2025-11-18T19:26:51,980 Created temporary directory: /tmp/pip-ephem-wheel-cache-xinlmajv 2025-11-18T19:26:51,982 Created temporary directory: /tmp/pip-build-tracker-iax7duy6 2025-11-18T19:26:51,983 Initialized build tracking at /tmp/pip-build-tracker-iax7duy6 2025-11-18T19:26:51,983 Created build tracker: /tmp/pip-build-tracker-iax7duy6 2025-11-18T19:26:51,984 Entered build tracker: /tmp/pip-build-tracker-iax7duy6 2025-11-18T19:26:51,985 Created temporary directory: /tmp/pip-wheel-ox4770mz 2025-11-18T19:26:51,988 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2025-11-18T19:26:51,990 Created temporary directory: /tmp/pip-ephem-wheel-cache-t001x7dz 2025-11-18T19:26:52,012 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-11-18T19:26:52,016 2 location(s) to search for versions of galaxy-app: 2025-11-18T19:26:52,016 * https://pypi.org/simple/galaxy-app/ 2025-11-18T19:26:52,016 * https://www.piwheels.org/simple/galaxy-app/ 2025-11-18T19:26:52,017 Fetching project page and analyzing links: https://pypi.org/simple/galaxy-app/ 2025-11-18T19:26:52,017 Getting page https://pypi.org/simple/galaxy-app/ 2025-11-18T19:26:52,019 Found index url https://pypi.org/simple 2025-11-18T19:26:52,237 Fetched page https://pypi.org/simple/galaxy-app/ as application/vnd.pypi.simple.v1+json 2025-11-18T19:26:52,250 Found link https://files.pythonhosted.org/packages/cd/3d/994b7f4faaee2a95a31af125e96734f3daa9f39e6decd0f7a09950ef686c/galaxy-app-20.5.0.tar.gz (from 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https://files.pythonhosted.org/packages/9a/54/07919f089225f319e85643152c58d577fc01d0e568cb9110cf434ca5b4ee/galaxy_app-25.0.2-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-11-18T19:26:52,300 Found link https://files.pythonhosted.org/packages/53/9c/8d5cdb3013e508ef0c76b277ba5e1695e4d430bd04156f97977cb7895488/galaxy_app-25.0.2.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.0.2 2025-11-18T19:26:52,301 Skipping link: No binaries permitted for galaxy-app: https://files.pythonhosted.org/packages/ff/e5/d8a099afeecad5902fcb02320137c1abc050befa10d53e45861d7f984aaf/galaxy_app-25.0.3-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-11-18T19:26:52,301 Found link https://files.pythonhosted.org/packages/73/3e/df92e253e067efb5d36c0b31c0adc0cff9d417cebe10e87c17df702f92a9/galaxy_app-25.0.3.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.0.3 2025-11-18T19:26:52,302 Skipping link: No binaries permitted for galaxy-app: https://files.pythonhosted.org/packages/79/de/90757d51467b4fb3834f2fb2ebf9781d28060fe19aec53465216c01f606b/galaxy_app-25.0.4-py3-none-any.whl (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-11-18T19:26:52,303 Found link https://files.pythonhosted.org/packages/66/ad/5c2f9df1f257e9630a000bb154271e4d681f2b90bec2bd242782e127fcdf/galaxy_app-25.0.4.tar.gz (from https://pypi.org/simple/galaxy-app/) (requires-python:>=3.9), version: 25.0.4 2025-11-18T19:26:52,304 Fetching project page and analyzing links: https://www.piwheels.org/simple/galaxy-app/ 2025-11-18T19:26:52,305 Getting page https://www.piwheels.org/simple/galaxy-app/ 2025-11-18T19:26:52,306 Found index url https://www.piwheels.org/simple 2025-11-18T19:26:52,500 Fetched page https://www.piwheels.org/simple/galaxy-app/ as text/html 2025-11-18T19:26:52,510 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-25.0.3-py3-none-any.whl#sha256=dda69dddcadfe72dd1cbe1bf11446f4b3570ebdceb35e31de9c036bc7bdd22d4 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.9) 2025-11-18T19:26:52,511 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) 2025-11-18T19:26:52,512 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) 2025-11-18T19:26:52,512 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) 2025-11-18T19:26:52,513 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) 2025-11-18T19:26:52,513 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-24.2.3-py3-none-any.whl#sha256=373716c96daa1d0dc823f50d551219ca741bf4aecfa380db3ef347187be5a00a (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.8) 2025-11-18T19:26:52,514 Skipping link: No binaries permitted for galaxy-app: 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https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-23.0.2-py3-none-any.whl#sha256=09f32912adb5c90cdbbcc5e2f3168a54501cb7595d207b2e660e4235e7e46067 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.7) 2025-11-18T19:26:52,526 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-23.0.1-py3-none-any.whl#sha256=e16745e48d15e5e5cb83991066b1e2dcb2333d49dac992e2601b9fc6af8f45a4 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.7) 2025-11-18T19:26:52,527 Skipping link: No binaries permitted for galaxy-app: 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/) 2025-11-18T19:26:52,527 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/) 2025-11-18T19:26:52,528 Skipping link: not a file: https://www.piwheels.org/simple/galaxy-app/ 2025-11-18T19:26:52,528 Skipping link: not a file: https://pypi.org/simple/galaxy-app/ 2025-11-18T19:26:52,551 Given no hashes to check 1 links for project 'galaxy-app': discarding no candidates 2025-11-18T19:26:52,569 Collecting galaxy-app==25.0.4 2025-11-18T19:26:52,572 Created temporary directory: /tmp/pip-unpack-a8eiitmi 2025-11-18T19:26:52,792 Downloading galaxy_app-25.0.4.tar.gz (1.3 MB) 2025-11-18T19:26:54,348 Added galaxy-app==25.0.4 from https://files.pythonhosted.org/packages/66/ad/5c2f9df1f257e9630a000bb154271e4d681f2b90bec2bd242782e127fcdf/galaxy_app-25.0.4.tar.gz to build tracker '/tmp/pip-build-tracker-iax7duy6' 2025-11-18T19:26:54,351 Created temporary directory: /tmp/pip-build-env-62_gy2do 2025-11-18T19:26:54,356 Installing build dependencies: started 2025-11-18T19:26:54,357 Running command pip subprocess to install build dependencies 2025-11-18T19:26:55,486 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2025-11-18T19:26:56,075 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2025-11-18T19:26:56,098 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-11-18T19:26:57,830 Collecting setuptools 2025-11-18T19:26:57,917 Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB) 2025-11-18T19:27:00,812 Installing collected packages: setuptools 2025-11-18T19:27:04,478 Successfully installed setuptools-80.9.0 2025-11-18T19:27:04,742 Installing build dependencies: finished with status 'done' 2025-11-18T19:27:04,749 Getting requirements to build wheel: started 2025-11-18T19:27:04,750 Running command Getting requirements to build wheel 2025-11-18T19:27:05,348 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-11-18T19:27:05,349 !! 2025-11-18T19:27:05,350 ******************************************************************************** 2025-11-18T19:27:05,350 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-11-18T19:27:05,352 License :: OSI Approved :: Academic Free License (AFL) 2025-11-18T19:27:05,353 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-11-18T19:27:05,354 ******************************************************************************** 2025-11-18T19:27:05,355 !! 2025-11-18T19:27:05,356 self._finalize_license_expression() 2025-11-18T19:27:05,429 running egg_info 2025-11-18T19:27:05,436 writing galaxy_app.egg-info/PKG-INFO 2025-11-18T19:27:05,448 writing dependency_links to galaxy_app.egg-info/dependency_links.txt 2025-11-18T19:27:05,450 writing entry points to galaxy_app.egg-info/entry_points.txt 2025-11-18T19:27:05,452 writing requirements to galaxy_app.egg-info/requires.txt 2025-11-18T19:27:05,453 writing top-level names to galaxy_app.egg-info/top_level.txt 2025-11-18T19:27:05,547 reading manifest file 'galaxy_app.egg-info/SOURCES.txt' 2025-11-18T19:27:05,615 reading manifest template 'MANIFEST.in' 2025-11-18T19:27:06,136 adding license file 'LICENSE' 2025-11-18T19:27:06,167 writing manifest file 'galaxy_app.egg-info/SOURCES.txt' 2025-11-18T19:27:06,258 Getting requirements to build wheel: finished with status 'done' 2025-11-18T19:27:06,261 Created temporary directory: /tmp/pip-modern-metadata-bf9z4qsm 2025-11-18T19:27:06,264 Preparing metadata (pyproject.toml): started 2025-11-18T19:27:06,265 Running command Preparing metadata (pyproject.toml) 2025-11-18T19:27:06,845 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-11-18T19:27:06,846 !! 2025-11-18T19:27:06,847 ******************************************************************************** 2025-11-18T19:27:06,848 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-11-18T19:27:06,849 License :: OSI Approved :: Academic Free License (AFL) 2025-11-18T19:27:06,850 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-11-18T19:27:06,850 ******************************************************************************** 2025-11-18T19:27:06,851 !! 2025-11-18T19:27:06,852 self._finalize_license_expression() 2025-11-18T19:27:06,872 running dist_info 2025-11-18T19:27:06,884 creating /tmp/pip-modern-metadata-bf9z4qsm/galaxy_app.egg-info 2025-11-18T19:27:06,885 writing /tmp/pip-modern-metadata-bf9z4qsm/galaxy_app.egg-info/PKG-INFO 2025-11-18T19:27:06,896 writing dependency_links to /tmp/pip-modern-metadata-bf9z4qsm/galaxy_app.egg-info/dependency_links.txt 2025-11-18T19:27:06,897 writing entry points to /tmp/pip-modern-metadata-bf9z4qsm/galaxy_app.egg-info/entry_points.txt 2025-11-18T19:27:06,900 writing requirements to /tmp/pip-modern-metadata-bf9z4qsm/galaxy_app.egg-info/requires.txt 2025-11-18T19:27:06,901 writing top-level names to /tmp/pip-modern-metadata-bf9z4qsm/galaxy_app.egg-info/top_level.txt 2025-11-18T19:27:06,902 writing manifest file '/tmp/pip-modern-metadata-bf9z4qsm/galaxy_app.egg-info/SOURCES.txt' 2025-11-18T19:27:06,987 reading manifest file '/tmp/pip-modern-metadata-bf9z4qsm/galaxy_app.egg-info/SOURCES.txt' 2025-11-18T19:27:06,989 reading manifest template 'MANIFEST.in' 2025-11-18T19:27:07,515 adding license file 'LICENSE' 2025-11-18T19:27:07,537 writing manifest file '/tmp/pip-modern-metadata-bf9z4qsm/galaxy_app.egg-info/SOURCES.txt' 2025-11-18T19:27:07,539 creating '/tmp/pip-modern-metadata-bf9z4qsm/galaxy_app-25.0.4.dist-info' 2025-11-18T19:27:07,681 Preparing metadata (pyproject.toml): finished with status 'done' 2025-11-18T19:27:07,696 Source in /tmp/pip-wheel-ox4770mz/galaxy-app_9be427e699964453932806d7d025815b has version 25.0.4, which satisfies requirement galaxy-app==25.0.4 from https://files.pythonhosted.org/packages/66/ad/5c2f9df1f257e9630a000bb154271e4d681f2b90bec2bd242782e127fcdf/galaxy_app-25.0.4.tar.gz 2025-11-18T19:27:07,697 Removed galaxy-app==25.0.4 from https://files.pythonhosted.org/packages/66/ad/5c2f9df1f257e9630a000bb154271e4d681f2b90bec2bd242782e127fcdf/galaxy_app-25.0.4.tar.gz from build tracker '/tmp/pip-build-tracker-iax7duy6' 2025-11-18T19:27:07,724 Created temporary directory: /tmp/pip-unpack-jfygjp25 2025-11-18T19:27:07,725 Building wheels for collected packages: galaxy-app 2025-11-18T19:27:07,729 Created temporary directory: /tmp/pip-wheel-h3nlzw8x 2025-11-18T19:27:07,730 Destination directory: /tmp/pip-wheel-h3nlzw8x 2025-11-18T19:27:07,732 Building wheel for galaxy-app (pyproject.toml): started 2025-11-18T19:27:07,733 Running command Building wheel for galaxy-app (pyproject.toml) 2025-11-18T19:27:08,293 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-11-18T19:27:08,294 !! 2025-11-18T19:27:08,295 ******************************************************************************** 2025-11-18T19:27:08,295 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-11-18T19:27:08,296 License :: OSI Approved :: Academic Free License (AFL) 2025-11-18T19:27:08,297 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-11-18T19:27:08,298 ******************************************************************************** 2025-11-18T19:27:08,299 !! 2025-11-18T19:27:08,299 self._finalize_license_expression() 2025-11-18T19:27:08,323 running bdist_wheel 2025-11-18T19:27:08,353 running build 2025-11-18T19:27:08,354 running build_py 2025-11-18T19:27:08,364 creating build/lib/galaxy 2025-11-18T19:27:08,366 copying galaxy/di.py -> build/lib/galaxy 2025-11-18T19:27:08,368 copying galaxy/structured_app.py -> build/lib/galaxy 2025-11-18T19:27:08,371 copying galaxy/__init__.py -> build/lib/galaxy 2025-11-18T19:27:08,372 copying galaxy/queue_worker.py -> build/lib/galaxy 2025-11-18T19:27:08,375 copying galaxy/main_config.py -> build/lib/galaxy 2025-11-18T19:27:08,377 copying galaxy/app.py -> build/lib/galaxy 2025-11-18T19:27:08,380 copying galaxy/config_watchers.py -> build/lib/galaxy 2025-11-18T19:27:08,383 copying galaxy/queues.py -> build/lib/galaxy 2025-11-18T19:27:08,385 copying galaxy/main.py -> build/lib/galaxy 2025-11-18T19:27:08,388 creating build/lib/galaxy_ext 2025-11-18T19:27:08,389 copying galaxy_ext/__init__.py -> build/lib/galaxy_ext 2025-11-18T19:27:08,391 creating build/lib/tool_shed_client 2025-11-18T19:27:08,392 copying tool_shed_client/__init__.py -> build/lib/tool_shed_client 2025-11-18T19:27:08,394 copying tool_shed_client/trs_util.py -> build/lib/tool_shed_client 2025-11-18T19:27:08,396 creating build/lib/galaxy/celery 2025-11-18T19:27:08,398 copying galaxy/celery/tasks.py -> build/lib/galaxy/celery 2025-11-18T19:27:08,400 copying galaxy/celery/base_task.py -> build/lib/galaxy/celery 2025-11-18T19:27:08,403 copying galaxy/celery/__init__.py -> build/lib/galaxy/celery 2025-11-18T19:27:08,405 copying galaxy/celery/_serialization.py -> build/lib/galaxy/celery 2025-11-18T19:27:08,408 creating build/lib/galaxy/workflow 2025-11-18T19:27:08,409 copying galaxy/workflow/render.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,411 copying galaxy/workflow/run_request.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,420 copying galaxy/workflow/modules.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,424 copying galaxy/workflow/__init__.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,426 copying galaxy/workflow/extract.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,429 copying galaxy/workflow/workflow_parameter_input_definitions.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,431 copying galaxy/workflow/run.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,433 copying galaxy/workflow/trs_proxy.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,436 copying galaxy/workflow/steps.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,438 copying galaxy/workflow/scheduling_manager.py -> build/lib/galaxy/workflow 2025-11-18T19:27:08,441 creating build/lib/galaxy/visualization 2025-11-18T19:27:08,442 copying galaxy/visualization/genomes.py -> build/lib/galaxy/visualization 2025-11-18T19:27:08,445 copying galaxy/visualization/__init__.py -> build/lib/galaxy/visualization 2025-11-18T19:27:08,449 creating build/lib/galaxy/managers 2025-11-18T19:27:08,450 copying galaxy/managers/rbac_secured.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,453 copying galaxy/managers/tool_data.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,455 copying galaxy/managers/datatypes.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,457 copying galaxy/managers/job_connections.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,459 copying galaxy/managers/executables.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,461 copying galaxy/managers/deletable.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,464 copying galaxy/managers/display_applications.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,466 copying galaxy/managers/group_roles.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,467 copying galaxy/managers/remote_files.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,470 copying galaxy/managers/folders.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,473 copying galaxy/managers/citations.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,475 copying galaxy/managers/tasks.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,477 copying galaxy/managers/genomes.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,480 copying galaxy/managers/libraries.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,482 copying galaxy/managers/taggable.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,484 copying galaxy/managers/library_datasets.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,487 copying galaxy/managers/group_users.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,489 copying galaxy/managers/users.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,492 copying galaxy/managers/session.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,494 copying galaxy/managers/export_tracker.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,496 copying galaxy/managers/context.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,498 copying galaxy/managers/ratable.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,501 copying galaxy/managers/forms.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,503 copying galaxy/managers/landing.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,505 copying galaxy/managers/notification.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,508 copying galaxy/managers/groups.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,510 copying galaxy/managers/item_tags.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,513 copying galaxy/managers/__init__.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,515 copying galaxy/managers/tags.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,516 copying galaxy/managers/pages.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,519 copying galaxy/managers/lddas.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,521 copying galaxy/managers/collections_util.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,524 copying galaxy/managers/visualizations.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,526 copying galaxy/managers/quotas.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,528 copying galaxy/managers/file_source_instances.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,531 copying galaxy/managers/markdown_parse.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,534 copying galaxy/managers/base.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,537 copying galaxy/managers/collections.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,540 copying galaxy/managers/model_stores.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,543 copying galaxy/managers/hdcas.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,546 copying galaxy/managers/history_contents.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,549 copying galaxy/managers/api_keys.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,551 copying galaxy/managers/metrics.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,553 copying galaxy/managers/hdas.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,556 copying galaxy/managers/jobs.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,561 copying galaxy/managers/tools.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,564 copying galaxy/managers/roles.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,566 copying galaxy/managers/sharable.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,569 copying galaxy/managers/workflows.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,574 copying galaxy/managers/secured.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,576 copying galaxy/managers/annotatable.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,578 copying galaxy/managers/histories.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,582 copying galaxy/managers/dbkeys.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,584 copying galaxy/managers/object_store_instances.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,587 copying galaxy/managers/_config_templates.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,590 copying galaxy/managers/chat.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,593 copying galaxy/managers/markdown_util.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,596 copying galaxy/managers/licenses.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,599 copying galaxy/managers/configuration.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,601 copying galaxy/managers/interactivetool.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,604 copying galaxy/managers/datasets.py -> build/lib/galaxy/managers 2025-11-18T19:27:08,608 creating build/lib/galaxy/app_unittest_utils 2025-11-18T19:27:08,610 copying galaxy/app_unittest_utils/galaxy_mock.py -> build/lib/galaxy/app_unittest_utils 2025-11-18T19:27:08,613 copying galaxy/app_unittest_utils/toolbox_support.py -> build/lib/galaxy/app_unittest_utils 2025-11-18T19:27:08,616 copying galaxy/app_unittest_utils/__init__.py -> build/lib/galaxy/app_unittest_utils 2025-11-18T19:27:08,618 copying galaxy/app_unittest_utils/tools_support.py -> build/lib/galaxy/app_unittest_utils 2025-11-18T19:27:08,621 creating build/lib/galaxy/authnz 2025-11-18T19:27:08,623 copying galaxy/authnz/managers.py -> build/lib/galaxy/authnz 2025-11-18T19:27:08,626 copying galaxy/authnz/__init__.py -> build/lib/galaxy/authnz 2025-11-18T19:27:08,628 copying galaxy/authnz/tapis.py -> build/lib/galaxy/authnz 2025-11-18T19:27:08,631 copying galaxy/authnz/psa_authnz.py -> build/lib/galaxy/authnz 2025-11-18T19:27:08,634 copying galaxy/authnz/util.py -> build/lib/galaxy/authnz 2025-11-18T19:27:08,636 copying galaxy/authnz/custos_authnz.py -> build/lib/galaxy/authnz 2025-11-18T19:27:08,639 creating build/lib/galaxy/tool_shed 2025-11-18T19:27:08,641 copying galaxy/tool_shed/__init__.py -> build/lib/galaxy/tool_shed 2025-11-18T19:27:08,643 copying galaxy/tool_shed/repository_type.py -> build/lib/galaxy/tool_shed 2025-11-18T19:27:08,645 copying galaxy/tool_shed/cache.py -> build/lib/galaxy/tool_shed 2025-11-18T19:27:08,648 creating build/lib/galaxy/short_term_storage 2025-11-18T19:27:08,649 copying galaxy/short_term_storage/__init__.py -> build/lib/galaxy/short_term_storage 2025-11-18T19:27:08,652 creating build/lib/galaxy/webhooks 2025-11-18T19:27:08,653 copying galaxy/webhooks/__init__.py -> build/lib/galaxy/webhooks 2025-11-18T19:27:08,656 creating build/lib/galaxy/forms 2025-11-18T19:27:08,658 copying galaxy/forms/forms.py -> build/lib/galaxy/forms 2025-11-18T19:27:08,661 copying galaxy/forms/__init__.py -> build/lib/galaxy/forms 2025-11-18T19:27:08,663 creating build/lib/galaxy/tools 2025-11-18T19:27:08,665 copying galaxy/tools/data_fetch.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,668 copying galaxy/tools/biotools.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,670 copying galaxy/tools/evaluation.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,674 copying galaxy/tools/exception_handling.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,676 copying galaxy/tools/__init__.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,681 copying galaxy/tools/execute.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,684 copying galaxy/tools/wrappers.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,688 copying galaxy/tools/errors.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,690 copying galaxy/tools/repositories.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,693 copying galaxy/tools/execution_helpers.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,695 copying galaxy/tools/_types.