T19:08:54,054 ############################ 2026-03-09T19:08:54,055 Python recognizes 'galaxy.tools.bundled.stats' as an importable package[^1], 2026-03-09T19:08:54,056 but it is absent from setuptools' `packages` configuration. 2026-03-09T19:08:54,057 This leads to an ambiguous overall configuration. If you want to distribute this 2026-03-09T19:08:54,057 package, please make sure that 'galaxy.tools.bundled.stats' is explicitly added 2026-03-09T19:08:54,058 to the `packages` configuration field. 2026-03-09T19:08:54,059 Alternatively, you can also rely on setuptools' discovery methods 2026-03-09T19:08:54,059 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-03-09T19:08:54,060 instead of `find_packages(...)`/`find:`). 2026-03-09T19:08:54,061 You can read more about "package discovery" on setuptools documentation page: 2026-03-09T19:08:54,062 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-03-09T19:08:54,063 If you don't want 'galaxy.tools.bundled.stats' to be distributed and are 2026-03-09T19:08:54,063 already explicitly excluding 'galaxy.tools.bundled.stats' via 2026-03-09T19:08:54,064 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-03-09T19:08:54,064 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-03-09T19:08:54,065 combination with a more fine grained `package-data` configuration. 2026-03-09T19:08:54,066 You can read more about "package data files" on setuptools documentation page: 2026-03-09T19:08:54,067 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-03-09T19:08:54,069 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-03-09T19:08:54,069 even if it does not contain any `.py` files. 2026-03-09T19:08:54,070 On the other hand, currently there is no concept of package data 2026-03-09T19:08:54,070 directory, all directories are treated like packages. 2026-03-09T19:08:54,071 ******************************************************************************** 2026-03-09T19:08:54,072 !! 2026-03-09T19:08:54,073 check.warn(importable) 2026-03-09T19:08:54,073 copying galaxy/py.typed -> build/lib/galaxy 2026-03-09T19:08:54,073 copying galaxy_ext/py.typed -> build/lib/galaxy_ext 2026-03-09T19:08:54,074 copying tool_shed_client/py.typed -> build/lib/tool_shed_client 2026-03-09T19:08:54,075 copying galaxy/carbon_emissions/carbon_intensity.csv -> build/lib/galaxy/carbon_emissions 2026-03-09T19:08:54,075 copying galaxy/dependencies/conditional-requirements.txt -> build/lib/galaxy/dependencies 2026-03-09T19:08:54,076 copying galaxy/dependencies/dev-requirements.txt -> build/lib/galaxy/dependencies 2026-03-09T19:08:54,076 copying galaxy/dependencies/lint-requirements.txt -> build/lib/galaxy/dependencies 2026-03-09T19:08:54,077 copying galaxy/dependencies/pinned-lint-requirements.txt -> build/lib/galaxy/dependencies 2026-03-09T19:08:54,077 copying galaxy/dependencies/pinned-requirements.txt -> build/lib/galaxy/dependencies 2026-03-09T19:08:54,078 copying galaxy/dependencies/pinned-test-requirements.txt -> build/lib/galaxy/dependencies 2026-03-09T19:08:54,078 copying galaxy/dependencies/pinned-typecheck-requirements.txt -> build/lib/galaxy/dependencies 2026-03-09T19:08:54,079 copying galaxy/dependencies/update.sh -> build/lib/galaxy/dependencies 2026-03-09T19:08:54,079 copying galaxy/dependencies/update_lint_requirements.sh -> build/lib/galaxy/dependencies 2026-03-09T19:08:54,080 copying galaxy/managers/licenses.json -> build/lib/galaxy/managers 2026-03-09T19:08:54,080 copying galaxy/managers/markdown_export_base.css -> build/lib/galaxy/managers 2026-03-09T19:08:54,081 copying galaxy/tools/apply_rules.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,081 copying galaxy/tools/build_list.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,082 copying galaxy/tools/build_list_1.2.0.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,083 copying galaxy/tools/convert_sample_sheet.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,083 copying galaxy/tools/cross_product_flat.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,084 copying galaxy/tools/cross_product_nested.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,084 copying galaxy/tools/data_fetch.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,085 copying galaxy/tools/duplicate_file_to_collection.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,085 copying galaxy/tools/extract_dataset.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,086 copying galaxy/tools/filter_empty_collection.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,086 copying galaxy/tools/filter_empty_collection_1.1.0.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,087 copying galaxy/tools/filter_failed_collection.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,087 copying galaxy/tools/filter_failed_collection_1.1.0.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,087 copying galaxy/tools/filter_from_file.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,088 copying galaxy/tools/filter_from_file_1.1.0.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,088 copying galaxy/tools/filter_null.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,089 copying galaxy/tools/filter_null_1.1.0.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,089 copying galaxy/tools/flatten_collection.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,090 copying galaxy/tools/harmonize_two_collections_list.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,090 copying galaxy/tools/keep_success_collection.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,091 copying galaxy/tools/keep_success_collection_1.1.0.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,091 copying galaxy/tools/merge_collection.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,091 copying galaxy/tools/model_operation_macros.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,092 copying galaxy/tools/nest_collection.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,092 copying galaxy/tools/relabel_from_file.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,093 copying galaxy/tools/sample_sheet_to_tabular.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,093 copying galaxy/tools/sort_collection_list.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,094 copying galaxy/tools/split_paired_and_unpaired.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,095 copying galaxy/tools/tag_collection_from_file.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,095 copying galaxy/tools/unzip_collection.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,095 copying galaxy/tools/zip_collection.xml -> build/lib/galaxy/tools 2026-03-09T19:08:54,096 creating build/lib/galaxy/tools/bundled 2026-03-09T19:08:54,096 copying galaxy/tools/bundled/__init__.py -> build/lib/galaxy/tools/bundled 2026-03-09T19:08:54,097 creating build/lib/galaxy/tools/bundled/data_export 2026-03-09T19:08:54,098 copying galaxy/tools/bundled/data_export/export_remote.py -> build/lib/galaxy/tools/bundled/data_export 2026-03-09T19:08:54,098 copying galaxy/tools/bundled/data_export/export_remote.xml -> build/lib/galaxy/tools/bundled/data_export 2026-03-09T19:08:54,099 creating build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,099 copying galaxy/tools/bundled/data_source/__init__.py -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,100 copying galaxy/tools/bundled/data_source/access_libraries.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,100 copying galaxy/tools/bundled/data_source/biomart.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,101 copying galaxy/tools/bundled/data_source/biomart_test.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,101 copying galaxy/tools/bundled/data_source/cbi_rice_mart.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,102 copying galaxy/tools/bundled/data_source/data_source.py -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,102 copying galaxy/tools/bundled/data_source/diced.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,103 copying galaxy/tools/bundled/data_source/ebi_sra.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,104 copying galaxy/tools/bundled/data_source/eupathdb.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,104 copying galaxy/tools/bundled/data_source/fly_modencode.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,104 copying galaxy/tools/bundled/data_source/flymine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,105 copying galaxy/tools/bundled/data_source/flymine_test.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,105 copying galaxy/tools/bundled/data_source/genbank.py -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,106 copying galaxy/tools/bundled/data_source/genbank.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,106 copying galaxy/tools/bundled/data_source/gramene_mart.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,107 copying galaxy/tools/bundled/data_source/hapmapmart.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,107 copying galaxy/tools/bundled/data_source/hbvar.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,107 copying galaxy/tools/bundled/data_source/import.py -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,108 copying galaxy/tools/bundled/data_source/import.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,108 copying galaxy/tools/bundled/data_source/intermine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,109 copying galaxy/tools/bundled/data_source/metabolicmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,109 copying galaxy/tools/bundled/data_source/microbial_import.py -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,110 copying galaxy/tools/bundled/data_source/microbial_import.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,110 copying galaxy/tools/bundled/data_source/microbial_import_code.py -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,111 copying galaxy/tools/bundled/data_source/modmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,111 copying galaxy/tools/bundled/data_source/mousemine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,112 copying galaxy/tools/bundled/data_source/ncbi_datasets.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,112 copying galaxy/tools/bundled/data_source/ratmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,113 copying galaxy/tools/bundled/data_source/sra.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,113 copying galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,114 copying galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,114 copying galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,115 copying galaxy/tools/bundled/data_source/upload.py -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,116 copying galaxy/tools/bundled/data_source/upload.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,116 copying galaxy/tools/bundled/data_source/worm_modencode.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,117 copying galaxy/tools/bundled/data_source/wormbase.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,117 copying galaxy/tools/bundled/data_source/wormbase_test.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,118 copying galaxy/tools/bundled/data_source/yeastmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,118 copying galaxy/tools/bundled/data_source/zebrafishmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-03-09T19:08:54,119 creating build/lib/galaxy/tools/bundled/expression_tools 2026-03-09T19:08:54,120 copying galaxy/tools/bundled/expression_tools/expression_macros.xml -> build/lib/galaxy/tools/bundled/expression_tools 2026-03-09T19:08:54,120 copying galaxy/tools/bundled/expression_tools/parse_values_from_file.xml -> build/lib/galaxy/tools/bundled/expression_tools 2026-03-09T19:08:54,120 copying galaxy/tools/bundled/expression_tools/pick_value.xml -> build/lib/galaxy/tools/bundled/expression_tools 2026-03-09T19:08:54,121 creating build/lib/galaxy/tools/bundled/extract 2026-03-09T19:08:54,121 copying galaxy/tools/bundled/extract/__init__.py -> build/lib/galaxy/tools/bundled/extract 2026-03-09T19:08:54,122 copying galaxy/tools/bundled/extract/extract_genomic_dna.py -> build/lib/galaxy/tools/bundled/extract 2026-03-09T19:08:54,122 copying galaxy/tools/bundled/extract/extract_genomic_dna.xml -> build/lib/galaxy/tools/bundled/extract 2026-03-09T19:08:54,122 copying galaxy/tools/bundled/extract/liftOver_wrapper.py -> build/lib/galaxy/tools/bundled/extract 2026-03-09T19:08:54,123 copying galaxy/tools/bundled/extract/liftOver_wrapper.xml -> build/lib/galaxy/tools/bundled/extract 2026-03-09T19:08:54,124 creating build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,124 copying galaxy/tools/bundled/filters/CreateInterval.pl -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,124 copying galaxy/tools/bundled/filters/CreateInterval.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,125 copying galaxy/tools/bundled/filters/__init__.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,125 copying galaxy/tools/bundled/filters/axt_to_concat_fasta.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,126 copying galaxy/tools/bundled/filters/axt_to_concat_fasta.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,127 copying galaxy/tools/bundled/filters/axt_to_fasta.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,127 copying galaxy/tools/bundled/filters/axt_to_fasta.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,128 copying galaxy/tools/bundled/filters/axt_to_lav.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,128 copying galaxy/tools/bundled/filters/axt_to_lav.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,129 copying galaxy/tools/bundled/filters/axt_to_lav_code.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,129 copying galaxy/tools/bundled/filters/bed2gff.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,130 copying galaxy/tools/bundled/filters/bed_to_bigbed.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,130 copying galaxy/tools/bundled/filters/bed_to_gff_converter.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,131 copying galaxy/tools/bundled/filters/catWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,132 copying galaxy/tools/bundled/filters/changeCase.pl -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,132 copying galaxy/tools/bundled/filters/changeCase.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,133 copying galaxy/tools/bundled/filters/commWrapper.pl -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,133 copying galaxy/tools/bundled/filters/commWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,134 copying galaxy/tools/bundled/filters/compare.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,134 copying galaxy/tools/bundled/filters/condense_characters.pl -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,135 copying galaxy/tools/bundled/filters/condense_characters.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,135 copying galaxy/tools/bundled/filters/convert_characters.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,136 copying galaxy/tools/bundled/filters/convert_characters.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,136 copying galaxy/tools/bundled/filters/cutWrapper.pl -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,137 copying galaxy/tools/bundled/filters/cutWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,137 copying galaxy/tools/bundled/filters/fileGrep.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,138 copying galaxy/tools/bundled/filters/fixedValueColumn.pl -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,138 copying galaxy/tools/bundled/filters/fixedValueColumn.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,138 copying galaxy/tools/bundled/filters/gff2bed.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,139 copying galaxy/tools/bundled/filters/gff_to_bed_converter.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,139 copying galaxy/tools/bundled/filters/grep.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,140 copying galaxy/tools/bundled/filters/grep_1.0.1.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,140 copying galaxy/tools/bundled/filters/gtf2bedgraph.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,141 copying galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,141 copying galaxy/tools/bundled/filters/headWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,142 copying galaxy/tools/bundled/filters/join.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,142 copying galaxy/tools/bundled/filters/joiner.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,143 copying galaxy/tools/bundled/filters/joiner2.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,143 copying galaxy/tools/bundled/filters/lav_to_bed.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,144 copying galaxy/tools/bundled/filters/lav_to_bed.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,144 copying galaxy/tools/bundled/filters/lav_to_bed_code.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,145 copying galaxy/tools/bundled/filters/mergeCols.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,146 copying galaxy/tools/bundled/filters/mergeCols.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,149 copying galaxy/tools/bundled/filters/pasteWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,151 copying galaxy/tools/bundled/filters/random_lines_two_pass.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,154 copying galaxy/tools/bundled/filters/randomlines.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,156 copying galaxy/tools/bundled/filters/randomlines.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,159 copying galaxy/tools/bundled/filters/remove_beginning.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,161 copying galaxy/tools/bundled/filters/secure_hash_message_digest.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,163 copying galaxy/tools/bundled/filters/secure_hash_message_digest.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,166 copying galaxy/tools/bundled/filters/sff_extract.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,169 copying galaxy/tools/bundled/filters/sff_extractor.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,172 copying galaxy/tools/bundled/filters/sorter.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,174 copying galaxy/tools/bundled/filters/tailWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,177 copying galaxy/tools/bundled/filters/trimmer.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,179 copying galaxy/tools/bundled/filters/trimmer.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,181 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,183 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,186 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,188 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,190 copying galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,192 copying galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,194 copying galaxy/tools/bundled/filters/uniq.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,197 copying galaxy/tools/bundled/filters/uniq.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,199 copying galaxy/tools/bundled/filters/wc_gnu.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,201 copying galaxy/tools/bundled/filters/wig_to_bigwig.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,203 copying galaxy/tools/bundled/filters/wiggle_to_simple.py -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,205 copying galaxy/tools/bundled/filters/wiggle_to_simple.xml -> build/lib/galaxy/tools/bundled/filters 2026-03-09T19:08:54,207 creating build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,208 copying galaxy/tools/bundled/filters/gff/__init__.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,210 copying galaxy/tools/bundled/filters/gff/extract_GFF_Features.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,212 copying galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml -> build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,215 copying galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,217 copying galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml -> build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,220 copying galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,222 copying galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml -> build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,225 copying galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,227 copying galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml -> build/lib/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:54,229 creating build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,230 copying galaxy/tools/bundled/interactive/Rprofile.R -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,232 copying galaxy/tools/bundled/interactive/default_notebook.ipynb -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,234 copying galaxy/tools/bundled/interactive/interactivetool_askomics.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,237 copying galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,239 copying galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,242 copying galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,244 copying galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,247 copying galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,250 copying galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,252 copying galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,254 copying galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,256 copying galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,258 copying galaxy/tools/bundled/interactive/interactivetool_higlass.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,260 copying galaxy/tools/bundled/interactive/interactivetool_ilastik.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,263 copying galaxy/tools/bundled/interactive/interactivetool_isee.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,265 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,267 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,270 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,273 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.3.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,276 copying galaxy/tools/bundled/interactive/interactivetool_metashark.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,278 copying galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,280 copying galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,283 copying galaxy/tools/bundled/interactive/interactivetool_neo4j.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,286 copying galaxy/tools/bundled/interactive/interactivetool_openrefine.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,288 copying galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,291 copying galaxy/tools/bundled/interactive/interactivetool_panoply.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,293 copying galaxy/tools/bundled/interactive/interactivetool_paraview.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,296 copying galaxy/tools/bundled/interactive/interactivetool_pavian.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,298 copying galaxy/tools/bundled/interactive/interactivetool_phinch.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,300 copying galaxy/tools/bundled/interactive/interactivetool_pyiron.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,303 copying galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,306 copying galaxy/tools/bundled/interactive/interactivetool_radiant.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,308 copying galaxy/tools/bundled/interactive/interactivetool_rstudio.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,311 copying galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,313 copying galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,316 copying galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,318 copying galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,320 copying galaxy/tools/bundled/interactive/interactivetool_wallace.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,322 copying galaxy/tools/bundled/interactive/interactivetool_wilson.xml -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,324 copying galaxy/tools/bundled/interactive/simtext_app.R -> build/lib/galaxy/tools/bundled/interactive 2026-03-09T19:08:54,327 creating build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,328 copying galaxy/tools/bundled/maf/__init__.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,330 copying galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,332 copying galaxy/tools/bundled/maf/interval2maf.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,335 copying galaxy/tools/bundled/maf/interval2maf.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,338 copying galaxy/tools/bundled/maf/interval2maf_pairwise.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,340 copying galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,343 copying galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,345 copying galaxy/tools/bundled/maf/macros.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,347 copying galaxy/tools/bundled/maf/maf_by_block_number.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,350 copying galaxy/tools/bundled/maf/maf_by_block_number.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,352 copying galaxy/tools/bundled/maf/maf_filter.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,354 copying galaxy/tools/bundled/maf/maf_filter.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,357 copying galaxy/tools/bundled/maf/maf_limit_size.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,359 copying galaxy/tools/bundled/maf/maf_limit_size.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,362 copying galaxy/tools/bundled/maf/maf_limit_to_species.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,364 copying galaxy/tools/bundled/maf/maf_limit_to_species.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,366 copying galaxy/tools/bundled/maf/maf_reverse_complement.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,369 copying galaxy/tools/bundled/maf/maf_reverse_complement.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,371 copying galaxy/tools/bundled/maf/maf_split_by_species.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,373 copying galaxy/tools/bundled/maf/maf_split_by_species.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,376 copying galaxy/tools/bundled/maf/maf_stats.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,379 copying galaxy/tools/bundled/maf/maf_stats.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,381 copying galaxy/tools/bundled/maf/maf_thread_for_species.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,383 copying galaxy/tools/bundled/maf/maf_thread_for_species.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,386 copying galaxy/tools/bundled/maf/maf_to_bed.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,388 copying galaxy/tools/bundled/maf/maf_to_bed.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,391 copying galaxy/tools/bundled/maf/maf_to_bed_code.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,393 copying galaxy/tools/bundled/maf/maf_to_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,395 copying galaxy/tools/bundled/maf/maf_to_fasta_concat.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,398 copying galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,400 copying galaxy/tools/bundled/maf/maf_to_interval.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,402 copying galaxy/tools/bundled/maf/maf_to_interval.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,404 copying galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,407 copying galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml -> build/lib/galaxy/tools/bundled/maf 2026-03-09T19:08:54,409 creating build/lib/galaxy/tools/bundled/meme 2026-03-09T19:08:54,410 copying galaxy/tools/bundled/meme/meme.xml -> build/lib/galaxy/tools/bundled/meme 2026-03-09T19:08:54,413 creating build/lib/galaxy/tools/bundled/metag_tools 2026-03-09T19:08:54,414 copying galaxy/tools/bundled/metag_tools/__init__.py -> build/lib/galaxy/tools/bundled/metag_tools 2026-03-09T19:08:54,416 copying galaxy/tools/bundled/metag_tools/blat_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2026-03-09T19:08:54,418 copying galaxy/tools/bundled/metag_tools/blat_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2026-03-09T19:08:54,421 copying galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2026-03-09T19:08:54,423 copying galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2026-03-09T19:08:54,426 copying galaxy/tools/bundled/metag_tools/shrimp_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2026-03-09T19:08:54,429 copying galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2026-03-09T19:08:54,432 creating build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,433 copying galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,436 copying galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,438 copying galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,440 copying galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,442 copying galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,445 copying galaxy/tools/bundled/next_gen_conversion/solid2fastq.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,447 copying galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,450 copying galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,452 copying galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:54,454 creating build/lib/galaxy/tools/bundled/ngs_simulation 2026-03-09T19:08:54,455 copying galaxy/tools/bundled/ngs_simulation/__init__.py -> build/lib/galaxy/tools/bundled/ngs_simulation 2026-03-09T19:08:54,457 copying galaxy/tools/bundled/ngs_simulation/ngs_simulation.py -> build/lib/galaxy/tools/bundled/ngs_simulation 2026-03-09T19:08:54,460 copying galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml -> build/lib/galaxy/tools/bundled/ngs_simulation 2026-03-09T19:08:54,463 creating build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,463 copying galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,466 copying galaxy/tools/bundled/phenotype_association/__init__.py -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,468 copying galaxy/tools/bundled/phenotype_association/beam.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,470 copying galaxy/tools/bundled/phenotype_association/gpass.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,472 copying galaxy/tools/bundled/phenotype_association/gpass.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,475 copying galaxy/tools/bundled/phenotype_association/ldtools.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,477 copying galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,479 copying galaxy/tools/bundled/phenotype_association/linkToDavid.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,481 copying galaxy/tools/bundled/phenotype_association/linkToDavid.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,483 copying galaxy/tools/bundled/phenotype_association/linkToGProfile.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,485 copying galaxy/tools/bundled/phenotype_association/linkToGProfile.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,488 copying galaxy/tools/bundled/phenotype_association/lped_to_geno.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,490 copying galaxy/tools/bundled/phenotype_association/lps.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,492 copying galaxy/tools/bundled/phenotype_association/lps_tool_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,494 copying galaxy/tools/bundled/phenotype_association/master2gd_snp.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,497 copying galaxy/tools/bundled/phenotype_association/master2gd_snp.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,499 copying galaxy/tools/bundled/phenotype_association/master2pg.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,502 copying galaxy/tools/bundled/phenotype_association/master2pg.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,504 copying galaxy/tools/bundled/phenotype_association/mergeSnps.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,506 copying galaxy/tools/bundled/phenotype_association/pagetag.py -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,509 copying galaxy/tools/bundled/phenotype_association/pass.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,511 copying galaxy/tools/bundled/phenotype_association/pass_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,513 copying galaxy/tools/bundled/phenotype_association/senatag.py -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,516 copying galaxy/tools/bundled/phenotype_association/sift.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,518 copying galaxy/tools/bundled/phenotype_association/sift_variants_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:54,521 creating build/lib/galaxy/tools/bundled/plotting 2026-03-09T19:08:54,522 copying galaxy/tools/bundled/plotting/bar_chart.py -> build/lib/galaxy/tools/bundled/plotting 2026-03-09T19:08:54,524 copying galaxy/tools/bundled/plotting/bar_chart.xml -> build/lib/galaxy/tools/bundled/plotting 2026-03-09T19:08:54,527 copying galaxy/tools/bundled/plotting/boxplot.xml -> build/lib/galaxy/tools/bundled/plotting 2026-03-09T19:08:54,529 creating build/lib/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:54,530 copying galaxy/tools/bundled/solid_tools/__init__.py -> build/lib/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:54,533 copying galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py -> build/lib/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:54,535 copying galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml -> build/lib/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:54,538 copying galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py -> build/lib/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:54,540 copying galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh -> build/lib/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:54,542 copying galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml -> build/lib/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:54,544 copying galaxy/tools/bundled/solid_tools/solid_qual_stats.py -> build/lib/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:54,546 copying galaxy/tools/bundled/solid_tools/solid_qual_stats.xml -> build/lib/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:54,548 creating build/lib/galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:54,549 copying galaxy/tools/bundled/sr_assembly/__init__.py -> build/lib/galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:54,551 copying galaxy/tools/bundled/sr_assembly/velvetg.xml -> build/lib/galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:54,553 copying galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py -> build/lib/galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:54,555 copying galaxy/tools/bundled/sr_assembly/velveth.xml -> build/lib/galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:54,559 copying galaxy/tools/bundled/sr_assembly/velveth_wrapper.py -> build/lib/galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:54,561 creating build/lib/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:54,562 copying galaxy/tools/bundled/sr_mapping/PerM.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:54,565 copying galaxy/tools/bundled/sr_mapping/__init__.py -> build/lib/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:54,566 copying galaxy/tools/bundled/sr_mapping/bfast_wrapper.py -> build/lib/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:54,569 copying galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:54,572 copying galaxy/tools/bundled/sr_mapping/fastq_statistics.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:54,574 copying galaxy/tools/bundled/sr_mapping/mosaik.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:54,577 copying galaxy/tools/bundled/sr_mapping/srma_wrapper.py -> build/lib/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:54,579 copying galaxy/tools/bundled/sr_mapping/srma_wrapper.