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,697 copying galaxy/tools/remote_tool_eval.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,700 copying galaxy/tools/special_tools.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,702 copying galaxy/tools/recommendations.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,705 copying galaxy/tools/stock.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,707 copying galaxy/tools/cache.py -> build/lib/galaxy/tools 2025-11-18T19:27:08,711 creating build/lib/galaxy/carbon_emissions 2025-11-18T19:27:08,712 copying galaxy/carbon_emissions/__init__.py -> build/lib/galaxy/carbon_emissions 2025-11-18T19:27:08,715 creating build/lib/galaxy/dependencies 2025-11-18T19:27:08,716 copying galaxy/dependencies/script.py -> build/lib/galaxy/dependencies 2025-11-18T19:27:08,718 copying galaxy/dependencies/__init__.py -> build/lib/galaxy/dependencies 2025-11-18T19:27:08,722 creating build/lib/galaxy/jobs 2025-11-18T19:27:08,723 copying galaxy/jobs/__init__.py -> build/lib/galaxy/jobs 2025-11-18T19:27:08,729 copying galaxy/jobs/mapper.py -> build/lib/galaxy/jobs 2025-11-18T19:27:08,732 copying galaxy/jobs/dynamic_tool_destination.py -> build/lib/galaxy/jobs 2025-11-18T19:27:08,736 copying galaxy/jobs/manager.py -> build/lib/galaxy/jobs 2025-11-18T19:27:08,738 copying galaxy/jobs/rule_helper.py -> build/lib/galaxy/jobs 2025-11-18T19:27:08,741 copying galaxy/jobs/command_factory.py -> build/lib/galaxy/jobs 2025-11-18T19:27:08,744 copying galaxy/jobs/stock_rules.py -> build/lib/galaxy/jobs 2025-11-18T19:27:08,746 copying galaxy/jobs/handler.py -> build/lib/galaxy/jobs 2025-11-18T19:27:08,750 creating build/lib/galaxy/actions 2025-11-18T19:27:08,752 copying galaxy/actions/__init__.py -> build/lib/galaxy/actions 2025-11-18T19:27:08,754 copying galaxy/actions/library.py -> build/lib/galaxy/actions 2025-11-18T19:27:08,757 creating build/lib/galaxy/work 2025-11-18T19:27:08,759 copying galaxy/work/context.py -> build/lib/galaxy/work 2025-11-18T19:27:08,761 copying galaxy/work/__init__.py -> build/lib/galaxy/work 2025-11-18T19:27:08,764 creating build/lib/galaxy/workflow/reports 2025-11-18T19:27:08,765 copying galaxy/workflow/reports/__init__.py -> build/lib/galaxy/workflow/reports 2025-11-18T19:27:08,768 creating build/lib/galaxy/workflow/refactor 2025-11-18T19:27:08,769 copying galaxy/workflow/refactor/schema.py -> build/lib/galaxy/workflow/refactor 2025-11-18T19:27:08,772 copying galaxy/workflow/refactor/__init__.py -> build/lib/galaxy/workflow/refactor 2025-11-18T19:27:08,774 copying galaxy/workflow/refactor/execute.py -> build/lib/galaxy/workflow/refactor 2025-11-18T19:27:08,778 creating build/lib/galaxy/workflow/resources 2025-11-18T19:27:08,779 copying galaxy/workflow/resources/__init__.py -> build/lib/galaxy/workflow/resources 2025-11-18T19:27:08,782 creating build/lib/galaxy/workflow/schedulers 2025-11-18T19:27:08,784 copying galaxy/workflow/schedulers/__init__.py -> build/lib/galaxy/workflow/schedulers 2025-11-18T19:27:08,786 copying galaxy/workflow/schedulers/core.py -> build/lib/galaxy/workflow/schedulers 2025-11-18T19:27:08,789 creating build/lib/galaxy/workflow/reports/generators 2025-11-18T19:27:08,791 copying galaxy/workflow/reports/generators/__init__.py -> build/lib/galaxy/workflow/reports/generators 2025-11-18T19:27:08,794 copying galaxy/workflow/reports/generators/markdown.py -> build/lib/galaxy/workflow/reports/generators 2025-11-18T19:27:08,797 creating build/lib/galaxy/visualization/tracks 2025-11-18T19:27:08,798 copying galaxy/visualization/tracks/__init__.py -> build/lib/galaxy/visualization/tracks 2025-11-18T19:27:08,801 creating build/lib/galaxy/visualization/genome 2025-11-18T19:27:08,802 copying galaxy/visualization/genome/__init__.py -> build/lib/galaxy/visualization/genome 2025-11-18T19:27:08,805 creating build/lib/galaxy/visualization/data_providers 2025-11-18T19:27:08,807 copying galaxy/visualization/data_providers/basic.py -> build/lib/galaxy/visualization/data_providers 2025-11-18T19:27:08,810 copying galaxy/visualization/data_providers/cigar.py -> build/lib/galaxy/visualization/data_providers 2025-11-18T19:27:08,812 copying galaxy/visualization/data_providers/registry.py -> build/lib/galaxy/visualization/data_providers 2025-11-18T19:27:08,814 copying galaxy/visualization/data_providers/__init__.py -> build/lib/galaxy/visualization/data_providers 2025-11-18T19:27:08,816 copying galaxy/visualization/data_providers/genome.py -> build/lib/galaxy/visualization/data_providers 2025-11-18T19:27:08,820 creating build/lib/galaxy/visualization/plugins 2025-11-18T19:27:08,821 copying galaxy/visualization/plugins/plugin.py -> build/lib/galaxy/visualization/plugins 2025-11-18T19:27:08,824 copying galaxy/visualization/plugins/resource_parser.py -> build/lib/galaxy/visualization/plugins 2025-11-18T19:27:08,826 copying galaxy/visualization/plugins/config_parser.py -> build/lib/galaxy/visualization/plugins 2025-11-18T19:27:08,829 copying galaxy/visualization/plugins/datasource_testing.py -> build/lib/galaxy/visualization/plugins 2025-11-18T19:27:08,831 copying galaxy/visualization/plugins/registry.py -> build/lib/galaxy/visualization/plugins 2025-11-18T19:27:08,833 copying galaxy/visualization/plugins/__init__.py -> build/lib/galaxy/visualization/plugins 2025-11-18T19:27:08,835 copying galaxy/visualization/plugins/utils.py -> build/lib/galaxy/visualization/plugins 2025-11-18T19:27:08,837 creating build/lib/galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:08,838 copying galaxy/visualization/data_providers/phyloviz/newickparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:08,841 copying galaxy/visualization/data_providers/phyloviz/baseparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:08,843 copying galaxy/visualization/data_providers/phyloviz/nexusparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:08,845 copying galaxy/visualization/data_providers/phyloviz/__init__.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:08,847 copying galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:08,850 creating build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,851 copying galaxy/tool_shed/util/hg_util.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,854 copying galaxy/tool_shed/util/shed_util_common.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,856 copying galaxy/tool_shed/util/__init__.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,859 copying galaxy/tool_shed/util/dependency_display.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,861 copying galaxy/tool_shed/util/basic_util.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,863 copying galaxy/tool_shed/util/repository_util.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,866 copying galaxy/tool_shed/util/metadata_util.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,868 copying galaxy/tool_shed/util/tool_dependency_util.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,870 copying galaxy/tool_shed/util/container_util.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,872 copying galaxy/tool_shed/util/tool_util.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,875 copying galaxy/tool_shed/util/utility_container_manager.py -> build/lib/galaxy/tool_shed/util 2025-11-18T19:27:08,878 creating build/lib/galaxy/tool_shed/galaxy_install 2025-11-18T19:27:08,879 copying galaxy/tool_shed/galaxy_install/installed_repository_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-11-18T19:27:08,882 copying galaxy/tool_shed/galaxy_install/update_repository_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-11-18T19:27:08,885 copying galaxy/tool_shed/galaxy_install/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-11-18T19:27:08,886 copying galaxy/tool_shed/galaxy_install/client.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-11-18T19:27:08,888 copying galaxy/tool_shed/galaxy_install/install_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2025-11-18T19:27:08,892 creating build/lib/galaxy/tool_shed/tools 2025-11-18T19:27:08,892 copying galaxy/tool_shed/tools/__init__.py -> build/lib/galaxy/tool_shed/tools 2025-11-18T19:27:08,894 copying galaxy/tool_shed/tools/data_table_manager.py -> build/lib/galaxy/tool_shed/tools 2025-11-18T19:27:08,896 copying galaxy/tool_shed/tools/tool_validator.py -> build/lib/galaxy/tool_shed/tools 2025-11-18T19:27:08,899 creating build/lib/galaxy/tool_shed/unittest_utils 2025-11-18T19:27:08,900 copying galaxy/tool_shed/unittest_utils/__init__.py -> build/lib/galaxy/tool_shed/unittest_utils 2025-11-18T19:27:08,903 creating build/lib/galaxy/tool_shed/metadata 2025-11-18T19:27:08,904 copying galaxy/tool_shed/metadata/__init__.py -> build/lib/galaxy/tool_shed/metadata 2025-11-18T19:27:08,905 copying galaxy/tool_shed/metadata/metadata_generator.py -> build/lib/galaxy/tool_shed/metadata 2025-11-18T19:27:08,909 creating build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2025-11-18T19:27:08,910 copying galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2025-11-18T19:27:08,912 copying galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2025-11-18T19:27:08,915 creating build/lib/galaxy/tool_shed/galaxy_install/tools 2025-11-18T19:27:08,916 copying galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2025-11-18T19:27:08,919 copying galaxy/tool_shed/galaxy_install/tools/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2025-11-18T19:27:08,921 copying galaxy/tool_shed/galaxy_install/tools/data_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2025-11-18T19:27:08,923 creating build/lib/galaxy/tool_shed/galaxy_install/metadata 2025-11-18T19:27:08,924 copying galaxy/tool_shed/galaxy_install/metadata/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/metadata 2025-11-18T19:27:08,926 copying galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/metadata 2025-11-18T19:27:08,929 creating build/lib/galaxy/tools/error_reports 2025-11-18T19:27:08,930 copying galaxy/tools/error_reports/__init__.py -> build/lib/galaxy/tools/error_reports 2025-11-18T19:27:08,933 creating build/lib/galaxy/tools/imp_exp 2025-11-18T19:27:08,934 copying galaxy/tools/imp_exp/export_history.py -> build/lib/galaxy/tools/imp_exp 2025-11-18T19:27:08,936 copying galaxy/tools/imp_exp/__init__.py -> build/lib/galaxy/tools/imp_exp 2025-11-18T19:27:08,938 copying galaxy/tools/imp_exp/unpack_tar_gz_archive.py -> build/lib/galaxy/tools/imp_exp 2025-11-18T19:27:08,941 creating build/lib/galaxy/tools/data 2025-11-18T19:27:08,942 copying galaxy/tools/data/__init__.py -> build/lib/galaxy/tools/data 2025-11-18T19:27:08,945 creating build/lib/galaxy/tools/filters 2025-11-18T19:27:08,946 copying galaxy/tools/filters/__init__.py -> build/lib/galaxy/tools/filters 2025-11-18T19:27:08,948 creating build/lib/galaxy/tools/expressions 2025-11-18T19:27:08,949 copying galaxy/tools/expressions/script.py -> build/lib/galaxy/tools/expressions 2025-11-18T19:27:08,952 copying galaxy/tools/expressions/evaluation.py -> build/lib/galaxy/tools/expressions 2025-11-18T19:27:08,954 copying galaxy/tools/expressions/__init__.py -> build/lib/galaxy/tools/expressions 2025-11-18T19:27:08,956 copying galaxy/tools/expressions/util.py -> build/lib/galaxy/tools/expressions 2025-11-18T19:27:08,958 creating build/lib/galaxy/tools/util 2025-11-18T19:27:08,959 copying galaxy/tools/util/maf_utilities.py -> build/lib/galaxy/tools/util 2025-11-18T19:27:08,962 copying galaxy/tools/util/__init__.py -> build/lib/galaxy/tools/util 2025-11-18T19:27:08,964 creating build/lib/galaxy/tools/data_manager 2025-11-18T19:27:08,966 copying galaxy/tools/data_manager/__init__.py -> build/lib/galaxy/tools/data_manager 2025-11-18T19:27:08,968 copying galaxy/tools/data_manager/manager.py -> build/lib/galaxy/tools/data_manager 2025-11-18T19:27:08,970 creating build/lib/galaxy/tools/search 2025-11-18T19:27:08,971 copying galaxy/tools/search/__init__.py -> build/lib/galaxy/tools/search 2025-11-18T19:27:08,975 creating build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,976 copying galaxy/tools/parameters/sanitize.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,978 copying galaxy/tools/parameters/dataset_matcher.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,980 copying galaxy/tools/parameters/basic.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,984 copying galaxy/tools/parameters/validation.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,987 copying galaxy/tools/parameters/populate_model.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,988 copying galaxy/tools/parameters/wrapped.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,991 copying galaxy/tools/parameters/__init__.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,993 copying galaxy/tools/parameters/meta.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,996 copying galaxy/tools/parameters/input_translation.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:08,998 copying galaxy/tools/parameters/cancelable_request.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:09,000 copying galaxy/tools/parameters/grouping.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:09,003 copying galaxy/tools/parameters/wrapped_json.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:09,005 copying galaxy/tools/parameters/dynamic_options.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:09,008 copying galaxy/tools/parameters/workflow_utils.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:09,010 copying galaxy/tools/parameters/options.py -> build/lib/galaxy/tools/parameters 2025-11-18T19:27:09,012 creating build/lib/galaxy/tools/actions 2025-11-18T19:27:09,013 copying galaxy/tools/actions/model_operations.py -> build/lib/galaxy/tools/actions 2025-11-18T19:27:09,016 copying galaxy/tools/actions/__init__.py -> build/lib/galaxy/tools/actions 2025-11-18T19:27:09,019 copying galaxy/tools/actions/upload.py -> build/lib/galaxy/tools/actions 2025-11-18T19:27:09,021 copying galaxy/tools/actions/metadata.py -> build/lib/galaxy/tools/actions 2025-11-18T19:27:09,024 copying galaxy/tools/actions/data_source.py -> build/lib/galaxy/tools/actions 2025-11-18T19:27:09,026 copying galaxy/tools/actions/history_imp_exp.py -> build/lib/galaxy/tools/actions 2025-11-18T19:27:09,028 copying galaxy/tools/actions/data_manager.py -> build/lib/galaxy/tools/actions 2025-11-18T19:27:09,030 copying galaxy/tools/actions/upload_common.py -> build/lib/galaxy/tools/actions 2025-11-18T19:27:09,033 creating build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,034 copying galaxy/tools/error_reports/plugins/sentry.py -> build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,036 copying galaxy/tools/error_reports/plugins/base_git.py -> build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,039 copying galaxy/tools/error_reports/plugins/influxdb.py -> build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,040 copying galaxy/tools/error_reports/plugins/__init__.py -> build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,042 copying galaxy/tools/error_reports/plugins/email.py -> build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,044 copying galaxy/tools/error_reports/plugins/json.py -> build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,046 copying galaxy/tools/error_reports/plugins/github.py -> build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,048 copying galaxy/tools/error_reports/plugins/slack.py -> build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,050 copying galaxy/tools/error_reports/plugins/gitlab.py -> build/lib/galaxy/tools/error_reports/plugins 2025-11-18T19:27:09,053 creating build/lib/galaxy/tools/util/galaxyops 2025-11-18T19:27:09,054 copying galaxy/tools/util/galaxyops/__init__.py -> build/lib/galaxy/tools/util/galaxyops 2025-11-18T19:27:09,057 creating build/lib/galaxy/jobs/splitters 2025-11-18T19:27:09,058 copying galaxy/jobs/splitters/basic.py -> build/lib/galaxy/jobs/splitters 2025-11-18T19:27:09,059 copying galaxy/jobs/splitters/__init__.py -> build/lib/galaxy/jobs/splitters 2025-11-18T19:27:09,061 copying galaxy/jobs/splitters/multi.py -> build/lib/galaxy/jobs/splitters 2025-11-18T19:27:09,064 creating build/lib/galaxy/jobs/rules 2025-11-18T19:27:09,065 copying galaxy/jobs/rules/__init__.py -> build/lib/galaxy/jobs/rules 2025-11-18T19:27:09,067 creating build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,068 copying galaxy/jobs/runners/local.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,071 copying galaxy/jobs/runners/tasks.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,073 copying galaxy/jobs/runners/condor.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,075 copying galaxy/jobs/runners/drmaa.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,078 copying galaxy/jobs/runners/__init__.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,081 copying galaxy/jobs/runners/chronos.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,083 copying galaxy/jobs/runners/godocker.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,086 copying galaxy/jobs/runners/univa.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,089 copying galaxy/jobs/runners/aws.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,091 copying galaxy/jobs/runners/kubernetes.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,094 copying galaxy/jobs/runners/pulsar.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,097 copying galaxy/jobs/runners/pbs.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,100 copying galaxy/jobs/runners/slurm.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,102 copying galaxy/jobs/runners/cli.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,105 copying galaxy/jobs/runners/state_handler_factory.py -> build/lib/galaxy/jobs/runners 2025-11-18T19:27:09,107 creating build/lib/galaxy/jobs/runners/util 2025-11-18T19:27:09,108 copying galaxy/jobs/runners/util/env.py -> build/lib/galaxy/jobs/runners/util 2025-11-18T19:27:09,110 copying galaxy/jobs/runners/util/fork_safe_write.py -> build/lib/galaxy/jobs/runners/util 2025-11-18T19:27:09,112 copying galaxy/jobs/runners/util/external.py -> build/lib/galaxy/jobs/runners/util 2025-11-18T19:27:09,114 copying galaxy/jobs/runners/util/sudo.py -> build/lib/galaxy/jobs/runners/util 2025-11-18T19:27:09,116 copying galaxy/jobs/runners/util/__init__.py -> build/lib/galaxy/jobs/runners/util 2025-11-18T19:27:09,118 copying galaxy/jobs/runners/util/pykube_util.py -> build/lib/galaxy/jobs/runners/util 2025-11-18T19:27:09,120 copying galaxy/jobs/runners/util/process_groups.py -> build/lib/galaxy/jobs/runners/util 2025-11-18T19:27:09,122 copying galaxy/jobs/runners/util/kill.py -> build/lib/galaxy/jobs/runners/util 2025-11-18T19:27:09,124 creating build/lib/galaxy/jobs/runners/state_handlers 2025-11-18T19:27:09,125 copying galaxy/jobs/runners/state_handlers/resubmit.py -> build/lib/galaxy/jobs/runners/state_handlers 2025-11-18T19:27:09,128 copying galaxy/jobs/runners/state_handlers/__init__.py -> build/lib/galaxy/jobs/runners/state_handlers 2025-11-18T19:27:09,130 copying galaxy/jobs/runners/state_handlers/_safe_eval.py -> build/lib/galaxy/jobs/runners/state_handlers 2025-11-18T19:27:09,133 creating build/lib/galaxy/jobs/runners/util/cli 2025-11-18T19:27:09,133 copying galaxy/jobs/runners/util/cli/__init__.py -> build/lib/galaxy/jobs/runners/util/cli 2025-11-18T19:27:09,136 copying galaxy/jobs/runners/util/cli/factory.py -> build/lib/galaxy/jobs/runners/util/cli 2025-11-18T19:27:09,138 creating build/lib/galaxy/jobs/runners/util/job_script 2025-11-18T19:27:09,138 copying galaxy/jobs/runners/util/job_script/__init__.py -> build/lib/galaxy/jobs/runners/util/job_script 2025-11-18T19:27:09,141 creating build/lib/galaxy/jobs/runners/util/condor 2025-11-18T19:27:09,142 copying galaxy/jobs/runners/util/condor/__init__.py -> build/lib/galaxy/jobs/runners/util/condor 2025-11-18T19:27:09,144 creating build/lib/galaxy/jobs/runners/util/cli/shell 2025-11-18T19:27:09,145 copying galaxy/jobs/runners/util/cli/shell/local.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2025-11-18T19:27:09,147 copying galaxy/jobs/runners/util/cli/shell/__init__.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2025-11-18T19:27:09,149 copying galaxy/jobs/runners/util/cli/shell/rsh.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2025-11-18T19:27:09,152 creating build/lib/galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:09,153 copying galaxy/jobs/runners/util/cli/job/lsf.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:09,155 copying galaxy/jobs/runners/util/cli/job/__init__.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:09,157 copying galaxy/jobs/runners/util/cli/job/torque.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:09,159 copying galaxy/jobs/runners/util/cli/job/pbs.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:09,161 copying galaxy/jobs/runners/util/cli/job/slurm.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:09,163 copying galaxy/jobs/runners/util/cli/job/slurm_torque.py -> build/lib/galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:09,166 creating build/lib/galaxy_ext/expressions 2025-11-18T19:27:09,166 copying galaxy_ext/expressions/__init__.py -> build/lib/galaxy_ext/expressions 2025-11-18T19:27:09,168 copying galaxy_ext/expressions/handle_job.py -> build/lib/galaxy_ext/expressions 2025-11-18T19:27:09,171 creating build/lib/galaxy_ext/container_monitor 2025-11-18T19:27:09,172 copying galaxy_ext/container_monitor/__init__.py -> build/lib/galaxy_ext/container_monitor 2025-11-18T19:27:09,173 copying galaxy_ext/container_monitor/monitor.py -> build/lib/galaxy_ext/container_monitor 2025-11-18T19:27:09,175 creating build/lib/galaxy_ext/metadata 2025-11-18T19:27:09,177 copying galaxy_ext/metadata/set_metadata.py -> build/lib/galaxy_ext/metadata 2025-11-18T19:27:09,179 copying galaxy_ext/metadata/__init__.py -> build/lib/galaxy_ext/metadata 2025-11-18T19:27:09,183 creating build/lib/tool_shed_client/schema 2025-11-18T19:27:09,184 copying tool_shed_client/schema/__init__.py -> build/lib/tool_shed_client/schema 2025-11-18T19:27:09,186 copying tool_shed_client/schema/trs_service_info.py -> build/lib/tool_shed_client/schema 2025-11-18T19:27:09,188 copying tool_shed_client/schema/trs.py -> build/lib/tool_shed_client/schema 2025-11-18T19:27:09,191 running egg_info 2025-11-18T19:27:09,206 writing galaxy_app.egg-info/PKG-INFO 2025-11-18T19:27:09,216 writing dependency_links to galaxy_app.egg-info/dependency_links.txt 2025-11-18T19:27:09,217 writing entry points to galaxy_app.egg-info/entry_points.txt 2025-11-18T19:27:09,220 writing requirements to galaxy_app.egg-info/requires.txt 2025-11-18T19:27:09,221 writing top-level names to galaxy_app.egg-info/top_level.txt 2025-11-18T19:27:09,285 reading manifest file 'galaxy_app.egg-info/SOURCES.txt' 2025-11-18T19:27:09,318 reading manifest template 'MANIFEST.in' 2025-11-18T19:27:09,847 adding license file 'LICENSE' 2025-11-18T19:27:09,877 writing manifest file 'galaxy_app.egg-info/SOURCES.txt' 2025-11-18T19:27:09,883 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled' is absent from the `packages` configuration. 2025-11-18T19:27:09,883 !! 