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:54,582 creating build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,583 copying galaxy/tools/bundled/stats/__init__.py -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,585 copying galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,587 copying galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,590 copying galaxy/tools/bundled/stats/filtering.py -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,592 copying galaxy/tools/bundled/stats/filtering.xml -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,595 copying galaxy/tools/bundled/stats/filtering_1_1_0.xml -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,597 copying galaxy/tools/bundled/stats/grouping.py -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,600 copying galaxy/tools/bundled/stats/grouping.xml -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,602 copying galaxy/tools/bundled/stats/gsummary.py -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,605 copying galaxy/tools/bundled/stats/gsummary.xml -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,607 copying galaxy/tools/bundled/stats/r_wrapper.sh -> build/lib/galaxy/tools/bundled/stats 2026-03-09T19:08:54,609 copying galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh -> build/lib/galaxy/jobs/runners/util/job_script 2026-03-09T19:08:54,611 copying galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh -> build/lib/galaxy/jobs/runners/util/job_script 2026-03-09T19:08:54,614 copying galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh -> build/lib/galaxy/jobs/runners/util/job_script 2026-03-09T19:08:54,615 copying galaxy/workflow/resources/example.py.sample -> build/lib/galaxy/workflow/resources 2026-03-09T19:08:54,618 copying galaxy/tools/imp_exp/exp_history_to_archive.xml -> build/lib/galaxy/tools/imp_exp 2026-03-09T19:08:54,619 copying galaxy/tools/imp_exp/exp_history_to_uri.xml -> build/lib/galaxy/tools/imp_exp 2026-03-09T19:08:54,621 copying galaxy/tools/imp_exp/imp_history_from_archive.xml -> build/lib/galaxy/tools/imp_exp 2026-03-09T19:08:54,624 copying galaxy/tools/expressions/cwlNodeEngine.js -> build/lib/galaxy/tools/expressions 2026-03-09T19:08:54,668 installing to build/bdist.linux-armv7l/wheel 2026-03-09T19:08:54,668 running install 2026-03-09T19:08:54,692 running install_lib 2026-03-09T19:08:54,700 creating build/bdist.linux-armv7l/wheel 2026-03-09T19:08:54,703 creating build/bdist.linux-armv7l/wheel/galaxy 2026-03-09T19:08:54,704 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed 2026-03-09T19:08:54,706 copying build/lib/galaxy/tool_shed/repository_type.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2026-03-09T19:08:54,707 copying build/lib/galaxy/tool_shed/cache.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2026-03-09T19:08:54,709 copying build/lib/galaxy/tool_shed/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2026-03-09T19:08:54,711 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/unittest_utils 2026-03-09T19:08:54,712 copying build/lib/galaxy/tool_shed/unittest_utils/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/unittest_utils 2026-03-09T19:08:54,716 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/tools 2026-03-09T19:08:54,717 copying build/lib/galaxy/tool_shed/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2026-03-09T19:08:54,718 copying build/lib/galaxy/tool_shed/tools/tool_validator.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2026-03-09T19:08:54,721 copying build/lib/galaxy/tool_shed/tools/data_table_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2026-03-09T19:08:54,724 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/util 2026-03-09T19:08:54,725 copying build/lib/galaxy/tool_shed/util/hg_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,728 copying build/lib/galaxy/tool_shed/util/container_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,730 copying build/lib/galaxy/tool_shed/util/utility_container_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,732 copying build/lib/galaxy/tool_shed/util/repository_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,735 copying build/lib/galaxy/tool_shed/util/shed_util_common.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,737 copying build/lib/galaxy/tool_shed/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,739 copying build/lib/galaxy/tool_shed/util/tool_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,741 copying build/lib/galaxy/tool_shed/util/metadata_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,743 copying build/lib/galaxy/tool_shed/util/dependency_display.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,746 copying build/lib/galaxy/tool_shed/util/tool_dependency_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,749 copying build/lib/galaxy/tool_shed/util/basic_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-03-09T19:08:54,752 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/metadata 2026-03-09T19:08:54,753 copying build/lib/galaxy/tool_shed/metadata/metadata_generator.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/metadata 2026-03-09T19:08:54,756 copying build/lib/galaxy/tool_shed/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/metadata 2026-03-09T19:08:54,758 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install 2026-03-09T19:08:54,759 copying build/lib/galaxy/tool_shed/galaxy_install/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-03-09T19:08:54,760 copying build/lib/galaxy/tool_shed/galaxy_install/install_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-03-09T19:08:54,763 copying build/lib/galaxy/tool_shed/galaxy_install/installed_repository_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-03-09T19:08:54,766 copying build/lib/galaxy/tool_shed/galaxy_install/client.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-03-09T19:08:54,768 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/repository_dependencies 2026-03-09T19:08:54,769 copying build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/repository_dependencies 2026-03-09T19:08:54,771 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 2026-03-09T19:08:54,774 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/tools 2026-03-09T19:08:54,775 copying build/lib/galaxy/tool_shed/galaxy_install/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2026-03-09T19:08:54,777 copying build/lib/galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2026-03-09T19:08:54,780 copying build/lib/galaxy/tool_shed/galaxy_install/tools/data_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2026-03-09T19:08:54,783 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/metadata 2026-03-09T19:08:54,784 copying build/lib/galaxy/tool_shed/galaxy_install/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/metadata 2026-03-09T19:08:54,785 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 2026-03-09T19:08:54,788 copying build/lib/galaxy/tool_shed/galaxy_install/update_repository_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-03-09T19:08:54,790 copying build/lib/galaxy/queue_worker.py -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:54,793 creating build/bdist.linux-armv7l/wheel/galaxy/carbon_emissions 2026-03-09T19:08:54,794 copying build/lib/galaxy/carbon_emissions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/carbon_emissions 2026-03-09T19:08:54,796 copying build/lib/galaxy/carbon_emissions/carbon_intensity.csv -> build/bdist.linux-armv7l/wheel/./galaxy/carbon_emissions 2026-03-09T19:08:54,800 creating build/bdist.linux-armv7l/wheel/galaxy/jobs 2026-03-09T19:08:54,801 copying build/lib/galaxy/jobs/stock_rules.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-03-09T19:08:54,803 copying build/lib/galaxy/jobs/mapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-03-09T19:08:54,806 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/splitters 2026-03-09T19:08:54,807 copying build/lib/galaxy/jobs/splitters/multi.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2026-03-09T19:08:54,809 copying build/lib/galaxy/jobs/splitters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2026-03-09T19:08:54,811 copying build/lib/galaxy/jobs/splitters/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2026-03-09T19:08:54,813 copying build/lib/galaxy/jobs/handler.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-03-09T19:08:54,815 copying build/lib/galaxy/jobs/rule_helper.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-03-09T19:08:54,818 copying build/lib/galaxy/jobs/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-03-09T19:08:54,822 copying build/lib/galaxy/jobs/dynamic_tool_destination.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-03-09T19:08:54,825 copying build/lib/galaxy/jobs/manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-03-09T19:08:54,828 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/rules 2026-03-09T19:08:54,829 copying build/lib/galaxy/jobs/rules/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/rules 2026-03-09T19:08:54,831 copying build/lib/galaxy/jobs/command_factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-03-09T19:08:54,834 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners 2026-03-09T19:08:54,835 copying build/lib/galaxy/jobs/runners/univa.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,838 copying build/lib/galaxy/jobs/runners/cli.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,840 copying build/lib/galaxy/jobs/runners/godocker.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,843 copying build/lib/galaxy/jobs/runners/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,845 copying build/lib/galaxy/jobs/runners/condor.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,848 copying build/lib/galaxy/jobs/runners/pbs.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,851 copying build/lib/galaxy/jobs/runners/local.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,853 copying build/lib/galaxy/jobs/runners/kubernetes.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,857 copying build/lib/galaxy/jobs/runners/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,860 copying build/lib/galaxy/jobs/runners/aws.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,862 copying build/lib/galaxy/jobs/runners/pulsar.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,865 copying build/lib/galaxy/jobs/runners/drmaa.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,868 copying build/lib/galaxy/jobs/runners/chronos.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,870 copying build/lib/galaxy/jobs/runners/state_handler_factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,872 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util 2026-03-09T19:08:54,874 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/job_script 2026-03-09T19:08:54,875 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 2026-03-09T19:08:54,877 copying build/lib/galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2026-03-09T19:08:54,879 copying build/lib/galaxy/jobs/runners/util/job_script/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2026-03-09T19:08:54,881 copying build/lib/galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2026-03-09T19:08:54,883 copying build/lib/galaxy/jobs/runners/util/external.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-03-09T19:08:54,885 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli 2026-03-09T19:08:54,887 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:54,888 copying build/lib/galaxy/jobs/runners/util/cli/job/lsf.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:54,890 copying build/lib/galaxy/jobs/runners/util/cli/job/pbs.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:54,892 copying build/lib/galaxy/jobs/runners/util/cli/job/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:54,893 copying build/lib/galaxy/jobs/runners/util/cli/job/slurm_torque.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:54,895 copying build/lib/galaxy/jobs/runners/util/cli/job/torque.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:54,897 copying build/lib/galaxy/jobs/runners/util/cli/job/slurm.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-03-09T19:08:54,899 copying build/lib/galaxy/jobs/runners/util/cli/factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli 2026-03-09T19:08:54,901 copying build/lib/galaxy/jobs/runners/util/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli 2026-03-09T19:08:54,903 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli/shell 2026-03-09T19:08:54,904 copying build/lib/galaxy/jobs/runners/util/cli/shell/local.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2026-03-09T19:08:54,906 copying build/lib/galaxy/jobs/runners/util/cli/shell/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2026-03-09T19:08:54,908 copying build/lib/galaxy/jobs/runners/util/cli/shell/rsh.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2026-03-09T19:08:54,910 copying build/lib/galaxy/jobs/runners/util/kill.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-03-09T19:08:54,912 copying build/lib/galaxy/jobs/runners/util/pykube_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-03-09T19:08:54,914 copying build/lib/galaxy/jobs/runners/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-03-09T19:08:54,916 copying build/lib/galaxy/jobs/runners/util/env.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-03-09T19:08:54,919 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/condor 2026-03-09T19:08:54,920 copying build/lib/galaxy/jobs/runners/util/condor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/condor 2026-03-09T19:08:54,922 copying build/lib/galaxy/jobs/runners/util/process_groups.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-03-09T19:08:54,924 copying build/lib/galaxy/jobs/runners/util/fork_safe_write.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-03-09T19:08:54,926 copying build/lib/galaxy/jobs/runners/util/sudo.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-03-09T19:08:54,928 copying build/lib/galaxy/jobs/runners/slurm.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-03-09T19:08:54,932 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/state_handlers 2026-03-09T19:08:54,933 copying build/lib/galaxy/jobs/runners/state_handlers/resubmit.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2026-03-09T19:08:54,936 copying build/lib/galaxy/jobs/runners/state_handlers/_safe_eval.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2026-03-09T19:08:54,938 copying build/lib/galaxy/jobs/runners/state_handlers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2026-03-09T19:08:54,941 creating build/bdist.linux-armv7l/wheel/galaxy/webhooks 2026-03-09T19:08:54,942 copying build/lib/galaxy/webhooks/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/webhooks 2026-03-09T19:08:54,944 copying build/lib/galaxy/config_watchers.py -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:54,947 creating build/bdist.linux-armv7l/wheel/galaxy/dependencies 2026-03-09T19:08:54,948 copying build/lib/galaxy/dependencies/script.py -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,950 copying build/lib/galaxy/dependencies/update_lint_requirements.sh -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,952 copying build/lib/galaxy/dependencies/pinned-lint-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,953 copying build/lib/galaxy/dependencies/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,956 copying build/lib/galaxy/dependencies/pinned-test-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,958 copying build/lib/galaxy/dependencies/pinned-typecheck-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,960 copying build/lib/galaxy/dependencies/dev-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,962 copying build/lib/galaxy/dependencies/pinned-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,965 copying build/lib/galaxy/dependencies/conditional-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,967 copying build/lib/galaxy/dependencies/lint-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,968 copying build/lib/galaxy/dependencies/update.sh -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-03-09T19:08:54,971 creating build/bdist.linux-armv7l/wheel/galaxy/celery 2026-03-09T19:08:54,972 copying build/lib/galaxy/celery/_serialization.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-03-09T19:08:54,974 copying build/lib/galaxy/celery/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-03-09T19:08:54,976 copying build/lib/galaxy/celery/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-03-09T19:08:54,978 copying build/lib/galaxy/celery/base_task.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-03-09T19:08:54,980 copying build/lib/galaxy/structured_app.py -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:54,983 creating build/bdist.linux-armv7l/wheel/galaxy/app_unittest_utils 2026-03-09T19:08:54,984 copying build/lib/galaxy/app_unittest_utils/tools_support.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-03-09T19:08:54,987 copying build/lib/galaxy/app_unittest_utils/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-03-09T19:08:54,988 copying build/lib/galaxy/app_unittest_utils/galaxy_mock.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-03-09T19:08:54,991 copying build/lib/galaxy/app_unittest_utils/toolbox_support.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-03-09T19:08:54,993 copying build/lib/galaxy/queues.py -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:54,995 copying build/lib/galaxy/main_config.py -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:54,998 creating build/bdist.linux-armv7l/wheel/galaxy/actions 2026-03-09T19:08:54,999 copying build/lib/galaxy/actions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/actions 2026-03-09T19:08:55,001 copying build/lib/galaxy/actions/library.py -> build/bdist.linux-armv7l/wheel/./galaxy/actions 2026-03-09T19:08:55,003 copying build/lib/galaxy/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:55,006 creating build/bdist.linux-armv7l/wheel/galaxy/work 2026-03-09T19:08:55,007 copying build/lib/galaxy/work/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/work 2026-03-09T19:08:55,008 copying build/lib/galaxy/work/context.py -> build/bdist.linux-armv7l/wheel/./galaxy/work 2026-03-09T19:08:55,011 creating build/bdist.linux-armv7l/wheel/galaxy/authnz 2026-03-09T19:08:55,012 copying build/lib/galaxy/authnz/tapis.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-03-09T19:08:55,014 copying build/lib/galaxy/authnz/psa_authnz.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-03-09T19:08:55,017 copying build/lib/galaxy/authnz/custos_authnz.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-03-09T19:08:55,019 copying build/lib/galaxy/authnz/managers.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-03-09T19:08:55,022 copying build/lib/galaxy/authnz/util.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-03-09T19:08:55,024 copying build/lib/galaxy/authnz/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-03-09T19:08:55,027 creating build/bdist.linux-armv7l/wheel/galaxy/forms 2026-03-09T19:08:55,028 copying build/lib/galaxy/forms/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/forms 2026-03-09T19:08:55,029 copying build/lib/galaxy/forms/forms.py -> build/bdist.linux-armv7l/wheel/./galaxy/forms 2026-03-09T19:08:55,032 copying build/lib/galaxy/app.py -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:55,035 copying build/lib/galaxy/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:55,037 creating build/bdist.linux-armv7l/wheel/galaxy/workflow 2026-03-09T19:08:55,038 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/refactor 2026-03-09T19:08:55,040 copying build/lib/galaxy/workflow/refactor/schema.