2025-11-18T19:27:09,884 ******************************************************************************** 2025-11-18T19:27:09,885 ############################ 2025-11-18T19:27:09,885 # Package would be ignored # 2025-11-18T19:27:09,885 ############################ 2025-11-18T19:27:09,886 Python recognizes 'galaxy.tools.bundled' as an importable package[^1], 2025-11-18T19:27:09,886 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:09,887 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:09,888 package, please make sure that 'galaxy.tools.bundled' is explicitly added 2025-11-18T19:27:09,888 to the `packages` configuration field. 2025-11-18T19:27:09,889 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:09,890 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:09,890 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:09,891 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:09,892 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:09,893 If you don't want 'galaxy.tools.bundled' to be distributed and are 2025-11-18T19:27:09,893 already explicitly excluding 'galaxy.tools.bundled' via 2025-11-18T19:27:09,894 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:09,895 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:09,895 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:09,897 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:09,898 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:09,900 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:09,900 even if it does not contain any `.py` files. 2025-11-18T19:27:09,901 On the other hand, currently there is no concept of package data 2025-11-18T19:27:09,901 directory, all directories are treated like packages. 2025-11-18T19:27:09,902 ******************************************************************************** 2025-11-18T19:27:09,903 !! 2025-11-18T19:27:09,904 check.warn(importable) 2025-11-18T19:27:09,904 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.data_export' is absent from the `packages` configuration. 2025-11-18T19:27:09,905 !! 2025-11-18T19:27:09,906 ******************************************************************************** 2025-11-18T19:27:09,907 ############################ 2025-11-18T19:27:09,907 # Package would be ignored # 2025-11-18T19:27:09,908 ############################ 2025-11-18T19:27:09,909 Python recognizes 'galaxy.tools.bundled.data_export' as an importable package[^1], 2025-11-18T19:27:09,909 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:09,910 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:09,911 package, please make sure that 'galaxy.tools.bundled.data_export' is explicitly added 2025-11-18T19:27:09,912 to the `packages` configuration field. 2025-11-18T19:27:09,913 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:09,913 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:09,914 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:09,915 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:09,915 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:09,916 If you don't want 'galaxy.tools.bundled.data_export' to be distributed and are 2025-11-18T19:27:09,917 already explicitly excluding 'galaxy.tools.bundled.data_export' via 2025-11-18T19:27:09,917 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:09,918 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:09,918 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:09,919 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:09,920 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:09,922 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:09,922 even if it does not contain any `.py` files. 2025-11-18T19:27:09,922 On the other hand, currently there is no concept of package data 2025-11-18T19:27:09,923 directory, all directories are treated like packages. 2025-11-18T19:27:09,923 ******************************************************************************** 2025-11-18T19:27:09,924 !! 2025-11-18T19:27:09,925 check.warn(importable) 2025-11-18T19:27:09,926 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.data_source' is absent from the `packages` configuration. 2025-11-18T19:27:09,926 !! 2025-11-18T19:27:09,928 ******************************************************************************** 2025-11-18T19:27:09,928 ############################ 2025-11-18T19:27:09,929 # Package would be ignored # 2025-11-18T19:27:09,930 ############################ 2025-11-18T19:27:09,930 Python recognizes 'galaxy.tools.bundled.data_source' as an importable package[^1], 2025-11-18T19:27:09,931 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:09,932 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:09,933 package, please make sure that 'galaxy.tools.bundled.data_source' is explicitly added 2025-11-18T19:27:09,933 to the `packages` configuration field. 2025-11-18T19:27:09,934 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:09,935 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:09,935 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:09,936 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:09,937 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:09,938 If you don't want 'galaxy.tools.bundled.data_source' to be distributed and are 2025-11-18T19:27:09,939 already explicitly excluding 'galaxy.tools.bundled.data_source' via 2025-11-18T19:27:09,939 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:09,940 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:09,940 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:09,941 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:09,943 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:09,944 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:09,945 even if it does not contain any `.py` files. 2025-11-18T19:27:09,945 On the other hand, currently there is no concept of package data 2025-11-18T19:27:09,946 directory, all directories are treated like packages. 2025-11-18T19:27:09,946 ******************************************************************************** 2025-11-18T19:27:09,947 !! 2025-11-18T19:27:09,948 check.warn(importable) 2025-11-18T19:27:09,948 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.expression_tools' is absent from the `packages` configuration. 2025-11-18T19:27:09,949 !! 2025-11-18T19:27:09,949 ******************************************************************************** 2025-11-18T19:27:09,950 ############################ 2025-11-18T19:27:09,950 # Package would be ignored # 2025-11-18T19:27:09,951 ############################ 2025-11-18T19:27:09,951 Python recognizes 'galaxy.tools.bundled.expression_tools' as an importable package[^1], 2025-11-18T19:27:09,952 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:09,953 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:09,953 package, please make sure that 'galaxy.tools.bundled.expression_tools' is explicitly added 2025-11-18T19:27:09,954 to the `packages` configuration field. 2025-11-18T19:27:09,955 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:09,956 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:09,956 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:09,957 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:09,959 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:09,960 If you don't want 'galaxy.tools.bundled.expression_tools' to be distributed and are 2025-11-18T19:27:09,961 already explicitly excluding 'galaxy.tools.bundled.expression_tools' via 2025-11-18T19:27:09,961 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:09,962 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:09,962 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:09,963 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:09,965 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:09,967 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:09,967 even if it does not contain any `.py` files. 2025-11-18T19:27:09,968 On the other hand, currently there is no concept of package data 2025-11-18T19:27:09,969 directory, all directories are treated like packages. 2025-11-18T19:27:09,969 ******************************************************************************** 2025-11-18T19:27:09,971 !! 2025-11-18T19:27:09,971 check.warn(importable) 2025-11-18T19:27:09,972 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.extract' is absent from the `packages` configuration. 2025-11-18T19:27:09,972 !! 2025-11-18T19:27:09,974 ******************************************************************************** 2025-11-18T19:27:09,974 ############################ 2025-11-18T19:27:09,975 # Package would be ignored # 2025-11-18T19:27:09,975 ############################ 2025-11-18T19:27:09,976 Python recognizes 'galaxy.tools.bundled.extract' as an importable package[^1], 2025-11-18T19:27:09,976 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:09,977 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:09,978 package, please make sure that 'galaxy.tools.bundled.extract' is explicitly added 2025-11-18T19:27:09,978 to the `packages` configuration field. 2025-11-18T19:27:09,979 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:09,980 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:09,980 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:09,981 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:09,982 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:09,983 If you don't want 'galaxy.tools.bundled.extract' to be distributed and are 2025-11-18T19:27:09,984 already explicitly excluding 'galaxy.tools.bundled.extract' via 2025-11-18T19:27:09,985 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:09,986 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:09,986 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:09,987 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:09,989 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:09,990 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:09,991 even if it does not contain any `.py` files. 2025-11-18T19:27:09,991 On the other hand, currently there is no concept of package data 2025-11-18T19:27:09,992 directory, all directories are treated like packages. 2025-11-18T19:27:09,992 ******************************************************************************** 2025-11-18T19:27:09,994 !! 2025-11-18T19:27:09,994 check.warn(importable) 2025-11-18T19:27:09,995 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.filters' is absent from the `packages` configuration. 2025-11-18T19:27:09,995 !! 2025-11-18T19:27:09,996 ******************************************************************************** 2025-11-18T19:27:09,997 ############################ 2025-11-18T19:27:09,998 # Package would be ignored # 2025-11-18T19:27:09,998 ############################ 2025-11-18T19:27:09,999 Python recognizes 'galaxy.tools.bundled.filters' as an importable package[^1], 2025-11-18T19:27:10,000 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,001 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,002 package, please make sure that 'galaxy.tools.bundled.filters' is explicitly added 2025-11-18T19:27:10,002 to the `packages` configuration field. 2025-11-18T19:27:10,003 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,004 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,005 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,006 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,008 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,009 If you don't want 'galaxy.tools.bundled.filters' to be distributed and are 2025-11-18T19:27:10,009 already explicitly excluding 'galaxy.tools.bundled.filters' via 2025-11-18T19:27:10,010 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,011 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,011 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,012 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,013 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,015 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,015 even if it does not contain any `.py` files. 2025-11-18T19:27:10,016 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,016 directory, all directories are treated like packages. 2025-11-18T19:27:10,017 ******************************************************************************** 2025-11-18T19:27:10,018 !! 2025-11-18T19:27:10,018 check.warn(importable) 2025-11-18T19:27:10,019 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.filters.gff' is absent from the `packages` configuration. 2025-11-18T19:27:10,019 !! 2025-11-18T19:27:10,020 ******************************************************************************** 2025-11-18T19:27:10,021 ############################ 2025-11-18T19:27:10,021 # Package would be ignored # 2025-11-18T19:27:10,022 ############################ 2025-11-18T19:27:10,022 Python recognizes 'galaxy.tools.bundled.filters.gff' as an importable package[^1], 2025-11-18T19:27:10,023 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,024 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,024 package, please make sure that 'galaxy.tools.bundled.filters.gff' is explicitly added 2025-11-18T19:27:10,025 to the `packages` configuration field. 2025-11-18T19:27:10,026 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,027 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,027 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,029 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,030 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,031 If you don't want 'galaxy.tools.bundled.filters.gff' to be distributed and are 2025-11-18T19:27:10,031 already explicitly excluding 'galaxy.tools.bundled.filters.gff' via 2025-11-18T19:27:10,032 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,032 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,033 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,034 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,035 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,037 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,037 even if it does not contain any `.py` files. 2025-11-18T19:27:10,038 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,039 directory, all directories are treated like packages. 2025-11-18T19:27:10,039 ******************************************************************************** 2025-11-18T19:27:10,041 !! 2025-11-18T19:27:10,041 check.warn(importable) 2025-11-18T19:27:10,042 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.interactive' is absent from the `packages` configuration. 2025-11-18T19:27:10,043 !! 2025-11-18T19:27:10,044 ******************************************************************************** 2025-11-18T19:27:10,045 ############################ 2025-11-18T19:27:10,045 # Package would be ignored # 2025-11-18T19:27:10,046 ############################ 2025-11-18T19:27:10,046 Python recognizes 'galaxy.tools.bundled.interactive' as an importable package[^1], 2025-11-18T19:27:10,047 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,048 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,049 package, please make sure that 'galaxy.tools.bundled.interactive' is explicitly added 2025-11-18T19:27:10,050 to the `packages` configuration field. 2025-11-18T19:27:10,051 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,052 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,053 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,054 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,055 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,057 If you don't want 'galaxy.tools.bundled.interactive' to be distributed and are 2025-11-18T19:27:10,057 already explicitly excluding 'galaxy.tools.bundled.interactive' via 2025-11-18T19:27:10,058 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,058 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,059 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,060 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,061 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,063 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,064 even if it does not contain any `.py` files. 2025-11-18T19:27:10,064 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,065 directory, all directories are treated like packages. 2025-11-18T19:27:10,065 ******************************************************************************** 2025-11-18T19:27:10,067 !! 2025-11-18T19:27:10,067 check.warn(importable) 2025-11-18T19:27:10,068 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.maf' is absent from the `packages` configuration. 2025-11-18T19:27:10,068 !! 2025-11-18T19:27:10,069 ******************************************************************************** 2025-11-18T19:27:10,070 ############################ 2025-11-18T19:27:10,070 # Package would be ignored # 2025-11-18T19:27:10,071 ############################ 2025-11-18T19:27:10,072 Python recognizes 'galaxy.tools.bundled.maf' as an importable package[^1], 2025-11-18T19:27:10,072 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,073 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,074 package, please make sure that 'galaxy.tools.bundled.maf' is explicitly added 2025-11-18T19:27:10,075 to the `packages` configuration field. 2025-11-18T19:27:10,076 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,077 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,077 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,078 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,079 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,080 If you don't want 'galaxy.tools.bundled.maf' to be distributed and are 2025-11-18T19:27:10,081 already explicitly excluding 'galaxy.tools.bundled.maf' via 2025-11-18T19:27:10,081 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,082 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,082 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,083 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,084 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,086 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,086 even if it does not contain any `.py` files. 2025-11-18T19:27:10,087 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,087 directory, all directories are treated like packages. 2025-11-18T19:27:10,088 ******************************************************************************** 2025-11-18T19:27:10,089 !! 2025-11-18T19:27:10,090 check.warn(importable) 2025-11-18T19:27:10,090 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.meme' is absent from the `packages` configuration. 2025-11-18T19:27:10,091 !! 2025-11-18T19:27:10,092 ******************************************************************************** 2025-11-18T19:27:10,092 ############################ 2025-11-18T19:27:10,093 # Package would be ignored # 2025-11-18T19:27:10,093 ############################ 2025-11-18T19:27:10,094 Python recognizes 'galaxy.tools.bundled.meme' as an importable package[^1], 2025-11-18T19:27:10,095 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,096 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,096 package, please make sure that 'galaxy.tools.bundled.meme' is explicitly added 2025-11-18T19:27:10,097 to the `packages` configuration field. 2025-11-18T19:27:10,098 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,099 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,100 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,101 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,102 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,103 If you don't want 'galaxy.tools.bundled.meme' to be distributed and are 2025-11-18T19:27:10,104 already explicitly excluding 'galaxy.tools.bundled.meme' via 2025-11-18T19:27:10,104 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,105 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,105 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,107 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,108 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,110 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,110 even if it does not contain any `.py` files. 2025-11-18T19:27:10,111 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,111 directory, all directories are treated like packages. 2025-11-18T19:27:10,112 ******************************************************************************** 2025-11-18T19:27:10,113 !! 2025-11-18T19:27:10,114 check.warn(importable) 2025-11-18T19:27:10,114 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.metag_tools' is absent from the `packages` configuration. 2025-11-18T19:27:10,115 !! 2025-11-18T19:27:10,116 ******************************************************************************** 2025-11-18T19:27:10,116 ############################ 2025-11-18T19:27:10,117 # Package would be ignored # 2025-11-18T19:27:10,117 ############################ 2025-11-18T19:27:10,118 Python recognizes 'galaxy.tools.bundled.metag_tools' as an importable package[^1], 2025-11-18T19:27:10,118 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,119 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,120 package, please make sure that 'galaxy.tools.bundled.metag_tools' is explicitly added 2025-11-18T19:27:10,120 to the `packages` configuration field. 2025-11-18T19:27:10,121 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,122 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,122 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,124 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,125 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,126 If you don't want 'galaxy.tools.bundled.metag_tools' to be distributed and are 2025-11-18T19:27:10,126 already explicitly excluding 'galaxy.tools.bundled.metag_tools' via 2025-11-18T19:27:10,127 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,127 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,128 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,129 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,130 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,132 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,133 even if it does not contain any `.py` files. 2025-11-18T19:27:10,133 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,134 directory, all directories are treated like packages. 2025-11-18T19:27:10,135 ******************************************************************************** 2025-11-18T19:27:10,135 !! 2025-11-18T19:27:10,136 check.warn(importable) 2025-11-18T19:27:10,137 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.next_gen_conversion' is absent from the `packages` configuration. 2025-11-18T19:27:10,137 !! 2025-11-18T19:27:10,138 ******************************************************************************** 2025-11-18T19:27:10,139 ############################ 2025-11-18T19:27:10,140 # Package would be ignored # 2025-11-18T19:27:10,140 ############################ 2025-11-18T19:27:10,141 Python recognizes 'galaxy.tools.bundled.next_gen_conversion' as an importable package[^1], 2025-11-18T19:27:10,141 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,142 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,142 package, please make sure that 'galaxy.tools.bundled.next_gen_conversion' is explicitly added 2025-11-18T19:27:10,143 to the `packages` configuration field. 2025-11-18T19:27:10,144 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,144 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,145 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,146 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,147 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,148 If you don't want 'galaxy.tools.bundled.next_gen_conversion' to be distributed and are 2025-11-18T19:27:10,149 already explicitly excluding 'galaxy.tools.bundled.next_gen_conversion' via 2025-11-18T19:27:10,149 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,149 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,150 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,151 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,152 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,154 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,154 even if it does not contain any `.py` files. 2025-11-18T19:27:10,155 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,155 directory, all directories are treated like packages. 2025-11-18T19:27:10,156 ******************************************************************************** 2025-11-18T19:27:10,157 !! 2025-11-18T19:27:10,158 check.warn(importable) 2025-11-18T19:27:10,158 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.ngs_simulation' is absent from the `packages` configuration. 2025-11-18T19:27:10,159 !! 2025-11-18T19:27:10,160 ******************************************************************************** 2025-11-18T19:27:10,161 ############################ 2025-11-18T19:27:10,161 # Package would be ignored # 2025-11-18T19:27:10,162 ############################ 2025-11-18T19:27:10,162 Python recognizes 'galaxy.tools.bundled.ngs_simulation' as an importable package[^1], 2025-11-18T19:27:10,163 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,164 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,164 package, please make sure that 'galaxy.tools.bundled.ngs_simulation' is explicitly added 2025-11-18T19:27:10,165 to the `packages` configuration field. 2025-11-18T19:27:10,166 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,167 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,167 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,169 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,170 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,171 If you don't want 'galaxy.tools.bundled.ngs_simulation' to be distributed and are 2025-11-18T19:27:10,172 already explicitly excluding 'galaxy.tools.bundled.ngs_simulation' via 2025-11-18T19:27:10,173 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,173 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,174 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,175 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,176 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,178 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,178 even if it does not contain any `.py` files. 2025-11-18T19:27:10,179 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,179 directory, all directories are treated like packages. 2025-11-18T19:27:10,180 ******************************************************************************** 2025-11-18T19:27:10,181 !! 2025-11-18T19:27:10,182 check.warn(importable) 2025-11-18T19:27:10,182 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.phenotype_association' is absent from the `packages` configuration. 2025-11-18T19:27:10,183 !! 2025-11-18T19:27:10,184 ******************************************************************************** 2025-11-18T19:27:10,184 ############################ 2025-11-18T19:27:10,185 # Package would be ignored # 2025-11-18T19:27:10,185 ############################ 2025-11-18T19:27:10,186 Python recognizes 'galaxy.tools.bundled.phenotype_association' as an importable package[^1], 2025-11-18T19:27:10,186 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,188 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,188 package, please make sure that 'galaxy.tools.bundled.phenotype_association' is explicitly added 2025-11-18T19:27:10,189 to the `packages` configuration field. 2025-11-18T19:27:10,190 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,190 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,191 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,192 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,193 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,194 If you don't want 'galaxy.tools.bundled.phenotype_association' to be distributed and are 2025-11-18T19:27:10,195 already explicitly excluding 'galaxy.tools.bundled.phenotype_association' via 2025-11-18T19:27:10,196 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,196 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,197 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,198 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,199 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,202 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,202 even if it does not contain any `.py` files. 2025-11-18T19:27:10,203 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,204 directory, all directories are treated like packages. 2025-11-18T19:27:10,204 ******************************************************************************** 2025-11-18T19:27:10,206 !! 2025-11-18T19:27:10,206 check.warn(importable) 2025-11-18T19:27:10,207 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.plotting' is absent from the `packages` configuration. 2025-11-18T19:27:10,207 !! 2025-11-18T19:27:10,208 ******************************************************************************** 2025-11-18T19:27:10,209 ############################ 2025-11-18T19:27:10,209 # Package would be ignored # 2025-11-18T19:27:10,210 ############################ 2025-11-18T19:27:10,210 Python recognizes 'galaxy.tools.bundled.plotting' as an importable package[^1], 2025-11-18T19:27:10,211 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,212 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,213 package, please make sure that 'galaxy.tools.bundled.plotting' is explicitly added 2025-11-18T19:27:10,213 to the `packages` configuration field. 2025-11-18T19:27:10,214 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,215 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,216 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,217 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,218 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,219 If you don't want 'galaxy.tools.bundled.plotting' to be distributed and are 2025-11-18T19:27:10,220 already explicitly excluding 'galaxy.tools.bundled.plotting' via 2025-11-18T19:27:10,220 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,221 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,221 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,223 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,224 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,225 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,226 even if it does not contain any `.py` files. 2025-11-18T19:27:10,226 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,227 directory, all directories are treated like packages. 2025-11-18T19:27:10,228 ******************************************************************************** 2025-11-18T19:27:10,229 !! 2025-11-18T19:27:10,229 check.warn(importable) 2025-11-18T19:27:10,230 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.solid_tools' is absent from the `packages` configuration. 2025-11-18T19:27:10,230 !! 2025-11-18T19:27:10,232 ******************************************************************************** 2025-11-18T19:27:10,232 ############################ 2025-11-18T19:27:10,233 # Package would be ignored # 2025-11-18T19:27:10,234 ############################ 2025-11-18T19:27:10,234 Python recognizes 'galaxy.tools.bundled.solid_tools' as an importable package[^1], 2025-11-18T19:27:10,235 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,236 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,237 package, please make sure that 'galaxy.tools.bundled.solid_tools' is explicitly added 2025-11-18T19:27:10,237 to the `packages` configuration field. 2025-11-18T19:27:10,239 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,239 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,240 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,241 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,242 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,243 If you don't want 'galaxy.tools.bundled.solid_tools' to be distributed and are 2025-11-18T19:27:10,243 already explicitly excluding 'galaxy.tools.bundled.solid_tools' via 2025-11-18T19:27:10,244 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,244 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,245 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,246 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,247 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,249 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,249 even if it does not contain any `.py` files. 2025-11-18T19:27:10,250 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,250 directory, all directories are treated like packages. 2025-11-18T19:27:10,251 ******************************************************************************** 2025-11-18T19:27:10,252 !! 2025-11-18T19:27:10,253 check.warn(importable) 2025-11-18T19:27:10,254 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.sr_assembly' is absent from the `packages` configuration. 2025-11-18T19:27:10,254 !! 2025-11-18T19:27:10,255 ******************************************************************************** 2025-11-18T19:27:10,256 ############################ 2025-11-18T19:27:10,256 # Package would be ignored # 2025-11-18T19:27:10,257 ############################ 2025-11-18T19:27:10,258 Python recognizes 'galaxy.tools.bundled.sr_assembly' as an importable package[^1], 2025-11-18T19:27:10,258 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,260 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,260 package, please make sure that 'galaxy.tools.bundled.sr_assembly' is explicitly added 2025-11-18T19:27:10,261 to the `packages` configuration field. 2025-11-18T19:27:10,262 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,263 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,263 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,265 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,266 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,267 If you don't want 'galaxy.tools.bundled.sr_assembly' to be distributed and are 2025-11-18T19:27:10,268 already explicitly excluding 'galaxy.tools.bundled.sr_assembly' via 2025-11-18T19:27:10,268 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,269 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,269 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,270 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,272 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,274 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,274 even if it does not contain any `.py` files. 2025-11-18T19:27:10,275 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,275 directory, all directories are treated like packages. 2025-11-18T19:27:10,276 ******************************************************************************** 2025-11-18T19:27:10,277 !! 2025-11-18T19:27:10,277 check.warn(importable) 2025-11-18T19:27:10,278 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.sr_mapping' is absent from the `packages` configuration. 2025-11-18T19:27:10,278 !! 2025-11-18T19:27:10,279 ******************************************************************************** 2025-11-18T19:27:10,280 ############################ 2025-11-18T19:27:10,280 # Package would be ignored # 2025-11-18T19:27:10,281 ############################ 2025-11-18T19:27:10,281 Python recognizes 'galaxy.tools.bundled.sr_mapping' as an importable package[^1], 2025-11-18T19:27:10,282 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,283 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,283 package, please make sure that 'galaxy.tools.bundled.sr_mapping' is explicitly added 2025-11-18T19:27:10,284 to the `packages` configuration field. 2025-11-18T19:27:10,285 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,286 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,286 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,287 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,289 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,290 If you don't want 'galaxy.tools.bundled.sr_mapping' to be distributed and are 2025-11-18T19:27:10,290 already explicitly excluding 'galaxy.tools.bundled.sr_mapping' via 2025-11-18T19:27:10,291 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,291 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,292 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,293 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,294 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,295 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,296 even if it does not contain any `.py` files. 2025-11-18T19:27:10,296 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,297 directory, all directories are treated like packages. 2025-11-18T19:27:10,298 ******************************************************************************** 2025-11-18T19:27:10,299 !! 2025-11-18T19:27:10,299 check.warn(importable) 2025-11-18T19:27:10,300 /tmp/pip-build-env-62_gy2do/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'galaxy.tools.bundled.stats' is absent from the `packages` configuration. 2025-11-18T19:27:10,301 !! 2025-11-18T19:27:10,302 ******************************************************************************** 2025-11-18T19:27:10,302 ############################ 2025-11-18T19:27:10,303 # Package would be ignored # 2025-11-18T19:27:10,304 ############################ 2025-11-18T19:27:10,304 Python recognizes 'galaxy.tools.bundled.stats' as an importable package[^1], 2025-11-18T19:27:10,304 but it is absent from setuptools' `packages` configuration. 2025-11-18T19:27:10,305 This leads to an ambiguous overall configuration. If you want to distribute this 2025-11-18T19:27:10,306 package, please make sure that 'galaxy.tools.bundled.stats' is explicitly added 2025-11-18T19:27:10,306 to the `packages` configuration field. 2025-11-18T19:27:10,307 Alternatively, you can also rely on setuptools' discovery methods 2025-11-18T19:27:10,308 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-11-18T19:27:10,308 instead of `find_packages(...)`/`find:`). 2025-11-18T19:27:10,310 You can read more about "package discovery" on setuptools documentation page: 2025-11-18T19:27:10,311 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-11-18T19:27:10,312 If you don't want 'galaxy.tools.bundled.stats' to be distributed and are 2025-11-18T19:27:10,313 already explicitly excluding 'galaxy.tools.bundled.stats' via 2025-11-18T19:27:10,313 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-11-18T19:27:10,314 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-11-18T19:27:10,314 combination with a more fine grained `package-data` configuration. 2025-11-18T19:27:10,315 You can read more about "package data files" on setuptools documentation page: 2025-11-18T19:27:10,316 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-11-18T19:27:10,318 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-11-18T19:27:10,319 even if it does not contain any `.py` files. 2025-11-18T19:27:10,319 On the other hand, currently there is no concept of package data 2025-11-18T19:27:10,320 directory, all directories are treated like packages. 2025-11-18T19:27:10,320 ******************************************************************************** 2025-11-18T19:27:10,321 !! 2025-11-18T19:27:10,322 check.warn(importable) 2025-11-18T19:27:10,322 copying galaxy/py.typed -> build/lib/galaxy 2025-11-18T19:27:10,323 copying galaxy_ext/py.typed -> build/lib/galaxy_ext 2025-11-18T19:27:10,324 copying tool_shed_client/py.typed -> build/lib/tool_shed_client 2025-11-18T19:27:10,324 copying galaxy/managers/licenses.json -> build/lib/galaxy/managers 2025-11-18T19:27:10,325 copying galaxy/managers/markdown_export_base.css -> build/lib/galaxy/managers 2025-11-18T19:27:10,325 copying galaxy/tools/apply_rules.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,326 copying galaxy/tools/build_list.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,327 copying galaxy/tools/build_list_1.2.0.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,327 copying galaxy/tools/cross_product_flat.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,328 copying galaxy/tools/cross_product_nested.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,328 copying galaxy/tools/data_fetch.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,329 copying galaxy/tools/duplicate_file_to_collection.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,330 copying galaxy/tools/extract_dataset.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,331 copying galaxy/tools/filter_empty_collection.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,331 copying galaxy/tools/filter_empty_collection_1.1.0.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,332 copying galaxy/tools/filter_failed_collection.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,332 copying galaxy/tools/filter_from_file.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,333 copying galaxy/tools/filter_from_file_1.1.0.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,334 copying galaxy/tools/filter_null.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,334 copying galaxy/tools/filter_null_1.1.0.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,335 copying galaxy/tools/flatten_collection.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,336 copying galaxy/tools/harmonize_two_collections_list.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,336 copying galaxy/tools/keep_success_collection.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,337 copying galaxy/tools/keep_success_collection_1.1.0.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,337 copying galaxy/tools/merge_collection.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,338 copying galaxy/tools/model_operation_macros.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,338 copying galaxy/tools/relabel_from_file.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,339 copying galaxy/tools/sort_collection_list.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,339 copying galaxy/tools/split_paired_and_unpaired.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,340 copying galaxy/tools/tag_collection_from_file.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,340 copying galaxy/tools/unzip_collection.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,341 copying galaxy/tools/zip_collection.xml -> build/lib/galaxy/tools 2025-11-18T19:27:10,342 creating build/lib/galaxy/tools/bundled 2025-11-18T19:27:10,342 copying galaxy/tools/bundled/__init__.py -> build/lib/galaxy/tools/bundled 2025-11-18T19:27:10,343 creating build/lib/galaxy/tools/bundled/data_export 2025-11-18T19:27:10,343 copying galaxy/tools/bundled/data_export/export_remote.py -> build/lib/galaxy/tools/bundled/data_export 2025-11-18T19:27:10,344 copying galaxy/tools/bundled/data_export/export_remote.xml -> build/lib/galaxy/tools/bundled/data_export 2025-11-18T19:27:10,345 creating build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,345 copying galaxy/tools/bundled/data_source/__init__.py -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,346 copying galaxy/tools/bundled/data_source/access_libraries.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,346 copying galaxy/tools/bundled/data_source/biomart.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,347 copying galaxy/tools/bundled/data_source/biomart_test.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,348 copying galaxy/tools/bundled/data_source/cbi_rice_mart.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,348 copying galaxy/tools/bundled/data_source/data_source.py -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,349 copying galaxy/tools/bundled/data_source/diced.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,349 copying galaxy/tools/bundled/data_source/ebi_sra.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,350 copying galaxy/tools/bundled/data_source/eupathdb.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,350 copying galaxy/tools/bundled/data_source/fly_modencode.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,351 copying galaxy/tools/bundled/data_source/flymine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,352 copying galaxy/tools/bundled/data_source/flymine_test.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,352 copying galaxy/tools/bundled/data_source/genbank.py -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,353 copying galaxy/tools/bundled/data_source/genbank.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,354 copying galaxy/tools/bundled/data_source/gramene_mart.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,354 copying galaxy/tools/bundled/data_source/hapmapmart.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,355 copying galaxy/tools/bundled/data_source/hbvar.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,356 copying galaxy/tools/bundled/data_source/import.py -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,356 copying galaxy/tools/bundled/data_source/import.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,357 copying galaxy/tools/bundled/data_source/intermine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,357 copying galaxy/tools/bundled/data_source/metabolicmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,358 copying galaxy/tools/bundled/data_source/microbial_import.py -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,358 copying galaxy/tools/bundled/data_source/microbial_import.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,359 copying galaxy/tools/bundled/data_source/microbial_import_code.py -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,359 copying galaxy/tools/bundled/data_source/modmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,360 copying galaxy/tools/bundled/data_source/mousemine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,360 copying galaxy/tools/bundled/data_source/ncbi_datasets.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,361 copying galaxy/tools/bundled/data_source/ratmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,362 copying galaxy/tools/bundled/data_source/sra.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,362 copying galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,363 copying galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,363 copying galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,364 copying galaxy/tools/bundled/data_source/upload.py -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,364 copying galaxy/tools/bundled/data_source/upload.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,365 copying galaxy/tools/bundled/data_source/worm_modencode.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,365 copying galaxy/tools/bundled/data_source/wormbase.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,366 copying galaxy/tools/bundled/data_source/wormbase_test.