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2026-03-09T19:08:55,042 copying build/lib/galaxy/workflow/refactor/execute.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2026-03-09T19:08:55,045 copying build/lib/galaxy/workflow/refactor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2026-03-09T19:08:55,047 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/schedulers 2026-03-09T19:08:55,048 copying build/lib/galaxy/workflow/schedulers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/schedulers 2026-03-09T19:08:55,050 copying build/lib/galaxy/workflow/schedulers/core.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/schedulers 2026-03-09T19:08:55,052 copying build/lib/galaxy/workflow/run.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,055 copying build/lib/galaxy/workflow/run_request.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,058 copying build/lib/galaxy/workflow/render.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,060 copying build/lib/galaxy/workflow/workflow_parameter_input_definitions.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,062 copying build/lib/galaxy/workflow/trs_proxy.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,064 copying build/lib/galaxy/workflow/steps.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,066 copying build/lib/galaxy/workflow/extract.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,069 copying build/lib/galaxy/workflow/modules.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,073 copying build/lib/galaxy/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,075 copying build/lib/galaxy/workflow/scheduling_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,078 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/reports 2026-03-09T19:08:55,079 copying build/lib/galaxy/workflow/reports/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports 2026-03-09T19:08:55,081 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/reports/generators 2026-03-09T19:08:55,082 copying build/lib/galaxy/workflow/reports/generators/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports/generators 2026-03-09T19:08:55,084 copying build/lib/galaxy/workflow/reports/generators/markdown.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports/generators 2026-03-09T19:08:55,087 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/resources 2026-03-09T19:08:55,088 copying build/lib/galaxy/workflow/resources/example.py.sample -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/resources 2026-03-09T19:08:55,090 copying build/lib/galaxy/workflow/resources/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/resources 2026-03-09T19:08:55,092 copying build/lib/galaxy/workflow/errors.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-03-09T19:08:55,095 creating build/bdist.linux-armv7l/wheel/galaxy/visualization 2026-03-09T19:08:55,097 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/genome 2026-03-09T19:08:55,098 copying build/lib/galaxy/visualization/genome/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/genome 2026-03-09T19:08:55,100 copying build/lib/galaxy/visualization/genomes.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization 2026-03-09T19:08:55,103 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/data_providers 2026-03-09T19:08:55,104 copying build/lib/galaxy/visualization/data_providers/genome.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-03-09T19:08:55,107 copying build/lib/galaxy/visualization/data_providers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-03-09T19:08:55,109 copying build/lib/galaxy/visualization/data_providers/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-03-09T19:08:55,111 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:55,112 copying build/lib/galaxy/visualization/data_providers/phyloviz/baseparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:55,114 copying build/lib/galaxy/visualization/data_providers/phyloviz/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:55,116 copying build/lib/galaxy/visualization/data_providers/phyloviz/newickparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:55,119 copying build/lib/galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:55,121 copying build/lib/galaxy/visualization/data_providers/phyloviz/nexusparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-03-09T19:08:55,123 copying build/lib/galaxy/visualization/data_providers/registry.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-03-09T19:08:55,125 copying build/lib/galaxy/visualization/data_providers/cigar.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-03-09T19:08:55,127 copying build/lib/galaxy/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization 2026-03-09T19:08:55,129 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/plugins 2026-03-09T19:08:55,130 copying build/lib/galaxy/visualization/plugins/utils.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-03-09T19:08:55,132 copying build/lib/galaxy/visualization/plugins/config_parser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-03-09T19:08:55,135 copying build/lib/galaxy/visualization/plugins/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-03-09T19:08:55,136 copying build/lib/galaxy/visualization/plugins/resource_parser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-03-09T19:08:55,138 copying build/lib/galaxy/visualization/plugins/plugin.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-03-09T19:08:55,141 copying build/lib/galaxy/visualization/plugins/datasource_testing.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-03-09T19:08:55,143 copying build/lib/galaxy/visualization/plugins/registry.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-03-09T19:08:55,145 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/tracks 2026-03-09T19:08:55,146 copying build/lib/galaxy/visualization/tracks/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/tracks 2026-03-09T19:08:55,149 creating build/bdist.linux-armv7l/wheel/galaxy/short_term_storage 2026-03-09T19:08:55,149 copying build/lib/galaxy/short_term_storage/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/short_term_storage 2026-03-09T19:08:55,152 copying build/lib/galaxy/di.py -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:55,155 creating build/bdist.linux-armv7l/wheel/galaxy/managers 2026-03-09T19:08:55,156 copying build/lib/galaxy/managers/markdown_export_base.css -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,158 copying build/lib/galaxy/managers/remote_files.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,160 copying build/lib/galaxy/managers/collections_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,162 copying build/lib/galaxy/managers/item_tags.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,164 copying build/lib/galaxy/managers/citations.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,166 copying build/lib/galaxy/managers/group_roles.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,168 copying build/lib/galaxy/managers/secured.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,170 copying build/lib/galaxy/managers/landing.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,172 copying build/lib/galaxy/managers/base.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,175 copying build/lib/galaxy/managers/annotatable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,177 copying build/lib/galaxy/managers/visualizations.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,179 copying build/lib/galaxy/managers/tool_data.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,181 copying build/lib/galaxy/managers/rbac_secured.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,183 copying build/lib/galaxy/managers/markdown_parse.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,186 copying build/lib/galaxy/managers/deletable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,188 copying build/lib/galaxy/managers/tours.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,191 copying build/lib/galaxy/managers/configuration.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,193 copying build/lib/galaxy/managers/session.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,195 copying build/lib/galaxy/managers/_config_templates.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,198 copying build/lib/galaxy/managers/genomes.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,200 copying build/lib/galaxy/managers/tags.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,202 copying build/lib/galaxy/managers/sharable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,205 copying build/lib/galaxy/managers/group_users.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,206 copying build/lib/galaxy/managers/dbkeys.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,209 copying build/lib/galaxy/managers/quotas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,211 copying build/lib/galaxy/managers/notification.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,214 copying build/lib/galaxy/managers/collections.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,217 copying build/lib/galaxy/managers/jobs.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,221 copying build/lib/galaxy/managers/roles.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,223 copying build/lib/galaxy/managers/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,225 copying build/lib/galaxy/managers/credentials.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,227 copying build/lib/galaxy/managers/groups.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,229 copying build/lib/galaxy/managers/metrics.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,231 copying build/lib/galaxy/managers/histories.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,234 copying build/lib/galaxy/managers/lddas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,236 copying build/lib/galaxy/managers/executables.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,238 copying build/lib/galaxy/managers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,240 copying build/lib/galaxy/managers/licenses.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,242 copying build/lib/galaxy/managers/forms.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,244 copying build/lib/galaxy/managers/api_keys.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,246 copying build/lib/galaxy/managers/licenses.json -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,251 copying build/lib/galaxy/managers/tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,254 copying build/lib/galaxy/managers/context.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,256 copying build/lib/galaxy/managers/library_datasets.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,259 copying build/lib/galaxy/managers/hdcas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,262 copying build/lib/galaxy/managers/datasets.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,266 copying build/lib/galaxy/managers/users.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,269 copying build/lib/galaxy/managers/model_stores.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,271 copying build/lib/galaxy/managers/object_store_instances.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,274 copying build/lib/galaxy/managers/export_tracker.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,275 copying build/lib/galaxy/managers/hdas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,278 copying build/lib/galaxy/managers/workflows.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,283 copying build/lib/galaxy/managers/pages.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,285 copying build/lib/galaxy/managers/interactivetool.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,288 copying build/lib/galaxy/managers/folders.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,291 copying build/lib/galaxy/managers/display_applications.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,293 copying build/lib/galaxy/managers/job_connections.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,295 copying build/lib/galaxy/managers/file_source_instances.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,298 copying build/lib/galaxy/managers/markdown_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,302 copying build/lib/galaxy/managers/chat.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,304 copying build/lib/galaxy/managers/ratable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,306 copying build/lib/galaxy/managers/taggable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,308 copying build/lib/galaxy/managers/libraries.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,311 copying build/lib/galaxy/managers/history_contents.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,314 copying build/lib/galaxy/managers/datatypes.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-03-09T19:08:55,318 creating build/bdist.linux-armv7l/wheel/galaxy/tools 2026-03-09T19:08:55,319 copying build/lib/galaxy/tools/evaluation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,322 copying build/lib/galaxy/tools/sort_collection_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,325 creating build/bdist.linux-armv7l/wheel/galaxy/tools/imp_exp 2026-03-09T19:08:55,326 copying build/lib/galaxy/tools/imp_exp/unpack_tar_gz_archive.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-03-09T19:08:55,328 copying build/lib/galaxy/tools/imp_exp/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-03-09T19:08:55,330 copying build/lib/galaxy/tools/imp_exp/export_history.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-03-09T19:08:55,333 copying build/lib/galaxy/tools/imp_exp/exp_history_to_archive.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-03-09T19:08:55,334 copying build/lib/galaxy/tools/imp_exp/imp_history_from_archive.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-03-09T19:08:55,336 copying build/lib/galaxy/tools/imp_exp/exp_history_to_uri.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-03-09T19:08:55,338 copying build/lib/galaxy/tools/filter_failed_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,340 copying build/lib/galaxy/tools/wrappers.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,343 copying build/lib/galaxy/tools/harmonize_two_collections_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,345 copying build/lib/galaxy/tools/nest_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,348 creating build/bdist.linux-armv7l/wheel/galaxy/tools/expressions 2026-03-09T19:08:55,349 copying build/lib/galaxy/tools/expressions/evaluation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-03-09T19:08:55,352 copying build/lib/galaxy/tools/expressions/cwlNodeEngine.js -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-03-09T19:08:55,353 copying build/lib/galaxy/tools/expressions/util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-03-09T19:08:55,355 copying build/lib/galaxy/tools/expressions/script.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-03-09T19:08:55,357 copying build/lib/galaxy/tools/expressions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-03-09T19:08:55,359 copying build/lib/galaxy/tools/execution_helpers.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,361 copying build/lib/galaxy/tools/flatten_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,362 copying build/lib/galaxy/tools/unzip_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,364 copying build/lib/galaxy/tools/split_paired_and_unpaired.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,366 copying build/lib/galaxy/tools/filter_null_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,369 creating build/bdist.linux-armv7l/wheel/galaxy/tools/filters 2026-03-09T19:08:55,370 copying build/lib/galaxy/tools/filters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/filters 2026-03-09T19:08:55,371 copying build/lib/galaxy/tools/exception_handling.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:55,373 creating build/bdist.linux-armv7l/wheel/galaxy/tools/error_reports 2026-03-09T19:08:55,375 copying build/lib/galaxy/tools/error_reports/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports 2026-03-09T19:08:55,378 creating build/bdist.linux-armv7l/wheel/galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,379 copying build/lib/galaxy/tools/error_reports/plugins/base_git.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,381 copying build/lib/galaxy/tools/error_reports/plugins/slack.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,383 copying build/lib/galaxy/tools/error_reports/plugins/github.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,385 copying build/lib/galaxy/tools/error_reports/plugins/gitlab.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,388 copying build/lib/galaxy/tools/error_reports/plugins/json.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,390 copying build/lib/galaxy/tools/error_reports/plugins/email.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,393 copying build/lib/galaxy/tools/error_reports/plugins/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,395 copying build/lib/galaxy/tools/error_reports/plugins/influxdb.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,397 copying build/lib/galaxy/tools/error_reports/plugins/sentry.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-03-09T19:08:55,399 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled 2026-03-09T19:08:55,401 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/maf 2026-03-09T19:08:55,403 copying build/lib/galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,405 copying build/lib/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,408 copying build/lib/galaxy/tools/bundled/maf/interval2maf.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,410 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,412 copying build/lib/galaxy/tools/bundled/maf/maf_limit_to_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,414 copying build/lib/galaxy/tools/bundled/maf/maf_to_interval.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,416 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,418 copying build/lib/galaxy/tools/bundled/maf/maf_stats.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,421 copying build/lib/galaxy/tools/bundled/maf/maf_thread_for_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,423 copying build/lib/galaxy/tools/bundled/maf/maf_limit_to_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,425 copying build/lib/galaxy/tools/bundled/maf/maf_split_by_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,427 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta_concat.