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,366 copying galaxy/tools/bundled/data_source/yeastmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,367 copying galaxy/tools/bundled/data_source/zebrafishmine.xml -> build/lib/galaxy/tools/bundled/data_source 2025-11-18T19:27:10,367 creating build/lib/galaxy/tools/bundled/expression_tools 2025-11-18T19:27:10,368 copying galaxy/tools/bundled/expression_tools/expression_macros.xml -> build/lib/galaxy/tools/bundled/expression_tools 2025-11-18T19:27:10,369 copying galaxy/tools/bundled/expression_tools/parse_values_from_file.xml -> build/lib/galaxy/tools/bundled/expression_tools 2025-11-18T19:27:10,369 copying galaxy/tools/bundled/expression_tools/pick_value.xml -> build/lib/galaxy/tools/bundled/expression_tools 2025-11-18T19:27:10,370 creating build/lib/galaxy/tools/bundled/extract 2025-11-18T19:27:10,371 copying galaxy/tools/bundled/extract/__init__.py -> build/lib/galaxy/tools/bundled/extract 2025-11-18T19:27:10,371 copying galaxy/tools/bundled/extract/extract_genomic_dna.py -> build/lib/galaxy/tools/bundled/extract 2025-11-18T19:27:10,372 copying galaxy/tools/bundled/extract/extract_genomic_dna.xml -> build/lib/galaxy/tools/bundled/extract 2025-11-18T19:27:10,372 copying galaxy/tools/bundled/extract/liftOver_wrapper.py -> build/lib/galaxy/tools/bundled/extract 2025-11-18T19:27:10,373 copying galaxy/tools/bundled/extract/liftOver_wrapper.xml -> build/lib/galaxy/tools/bundled/extract 2025-11-18T19:27:10,374 creating build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,375 copying galaxy/tools/bundled/filters/CreateInterval.pl -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,376 copying galaxy/tools/bundled/filters/CreateInterval.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,376 copying galaxy/tools/bundled/filters/__init__.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,377 copying galaxy/tools/bundled/filters/axt_to_concat_fasta.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,377 copying galaxy/tools/bundled/filters/axt_to_concat_fasta.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,378 copying galaxy/tools/bundled/filters/axt_to_fasta.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,379 copying galaxy/tools/bundled/filters/axt_to_fasta.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,379 copying galaxy/tools/bundled/filters/axt_to_lav.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,380 copying galaxy/tools/bundled/filters/axt_to_lav.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,380 copying galaxy/tools/bundled/filters/axt_to_lav_code.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,381 copying galaxy/tools/bundled/filters/bed2gff.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,381 copying galaxy/tools/bundled/filters/bed_to_bigbed.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,382 copying galaxy/tools/bundled/filters/bed_to_gff_converter.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,382 copying galaxy/tools/bundled/filters/catWrapper.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,383 copying galaxy/tools/bundled/filters/catWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,384 copying galaxy/tools/bundled/filters/changeCase.pl -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,384 copying galaxy/tools/bundled/filters/changeCase.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,385 copying galaxy/tools/bundled/filters/commWrapper.pl -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,385 copying galaxy/tools/bundled/filters/commWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,386 copying galaxy/tools/bundled/filters/compare.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,386 copying galaxy/tools/bundled/filters/condense_characters.pl -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,387 copying galaxy/tools/bundled/filters/condense_characters.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,387 copying galaxy/tools/bundled/filters/convert_characters.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,388 copying galaxy/tools/bundled/filters/convert_characters.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,388 copying galaxy/tools/bundled/filters/cutWrapper.pl -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,389 copying galaxy/tools/bundled/filters/cutWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,390 copying galaxy/tools/bundled/filters/fileGrep.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,391 copying galaxy/tools/bundled/filters/fixedValueColumn.pl -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,391 copying galaxy/tools/bundled/filters/fixedValueColumn.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,392 copying galaxy/tools/bundled/filters/gff2bed.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,392 copying galaxy/tools/bundled/filters/gff_to_bed_converter.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,393 copying galaxy/tools/bundled/filters/grep.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,394 copying galaxy/tools/bundled/filters/grep.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,395 copying galaxy/tools/bundled/filters/grep_1.0.1.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,395 copying galaxy/tools/bundled/filters/gtf2bedgraph.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,396 copying galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,396 copying galaxy/tools/bundled/filters/headWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,397 copying galaxy/tools/bundled/filters/join.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,397 copying galaxy/tools/bundled/filters/joinWrapper.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,398 copying galaxy/tools/bundled/filters/joiner.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,399 copying galaxy/tools/bundled/filters/joiner2.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,399 copying galaxy/tools/bundled/filters/lav_to_bed.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,400 copying galaxy/tools/bundled/filters/lav_to_bed.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,400 copying galaxy/tools/bundled/filters/lav_to_bed_code.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,401 copying galaxy/tools/bundled/filters/mergeCols.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,401 copying galaxy/tools/bundled/filters/mergeCols.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,402 copying galaxy/tools/bundled/filters/pasteWrapper.pl -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,402 copying galaxy/tools/bundled/filters/pasteWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,403 copying galaxy/tools/bundled/filters/random_lines_two_pass.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,403 copying galaxy/tools/bundled/filters/randomlines.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,404 copying galaxy/tools/bundled/filters/randomlines.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,404 copying galaxy/tools/bundled/filters/remove_beginning.pl -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,405 copying galaxy/tools/bundled/filters/remove_beginning.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,405 copying galaxy/tools/bundled/filters/secure_hash_message_digest.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,406 copying galaxy/tools/bundled/filters/secure_hash_message_digest.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,406 copying galaxy/tools/bundled/filters/sff_extract.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,407 copying galaxy/tools/bundled/filters/sff_extractor.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,408 copying galaxy/tools/bundled/filters/sorter.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,408 copying galaxy/tools/bundled/filters/sorter.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,409 copying galaxy/tools/bundled/filters/tailWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,409 copying galaxy/tools/bundled/filters/trimmer.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,410 copying galaxy/tools/bundled/filters/trimmer.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,410 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,411 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,412 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,412 copying galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,413 copying galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,413 copying galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,414 copying galaxy/tools/bundled/filters/uniq.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,416 copying galaxy/tools/bundled/filters/uniq.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,419 copying galaxy/tools/bundled/filters/wc_gnu.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,421 copying galaxy/tools/bundled/filters/wig_to_bigwig.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,423 copying galaxy/tools/bundled/filters/wiggle_to_simple.py -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,425 copying galaxy/tools/bundled/filters/wiggle_to_simple.xml -> build/lib/galaxy/tools/bundled/filters 2025-11-18T19:27:10,427 creating build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,428 copying galaxy/tools/bundled/filters/gff/__init__.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,430 copying galaxy/tools/bundled/filters/gff/extract_GFF_Features.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,433 copying galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml -> build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,435 copying galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,438 copying galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml -> build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,440 copying galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,443 copying galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml -> build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,445 copying galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py -> build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,447 copying galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml -> build/lib/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:10,450 creating build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,451 copying galaxy/tools/bundled/interactive/Rprofile.R -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,453 copying galaxy/tools/bundled/interactive/default_notebook.ipynb -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,456 copying galaxy/tools/bundled/interactive/interactivetool_askomics.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,458 copying galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,460 copying galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,463 copying galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,465 copying galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,468 copying galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,471 copying galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,473 copying galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,475 copying galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,478 copying galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,480 copying galaxy/tools/bundled/interactive/interactivetool_higlass.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,483 copying galaxy/tools/bundled/interactive/interactivetool_ilastik.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,486 copying galaxy/tools/bundled/interactive/interactivetool_isee.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,488 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,491 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,494 copying galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,497 copying galaxy/tools/bundled/interactive/interactivetool_metashark.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,499 copying galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,502 copying galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,505 copying galaxy/tools/bundled/interactive/interactivetool_neo4j.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,508 copying galaxy/tools/bundled/interactive/interactivetool_openrefine.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,510 copying galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,513 copying galaxy/tools/bundled/interactive/interactivetool_panoply.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,515 copying galaxy/tools/bundled/interactive/interactivetool_paraview.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,517 copying galaxy/tools/bundled/interactive/interactivetool_pavian.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,519 copying galaxy/tools/bundled/interactive/interactivetool_phinch.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,522 copying galaxy/tools/bundled/interactive/interactivetool_pyiron.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,524 copying galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,527 copying galaxy/tools/bundled/interactive/interactivetool_radiant.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,529 copying galaxy/tools/bundled/interactive/interactivetool_rstudio.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,532 copying galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,534 copying galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,537 copying galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,539 copying galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,541 copying galaxy/tools/bundled/interactive/interactivetool_wallace.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,543 copying galaxy/tools/bundled/interactive/interactivetool_wilson.xml -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,546 copying galaxy/tools/bundled/interactive/simtext_app.R -> build/lib/galaxy/tools/bundled/interactive 2025-11-18T19:27:10,549 creating build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,550 copying galaxy/tools/bundled/maf/__init__.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,552 copying galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,555 copying galaxy/tools/bundled/maf/interval2maf.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,558 copying galaxy/tools/bundled/maf/interval2maf.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,561 copying galaxy/tools/bundled/maf/interval2maf_pairwise.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,563 copying galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,566 copying galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,568 copying galaxy/tools/bundled/maf/macros.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,570 copying galaxy/tools/bundled/maf/maf_by_block_number.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,572 copying galaxy/tools/bundled/maf/maf_by_block_number.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,574 copying galaxy/tools/bundled/maf/maf_filter.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,577 copying galaxy/tools/bundled/maf/maf_filter.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,579 copying galaxy/tools/bundled/maf/maf_limit_size.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,582 copying galaxy/tools/bundled/maf/maf_limit_size.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,584 copying galaxy/tools/bundled/maf/maf_limit_to_species.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,586 copying galaxy/tools/bundled/maf/maf_limit_to_species.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,589 copying galaxy/tools/bundled/maf/maf_reverse_complement.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,591 copying galaxy/tools/bundled/maf/maf_reverse_complement.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,594 copying galaxy/tools/bundled/maf/maf_split_by_species.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,596 copying galaxy/tools/bundled/maf/maf_split_by_species.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,599 copying galaxy/tools/bundled/maf/maf_stats.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,602 copying galaxy/tools/bundled/maf/maf_stats.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,604 copying galaxy/tools/bundled/maf/maf_thread_for_species.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,607 copying galaxy/tools/bundled/maf/maf_thread_for_species.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,609 copying galaxy/tools/bundled/maf/maf_to_bed.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,612 copying galaxy/tools/bundled/maf/maf_to_bed.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,615 copying galaxy/tools/bundled/maf/maf_to_bed_code.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,617 copying galaxy/tools/bundled/maf/maf_to_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,620 copying galaxy/tools/bundled/maf/maf_to_fasta_concat.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,622 copying galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,625 copying galaxy/tools/bundled/maf/maf_to_interval.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,627 copying galaxy/tools/bundled/maf/maf_to_interval.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,630 copying galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,633 copying galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml -> build/lib/galaxy/tools/bundled/maf 2025-11-18T19:27:10,635 creating build/lib/galaxy/tools/bundled/meme 2025-11-18T19:27:10,636 copying galaxy/tools/bundled/meme/meme.xml -> build/lib/galaxy/tools/bundled/meme 2025-11-18T19:27:10,639 creating build/lib/galaxy/tools/bundled/metag_tools 2025-11-18T19:27:10,640 copying galaxy/tools/bundled/metag_tools/__init__.py -> build/lib/galaxy/tools/bundled/metag_tools 2025-11-18T19:27:10,642 copying galaxy/tools/bundled/metag_tools/blat_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2025-11-18T19:27:10,645 copying galaxy/tools/bundled/metag_tools/blat_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2025-11-18T19:27:10,647 copying galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2025-11-18T19:27:10,649 copying galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2025-11-18T19:27:10,652 copying galaxy/tools/bundled/metag_tools/shrimp_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2025-11-18T19:27:10,655 copying galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2025-11-18T19:27:10,657 creating build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,658 copying galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,661 copying galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,663 copying galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,665 copying galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,667 copying galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,670 copying galaxy/tools/bundled/next_gen_conversion/solid2fastq.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,672 copying galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,675 copying galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,677 copying galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:10,679 creating build/lib/galaxy/tools/bundled/ngs_simulation 2025-11-18T19:27:10,680 copying galaxy/tools/bundled/ngs_simulation/__init__.py -> build/lib/galaxy/tools/bundled/ngs_simulation 2025-11-18T19:27:10,682 copying galaxy/tools/bundled/ngs_simulation/ngs_simulation.py -> build/lib/galaxy/tools/bundled/ngs_simulation 2025-11-18T19:27:10,685 copying galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml -> build/lib/galaxy/tools/bundled/ngs_simulation 2025-11-18T19:27:10,688 creating build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,689 copying galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,692 copying galaxy/tools/bundled/phenotype_association/__init__.py -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,693 copying galaxy/tools/bundled/phenotype_association/beam.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,696 copying galaxy/tools/bundled/phenotype_association/gpass.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,699 copying galaxy/tools/bundled/phenotype_association/gpass.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,701 copying galaxy/tools/bundled/phenotype_association/ldtools.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,704 copying galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,706 copying galaxy/tools/bundled/phenotype_association/linkToDavid.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,709 copying galaxy/tools/bundled/phenotype_association/linkToDavid.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,712 copying galaxy/tools/bundled/phenotype_association/linkToGProfile.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,714 copying galaxy/tools/bundled/phenotype_association/linkToGProfile.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,717 copying galaxy/tools/bundled/phenotype_association/lped_to_geno.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,720 copying galaxy/tools/bundled/phenotype_association/lps.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,723 copying galaxy/tools/bundled/phenotype_association/lps_tool_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,725 copying galaxy/tools/bundled/phenotype_association/master2gd_snp.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,728 copying galaxy/tools/bundled/phenotype_association/master2gd_snp.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,730 copying galaxy/tools/bundled/phenotype_association/master2pg.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,733 copying galaxy/tools/bundled/phenotype_association/master2pg.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,735 copying galaxy/tools/bundled/phenotype_association/mergeSnps.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,737 copying galaxy/tools/bundled/phenotype_association/pagetag.py -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,740 copying galaxy/tools/bundled/phenotype_association/pass.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,742 copying galaxy/tools/bundled/phenotype_association/pass_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,744 copying galaxy/tools/bundled/phenotype_association/senatag.py -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,747 copying galaxy/tools/bundled/phenotype_association/sift.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,750 copying galaxy/tools/bundled/phenotype_association/sift_variants_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:10,752 creating build/lib/galaxy/tools/bundled/plotting 2025-11-18T19:27:10,753 copying galaxy/tools/bundled/plotting/bar_chart.py -> build/lib/galaxy/tools/bundled/plotting 2025-11-18T19:27:10,756 copying galaxy/tools/bundled/plotting/bar_chart.xml -> build/lib/galaxy/tools/bundled/plotting 2025-11-18T19:27:10,758 copying galaxy/tools/bundled/plotting/boxplot.xml -> build/lib/galaxy/tools/bundled/plotting 2025-11-18T19:27:10,761 creating build/lib/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:10,762 copying galaxy/tools/bundled/solid_tools/__init__.py -> build/lib/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:10,764 copying galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py -> build/lib/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:10,767 copying galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml -> build/lib/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:10,770 copying galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py -> build/lib/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:10,772 copying galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh -> build/lib/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:10,774 copying galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml -> build/lib/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:10,776 copying galaxy/tools/bundled/solid_tools/solid_qual_stats.py -> build/lib/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:10,779 copying galaxy/tools/bundled/solid_tools/solid_qual_stats.xml -> build/lib/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:10,782 creating build/lib/galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:10,783 copying galaxy/tools/bundled/sr_assembly/__init__.py -> build/lib/galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:10,785 copying galaxy/tools/bundled/sr_assembly/velvetg.xml -> build/lib/galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:10,788 copying galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py -> build/lib/galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:10,790 copying galaxy/tools/bundled/sr_assembly/velveth.xml -> build/lib/galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:10,793 copying galaxy/tools/bundled/sr_assembly/velveth_wrapper.py -> build/lib/galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:10,795 creating build/lib/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:10,796 copying galaxy/tools/bundled/sr_mapping/PerM.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:10,799 copying galaxy/tools/bundled/sr_mapping/__init__.py -> build/lib/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:10,801 copying galaxy/tools/bundled/sr_mapping/bfast_wrapper.py -> build/lib/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:10,804 copying galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:10,807 copying galaxy/tools/bundled/sr_mapping/fastq_statistics.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:10,810 copying galaxy/tools/bundled/sr_mapping/mosaik.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:10,813 copying galaxy/tools/bundled/sr_mapping/srma_wrapper.py -> build/lib/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:10,815 copying galaxy/tools/bundled/sr_mapping/srma_wrapper.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:10,818 creating build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,819 copying galaxy/tools/bundled/stats/__init__.py -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,821 copying galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,824 copying galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,826 copying galaxy/tools/bundled/stats/filtering.py -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,829 copying galaxy/tools/bundled/stats/filtering.xml -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,832 copying galaxy/tools/bundled/stats/filtering_1_1_0.xml -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,834 copying galaxy/tools/bundled/stats/grouping.py -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,837 copying galaxy/tools/bundled/stats/grouping.xml -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,840 copying galaxy/tools/bundled/stats/gsummary.py -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,842 copying galaxy/tools/bundled/stats/gsummary.xml -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,845 copying galaxy/tools/bundled/stats/r_wrapper.sh -> build/lib/galaxy/tools/bundled/stats 2025-11-18T19:27:10,847 copying galaxy/carbon_emissions/carbon_intensity.csv -> build/lib/galaxy/carbon_emissions 2025-11-18T19:27:10,850 copying galaxy/dependencies/conditional-requirements.txt -> build/lib/galaxy/dependencies 2025-11-18T19:27:10,852 copying galaxy/dependencies/dev-requirements.txt -> build/lib/galaxy/dependencies 2025-11-18T19:27:10,855 copying galaxy/dependencies/lint-requirements.txt -> build/lib/galaxy/dependencies 2025-11-18T19:27:10,857 copying galaxy/dependencies/pinned-lint-requirements.txt -> build/lib/galaxy/dependencies 2025-11-18T19:27:10,859 copying galaxy/dependencies/pinned-requirements.txt -> build/lib/galaxy/dependencies 2025-11-18T19:27:10,862 copying galaxy/dependencies/pinned-typecheck-requirements.txt -> build/lib/galaxy/dependencies 2025-11-18T19:27:10,864 copying galaxy/dependencies/update.sh -> build/lib/galaxy/dependencies 2025-11-18T19:27:10,867 copying galaxy/dependencies/update_lint_requirements.sh -> build/lib/galaxy/dependencies 2025-11-18T19:27:10,869 copying galaxy/workflow/resources/example.py.sample -> build/lib/galaxy/workflow/resources 2025-11-18T19:27:10,871 copying galaxy/tools/imp_exp/exp_history_to_archive.xml -> build/lib/galaxy/tools/imp_exp 2025-11-18T19:27:10,873 copying galaxy/tools/imp_exp/exp_history_to_uri.xml -> build/lib/galaxy/tools/imp_exp 2025-11-18T19:27:10,875 copying galaxy/tools/imp_exp/imp_history_from_archive.xml -> build/lib/galaxy/tools/imp_exp 2025-11-18T19:27:10,878 copying galaxy/tools/expressions/cwlNodeEngine.js -> build/lib/galaxy/tools/expressions 2025-11-18T19:27:10,880 copying galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh -> build/lib/galaxy/jobs/runners/util/job_script 2025-11-18T19:27:10,882 copying galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh -> build/lib/galaxy/jobs/runners/util/job_script 2025-11-18T19:27:10,884 copying galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh -> build/lib/galaxy/jobs/runners/util/job_script 2025-11-18T19:27:10,929 installing to build/bdist.linux-armv7l/wheel 2025-11-18T19:27:10,929 running install 2025-11-18T19:27:10,953 running install_lib 2025-11-18T19:27:10,962 creating build/bdist.linux-armv7l/wheel 2025-11-18T19:27:10,964 creating build/bdist.linux-armv7l/wheel/galaxy 2025-11-18T19:27:10,966 creating build/bdist.linux-armv7l/wheel/galaxy/celery 2025-11-18T19:27:10,967 copying build/lib/galaxy/celery/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2025-11-18T19:27:10,969 copying build/lib/galaxy/celery/base_task.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2025-11-18T19:27:10,972 copying build/lib/galaxy/celery/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2025-11-18T19:27:10,974 copying build/lib/galaxy/celery/_serialization.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2025-11-18T19:27:10,976 creating build/bdist.linux-armv7l/wheel/galaxy/workflow 2025-11-18T19:27:10,978 copying build/lib/galaxy/workflow/render.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:10,981 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/reports 2025-11-18T19:27:10,982 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/reports/generators 2025-11-18T19:27:10,983 copying build/lib/galaxy/workflow/reports/generators/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports/generators 2025-11-18T19:27:10,986 copying build/lib/galaxy/workflow/reports/generators/markdown.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports/generators 2025-11-18T19:27:10,988 copying build/lib/galaxy/workflow/reports/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports 2025-11-18T19:27:10,990 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/refactor 2025-11-18T19:27:10,991 copying build/lib/galaxy/workflow/refactor/schema.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2025-11-18T19:27:10,994 copying build/lib/galaxy/workflow/refactor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2025-11-18T19:27:10,995 copying build/lib/galaxy/workflow/refactor/execute.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2025-11-18T19:27:10,998 copying build/lib/galaxy/workflow/run_request.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:11,001 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/resources 2025-11-18T19:27:11,002 copying build/lib/galaxy/workflow/resources/example.py.sample -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/resources 2025-11-18T19:27:11,004 copying build/lib/galaxy/workflow/resources/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/resources 2025-11-18T19:27:11,008 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/schedulers 2025-11-18T19:27:11,009 copying build/lib/galaxy/workflow/schedulers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/schedulers 2025-11-18T19:27:11,011 copying build/lib/galaxy/workflow/schedulers/core.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/schedulers 2025-11-18T19:27:11,013 copying build/lib/galaxy/workflow/modules.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:11,017 copying build/lib/galaxy/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:11,018 copying build/lib/galaxy/workflow/extract.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:11,021 copying build/lib/galaxy/workflow/workflow_parameter_input_definitions.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:11,022 copying build/lib/galaxy/workflow/run.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:11,025 copying build/lib/galaxy/workflow/trs_proxy.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:11,027 copying build/lib/galaxy/workflow/steps.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:11,030 copying build/lib/galaxy/workflow/scheduling_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2025-11-18T19:27:11,032 copying build/lib/galaxy/di.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:11,035 creating build/bdist.linux-armv7l/wheel/galaxy/visualization 2025-11-18T19:27:11,036 copying build/lib/galaxy/visualization/genomes.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization 2025-11-18T19:27:11,039 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/tracks 2025-11-18T19:27:11,040 copying build/lib/galaxy/visualization/tracks/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/tracks 2025-11-18T19:27:11,042 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/genome 2025-11-18T19:27:11,043 copying build/lib/galaxy/visualization/genome/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/genome 2025-11-18T19:27:11,045 copying build/lib/galaxy/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization 2025-11-18T19:27:11,048 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/data_providers 2025-11-18T19:27:11,049 copying build/lib/galaxy/visualization/data_providers/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-11-18T19:27:11,052 copying build/lib/galaxy/visualization/data_providers/cigar.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-11-18T19:27:11,054 copying build/lib/galaxy/visualization/data_providers/registry.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-11-18T19:27:11,056 copying build/lib/galaxy/visualization/data_providers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-11-18T19:27:11,058 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:11,059 copying build/lib/galaxy/visualization/data_providers/phyloviz/newickparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:11,061 copying build/lib/galaxy/visualization/data_providers/phyloviz/baseparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:11,064 copying build/lib/galaxy/visualization/data_providers/phyloviz/nexusparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:11,066 copying build/lib/galaxy/visualization/data_providers/phyloviz/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:11,068 copying build/lib/galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2025-11-18T19:27:11,070 copying build/lib/galaxy/visualization/data_providers/genome.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2025-11-18T19:27:11,074 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/plugins 2025-11-18T19:27:11,075 copying build/lib/galaxy/visualization/plugins/plugin.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-11-18T19:27:11,078 copying build/lib/galaxy/visualization/plugins/resource_parser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-11-18T19:27:11,080 copying build/lib/galaxy/visualization/plugins/config_parser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-11-18T19:27:11,083 copying build/lib/galaxy/visualization/plugins/datasource_testing.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-11-18T19:27:11,085 copying build/lib/galaxy/visualization/plugins/registry.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-11-18T19:27:11,087 copying build/lib/galaxy/visualization/plugins/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-11-18T19:27:11,089 copying build/lib/galaxy/visualization/plugins/utils.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2025-11-18T19:27:11,092 creating build/bdist.linux-armv7l/wheel/galaxy/managers 2025-11-18T19:27:11,093 copying build/lib/galaxy/managers/rbac_secured.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,095 copying build/lib/galaxy/managers/tool_data.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,097 copying build/lib/galaxy/managers/datatypes.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,100 copying build/lib/galaxy/managers/licenses.json -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,105 copying build/lib/galaxy/managers/job_connections.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,107 copying build/lib/galaxy/managers/executables.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,109 copying build/lib/galaxy/managers/deletable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,111 copying build/lib/galaxy/managers/display_applications.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,113 copying build/lib/galaxy/managers/group_roles.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,115 copying build/lib/galaxy/managers/remote_files.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,117 copying build/lib/galaxy/managers/folders.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,120 copying build/lib/galaxy/managers/citations.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,122 copying build/lib/galaxy/managers/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,125 copying build/lib/galaxy/managers/genomes.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,127 copying build/lib/galaxy/managers/libraries.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,130 copying build/lib/galaxy/managers/taggable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,132 copying build/lib/galaxy/managers/library_datasets.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,135 copying build/lib/galaxy/managers/group_users.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,137 copying build/lib/galaxy/managers/users.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,140 copying build/lib/galaxy/managers/session.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,142 copying build/lib/galaxy/managers/export_tracker.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,144 copying build/lib/galaxy/managers/context.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,146 copying build/lib/galaxy/managers/ratable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,149 copying build/lib/galaxy/managers/forms.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,151 copying build/lib/galaxy/managers/landing.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,153 copying build/lib/galaxy/managers/notification.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,156 copying build/lib/galaxy/managers/groups.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,158 copying build/lib/galaxy/managers/item_tags.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,160 copying build/lib/galaxy/managers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,162 copying build/lib/galaxy/managers/tags.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,165 copying build/lib/galaxy/managers/pages.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,168 copying build/lib/galaxy/managers/lddas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,169 copying build/lib/galaxy/managers/collections_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,172 copying build/lib/galaxy/managers/visualizations.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,174 copying build/lib/galaxy/managers/quotas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,176 copying build/lib/galaxy/managers/file_source_instances.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,179 copying build/lib/galaxy/managers/markdown_export_base.css -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,181 copying build/lib/galaxy/managers/markdown_parse.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,183 copying build/lib/galaxy/managers/base.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,187 copying build/lib/galaxy/managers/collections.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,190 copying build/lib/galaxy/managers/model_stores.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,193 copying build/lib/galaxy/managers/hdcas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,195 copying build/lib/galaxy/managers/history_contents.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,198 copying build/lib/galaxy/managers/api_keys.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,200 copying build/lib/galaxy/managers/metrics.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,203 copying build/lib/galaxy/managers/hdas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,206 copying build/lib/galaxy/managers/jobs.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,210 copying build/lib/galaxy/managers/tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,213 copying build/lib/galaxy/managers/roles.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,215 copying build/lib/galaxy/managers/sharable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,217 copying build/lib/galaxy/managers/workflows.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,222 copying build/lib/galaxy/managers/secured.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,224 copying build/lib/galaxy/managers/annotatable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,226 copying build/lib/galaxy/managers/histories.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,230 copying build/lib/galaxy/managers/dbkeys.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,232 copying build/lib/galaxy/managers/object_store_instances.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,235 copying build/lib/galaxy/managers/_config_templates.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,238 copying build/lib/galaxy/managers/chat.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,240 copying build/lib/galaxy/managers/markdown_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,245 copying build/lib/galaxy/managers/licenses.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,248 copying build/lib/galaxy/managers/configuration.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,251 copying build/lib/galaxy/managers/interactivetool.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,255 copying build/lib/galaxy/managers/datasets.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2025-11-18T19:27:11,260 creating build/bdist.linux-armv7l/wheel/galaxy/app_unittest_utils 2025-11-18T19:27:11,261 copying build/lib/galaxy/app_unittest_utils/galaxy_mock.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2025-11-18T19:27:11,264 copying build/lib/galaxy/app_unittest_utils/toolbox_support.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2025-11-18T19:27:11,267 copying build/lib/galaxy/app_unittest_utils/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2025-11-18T19:27:11,269 copying build/lib/galaxy/app_unittest_utils/tools_support.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2025-11-18T19:27:11,271 copying build/lib/galaxy/structured_app.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:11,274 creating build/bdist.linux-armv7l/wheel/galaxy/authnz 2025-11-18T19:27:11,276 copying build/lib/galaxy/authnz/managers.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-11-18T19:27:11,279 copying build/lib/galaxy/authnz/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-11-18T19:27:11,282 copying build/lib/galaxy/authnz/tapis.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-11-18T19:27:11,284 copying build/lib/galaxy/authnz/psa_authnz.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-11-18T19:27:11,288 copying build/lib/galaxy/authnz/util.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-11-18T19:27:11,290 copying build/lib/galaxy/authnz/custos_authnz.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2025-11-18T19:27:11,293 copying build/lib/galaxy/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:11,294 copying build/lib/galaxy/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:11,297 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed 2025-11-18T19:27:11,298 copying build/lib/galaxy/tool_shed/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2025-11-18T19:27:11,300 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/util 2025-11-18T19:27:11,301 copying build/lib/galaxy/tool_shed/util/hg_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,304 copying build/lib/galaxy/tool_shed/util/shed_util_common.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,306 copying build/lib/galaxy/tool_shed/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,308 copying build/lib/galaxy/tool_shed/util/dependency_display.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,311 copying build/lib/galaxy/tool_shed/util/basic_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,313 copying build/lib/galaxy/tool_shed/util/repository_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,316 copying build/lib/galaxy/tool_shed/util/metadata_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,318 copying build/lib/galaxy/tool_shed/util/tool_dependency_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,321 copying build/lib/galaxy/tool_shed/util/container_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,323 copying build/lib/galaxy/tool_shed/util/tool_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,325 copying build/lib/galaxy/tool_shed/util/utility_container_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2025-11-18T19:27:11,328 copying build/lib/galaxy/tool_shed/repository_type.