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,429 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,431 copying build/lib/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,434 copying build/lib/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,436 copying build/lib/galaxy/tools/bundled/maf/maf_filter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,437 copying build/lib/galaxy/tools/bundled/maf/maf_to_interval.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,440 copying build/lib/galaxy/tools/bundled/maf/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,441 copying build/lib/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,443 copying build/lib/galaxy/tools/bundled/maf/maf_reverse_complement.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,445 copying build/lib/galaxy/tools/bundled/maf/maf_by_block_number.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,447 copying build/lib/galaxy/tools/bundled/maf/maf_split_by_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,449 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,451 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,453 copying build/lib/galaxy/tools/bundled/maf/interval2maf_pairwise.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,455 copying build/lib/galaxy/tools/bundled/maf/interval2maf.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,457 copying build/lib/galaxy/tools/bundled/maf/maf_limit_size.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,459 copying build/lib/galaxy/tools/bundled/maf/maf_stats.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,461 copying build/lib/galaxy/tools/bundled/maf/macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,463 copying build/lib/galaxy/tools/bundled/maf/maf_filter.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,465 copying build/lib/galaxy/tools/bundled/maf/maf_thread_for_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,468 copying build/lib/galaxy/tools/bundled/maf/maf_reverse_complement.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,470 copying build/lib/galaxy/tools/bundled/maf/maf_by_block_number.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,472 copying build/lib/galaxy/tools/bundled/maf/maf_limit_size.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-03-09T19:08:55,475 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/interactive 2026-03-09T19:08:55,476 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.3.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,478 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,481 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_isee.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,483 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,485 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_panoply.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,487 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ilastik.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,489 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_phinch.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,491 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,493 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,495 copying build/lib/galaxy/tools/bundled/interactive/simtext_app.R -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,498 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,500 copying build/lib/galaxy/tools/bundled/interactive/default_notebook.ipynb -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,501 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,504 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,506 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,508 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pyiron.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,510 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,512 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_neo4j.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,514 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,517 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,519 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_metashark.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,521 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,523 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,525 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_wallace.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,527 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_openrefine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,529 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,531 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,533 copying build/lib/galaxy/tools/bundled/interactive/Rprofile.R -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,535 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_wilson.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,536 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_higlass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,538 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,541 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_askomics.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,543 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,545 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_paraview.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,547 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,548 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_radiant.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,550 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pavian.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,552 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_rstudio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,554 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,555 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-03-09T19:08:55,558 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:55,559 copying build/lib/galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:55,561 copying build/lib/galaxy/tools/bundled/sr_assembly/velveth_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:55,563 copying build/lib/galaxy/tools/bundled/sr_assembly/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:55,564 copying build/lib/galaxy/tools/bundled/sr_assembly/velvetg.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:55,566 copying build/lib/galaxy/tools/bundled/sr_assembly/velveth.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-03-09T19:08:55,569 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/data_source 2026-03-09T19:08:55,570 copying build/lib/galaxy/tools/bundled/data_source/genbank.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,572 copying build/lib/galaxy/tools/bundled/data_source/biomart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,574 copying build/lib/galaxy/tools/bundled/data_source/upload.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,576 copying build/lib/galaxy/tools/bundled/data_source/microbial_import.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,578 copying build/lib/galaxy/tools/bundled/data_source/ratmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,580 copying build/lib/galaxy/tools/bundled/data_source/eupathdb.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,582 copying build/lib/galaxy/tools/bundled/data_source/wormbase_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,583 copying build/lib/galaxy/tools/bundled/data_source/genbank.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,585 copying build/lib/galaxy/tools/bundled/data_source/metabolicmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,587 copying build/lib/galaxy/tools/bundled/data_source/intermine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,588 copying build/lib/galaxy/tools/bundled/data_source/microbial_import_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,590 copying build/lib/galaxy/tools/bundled/data_source/hbvar.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,592 copying build/lib/galaxy/tools/bundled/data_source/access_libraries.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,593 copying build/lib/galaxy/tools/bundled/data_source/hapmapmart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,595 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,597 copying build/lib/galaxy/tools/bundled/data_source/flymine_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,599 copying build/lib/galaxy/tools/bundled/data_source/modmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,601 copying build/lib/galaxy/tools/bundled/data_source/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,603 copying build/lib/galaxy/tools/bundled/data_source/ebi_sra.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,604 copying build/lib/galaxy/tools/bundled/data_source/microbial_import.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,607 copying build/lib/galaxy/tools/bundled/data_source/upload.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,609 copying build/lib/galaxy/tools/bundled/data_source/diced.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,611 copying build/lib/galaxy/tools/bundled/data_source/import.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,613 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,615 copying build/lib/galaxy/tools/bundled/data_source/import.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,617 copying build/lib/galaxy/tools/bundled/data_source/sra.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,619 copying build/lib/galaxy/tools/bundled/data_source/mousemine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,621 copying build/lib/galaxy/tools/bundled/data_source/yeastmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,623 copying build/lib/galaxy/tools/bundled/data_source/zebrafishmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,625 copying build/lib/galaxy/tools/bundled/data_source/ncbi_datasets.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,627 copying build/lib/galaxy/tools/bundled/data_source/worm_modencode.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,629 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,631 copying build/lib/galaxy/tools/bundled/data_source/gramene_mart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,633 copying build/lib/galaxy/tools/bundled/data_source/cbi_rice_mart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,634 copying build/lib/galaxy/tools/bundled/data_source/data_source.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,636 copying build/lib/galaxy/tools/bundled/data_source/fly_modencode.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,638 copying build/lib/galaxy/tools/bundled/data_source/biomart_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,640 copying build/lib/galaxy/tools/bundled/data_source/flymine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,642 copying build/lib/galaxy/tools/bundled/data_source/wormbase.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-03-09T19:08:55,645 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/filters 2026-03-09T19:08:55,646 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/filters/gff 2026-03-09T19:08:55,648 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 2026-03-09T19:08:55,650 copying build/lib/galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-03-09T19:08:55,653 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-03-09T19:08:55,654 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-03-09T19:08:55,657 copying build/lib/galaxy/tools/bundled/filters/gff/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-03-09T19:08:55,658 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 2026-03-09T19:08:55,660 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-03-09T19:08:55,663 copying build/lib/galaxy/tools/bundled/filters/gff/extract_GFF_Features.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-03-09T19:08:55,665 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-03-09T19:08:55,667 copying build/lib/galaxy/tools/bundled/filters/mergeCols.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,669 copying build/lib/galaxy/tools/bundled/filters/CreateInterval.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,671 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,673 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,675 copying build/lib/galaxy/tools/bundled/filters/axt_to_concat_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,677 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,679 copying build/lib/galaxy/tools/bundled/filters/bed2gff.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,681 copying build/lib/galaxy/tools/bundled/filters/changeCase.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,683 copying build/lib/galaxy/tools/bundled/filters/bed_to_gff_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,684 copying build/lib/galaxy/tools/bundled/filters/compare.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,686 copying build/lib/galaxy/tools/bundled/filters/trimmer.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,688 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,690 copying build/lib/galaxy/tools/bundled/filters/wiggle_to_simple.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,692 copying build/lib/galaxy/tools/bundled/filters/joiner2.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,694 copying build/lib/galaxy/tools/bundled/filters/convert_characters.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,696 copying build/lib/galaxy/tools/bundled/filters/bed_to_bigbed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,697 copying build/lib/galaxy/tools/bundled/filters/fixedValueColumn.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,699 copying build/lib/galaxy/tools/bundled/filters/gtf2bedgraph.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,701 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,703 copying build/lib/galaxy/tools/bundled/filters/convert_characters.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,705 copying build/lib/galaxy/tools/bundled/filters/fileGrep.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,707 copying build/lib/galaxy/tools/bundled/filters/pasteWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,709 copying build/lib/galaxy/tools/bundled/filters/CreateInterval.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,710 copying build/lib/galaxy/tools/bundled/filters/commWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,712 copying build/lib/galaxy/tools/bundled/filters/mergeCols.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,714 copying build/lib/galaxy/tools/bundled/filters/wiggle_to_simple.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,716 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,718 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,720 copying build/lib/galaxy/tools/bundled/filters/trimmer.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,721 copying build/lib/galaxy/tools/bundled/filters/gff2bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,723 copying build/lib/galaxy/tools/bundled/filters/sff_extractor.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,725 copying build/lib/galaxy/tools/bundled/filters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,727 copying build/lib/galaxy/tools/bundled/filters/uniq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,728 copying build/lib/galaxy/tools/bundled/filters/catWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,730 copying build/lib/galaxy/tools/bundled/filters/randomlines.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,732 copying build/lib/galaxy/tools/bundled/filters/headWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,734 copying build/lib/galaxy/tools/bundled/filters/axt_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,735 copying build/lib/galaxy/tools/bundled/filters/gff_to_bed_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,738 copying build/lib/galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,739 copying build/lib/galaxy/tools/bundled/filters/cutWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,741 copying build/lib/galaxy/tools/bundled/filters/sorter.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,744 copying build/lib/galaxy/tools/bundled/filters/secure_hash_message_digest.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,745 copying build/lib/galaxy/tools/bundled/filters/tailWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,747 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,749 copying build/lib/galaxy/tools/bundled/filters/commWrapper.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,751 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,753 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,755 copying build/lib/galaxy/tools/bundled/filters/grep.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,757 copying build/lib/galaxy/tools/bundled/filters/secure_hash_message_digest.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,760 copying build/lib/galaxy/tools/bundled/filters/random_lines_two_pass.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,762 copying build/lib/galaxy/tools/bundled/filters/wc_gnu.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,764 copying build/lib/galaxy/tools/bundled/filters/axt_to_concat_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,766 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,768 copying build/lib/galaxy/tools/bundled/filters/wig_to_bigwig.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,770 copying build/lib/galaxy/tools/bundled/filters/joiner.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,772 copying build/lib/galaxy/tools/bundled/filters/remove_beginning.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,774 copying build/lib/galaxy/tools/bundled/filters/uniq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,777 copying build/lib/galaxy/tools/bundled/filters/changeCase.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,779 copying build/lib/galaxy/tools/bundled/filters/sff_extract.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,782 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,784 copying build/lib/galaxy/tools/bundled/filters/condense_characters.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,786 copying build/lib/galaxy/tools/bundled/filters/randomlines.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,788 copying build/lib/galaxy/tools/bundled/filters/condense_characters.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,790 copying build/lib/galaxy/tools/bundled/filters/axt_to_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,792 copying build/lib/galaxy/tools/bundled/filters/cutWrapper.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,794 copying build/lib/galaxy/tools/bundled/filters/join.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,797 copying build/lib/galaxy/tools/bundled/filters/fixedValueColumn.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,799 copying build/lib/galaxy/tools/bundled/filters/grep_1.0.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-03-09T19:08:55,802 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/expression_tools 2026-03-09T19:08:55,803 copying build/lib/galaxy/tools/bundled/expression_tools/pick_value.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2026-03-09T19:08:55,806 copying build/lib/galaxy/tools/bundled/expression_tools/parse_values_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2026-03-09T19:08:55,808 copying build/lib/galaxy/tools/bundled/expression_tools/expression_macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2026-03-09T19:08:55,810 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/ngs_simulation 2026-03-09T19:08:55,811 copying build/lib/galaxy/tools/bundled/ngs_simulation/ngs_simulation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2026-03-09T19:08:55,814 copying build/lib/galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2026-03-09T19:08:55,816 copying build/lib/galaxy/tools/bundled/ngs_simulation/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2026-03-09T19:08:55,819 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/plotting 2026-03-09T19:08:55,820 copying build/lib/galaxy/tools/bundled/plotting/bar_chart.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2026-03-09T19:08:55,822 copying build/lib/galaxy/tools/bundled/plotting/bar_chart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2026-03-09T19:08:55,824 copying build/lib/galaxy/tools/bundled/plotting/boxplot.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2026-03-09T19:08:55,827 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/data_export 2026-03-09T19:08:55,828 copying build/lib/galaxy/tools/bundled/data_export/export_remote.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_export 2026-03-09T19:08:55,831 copying build/lib/galaxy/tools/bundled/data_export/export_remote.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_export 2026-03-09T19:08:55,833 copying build/lib/galaxy/tools/bundled/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled 2026-03-09T19:08:55,835 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:55,837 copying build/lib/galaxy/tools/bundled/sr_mapping/srma_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:55,839 copying build/lib/galaxy/tools/bundled/sr_mapping/mosaik.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:55,841 copying build/lib/galaxy/tools/bundled/sr_mapping/PerM.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:55,844 copying build/lib/galaxy/tools/bundled/sr_mapping/srma_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:55,846 copying build/lib/galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:55,849 copying build/lib/galaxy/tools/bundled/sr_mapping/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:55,850 copying build/lib/galaxy/tools/bundled/sr_mapping/bfast_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:55,853 copying build/lib/galaxy/tools/bundled/sr_mapping/fastq_statistics.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-03-09T19:08:55,856 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/stats 2026-03-09T19:08:55,857 copying build/lib/galaxy/tools/bundled/stats/gsummary.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,859 copying build/lib/galaxy/tools/bundled/stats/filtering.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,861 copying build/lib/galaxy/tools/bundled/stats/grouping.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,864 copying build/lib/galaxy/tools/bundled/stats/filtering.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,866 copying build/lib/galaxy/tools/bundled/stats/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,868 copying build/lib/galaxy/tools/bundled/stats/r_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,869 copying build/lib/galaxy/tools/bundled/stats/gsummary.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,871 copying build/lib/galaxy/tools/bundled/stats/grouping.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,873 copying build/lib/galaxy/tools/bundled/stats/filtering_1_1_0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,876 copying build/lib/galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,878 copying build/lib/galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-03-09T19:08:55,881 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,882 copying build/lib/galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,884 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,886 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,888 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid2fastq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,890 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,892 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,894 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,896 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,898 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-03-09T19:08:55,900 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/meme 2026-03-09T19:08:55,901 copying build/lib/galaxy/tools/bundled/meme/meme.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/meme 2026-03-09T19:08:55,904 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,906 copying build/lib/galaxy/tools/bundled/phenotype_association/mergeSnps.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,908 copying build/lib/galaxy/tools/bundled/phenotype_association/pass_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,910 copying build/lib/galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,911 copying build/lib/galaxy/tools/bundled/phenotype_association/pagetag.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,914 copying build/lib/galaxy/tools/bundled/phenotype_association/beam.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,917 copying build/lib/galaxy/tools/bundled/phenotype_association/pass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,919 copying build/lib/galaxy/tools/bundled/phenotype_association/master2gd_snp.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,921 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToDavid.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,923 copying build/lib/galaxy/tools/bundled/phenotype_association/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,925 copying build/lib/galaxy/tools/bundled/phenotype_association/ldtools.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,927 copying build/lib/galaxy/tools/bundled/phenotype_association/master2pg.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,929 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToDavid.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,931 copying build/lib/galaxy/tools/bundled/phenotype_association/lps_tool_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,933 copying build/lib/galaxy/tools/bundled/phenotype_association/senatag.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,935 copying build/lib/galaxy/tools/bundled/phenotype_association/sift.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,937 copying build/lib/galaxy/tools/bundled/phenotype_association/sift_variants_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,939 copying build/lib/galaxy/tools/bundled/phenotype_association/lped_to_geno.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,941 copying build/lib/galaxy/tools/bundled/phenotype_association/master2pg.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,943 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToGProfile.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,945 copying build/lib/galaxy/tools/bundled/phenotype_association/gpass.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,947 copying build/lib/galaxy/tools/bundled/phenotype_association/gpass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,949 copying build/lib/galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,951 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToGProfile.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,953 copying build/lib/galaxy/tools/bundled/phenotype_association/master2gd_snp.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,955 copying build/lib/galaxy/tools/bundled/phenotype_association/lps.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-03-09T19:08:55,958 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/metag_tools 2026-03-09T19:08:55,959 copying build/lib/galaxy/tools/bundled/metag_tools/blat_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-03-09T19:08:55,961 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-03-09T19:08:55,964 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-03-09T19:08:55,966 copying build/lib/galaxy/tools/bundled/metag_tools/blat_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-03-09T19:08:55,968 copying build/lib/galaxy/tools/bundled/metag_tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-03-09T19:08:55,970 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-03-09T19:08:55,972 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-03-09T19:08:55,975 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/extract 2026-03-09T19:08:55,976 copying build/lib/galaxy/tools/bundled/extract/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-03-09T19:08:55,978 copying build/lib/galaxy/tools/bundled/extract/extract_genomic_dna.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-03-09T19:08:55,980 copying build/lib/galaxy/tools/bundled/extract/liftOver_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-03-09T19:08:55,982 copying build/lib/galaxy/tools/bundled/extract/extract_genomic_dna.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-03-09T19:08:55,985 copying build/lib/galaxy/tools/bundled/extract/liftOver_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-03-09T19:08:55,987 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/solid_tools 2026-03-09T19:08:55,988 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-03-09T19:08:55,990 copying build/lib/galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-03-09T19:08:55,992 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_stats.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-03-09T19:08:55,994 copying build/lib/galaxy/tools/bundled/solid_tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-03-09T19:08:55,996 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-03-09T19:08:55,998 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-03-09T19:08:55,999 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-03-09T19:08:56,001 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_stats.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-03-09T19:08:56,003 creating build/bdist.linux-armv7l/wheel/galaxy/tools/fetch 2026-03-09T19:08:56,004 copying build/lib/galaxy/tools/fetch/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/fetch 2026-03-09T19:08:56,006 copying build/lib/galaxy/tools/fetch/workbooks.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/fetch 2026-03-09T19:08:56,008 copying build/lib/galaxy/tools/duplicate_file_to_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,010 copying build/lib/galaxy/tools/keep_success_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,012 copying build/lib/galaxy/tools/filter_null.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,014 copying build/lib/galaxy/tools/filter_from_file_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,016 copying build/lib/galaxy/tools/remote_tool_eval.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,018 copying build/lib/galaxy/tools/filter_empty_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,020 copying build/lib/galaxy/tools/cross_product_flat.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,022 copying build/lib/galaxy/tools/special_tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,024 copying build/lib/galaxy/tools/merge_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,026 copying build/lib/galaxy/tools/execute.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,029 copying build/lib/galaxy/tools/cache.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,031 copying build/lib/galaxy/tools/data_fetch.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,033 copying build/lib/galaxy/tools/build_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,036 creating build/bdist.linux-armv7l/wheel/galaxy/tools/actions 2026-03-09T19:08:56,037 copying build/lib/galaxy/tools/actions/upload.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-03-09T19:08:56,039 copying build/lib/galaxy/tools/actions/upload_common.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-03-09T19:08:56,042 copying build/lib/galaxy/tools/actions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-03-09T19:08:56,045 copying build/lib/galaxy/tools/actions/metadata.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-03-09T19:08:56,047 copying build/lib/galaxy/tools/actions/history_imp_exp.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-03-09T19:08:56,050 copying build/lib/galaxy/tools/actions/data_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-03-09T19:08:56,051 copying build/lib/galaxy/tools/actions/model_operations.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-03-09T19:08:56,054 copying build/lib/galaxy/tools/actions/data_source.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-03-09T19:08:56,056 copying build/lib/galaxy/tools/biotools.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,059 copying build/lib/galaxy/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,065 creating build/bdist.linux-armv7l/wheel/galaxy/tools/search 2026-03-09T19:08:56,066 copying build/lib/galaxy/tools/search/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/search 2026-03-09T19:08:56,069 copying build/lib/galaxy/tools/recommendations.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,072 copying build/lib/galaxy/tools/build_list_1.2.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,074 copying build/lib/galaxy/tools/stock.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,076 copying build/lib/galaxy/tools/extract_dataset.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,078 copying build/lib/galaxy/tools/convert_sample_sheet.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,080 copying build/lib/galaxy/tools/keep_success_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,082 copying build/lib/galaxy/tools/_types.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,084 copying build/lib/galaxy/tools/filter_failed_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,087 creating build/bdist.linux-armv7l/wheel/galaxy/tools/data 2026-03-09T19:08:56,088 copying build/lib/galaxy/tools/data/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data 2026-03-09T19:08:56,091 copying build/lib/galaxy/tools/model_operation_macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,093 copying build/lib/galaxy/tools/zip_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,095 creating build/bdist.linux-armv7l/wheel/galaxy/tools/parameters 2026-03-09T19:08:56,097 copying build/lib/galaxy/tools/parameters/input_translation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,099 copying build/lib/galaxy/tools/parameters/grouping.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,102 copying build/lib/galaxy/tools/parameters/sanitize.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,105 copying build/lib/galaxy/tools/parameters/cancelable_request.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,107 copying build/lib/galaxy/tools/parameters/validation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,110 copying build/lib/galaxy/tools/parameters/options.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,112 copying build/lib/galaxy/tools/parameters/dynamic_options.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,115 copying build/lib/galaxy/tools/parameters/workflow_utils.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,117 copying build/lib/galaxy/tools/parameters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,119 copying build/lib/galaxy/tools/parameters/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,124 copying build/lib/galaxy/tools/parameters/dataset_matcher.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,127 copying build/lib/galaxy/tools/parameters/meta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,130 copying build/lib/galaxy/tools/parameters/wrapped.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,132 copying build/lib/galaxy/tools/parameters/wrapped_json.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,135 copying build/lib/galaxy/tools/parameters/populate_model.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-03-09T19:08:56,137 copying build/lib/galaxy/tools/apply_rules.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,139 copying build/lib/galaxy/tools/sample_sheet_to_tabular.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,141 copying build/lib/galaxy/tools/cross_product_nested.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,144 copying build/lib/galaxy/tools/filter_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,146 copying build/lib/galaxy/tools/relabel_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,148 copying build/lib/galaxy/tools/errors.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,151 creating build/bdist.linux-armv7l/wheel/galaxy/tools/util 2026-03-09T19:08:56,153 copying build/lib/galaxy/tools/util/maf_utilities.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util 2026-03-09T19:08:56,156 copying build/lib/galaxy/tools/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util 2026-03-09T19:08:56,158 creating build/bdist.linux-armv7l/wheel/galaxy/tools/util/galaxyops 2026-03-09T19:08:56,159 copying build/lib/galaxy/tools/util/galaxyops/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util/galaxyops 2026-03-09T19:08:56,162 creating build/bdist.linux-armv7l/wheel/galaxy/tools/data_manager 2026-03-09T19:08:56,164 copying build/lib/galaxy/tools/data_manager/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data_manager 2026-03-09T19:08:56,166 copying build/lib/galaxy/tools/data_manager/manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data_manager 2026-03-09T19:08:56,169 copying build/lib/galaxy/tools/tag_collection_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,172 copying build/lib/galaxy/tools/data_fetch.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,174 copying build/lib/galaxy/tools/repositories.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,176 copying build/lib/galaxy/tools/filter_empty_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-03-09T19:08:56,179 copying build/lib/galaxy/main.py -> build/bdist.linux-armv7l/wheel/./galaxy 2026-03-09T19:08:56,182 creating build/bdist.linux-armv7l/wheel/galaxy_ext 2026-03-09T19:08:56,184 creating build/bdist.linux-armv7l/wheel/galaxy_ext/expressions 2026-03-09T19:08:56,185 copying build/lib/galaxy_ext/expressions/handle_job.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/expressions 2026-03-09T19:08:56,188 copying build/lib/galaxy_ext/expressions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/expressions 2026-03-09T19:08:56,190 creating build/bdist.linux-armv7l/wheel/galaxy_ext/container_monitor 2026-03-09T19:08:56,191 copying build/lib/galaxy_ext/container_monitor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/container_monitor 2026-03-09T19:08:56,193 copying build/lib/galaxy_ext/container_monitor/monitor.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/container_monitor 2026-03-09T19:08:56,195 copying build/lib/galaxy_ext/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext 2026-03-09T19:08:56,197 copying build/lib/galaxy_ext/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy_ext 2026-03-09T19:08:56,199 creating build/bdist.linux-armv7l/wheel/galaxy_ext/metadata 2026-03-09T19:08:56,201 copying build/lib/galaxy_ext/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/metadata 2026-03-09T19:08:56,203 copying build/lib/galaxy_ext/metadata/set_metadata.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/metadata 2026-03-09T19:08:56,206 creating build/bdist.linux-armv7l/wheel/tool_shed_client 2026-03-09T19:08:56,208 creating build/bdist.linux-armv7l/wheel/tool_shed_client/schema 2026-03-09T19:08:56,210 copying build/lib/tool_shed_client/schema/trs_service_info.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2026-03-09T19:08:56,213 copying build/lib/tool_shed_client/schema/__init__.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2026-03-09T19:08:56,216 copying build/lib/tool_shed_client/schema/trs.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2026-03-09T19:08:56,219 copying build/lib/tool_shed_client/__init__.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2026-03-09T19:08:56,221 copying build/lib/tool_shed_client/trs_util.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2026-03-09T19:08:56,223 copying build/lib/tool_shed_client/py.typed -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2026-03-09T19:08:56,225 running install_egg_info 2026-03-09T19:08:56,238 Copying galaxy_app.egg-info to build/bdist.linux-armv7l/wheel/./galaxy_app-25.1.2-py3.11.egg-info 2026-03-09T19:08:56,253 running install_scripts 2026-03-09T19:08:56,269 creating build/bdist.linux-armv7l/wheel/galaxy_app-25.1.2.dist-info/WHEEL 2026-03-09T19:08:56,272 creating '/tmp/pip-wheel-mkgibxdz/.tmp-ge_hkz0i/galaxy_app-25.1.2-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-03-09T19:08:56,275 adding 'galaxy/__init__.py' 2026-03-09T19:08:56,281 adding 'galaxy/app.py' 2026-03-09T19:08:56,283 adding 'galaxy/config_watchers.py' 2026-03-09T19:08:56,285 adding 'galaxy/di.py' 2026-03-09T19:08:56,287 adding 'galaxy/main.py' 2026-03-09T19:08:56,289 adding 'galaxy/main_config.py' 2026-03-09T19:08:56,290 adding 'galaxy/py.typed' 2026-03-09T19:08:56,293 adding 'galaxy/queue_worker.py' 2026-03-09T19:08:56,295 adding 'galaxy/queues.py' 2026-03-09T19:08:56,297 adding 'galaxy/structured_app.py' 2026-03-09T19:08:56,299 adding 'galaxy/actions/__init__.py' 2026-03-09T19:08:56,301 adding 'galaxy/actions/library.py' 2026-03-09T19:08:56,303 adding 'galaxy/app_unittest_utils/__init__.py' 2026-03-09T19:08:56,306 adding 'galaxy/app_unittest_utils/galaxy_mock.py' 2026-03-09T19:08:56,308 adding 'galaxy/app_unittest_utils/toolbox_support.py' 2026-03-09T19:08:56,310 adding 'galaxy/app_unittest_utils/tools_support.py' 2026-03-09T19:08:56,312 adding 'galaxy/authnz/__init__.py' 2026-03-09T19:08:56,316 adding 'galaxy/authnz/custos_authnz.py' 2026-03-09T19:08:56,319 adding 'galaxy/authnz/managers.py' 2026-03-09T19:08:56,323 adding 'galaxy/authnz/psa_authnz.py' 2026-03-09T19:08:56,325 adding 'galaxy/authnz/tapis.py' 2026-03-09T19:08:56,326 adding 'galaxy/authnz/util.py' 2026-03-09T19:08:56,328 adding 'galaxy/carbon_emissions/__init__.py' 2026-03-09T19:08:56,331 adding 'galaxy/carbon_emissions/carbon_intensity.csv' 2026-03-09T19:08:56,333 adding 'galaxy/celery/__init__.py' 2026-03-09T19:08:56,335 adding 'galaxy/celery/_serialization.py' 2026-03-09T19:08:56,337 adding 'galaxy/celery/base_task.py' 2026-03-09T19:08:56,339 adding 'galaxy/celery/tasks.py' 2026-03-09T19:08:56,342 adding 'galaxy/dependencies/__init__.py' 2026-03-09T19:08:56,344 adding 'galaxy/dependencies/conditional-requirements.txt' 2026-03-09T19:08:56,346 adding 'galaxy/dependencies/dev-requirements.txt' 2026-03-09T19:08:56,348 adding 'galaxy/dependencies/lint-requirements.txt' 2026-03-09T19:08:56,349 adding 'galaxy/dependencies/pinned-lint-requirements.txt' 2026-03-09T19:08:56,351 adding 'galaxy/dependencies/pinned-requirements.txt' 2026-03-09T19:08:56,353 adding 'galaxy/dependencies/pinned-test-requirements.txt' 2026-03-09T19:08:56,354 adding 'galaxy/dependencies/pinned-typecheck-requirements.txt' 2026-03-09T19:08:56,356 adding 'galaxy/dependencies/script.py' 2026-03-09T19:08:56,357 adding 'galaxy/dependencies/update.sh' 2026-03-09T19:08:56,359 adding 'galaxy/dependencies/update_lint_requirements.sh' 2026-03-09T19:08:56,360 adding 'galaxy/forms/__init__.py' 2026-03-09T19:08:56,362 adding 'galaxy/forms/forms.py' 2026-03-09T19:08:56,379 adding 'galaxy/jobs/__init__.py' 2026-03-09T19:08:56,383 adding 'galaxy/jobs/command_factory.py' 2026-03-09T19:08:56,392 adding 'galaxy/jobs/dynamic_tool_destination.py' 2026-03-09T19:08:56,399 adding 'galaxy/jobs/handler.py' 2026-03-09T19:08:56,402 adding 'galaxy/jobs/manager.py' 2026-03-09T19:08:56,404 adding 'galaxy/jobs/mapper.py' 2026-03-09T19:08:56,406 adding 'galaxy/jobs/rule_helper.py' 2026-03-09T19:08:56,408 adding 'galaxy/jobs/stock_rules.py' 2026-03-09T19:08:56,409 adding 'galaxy/jobs/rules/__init__.py' 2026-03-09T19:08:56,416 adding 'galaxy/jobs/runners/__init__.py' 2026-03-09T19:08:56,419 adding 'galaxy/jobs/runners/aws.py' 2026-03-09T19:08:56,421 adding 'galaxy/jobs/runners/chronos.py' 2026-03-09T19:08:56,424 adding 'galaxy/jobs/runners/cli.py' 2026-03-09T19:08:56,426 adding 'galaxy/jobs/runners/condor.py' 2026-03-09T19:08:56,430 adding 'galaxy/jobs/runners/drmaa.py' 2026-03-09T19:08:56,433 adding 'galaxy/jobs/runners/godocker.py' 2026-03-09T19:08:56,439 adding 'galaxy/jobs/runners/kubernetes.py' 2026-03-09T19:08:56,441 adding 'galaxy/jobs/runners/local.py' 2026-03-09T19:08:56,445 adding 'galaxy/jobs/runners/pbs.py' 2026-03-09T19:08:56,452 adding 'galaxy/jobs/runners/pulsar.py' 2026-03-09T19:08:56,454 adding 'galaxy/jobs/runners/slurm.py' 2026-03-09T19:08:56,456 adding 'galaxy/jobs/runners/state_handler_factory.py' 2026-03-09T19:08:56,458 adding 'galaxy/jobs/runners/tasks.py' 2026-03-09T19:08:56,463 adding 'galaxy/jobs/runners/univa.py' 2026-03-09T19:08:56,465 adding 'galaxy/jobs/runners/state_handlers/__init__.py' 2026-03-09T19:08:56,466 adding 'galaxy/jobs/runners/state_handlers/_safe_eval.py' 2026-03-09T19:08:56,468 adding 'galaxy/jobs/runners/state_handlers/resubmit.py' 2026-03-09T19:08:56,471 adding 'galaxy/jobs/runners/util/__init__.py' 2026-03-09T19:08:56,472 adding 'galaxy/jobs/runners/util/env.py' 2026-03-09T19:08:56,473 adding 'galaxy/jobs/runners/util/external.py' 2026-03-09T19:08:56,475 adding 'galaxy/jobs/runners/util/fork_safe_write.py' 2026-03-09T19:08:56,476 adding 'galaxy/jobs/runners/util/kill.py' 2026-03-09T19:08:56,478 adding 'galaxy/jobs/runners/util/process_groups.py' 2026-03-09T19:08:56,480 adding 'galaxy/jobs/runners/util/pykube_util.py' 2026-03-09T19:08:56,482 adding 'galaxy/jobs/runners/util/sudo.py' 2026-03-09T19:08:56,484 adding 'galaxy/jobs/runners/util/cli/__init__.py' 2026-03-09T19:08:56,485 adding 'galaxy/jobs/runners/util/cli/factory.py' 2026-03-09T19:08:56,488 adding 'galaxy/jobs/runners/util/cli/job/__init__.py' 2026-03-09T19:08:56,489 adding 'galaxy/jobs/runners/util/cli/job/lsf.py' 2026-03-09T19:08:56,491 adding 'galaxy/jobs/runners/util/cli/job/pbs.py' 2026-03-09T19:08:56,493 adding 'galaxy/jobs/runners/util/cli/job/slurm.py' 2026-03-09T19:08:56,494 adding 'galaxy/jobs/runners/util/cli/job/slurm_torque.py' 2026-03-09T19:08:56,496 adding 'galaxy/jobs/runners/util/cli/job/torque.py' 2026-03-09T19:08:56,498 adding 'galaxy/jobs/runners/util/cli/shell/__init__.py' 2026-03-09T19:08:56,500 adding 'galaxy/jobs/runners/util/cli/shell/local.py' 2026-03-09T19:08:56,501 adding 'galaxy/jobs/runners/util/cli/shell/rsh.py' 2026-03-09T19:08:56,503 adding 'galaxy/jobs/runners/util/condor/__init__.py' 2026-03-09T19:08:56,505 adding 'galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh' 2026-03-09T19:08:56,507 adding 'galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh' 2026-03-09T19:08:56,508 adding 'galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh' 2026-03-09T19:08:56,510 adding 'galaxy/jobs/runners/util/job_script/__init__.py' 2026-03-09T19:08:56,512 adding 'galaxy/jobs/splitters/__init__.py' 2026-03-09T19:08:56,514 adding 'galaxy/jobs/splitters/basic.py' 2026-03-09T19:08:56,516 adding 'galaxy/jobs/splitters/multi.py' 2026-03-09T19:08:56,518 adding 'galaxy/managers/__init__.py' 2026-03-09T19:08:56,521 adding 'galaxy/managers/_config_templates.py' 2026-03-09T19:08:56,523 adding 'galaxy/managers/annotatable.py' 2026-03-09T19:08:56,525 adding 'galaxy/managers/api_keys.py' 2026-03-09T19:08:56,532 adding 'galaxy/managers/base.py' 2026-03-09T19:08:56,534 adding 'galaxy/managers/chat.py' 2026-03-09T19:08:56,536 adding 'galaxy/managers/citations.py' 2026-03-09T19:08:56,541 adding 'galaxy/managers/collections.py' 2026-03-09T19:08:56,544 adding 'galaxy/managers/collections_util.py' 2026-03-09T19:08:56,546 adding 'galaxy/managers/configuration.py' 2026-03-09T19:08:56,548 adding 'galaxy/managers/context.py' 2026-03-09T19:08:56,551 adding 'galaxy/managers/credentials.py' 2026-03-09T19:08:56,556 adding 'galaxy/managers/datasets.py' 2026-03-09T19:08:56,559 adding 'galaxy/managers/datatypes.py' 2026-03-09T19:08:56,561 adding 'galaxy/managers/dbkeys.py' 2026-03-09T19:08:56,562 adding 'galaxy/managers/deletable.py' 2026-03-09T19:08:56,564 adding 'galaxy/managers/display_applications.py' 2026-03-09T19:08:56,565 adding 'galaxy/managers/executables.py' 2026-03-09T19:08:56,567 adding 'galaxy/managers/export_tracker.py' 2026-03-09T19:08:56,571 adding 'galaxy/managers/file_source_instances.py' 2026-03-09T19:08:56,574 adding 'galaxy/managers/folders.py' 2026-03-09T19:08:56,576 adding 'galaxy/managers/forms.py' 2026-03-09T19:08:56,577 adding 'galaxy/managers/genomes.py' 2026-03-09T19:08:56,579 adding 'galaxy/managers/group_roles.py' 2026-03-09T19:08:56,580 adding 'galaxy/managers/group_users.py' 2026-03-09T19:08:56,581 adding 'galaxy/managers/groups.py' 2026-03-09T19:08:56,585 adding 'galaxy/managers/hdas.py' 2026-03-09T19:08:56,587 adding 'galaxy/managers/hdcas.py' 2026-03-09T19:08:56,592 adding 'galaxy/managers/histories.py' 2026-03-09T19:08:56,595 adding 'galaxy/managers/history_contents.py' 2026-03-09T19:08:56,597 adding 'galaxy/managers/interactivetool.py' 2026-03-09T19:08:56,599 adding 'galaxy/managers/item_tags.py' 2026-03-09T19:08:56,600 adding 'galaxy/managers/job_connections.py' 2026-03-09T19:08:56,609 adding 'galaxy/managers/jobs.py' 2026-03-09T19:08:56,611 adding 'galaxy/managers/landing.py' 2026-03-09T19:08:56,613 adding 'galaxy/managers/lddas.py' 2026-03-09T19:08:56,615 adding 'galaxy/managers/libraries.py' 2026-03-09T19:08:56,617 adding 'galaxy/managers/library_datasets.py' 2026-03-09T19:08:56,628 adding 'galaxy/managers/licenses.json' 2026-03-09T19:08:56,630 adding 'galaxy/managers/licenses.py' 2026-03-09T19:08:56,632 adding 'galaxy/managers/markdown_export_base.css' 2026-03-09T19:08:56,633 adding 'galaxy/managers/markdown_parse.py' 2026-03-09T19:08:56,639 adding 'galaxy/managers/markdown_util.py' 2026-03-09T19:08:56,641 adding 'galaxy/managers/metrics.py' 2026-03-09T19:08:56,643 adding 'galaxy/managers/model_stores.py' 2026-03-09T19:08:56,647 adding 'galaxy/managers/notification.py' 2026-03-09T19:08:56,649 adding 'galaxy/managers/object_store_instances.py' 2026-03-09T19:08:56,653 adding 'galaxy/managers/pages.py' 2026-03-09T19:08:56,655 adding 'galaxy/managers/quotas.py' 2026-03-09T19:08:56,656 adding 'galaxy/managers/ratable.py' 2026-03-09T19:08:56,658 adding 'galaxy/managers/rbac_secured.py' 2026-03-09T19:08:56,660 adding 'galaxy/managers/remote_files.py' 2026-03-09T19:08:56,661 adding 'galaxy/managers/roles.py' 2026-03-09T19:08:56,663 adding 'galaxy/managers/secured.py' 2026-03-09T19:08:56,664 adding 'galaxy/managers/session.py' 2026-03-09T19:08:56,667 adding 'galaxy/managers/sharable.py' 2026-03-09T19:08:56,669 adding 'galaxy/managers/taggable.py' 2026-03-09T19:08:56,670 adding 'galaxy/managers/tags.py' 2026-03-09T19:08:56,672 adding 'galaxy/managers/tasks.py' 2026-03-09T19:08:56,673 adding 'galaxy/managers/tool_data.py' 2026-03-09T19:08:56,675 adding 'galaxy/managers/tools.py' 2026-03-09T19:08:56,678 adding 'galaxy/managers/tours.py' 2026-03-09T19:08:56,683 adding 'galaxy/managers/users.py' 2026-03-09T19:08:56,685 adding 'galaxy/managers/visualizations.py' 2026-03-09T19:08:56,697 adding 'galaxy/managers/workflows.py' 2026-03-09T19:08:56,700 adding 'galaxy/short_term_storage/__init__.py' 2026-03-09T19:08:56,702 adding 'galaxy/tool_shed/__init__.py' 2026-03-09T19:08:56,704 adding 'galaxy/tool_shed/cache.py' 2026-03-09T19:08:56,705 adding 'galaxy/tool_shed/repository_type.py' 2026-03-09T19:08:56,706 adding 'galaxy/tool_shed/galaxy_install/__init__.py' 2026-03-09T19:08:56,708 adding 'galaxy/tool_shed/galaxy_install/client.py' 2026-03-09T19:08:56,712 adding 'galaxy/tool_shed/galaxy_install/install_manager.py' 2026-03-09T19:08:56,718 adding 'galaxy/tool_shed/galaxy_install/installed_repository_manager.py' 2026-03-09T19:08:56,720 adding 'galaxy/tool_shed/galaxy_install/update_repository_manager.py' 2026-03-09T19:08:56,721 adding 'galaxy/tool_shed/galaxy_install/metadata/__init__.py' 2026-03-09T19:08:56,723 adding 'galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py' 2026-03-09T19:08:56,725 adding 'galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py' 2026-03-09T19:08:56,729 adding 'galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py' 2026-03-09T19:08:56,730 adding 'galaxy/tool_shed/galaxy_install/tools/__init__.py' 2026-03-09T19:08:56,732 adding 'galaxy/tool_shed/galaxy_install/tools/data_manager.py' 2026-03-09T19:08:56,736 adding 'galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py' 2026-03-09T19:08:56,738 adding 'galaxy/tool_shed/metadata/__init__.py' 2026-03-09T19:08:56,743 adding 'galaxy/tool_shed/metadata/metadata_generator.py' 2026-03-09T19:08:56,745 adding 'galaxy/tool_shed/tools/__init__.py' 2026-03-09T19:08:56,747 adding 'galaxy/tool_shed/tools/data_table_manager.py' 2026-03-09T19:08:56,748 adding 'galaxy/tool_shed/tools/tool_validator.py' 2026-03-09T19:08:56,750 adding 'galaxy/tool_shed/unittest_utils/__init__.py' 2026-03-09T19:08:56,752 adding 'galaxy/tool_shed/util/__init__.py' 2026-03-09T19:08:56,754 adding 'galaxy/tool_shed/util/basic_util.py' 2026-03-09T19:08:56,755 adding 'galaxy/tool_shed/util/container_util.py' 2026-03-09T19:08:56,758 adding 'galaxy/tool_shed/util/dependency_display.py' 2026-03-09T19:08:56,759 adding 'galaxy/tool_shed/util/hg_util.py' 2026-03-09T19:08:56,760 adding 'galaxy/tool_shed/util/metadata_util.py' 2026-03-09T19:08:56,764 adding 'galaxy/tool_shed/util/repository_util.py' 2026-03-09T19:08:56,766 adding 'galaxy/tool_shed/util/shed_util_common.py' 2026-03-09T19:08:56,768 adding 'galaxy/tool_shed/util/tool_dependency_util.py' 2026-03-09T19:08:56,770 adding 'galaxy/tool_shed/util/tool_util.py' 2026-03-09T19:08:56,774 adding 'galaxy/tool_shed/util/utility_container_manager.py' 2026-03-09T19:08:56,801 adding 'galaxy/tools/__init__.py' 2026-03-09T19:08:56,804 adding 'galaxy/tools/_types.py' 2026-03-09T19:08:56,805 adding 'galaxy/tools/apply_rules.xml' 2026-03-09T19:08:56,806 adding 'galaxy/tools/biotools.py' 2026-03-09T19:08:56,807 adding 'galaxy/tools/build_list.xml' 2026-03-09T19:08:56,809 adding 'galaxy/tools/build_list_1.2.0.xml' 2026-03-09T19:08:56,811 adding 'galaxy/tools/cache.py' 2026-03-09T19:08:56,812 adding 'galaxy/tools/convert_sample_sheet.xml' 2026-03-09T19:08:56,813 adding 'galaxy/tools/cross_product_flat.xml' 2026-03-09T19:08:56,815 adding 'galaxy/tools/cross_product_nested.xml' 2026-03-09T19:08:56,819 adding 'galaxy/tools/data_fetch.py' 2026-03-09T19:08:56,820 adding 'galaxy/tools/data_fetch.xml' 2026-03-09T19:08:56,821 adding 'galaxy/tools/duplicate_file_to_collection.xml' 2026-03-09T19:08:56,823 adding 'galaxy/tools/errors.py' 2026-03-09T19:08:56,829 adding 'galaxy/tools/evaluation.py' 2026-03-09T19:08:56,831 adding 'galaxy/tools/exception_handling.py' 2026-03-09T19:08:56,834 adding 'galaxy/tools/execute.py' 2026-03-09T19:08:56,836 adding 'galaxy/tools/execution_helpers.py' 2026-03-09T19:08:56,838 adding 'galaxy/tools/extract_dataset.xml' 2026-03-09T19:08:56,839 adding 'galaxy/tools/filter_empty_collection.xml' 2026-03-09T19:08:56,841 adding 'galaxy/tools/filter_empty_collection_1.1.0.xml' 2026-03-09T19:08:56,842 adding 'galaxy/tools/filter_failed_collection.xml' 2026-03-09T19:08:56,843 adding 'galaxy/tools/filter_failed_collection_1.1.0.xml' 2026-03-09T19:08:56,845 adding 'galaxy/tools/filter_from_file.xml' 2026-03-09T19:08:56,846 adding 'galaxy/tools/filter_from_file_1.1.0.xml' 2026-03-09T19:08:56,847 adding 'galaxy/tools/filter_null.xml' 2026-03-09T19:08:56,849 adding 'galaxy/tools/filter_null_1.1.0.xml' 2026-03-09T19:08:56,850 adding 'galaxy/tools/flatten_collection.xml' 2026-03-09T19:08:56,851 adding 'galaxy/tools/harmonize_two_collections_list.xml' 2026-03-09T19:08:56,852 adding 'galaxy/tools/keep_success_collection.xml' 2026-03-09T19:08:56,854 adding 'galaxy/tools/keep_success_collection_1.1.0.xml' 2026-03-09T19:08:56,855 adding 'galaxy/tools/merge_collection.xml' 2026-03-09T19:08:56,857 adding 'galaxy/tools/model_operation_macros.xml' 2026-03-09T19:08:56,858 adding 'galaxy/tools/nest_collection.xml' 2026-03-09T19:08:56,861 adding 'galaxy/tools/recommendations.py' 2026-03-09T19:08:56,862 adding 'galaxy/tools/relabel_from_file.xml' 2026-03-09T19:08:56,864 adding 'galaxy/tools/remote_tool_eval.py' 2026-03-09T19:08:56,865 adding 'galaxy/tools/repositories.py' 2026-03-09T19:08:56,866 adding 'galaxy/tools/sample_sheet_to_tabular.xml' 2026-03-09T19:08:56,868 adding 'galaxy/tools/sort_collection_list.xml' 2026-03-09T19:08:56,869 adding 'galaxy/tools/special_tools.py' 2026-03-09T19:08:56,871 adding 'galaxy/tools/split_paired_and_unpaired.xml' 2026-03-09T19:08:56,872 adding 'galaxy/tools/stock.py' 2026-03-09T19:08:56,873 adding 'galaxy/tools/tag_collection_from_file.xml' 2026-03-09T19:08:56,875 adding 'galaxy/tools/unzip_collection.xml' 2026-03-09T19:08:56,878 adding 'galaxy/tools/wrappers.py' 2026-03-09T19:08:56,880 adding 'galaxy/tools/zip_collection.xml' 2026-03-09T19:08:56,889 adding 'galaxy/tools/actions/__init__.py' 2026-03-09T19:08:56,890 adding 'galaxy/tools/actions/data_manager.py' 2026-03-09T19:08:56,892 adding 'galaxy/tools/actions/data_source.py' 2026-03-09T19:08:56,893 adding 'galaxy/tools/actions/history_imp_exp.py' 2026-03-09T19:08:56,895 adding 'galaxy/tools/actions/metadata.py' 2026-03-09T19:08:56,897 adding 'galaxy/tools/actions/model_operations.py' 2026-03-09T19:08:56,898 adding 'galaxy/tools/actions/upload.py' 2026-03-09T19:08:56,901 adding 'galaxy/tools/actions/upload_common.py' 2026-03-09T19:08:56,903 adding 'galaxy/tools/bundled/__init__.py' 2026-03-09T19:08:56,905 adding 'galaxy/tools/bundled/data_export/export_remote.py' 2026-03-09T19:08:56,907 adding 'galaxy/tools/bundled/data_export/export_remote.xml' 2026-03-09T19:08:56,909 adding 'galaxy/tools/bundled/data_source/__init__.py' 2026-03-09T19:08:56,910 adding 'galaxy/tools/bundled/data_source/access_libraries.xml' 2026-03-09T19:08:56,911 adding 'galaxy/tools/bundled/data_source/biomart.xml' 2026-03-09T19:08:56,913 adding 'galaxy/tools/bundled/data_source/biomart_test.xml' 2026-03-09T19:08:56,914 adding 'galaxy/tools/bundled/data_source/cbi_rice_mart.xml' 2026-03-09T19:08:56,916 adding 'galaxy/tools/bundled/data_source/data_source.py' 2026-03-09T19:08:56,917 adding 'galaxy/tools/bundled/data_source/diced.xml' 2026-03-09T19:08:56,918 adding 'galaxy/tools/bundled/data_source/ebi_sra.xml' 2026-03-09T19:08:56,919 adding 'galaxy/tools/bundled/data_source/eupathdb.xml' 2026-03-09T19:08:56,921 adding 'galaxy/tools/bundled/data_source/fly_modencode.xml' 2026-03-09T19:08:56,922 adding 'galaxy/tools/bundled/data_source/flymine.xml' 2026-03-09T19:08:56,923 adding 'galaxy/tools/bundled/data_source/flymine_test.xml' 2026-03-09T19:08:56,925 adding 'galaxy/tools/bundled/data_source/genbank.py' 2026-03-09T19:08:56,926 adding 'galaxy/tools/bundled/data_source/genbank.xml' 2026-03-09T19:08:56,927 adding 'galaxy/tools/bundled/data_source/gramene_mart.xml' 2026-03-09T19:08:56,929 adding 'galaxy/tools/bundled/data_source/hapmapmart.xml' 2026-03-09T19:08:56,930 adding 'galaxy/tools/bundled/data_source/hbvar.xml' 2026-03-09T19:08:56,931 adding 'galaxy/tools/bundled/data_source/import.py' 2026-03-09T19:08:56,933 adding 'galaxy/tools/bundled/data_source/import.xml' 2026-03-09T19:08:56,934 adding 'galaxy/tools/bundled/data_source/intermine.xml' 2026-03-09T19:08:56,935 adding 'galaxy/tools/bundled/data_source/metabolicmine.xml' 2026-03-09T19:08:56,937 adding 'galaxy/tools/bundled/data_source/microbial_import.py' 2026-03-09T19:08:56,938 adding 'galaxy/tools/bundled/data_source/microbial_import.xml' 2026-03-09T19:08:56,940 adding 'galaxy/tools/bundled/data_source/microbial_import_code.py' 2026-03-09T19:08:56,941 adding 'galaxy/tools/bundled/data_source/modmine.xml' 2026-03-09T19:08:56,942 adding 'galaxy/tools/bundled/data_source/mousemine.xml' 2026-03-09T19:08:56,943 adding 'galaxy/tools/bundled/data_source/ncbi_datasets.xml' 2026-03-09T19:08:56,944 adding 'galaxy/tools/bundled/data_source/ratmine.xml' 2026-03-09T19:08:56,946 adding 'galaxy/tools/bundled/data_source/sra.xml' 2026-03-09T19:08:56,947 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml' 2026-03-09T19:08:56,948 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml' 2026-03-09T19:08:56,950 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml' 2026-03-09T19:08:56,952 adding 'galaxy/tools/bundled/data_source/upload.py' 2026-03-09T19:08:56,954 adding 'galaxy/tools/bundled/data_source/upload.xml' 2026-03-09T19:08:56,955 adding 'galaxy/tools/bundled/data_source/worm_modencode.xml' 2026-03-09T19:08:56,957 adding 'galaxy/tools/bundled/data_source/wormbase.xml' 2026-03-09T19:08:56,958 adding 'galaxy/tools/bundled/data_source/wormbase_test.xml' 2026-03-09T19:08:56,959 adding 'galaxy/tools/bundled/data_source/yeastmine.xml' 2026-03-09T19:08:56,960 adding 'galaxy/tools/bundled/data_source/zebrafishmine.xml' 2026-03-09T19:08:56,962 adding 'galaxy/tools/bundled/expression_tools/expression_macros.xml' 2026-03-09T19:08:56,963 adding 'galaxy/tools/bundled/expression_tools/parse_values_from_file.xml' 2026-03-09T19:08:56,965 adding 'galaxy/tools/bundled/expression_tools/pick_value.xml' 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adding 'galaxy/tools/bundled/filters/axt_to_lav.py' 2026-03-09T19:08:56,987 adding 'galaxy/tools/bundled/filters/axt_to_lav.xml' 2026-03-09T19:08:56,989 adding 'galaxy/tools/bundled/filters/axt_to_lav_code.py' 2026-03-09T19:08:56,990 adding 'galaxy/tools/bundled/filters/bed2gff.xml' 2026-03-09T19:08:56,992 adding 'galaxy/tools/bundled/filters/bed_to_bigbed.xml' 2026-03-09T19:08:56,994 adding 'galaxy/tools/bundled/filters/bed_to_gff_converter.py' 2026-03-09T19:08:56,995 adding 'galaxy/tools/bundled/filters/catWrapper.xml' 2026-03-09T19:08:56,997 adding 'galaxy/tools/bundled/filters/changeCase.pl' 2026-03-09T19:08:56,998 adding 'galaxy/tools/bundled/filters/changeCase.xml' 2026-03-09T19:08:56,999 adding 'galaxy/tools/bundled/filters/commWrapper.pl' 2026-03-09T19:08:57,001 adding 'galaxy/tools/bundled/filters/commWrapper.xml' 2026-03-09T19:08:57,002 adding 'galaxy/tools/bundled/filters/compare.xml' 2026-03-09T19:08:57,003 adding 'galaxy/tools/bundled/filters/condense_characters.pl' 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'galaxy/tools/bundled/filters/gtf2bedgraph.xml' 2026-03-09T19:08:57,023 adding 'galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py' 2026-03-09T19:08:57,024 adding 'galaxy/tools/bundled/filters/headWrapper.xml' 2026-03-09T19:08:57,027 adding 'galaxy/tools/bundled/filters/join.py' 2026-03-09T19:08:57,029 adding 'galaxy/tools/bundled/filters/joiner.xml' 2026-03-09T19:08:57,030 adding 'galaxy/tools/bundled/filters/joiner2.xml' 2026-03-09T19:08:57,031 adding 'galaxy/tools/bundled/filters/lav_to_bed.py' 2026-03-09T19:08:57,032 adding 'galaxy/tools/bundled/filters/lav_to_bed.xml' 2026-03-09T19:08:57,034 adding 'galaxy/tools/bundled/filters/lav_to_bed_code.py' 2026-03-09T19:08:57,035 adding 'galaxy/tools/bundled/filters/mergeCols.py' 2026-03-09T19:08:57,036 adding 'galaxy/tools/bundled/filters/mergeCols.xml' 2026-03-09T19:08:57,037 adding 'galaxy/tools/bundled/filters/pasteWrapper.xml' 2026-03-09T19:08:57,039 adding 'galaxy/tools/bundled/filters/random_lines_two_pass.py' 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'galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml' 2026-03-09T19:08:57,064 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py' 2026-03-09T19:08:57,065 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml' 2026-03-09T19:08:57,067 adding 'galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py' 2026-03-09T19:08:57,068 adding 'galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml' 2026-03-09T19:08:57,070 adding 'galaxy/tools/bundled/filters/uniq.py' 2026-03-09T19:08:57,071 adding 'galaxy/tools/bundled/filters/uniq.xml' 2026-03-09T19:08:57,072 adding 'galaxy/tools/bundled/filters/wc_gnu.xml' 2026-03-09T19:08:57,074 adding 'galaxy/tools/bundled/filters/wig_to_bigwig.xml' 2026-03-09T19:08:57,075 adding 'galaxy/tools/bundled/filters/wiggle_to_simple.py' 2026-03-09T19:08:57,077 adding 'galaxy/tools/bundled/filters/wiggle_to_simple.xml' 2026-03-09T19:08:57,079 adding 'galaxy/tools/bundled/filters/gff/__init__.py' 2026-03-09T19:08:57,080 adding 'galaxy/tools/bundled/filters/gff/extract_GFF_Features.py' 2026-03-09T19:08:57,081 adding 'galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml' 2026-03-09T19:08:57,083 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py' 2026-03-09T19:08:57,085 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml' 2026-03-09T19:08:57,086 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py' 2026-03-09T19:08:57,087 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml' 2026-03-09T19:08:57,089 adding 'galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py' 2026-03-09T19:08:57,090 adding 'galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml' 2026-03-09T19:08:57,092 adding 'galaxy/tools/bundled/interactive/Rprofile.R' 2026-03-09T19:08:57,093 adding 'galaxy/tools/bundled/interactive/default_notebook.ipynb' 2026-03-09T19:08:57,095 adding 'galaxy/tools/bundled/interactive/interactivetool_askomics.xml' 2026-03-09T19:08:57,096 adding 'galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml' 2026-03-09T19:08:57,097 adding 'galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml' 2026-03-09T19:08:57,098 adding 'galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml' 2026-03-09T19:08:57,100 adding 'galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml' 2026-03-09T19:08:57,102 adding 'galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml' 2026-03-09T19:08:57,103 adding 'galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml' 2026-03-09T19:08:57,104 adding 'galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml' 2026-03-09T19:08:57,105 adding 'galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml' 2026-03-09T19:08:57,107 adding 'galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml' 2026-03-09T19:08:57,108 adding 'galaxy/tools/bundled/interactive/interactivetool_higlass.xml' 2026-03-09T19:08:57,110 adding 'galaxy/tools/bundled/interactive/interactivetool_ilastik.xml' 2026-03-09T19:08:57,112 adding 'galaxy/tools/bundled/interactive/interactivetool_isee.xml' 2026-03-09T19:08:57,113 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml' 2026-03-09T19:08:57,115 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml' 2026-03-09T19:08:57,117 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml' 2026-03-09T19:08:57,120 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.3.xml' 2026-03-09T19:08:57,121 adding 'galaxy/tools/bundled/interactive/interactivetool_metashark.xml' 2026-03-09T19:08:57,123 adding 'galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml' 2026-03-09T19:08:57,125 adding 'galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml' 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'galaxy/tools/bundled/interactive/interactivetool_rstudio.xml' 2026-03-09T19:08:57,143 adding 'galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml' 2026-03-09T19:08:57,144 adding 'galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml' 2026-03-09T19:08:57,145 adding 'galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml' 2026-03-09T19:08:57,147 adding 'galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml' 2026-03-09T19:08:57,148 adding 'galaxy/tools/bundled/interactive/interactivetool_wallace.xml' 2026-03-09T19:08:57,149 adding 'galaxy/tools/bundled/interactive/interactivetool_wilson.xml' 2026-03-09T19:08:57,152 adding 'galaxy/tools/bundled/interactive/simtext_app.R' 2026-03-09T19:08:57,154 adding 'galaxy/tools/bundled/maf/__init__.py' 2026-03-09T19:08:57,155 adding 'galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml' 2026-03-09T19:08:57,157 adding 'galaxy/tools/bundled/maf/interval2maf.py' 2026-03-09T19:08:57,159 adding 'galaxy/tools/bundled/maf/interval2maf.xml' 2026-03-09T19:08:57,160 adding 'galaxy/tools/bundled/maf/interval2maf_pairwise.xml' 2026-03-09T19:08:57,162 adding 'galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py' 2026-03-09T19:08:57,163 adding 'galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml' 2026-03-09T19:08:57,164 adding 'galaxy/tools/bundled/maf/macros.xml' 2026-03-09T19:08:57,166 adding 'galaxy/tools/bundled/maf/maf_by_block_number.py' 2026-03-09T19:08:57,167 adding 'galaxy/tools/bundled/maf/maf_by_block_number.xml' 2026-03-09T19:08:57,169 adding 'galaxy/tools/bundled/maf/maf_filter.py' 2026-03-09T19:08:57,170 adding 'galaxy/tools/bundled/maf/maf_filter.xml' 2026-03-09T19:08:57,172 adding 'galaxy/tools/bundled/maf/maf_limit_size.py' 2026-03-09T19:08:57,173 adding 'galaxy/tools/bundled/maf/maf_limit_size.xml' 2026-03-09T19:08:57,174 adding 'galaxy/tools/bundled/maf/maf_limit_to_species.py' 2026-03-09T19:08:57,175 adding 'galaxy/tools/bundled/maf/maf_limit_to_species.xml' 2026-03-09T19:08:57,177 adding 'galaxy/tools/bundled/maf/maf_reverse_complement.py' 2026-03-09T19:08:57,178 adding 'galaxy/tools/bundled/maf/maf_reverse_complement.xml' 2026-03-09T19:08:57,179 adding 'galaxy/tools/bundled/maf/maf_split_by_species.py' 2026-03-09T19:08:57,181 adding 'galaxy/tools/bundled/maf/maf_split_by_species.xml' 2026-03-09T19:08:57,182 adding 'galaxy/tools/bundled/maf/maf_stats.py' 2026-03-09T19:08:57,184 adding 'galaxy/tools/bundled/maf/maf_stats.xml' 2026-03-09T19:08:57,185 adding 'galaxy/tools/bundled/maf/maf_thread_for_species.py' 2026-03-09T19:08:57,187 adding 'galaxy/tools/bundled/maf/maf_thread_for_species.xml' 2026-03-09T19:08:57,188 adding 'galaxy/tools/bundled/maf/maf_to_bed.py' 2026-03-09T19:08:57,190 adding 'galaxy/tools/bundled/maf/maf_to_bed.xml' 2026-03-09T19:08:57,191 adding 'galaxy/tools/bundled/maf/maf_to_bed_code.py' 2026-03-09T19:08:57,192 adding 'galaxy/tools/bundled/maf/maf_to_fasta.xml' 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'galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml' 2026-03-09T19:08:57,232 adding 'galaxy/tools/bundled/ngs_simulation/__init__.py' 2026-03-09T19:08:57,234 adding 'galaxy/tools/bundled/ngs_simulation/ngs_simulation.py' 2026-03-09T19:08:57,235 adding 'galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml' 2026-03-09T19:08:57,237 adding 'galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh' 2026-03-09T19:08:57,238 adding 'galaxy/tools/bundled/phenotype_association/__init__.py' 2026-03-09T19:08:57,240 adding 'galaxy/tools/bundled/phenotype_association/beam.xml' 2026-03-09T19:08:57,241 adding 'galaxy/tools/bundled/phenotype_association/gpass.pl' 2026-03-09T19:08:57,243 adding 'galaxy/tools/bundled/phenotype_association/gpass.xml' 2026-03-09T19:08:57,244 adding 'galaxy/tools/bundled/phenotype_association/ldtools.xml' 2026-03-09T19:08:57,245 adding 'galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh' 2026-03-09T19:08:57,246 adding 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'galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py' 2026-03-09T19:08:57,283 adding 'galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml' 2026-03-09T19:08:57,284 adding 'galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py' 2026-03-09T19:08:57,285 adding 'galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh' 2026-03-09T19:08:57,287 adding 'galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml' 2026-03-09T19:08:57,288 adding 'galaxy/tools/bundled/solid_tools/solid_qual_stats.py' 2026-03-09T19:08:57,290 adding 'galaxy/tools/bundled/solid_tools/solid_qual_stats.xml' 2026-03-09T19:08:57,291 adding 'galaxy/tools/bundled/sr_assembly/__init__.py' 2026-03-09T19:08:57,293 adding 'galaxy/tools/bundled/sr_assembly/velvetg.xml' 2026-03-09T19:08:57,295 adding 'galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py' 2026-03-09T19:08:57,296 adding 'galaxy/tools/bundled/sr_assembly/velveth.xml' 2026-03-09T19:08:57,297 adding 'galaxy/tools/bundled/sr_assembly/velveth_wrapper.py' 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'galaxy/visualization/plugins/__init__.py' 2026-03-09T19:08:57,461 adding 'galaxy/visualization/plugins/config_parser.py' 2026-03-09T19:08:57,462 adding 'galaxy/visualization/plugins/datasource_testing.py' 2026-03-09T19:08:57,464 adding 'galaxy/visualization/plugins/plugin.py' 2026-03-09T19:08:57,466 adding 'galaxy/visualization/plugins/registry.py' 2026-03-09T19:08:57,468 adding 'galaxy/visualization/plugins/resource_parser.py' 2026-03-09T19:08:57,469 adding 'galaxy/visualization/plugins/utils.py' 2026-03-09T19:08:57,471 adding 'galaxy/visualization/tracks/__init__.py' 2026-03-09T19:08:57,473 adding 'galaxy/webhooks/__init__.py' 2026-03-09T19:08:57,474 adding 'galaxy/work/__init__.py' 2026-03-09T19:08:57,476 adding 'galaxy/work/context.py' 2026-03-09T19:08:57,478 adding 'galaxy/workflow/__init__.py' 2026-03-09T19:08:57,479 adding 'galaxy/workflow/errors.py' 2026-03-09T19:08:57,482 adding 'galaxy/workflow/extract.py' 2026-03-09T19:08:57,497 adding 'galaxy/workflow/modules.py' 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'galaxy/workflow/resources/example.py.sample' 2026-03-09T19:08:57,531 adding 'galaxy/workflow/schedulers/__init__.py' 2026-03-09T19:08:57,533 adding 'galaxy/workflow/schedulers/core.py' 2026-03-09T19:08:57,536 adding 'galaxy_app-25.1.2.dist-info/licenses/LICENSE' 2026-03-09T19:08:57,538 adding 'galaxy_ext/__init__.py' 2026-03-09T19:08:57,539 adding 'galaxy_ext/py.typed' 2026-03-09T19:08:57,540 adding 'galaxy_ext/container_monitor/__init__.py' 2026-03-09T19:08:57,541 adding 'galaxy_ext/container_monitor/monitor.py' 2026-03-09T19:08:57,543 adding 'galaxy_ext/expressions/__init__.py' 2026-03-09T19:08:57,544 adding 'galaxy_ext/expressions/handle_job.py' 2026-03-09T19:08:57,545 adding 'galaxy_ext/metadata/__init__.py' 2026-03-09T19:08:57,547 adding 'galaxy_ext/metadata/set_metadata.py' 2026-03-09T19:08:57,548 adding 'tool_shed_client/__init__.py' 2026-03-09T19:08:57,549 adding 'tool_shed_client/py.typed' 2026-03-09T19:08:57,550 adding 'tool_shed_client/trs_util.py' 2026-03-09T19:08:57,553 adding 'tool_shed_client/schema/__init__.py' 2026-03-09T19:08:57,555 adding 'tool_shed_client/schema/trs.py' 2026-03-09T19:08:57,556 adding 'tool_shed_client/schema/trs_service_info.py' 2026-03-09T19:08:57,570 adding 'galaxy_app-25.1.2.dist-info/METADATA' 2026-03-09T19:08:57,572 adding 'galaxy_app-25.1.2.dist-info/WHEEL' 2026-03-09T19:08:57,573 adding 'galaxy_app-25.1.2.dist-info/entry_points.txt' 2026-03-09T19:08:57,574 adding 'galaxy_app-25.1.2.dist-info/top_level.txt' 2026-03-09T19:08:57,584 adding 'galaxy_app-25.1.2.dist-info/RECORD' 2026-03-09T19:08:57,608 removing build/bdist.linux-armv7l/wheel 2026-03-09T19:08:57,855 Building wheel for galaxy-app (pyproject.toml): finished with status 'done' 2026-03-09T19:08:57,874 Created wheel for galaxy-app: filename=galaxy_app-25.1.2-py3-none-any.whl size=1584939 sha256=6c64b157b588d45d53b6afa96644e7f3cfd9f2cd56ef5c9cb440e757a74d190e 2026-03-09T19:08:57,876 Stored in directory: /tmp/pip-ephem-wheel-cache-74dfl5x8/wheels/0d/9a/52/8be626461c62cdd1c807a8c4b1b4463e7d8574cdede33efa61 2026-03-09T19:08:57,940 Successfully built galaxy-app 2026-03-09T19:08:57,979 Removed build tracker: '/tmp/pip-build-tracker-_qyanr72'