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2025-11-18T19:27:11,331 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install 2025-11-18T19:27:11,332 copying build/lib/galaxy/tool_shed/galaxy_install/installed_repository_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-11-18T19:27:11,335 copying build/lib/galaxy/tool_shed/galaxy_install/update_repository_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-11-18T19:27:11,338 copying build/lib/galaxy/tool_shed/galaxy_install/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-11-18T19:27:11,340 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/repository_dependencies 2025-11-18T19:27:11,341 copying build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/repository_dependencies 2025-11-18T19:27:11,343 copying build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/repository_dependencies 2025-11-18T19:27:11,346 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/tools 2025-11-18T19:27:11,347 copying build/lib/galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2025-11-18T19:27:11,350 copying build/lib/galaxy/tool_shed/galaxy_install/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2025-11-18T19:27:11,352 copying build/lib/galaxy/tool_shed/galaxy_install/tools/data_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2025-11-18T19:27:11,354 copying build/lib/galaxy/tool_shed/galaxy_install/client.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-11-18T19:27:11,356 copying build/lib/galaxy/tool_shed/galaxy_install/install_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2025-11-18T19:27:11,360 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/metadata 2025-11-18T19:27:11,361 copying build/lib/galaxy/tool_shed/galaxy_install/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/metadata 2025-11-18T19:27:11,363 copying build/lib/galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/metadata 2025-11-18T19:27:11,366 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/tools 2025-11-18T19:27:11,367 copying build/lib/galaxy/tool_shed/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2025-11-18T19:27:11,369 copying build/lib/galaxy/tool_shed/tools/data_table_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2025-11-18T19:27:11,371 copying build/lib/galaxy/tool_shed/tools/tool_validator.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2025-11-18T19:27:11,374 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/unittest_utils 2025-11-18T19:27:11,375 copying build/lib/galaxy/tool_shed/unittest_utils/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/unittest_utils 2025-11-18T19:27:11,378 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/metadata 2025-11-18T19:27:11,379 copying build/lib/galaxy/tool_shed/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/metadata 2025-11-18T19:27:11,381 copying build/lib/galaxy/tool_shed/metadata/metadata_generator.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/metadata 2025-11-18T19:27:11,384 copying build/lib/galaxy/tool_shed/cache.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2025-11-18T19:27:11,387 creating build/bdist.linux-armv7l/wheel/galaxy/short_term_storage 2025-11-18T19:27:11,388 copying build/lib/galaxy/short_term_storage/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/short_term_storage 2025-11-18T19:27:11,391 creating build/bdist.linux-armv7l/wheel/galaxy/webhooks 2025-11-18T19:27:11,392 copying build/lib/galaxy/webhooks/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/webhooks 2025-11-18T19:27:11,394 creating build/bdist.linux-armv7l/wheel/galaxy/forms 2025-11-18T19:27:11,395 copying build/lib/galaxy/forms/forms.py -> build/bdist.linux-armv7l/wheel/./galaxy/forms 2025-11-18T19:27:11,398 copying build/lib/galaxy/forms/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/forms 2025-11-18T19:27:11,401 creating build/bdist.linux-armv7l/wheel/galaxy/tools 2025-11-18T19:27:11,402 copying build/lib/galaxy/tools/split_paired_and_unpaired.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:11,404 copying build/lib/galaxy/tools/filter_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:11,406 copying build/lib/galaxy/tools/build_list_1.2.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:11,409 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled 2025-11-18T19:27:11,411 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/data_export 2025-11-18T19:27:11,412 copying build/lib/galaxy/tools/bundled/data_export/export_remote.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_export 2025-11-18T19:27:11,414 copying build/lib/galaxy/tools/bundled/data_export/export_remote.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_export 2025-11-18T19:27:11,417 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/interactive 2025-11-18T19:27:11,418 copying build/lib/galaxy/tools/bundled/interactive/Rprofile.R -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,421 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pyiron.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,423 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,425 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,427 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_wallace.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,429 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,432 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ilastik.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,435 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,437 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,439 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,442 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,444 copying build/lib/galaxy/tools/bundled/interactive/default_notebook.ipynb -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,446 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,449 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_rstudio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,451 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_panoply.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,453 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,455 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_neo4j.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,456 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,458 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,461 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_radiant.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,463 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,465 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,468 copying build/lib/galaxy/tools/bundled/interactive/simtext_app.R -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,471 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,473 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_higlass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,475 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,478 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_askomics.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,480 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_openrefine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,482 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,484 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_paraview.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,486 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_isee.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,488 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,491 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,493 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_phinch.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,495 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_wilson.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,497 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_metashark.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,499 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,502 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,503 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pavian.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2025-11-18T19:27:11,506 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:11,507 copying build/lib/galaxy/tools/bundled/sr_mapping/fastq_statistics.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:11,510 copying build/lib/galaxy/tools/bundled/sr_mapping/bfast_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:11,512 copying build/lib/galaxy/tools/bundled/sr_mapping/mosaik.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:11,515 copying build/lib/galaxy/tools/bundled/sr_mapping/srma_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:11,517 copying build/lib/galaxy/tools/bundled/sr_mapping/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:11,519 copying build/lib/galaxy/tools/bundled/sr_mapping/PerM.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:11,521 copying build/lib/galaxy/tools/bundled/sr_mapping/srma_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:11,524 copying build/lib/galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2025-11-18T19:27:11,527 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/extract 2025-11-18T19:27:11,528 copying build/lib/galaxy/tools/bundled/extract/extract_genomic_dna.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-11-18T19:27:11,530 copying build/lib/galaxy/tools/bundled/extract/liftOver_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-11-18T19:27:11,532 copying build/lib/galaxy/tools/bundled/extract/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-11-18T19:27:11,534 copying build/lib/galaxy/tools/bundled/extract/extract_genomic_dna.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-11-18T19:27:11,536 copying build/lib/galaxy/tools/bundled/extract/liftOver_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2025-11-18T19:27:11,539 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,540 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,543 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,545 copying build/lib/galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,547 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,549 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,552 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid2fastq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,554 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,556 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,558 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2025-11-18T19:27:11,560 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/expression_tools 2025-11-18T19:27:11,561 copying build/lib/galaxy/tools/bundled/expression_tools/expression_macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2025-11-18T19:27:11,563 copying build/lib/galaxy/tools/bundled/expression_tools/pick_value.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2025-11-18T19:27:11,566 copying build/lib/galaxy/tools/bundled/expression_tools/parse_values_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2025-11-18T19:27:11,568 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/plotting 2025-11-18T19:27:11,569 copying build/lib/galaxy/tools/bundled/plotting/bar_chart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2025-11-18T19:27:11,571 copying build/lib/galaxy/tools/bundled/plotting/boxplot.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2025-11-18T19:27:11,573 copying build/lib/galaxy/tools/bundled/plotting/bar_chart.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2025-11-18T19:27:11,577 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/filters 2025-11-18T19:27:11,578 copying build/lib/galaxy/tools/bundled/filters/joinWrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,580 copying build/lib/galaxy/tools/bundled/filters/wc_gnu.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,582 copying build/lib/galaxy/tools/bundled/filters/sorter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,584 copying build/lib/galaxy/tools/bundled/filters/grep_1.0.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,586 copying build/lib/galaxy/tools/bundled/filters/axt_to_concat_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,588 copying build/lib/galaxy/tools/bundled/filters/remove_beginning.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,590 copying build/lib/galaxy/tools/bundled/filters/randomlines.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,593 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,594 copying build/lib/galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,596 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,598 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,600 copying build/lib/galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,602 copying build/lib/galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,604 copying build/lib/galaxy/tools/bundled/filters/gff/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,605 copying build/lib/galaxy/tools/bundled/filters/gff/extract_GFF_Features.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,608 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,610 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2025-11-18T19:27:11,612 copying build/lib/galaxy/tools/bundled/filters/catWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,614 copying build/lib/galaxy/tools/bundled/filters/join.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,616 copying build/lib/galaxy/tools/bundled/filters/bed_to_gff_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,618 copying build/lib/galaxy/tools/bundled/filters/axt_to_concat_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,619 copying build/lib/galaxy/tools/bundled/filters/fixedValueColumn.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,621 copying build/lib/galaxy/tools/bundled/filters/tailWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,623 copying build/lib/galaxy/tools/bundled/filters/uniq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,625 copying build/lib/galaxy/tools/bundled/filters/joiner.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,627 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,630 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,631 copying build/lib/galaxy/tools/bundled/filters/compare.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,633 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,635 copying build/lib/galaxy/tools/bundled/filters/headWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,637 copying build/lib/galaxy/tools/bundled/filters/gff2bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,640 copying build/lib/galaxy/tools/bundled/filters/grep.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,641 copying build/lib/galaxy/tools/bundled/filters/secure_hash_message_digest.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,643 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,645 copying build/lib/galaxy/tools/bundled/filters/mergeCols.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,647 copying build/lib/galaxy/tools/bundled/filters/joiner2.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,649 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,651 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,653 copying build/lib/galaxy/tools/bundled/filters/catWrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,655 copying build/lib/galaxy/tools/bundled/filters/commWrapper.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,657 copying build/lib/galaxy/tools/bundled/filters/cutWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,659 copying build/lib/galaxy/tools/bundled/filters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,661 copying build/lib/galaxy/tools/bundled/filters/axt_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,662 copying build/lib/galaxy/tools/bundled/filters/pasteWrapper.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,664 copying build/lib/galaxy/tools/bundled/filters/condense_characters.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,666 copying build/lib/galaxy/tools/bundled/filters/gff_to_bed_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,668 copying build/lib/galaxy/tools/bundled/filters/fileGrep.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,670 copying build/lib/galaxy/tools/bundled/filters/bed2gff.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,672 copying build/lib/galaxy/tools/bundled/filters/trimmer.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,674 copying build/lib/galaxy/tools/bundled/filters/commWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,676 copying build/lib/galaxy/tools/bundled/filters/sff_extract.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,679 copying build/lib/galaxy/tools/bundled/filters/remove_beginning.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,680 copying build/lib/galaxy/tools/bundled/filters/trimmer.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,682 copying build/lib/galaxy/tools/bundled/filters/sff_extractor.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,684 copying build/lib/galaxy/tools/bundled/filters/wig_to_bigwig.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,686 copying build/lib/galaxy/tools/bundled/filters/grep.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,688 copying build/lib/galaxy/tools/bundled/filters/randomlines.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,690 copying build/lib/galaxy/tools/bundled/filters/CreateInterval.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,692 copying build/lib/galaxy/tools/bundled/filters/mergeCols.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,694 copying build/lib/galaxy/tools/bundled/filters/uniq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,696 copying build/lib/galaxy/tools/bundled/filters/secure_hash_message_digest.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,698 copying build/lib/galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,700 copying build/lib/galaxy/tools/bundled/filters/CreateInterval.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,702 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,705 copying build/lib/galaxy/tools/bundled/filters/convert_characters.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,707 copying build/lib/galaxy/tools/bundled/filters/cutWrapper.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,709 copying build/lib/galaxy/tools/bundled/filters/sorter.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,711 copying build/lib/galaxy/tools/bundled/filters/gtf2bedgraph.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,713 copying build/lib/galaxy/tools/bundled/filters/axt_to_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,714 copying build/lib/galaxy/tools/bundled/filters/wiggle_to_simple.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,716 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,718 copying build/lib/galaxy/tools/bundled/filters/convert_characters.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,720 copying build/lib/galaxy/tools/bundled/filters/changeCase.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,722 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,723 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,725 copying build/lib/galaxy/tools/bundled/filters/pasteWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,727 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,729 copying build/lib/galaxy/tools/bundled/filters/random_lines_two_pass.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,731 copying build/lib/galaxy/tools/bundled/filters/changeCase.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,733 copying build/lib/galaxy/tools/bundled/filters/wiggle_to_simple.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,735 copying build/lib/galaxy/tools/bundled/filters/bed_to_bigbed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,737 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,739 copying build/lib/galaxy/tools/bundled/filters/condense_characters.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,741 copying build/lib/galaxy/tools/bundled/filters/fixedValueColumn.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2025-11-18T19:27:11,743 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/stats 2025-11-18T19:27:11,744 copying build/lib/galaxy/tools/bundled/stats/filtering.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,747 copying build/lib/galaxy/tools/bundled/stats/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,749 copying build/lib/galaxy/tools/bundled/stats/filtering_1_1_0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,751 copying build/lib/galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,753 copying build/lib/galaxy/tools/bundled/stats/r_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,755 copying build/lib/galaxy/tools/bundled/stats/grouping.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,757 copying build/lib/galaxy/tools/bundled/stats/gsummary.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,759 copying build/lib/galaxy/tools/bundled/stats/gsummary.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,762 copying build/lib/galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,764 copying build/lib/galaxy/tools/bundled/stats/grouping.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,766 copying build/lib/galaxy/tools/bundled/stats/filtering.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2025-11-18T19:27:11,768 copying build/lib/galaxy/tools/bundled/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled 2025-11-18T19:27:11,770 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/meme 2025-11-18T19:27:11,771 copying build/lib/galaxy/tools/bundled/meme/meme.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/meme 2025-11-18T19:27:11,775 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,775 copying build/lib/galaxy/tools/bundled/phenotype_association/pass_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,777 copying build/lib/galaxy/tools/bundled/phenotype_association/ldtools.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,779 copying build/lib/galaxy/tools/bundled/phenotype_association/pagetag.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,782 copying build/lib/galaxy/tools/bundled/phenotype_association/master2pg.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,783 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToDavid.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,786 copying build/lib/galaxy/tools/bundled/phenotype_association/lped_to_geno.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,787 copying build/lib/galaxy/tools/bundled/phenotype_association/pass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,789 copying build/lib/galaxy/tools/bundled/phenotype_association/beam.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,791 copying build/lib/galaxy/tools/bundled/phenotype_association/master2gd_snp.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,793 copying build/lib/galaxy/tools/bundled/phenotype_association/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,795 copying build/lib/galaxy/tools/bundled/phenotype_association/gpass.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,797 copying build/lib/galaxy/tools/bundled/phenotype_association/sift_variants_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,799 copying build/lib/galaxy/tools/bundled/phenotype_association/senatag.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,801 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToDavid.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,803 copying build/lib/galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,805 copying build/lib/galaxy/tools/bundled/phenotype_association/mergeSnps.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,807 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToGProfile.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,809 copying build/lib/galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,811 copying build/lib/galaxy/tools/bundled/phenotype_association/sift.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,813 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToGProfile.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,814 copying build/lib/galaxy/tools/bundled/phenotype_association/gpass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,816 copying build/lib/galaxy/tools/bundled/phenotype_association/lps_tool_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,818 copying build/lib/galaxy/tools/bundled/phenotype_association/lps.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,821 copying build/lib/galaxy/tools/bundled/phenotype_association/master2pg.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,822 copying build/lib/galaxy/tools/bundled/phenotype_association/master2gd_snp.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2025-11-18T19:27:11,826 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/data_source 2025-11-18T19:27:11,827 copying build/lib/galaxy/tools/bundled/data_source/hapmapmart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,829 copying build/lib/galaxy/tools/bundled/data_source/zebrafishmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,831 copying build/lib/galaxy/tools/bundled/data_source/biomart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,832 copying build/lib/galaxy/tools/bundled/data_source/microbial_import.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,834 copying build/lib/galaxy/tools/bundled/data_source/import.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,836 copying build/lib/galaxy/tools/bundled/data_source/diced.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,838 copying build/lib/galaxy/tools/bundled/data_source/flymine_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,840 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,842 copying build/lib/galaxy/tools/bundled/data_source/intermine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,844 copying build/lib/galaxy/tools/bundled/data_source/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,846 copying build/lib/galaxy/tools/bundled/data_source/modmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,848 copying build/lib/galaxy/tools/bundled/data_source/upload.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,850 copying build/lib/galaxy/tools/bundled/data_source/mousemine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,852 copying build/lib/galaxy/tools/bundled/data_source/upload.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,855 copying build/lib/galaxy/tools/bundled/data_source/hbvar.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,857 copying build/lib/galaxy/tools/bundled/data_source/gramene_mart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,859 copying build/lib/galaxy/tools/bundled/data_source/fly_modencode.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,861 copying build/lib/galaxy/tools/bundled/data_source/sra.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,862 copying build/lib/galaxy/tools/bundled/data_source/ncbi_datasets.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,864 copying build/lib/galaxy/tools/bundled/data_source/wormbase_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,866 copying build/lib/galaxy/tools/bundled/data_source/import.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,868 copying build/lib/galaxy/tools/bundled/data_source/microbial_import.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,870 copying build/lib/galaxy/tools/bundled/data_source/yeastmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,872 copying build/lib/galaxy/tools/bundled/data_source/genbank.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,873 copying build/lib/galaxy/tools/bundled/data_source/genbank.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,875 copying build/lib/galaxy/tools/bundled/data_source/data_source.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,877 copying build/lib/galaxy/tools/bundled/data_source/access_libraries.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,879 copying build/lib/galaxy/tools/bundled/data_source/ebi_sra.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,881 copying build/lib/galaxy/tools/bundled/data_source/flymine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,883 copying build/lib/galaxy/tools/bundled/data_source/eupathdb.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,884 copying build/lib/galaxy/tools/bundled/data_source/wormbase.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,886 copying build/lib/galaxy/tools/bundled/data_source/worm_modencode.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,888 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,890 copying build/lib/galaxy/tools/bundled/data_source/ratmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,892 copying build/lib/galaxy/tools/bundled/data_source/microbial_import_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,894 copying build/lib/galaxy/tools/bundled/data_source/cbi_rice_mart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,896 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,898 copying build/lib/galaxy/tools/bundled/data_source/biomart_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,900 copying build/lib/galaxy/tools/bundled/data_source/metabolicmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2025-11-18T19:27:11,903 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/metag_tools 2025-11-18T19:27:11,904 copying build/lib/galaxy/tools/bundled/metag_tools/blat_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-11-18T19:27:11,906 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-11-18T19:27:11,909 copying build/lib/galaxy/tools/bundled/metag_tools/blat_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-11-18T19:27:11,911 copying build/lib/galaxy/tools/bundled/metag_tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-11-18T19:27:11,913 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-11-18T19:27:11,915 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-11-18T19:27:11,918 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2025-11-18T19:27:11,922 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/ngs_simulation 2025-11-18T19:27:11,923 copying build/lib/galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2025-11-18T19:27:11,926 copying build/lib/galaxy/tools/bundled/ngs_simulation/ngs_simulation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2025-11-18T19:27:11,929 copying build/lib/galaxy/tools/bundled/ngs_simulation/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2025-11-18T19:27:11,932 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/maf 2025-11-18T19:27:11,933 copying build/lib/galaxy/tools/bundled/maf/interval2maf.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,937 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta_concat.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,939 copying build/lib/galaxy/tools/bundled/maf/maf_split_by_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,941 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,944 copying build/lib/galaxy/tools/bundled/maf/maf_filter.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,947 copying build/lib/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,949 copying build/lib/galaxy/tools/bundled/maf/maf_limit_to_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,952 copying build/lib/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,954 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,957 copying build/lib/galaxy/tools/bundled/maf/maf_by_block_number.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,959 copying build/lib/galaxy/tools/bundled/maf/maf_reverse_complement.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,961 copying build/lib/galaxy/tools/bundled/maf/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,963 copying build/lib/galaxy/tools/bundled/maf/maf_limit_size.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,966 copying build/lib/galaxy/tools/bundled/maf/interval2maf.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,968 copying build/lib/galaxy/tools/bundled/maf/maf_to_interval.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,971 copying build/lib/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,974 copying build/lib/galaxy/tools/bundled/maf/maf_stats.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,976 copying build/lib/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,978 copying build/lib/galaxy/tools/bundled/maf/maf_limit_to_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,981 copying build/lib/galaxy/tools/bundled/maf/interval2maf_pairwise.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,983 copying build/lib/galaxy/tools/bundled/maf/maf_split_by_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,986 copying build/lib/galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,988 copying build/lib/galaxy/tools/bundled/maf/maf_by_block_number.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,991 copying build/lib/galaxy/tools/bundled/maf/maf_to_interval.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,993 copying build/lib/galaxy/tools/bundled/maf/maf_thread_for_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,995 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:11,998 copying build/lib/galaxy/tools/bundled/maf/maf_stats.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:12,000 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:12,003 copying build/lib/galaxy/tools/bundled/maf/maf_thread_for_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:12,005 copying build/lib/galaxy/tools/bundled/maf/maf_reverse_complement.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:12,007 copying build/lib/galaxy/tools/bundled/maf/maf_filter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:12,010 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:12,012 copying build/lib/galaxy/tools/bundled/maf/macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:12,014 copying build/lib/galaxy/tools/bundled/maf/maf_limit_size.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2025-11-18T19:27:12,016 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/solid_tools 2025-11-18T19:27:12,017 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-11-18T19:27:12,019 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_stats.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-11-18T19:27:12,020 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-11-18T19:27:12,023 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-11-18T19:27:12,024 copying build/lib/galaxy/tools/bundled/solid_tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-11-18T19:27:12,026 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-11-18T19:27:12,028 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_stats.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-11-18T19:27:12,030 copying build/lib/galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2025-11-18T19:27:12,033 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:12,034 copying build/lib/galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:12,036 copying build/lib/galaxy/tools/bundled/sr_assembly/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:12,037 copying build/lib/galaxy/tools/bundled/sr_assembly/velveth_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:12,039 copying build/lib/galaxy/tools/bundled/sr_assembly/velveth.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:12,041 copying build/lib/galaxy/tools/bundled/sr_assembly/velvetg.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2025-11-18T19:27:12,044 creating build/bdist.linux-armv7l/wheel/galaxy/tools/error_reports 2025-11-18T19:27:12,045 copying build/lib/galaxy/tools/error_reports/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports 2025-11-18T19:27:12,048 creating build/bdist.linux-armv7l/wheel/galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,049 copying build/lib/galaxy/tools/error_reports/plugins/sentry.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,051 copying build/lib/galaxy/tools/error_reports/plugins/base_git.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,053 copying build/lib/galaxy/tools/error_reports/plugins/influxdb.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,055 copying build/lib/galaxy/tools/error_reports/plugins/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,057 copying build/lib/galaxy/tools/error_reports/plugins/email.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,059 copying build/lib/galaxy/tools/error_reports/plugins/json.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,061 copying build/lib/galaxy/tools/error_reports/plugins/github.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,063 copying build/lib/galaxy/tools/error_reports/plugins/slack.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,065 copying build/lib/galaxy/tools/error_reports/plugins/gitlab.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2025-11-18T19:27:12,067 copying build/lib/galaxy/tools/cross_product_flat.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,070 copying build/lib/galaxy/tools/data_fetch.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,072 copying build/lib/galaxy/tools/biotools.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,074 copying build/lib/galaxy/tools/duplicate_file_to_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,076 copying build/lib/galaxy/tools/keep_success_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,078 copying build/lib/galaxy/tools/evaluation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,081 copying build/lib/galaxy/tools/exception_handling.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,083 copying build/lib/galaxy/tools/filter_null.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,085 creating build/bdist.linux-armv7l/wheel/galaxy/tools/imp_exp 2025-11-18T19:27:12,086 copying build/lib/galaxy/tools/imp_exp/export_history.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-11-18T19:27:12,088 copying build/lib/galaxy/tools/imp_exp/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-11-18T19:27:12,091 copying build/lib/galaxy/tools/imp_exp/exp_history_to_uri.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-11-18T19:27:12,093 copying build/lib/galaxy/tools/imp_exp/unpack_tar_gz_archive.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-11-18T19:27:12,095 copying build/lib/galaxy/tools/imp_exp/imp_history_from_archive.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-11-18T19:27:12,098 copying build/lib/galaxy/tools/imp_exp/exp_history_to_archive.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2025-11-18T19:27:12,100 copying build/lib/galaxy/tools/cross_product_nested.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,103 creating build/bdist.linux-armv7l/wheel/galaxy/tools/data 2025-11-18T19:27:12,104 copying build/lib/galaxy/tools/data/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data 2025-11-18T19:27:12,107 copying build/lib/galaxy/tools/build_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,110 creating build/bdist.linux-armv7l/wheel/galaxy/tools/filters 2025-11-18T19:27:12,111 copying build/lib/galaxy/tools/filters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/filters 2025-11-18T19:27:12,114 copying build/lib/galaxy/tools/keep_success_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,115 copying build/lib/galaxy/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,122 copying build/lib/galaxy/tools/sort_collection_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,124 creating build/bdist.linux-armv7l/wheel/galaxy/tools/expressions 2025-11-18T19:27:12,125 copying build/lib/galaxy/tools/expressions/script.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-11-18T19:27:12,127 copying build/lib/galaxy/tools/expressions/evaluation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-11-18T19:27:12,129 copying build/lib/galaxy/tools/expressions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-11-18T19:27:12,131 copying build/lib/galaxy/tools/expressions/cwlNodeEngine.js -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-11-18T19:27:12,133 copying build/lib/galaxy/tools/expressions/util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2025-11-18T19:27:12,135 creating build/bdist.linux-armv7l/wheel/galaxy/tools/util 2025-11-18T19:27:12,136 copying build/lib/galaxy/tools/util/maf_utilities.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util 2025-11-18T19:27:12,139 copying build/lib/galaxy/tools/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util 2025-11-18T19:27:12,141 creating build/bdist.linux-armv7l/wheel/galaxy/tools/util/galaxyops 2025-11-18T19:27:12,142 copying build/lib/galaxy/tools/util/galaxyops/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util/galaxyops 2025-11-18T19:27:12,145 copying build/lib/galaxy/tools/harmonize_two_collections_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,147 copying build/lib/galaxy/tools/tag_collection_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,149 copying build/lib/galaxy/tools/relabel_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,152 copying build/lib/galaxy/tools/model_operation_macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,154 copying build/lib/galaxy/tools/apply_rules.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,155 copying build/lib/galaxy/tools/execute.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,158 copying build/lib/galaxy/tools/filter_failed_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,161 creating build/bdist.linux-armv7l/wheel/galaxy/tools/data_manager 2025-11-18T19:27:12,162 copying build/lib/galaxy/tools/data_manager/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data_manager 2025-11-18T19:27:12,164 copying build/lib/galaxy/tools/data_manager/manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data_manager 2025-11-18T19:27:12,166 copying build/lib/galaxy/tools/wrappers.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,169 creating build/bdist.linux-armv7l/wheel/galaxy/tools/search 2025-11-18T19:27:12,170 copying build/lib/galaxy/tools/search/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/search 2025-11-18T19:27:12,173 copying build/lib/galaxy/tools/zip_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,174 copying build/lib/galaxy/tools/filter_from_file_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,176 copying build/lib/galaxy/tools/flatten_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,178 copying build/lib/galaxy/tools/errors.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,180 copying build/lib/galaxy/tools/extract_dataset.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,183 copying build/lib/galaxy/tools/repositories.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,184 copying build/lib/galaxy/tools/execution_helpers.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,186 copying build/lib/galaxy/tools/filter_null_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,188 copying build/lib/galaxy/tools/_types.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,190 copying build/lib/galaxy/tools/remote_tool_eval.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,193 creating build/bdist.linux-armv7l/wheel/galaxy/tools/parameters 2025-11-18T19:27:12,194 copying build/lib/galaxy/tools/parameters/sanitize.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,196 copying build/lib/galaxy/tools/parameters/dataset_matcher.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,199 copying build/lib/galaxy/tools/parameters/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,203 copying build/lib/galaxy/tools/parameters/validation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,206 copying build/lib/galaxy/tools/parameters/populate_model.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,208 copying build/lib/galaxy/tools/parameters/wrapped.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,210 copying build/lib/galaxy/tools/parameters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,213 copying build/lib/galaxy/tools/parameters/meta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,215 copying build/lib/galaxy/tools/parameters/input_translation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,217 copying build/lib/galaxy/tools/parameters/cancelable_request.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,219 copying build/lib/galaxy/tools/parameters/grouping.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,222 copying build/lib/galaxy/tools/parameters/wrapped_json.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,224 copying build/lib/galaxy/tools/parameters/dynamic_options.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,227 copying build/lib/galaxy/tools/parameters/workflow_utils.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,229 copying build/lib/galaxy/tools/parameters/options.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2025-11-18T19:27:12,231 copying build/lib/galaxy/tools/merge_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,233 copying build/lib/galaxy/tools/filter_empty_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,235 copying build/lib/galaxy/tools/unzip_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,237 copying build/lib/galaxy/tools/special_tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,241 creating build/bdist.linux-armv7l/wheel/galaxy/tools/actions 2025-11-18T19:27:12,242 copying build/lib/galaxy/tools/actions/model_operations.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-11-18T19:27:12,245 copying build/lib/galaxy/tools/actions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-11-18T19:27:12,248 copying build/lib/galaxy/tools/actions/upload.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-11-18T19:27:12,251 copying build/lib/galaxy/tools/actions/metadata.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-11-18T19:27:12,254 copying build/lib/galaxy/tools/actions/data_source.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-11-18T19:27:12,256 copying build/lib/galaxy/tools/actions/history_imp_exp.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-11-18T19:27:12,258 copying build/lib/galaxy/tools/actions/data_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-11-18T19:27:12,260 copying build/lib/galaxy/tools/actions/upload_common.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2025-11-18T19:27:12,263 copying build/lib/galaxy/tools/data_fetch.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,265 copying build/lib/galaxy/tools/recommendations.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,267 copying build/lib/galaxy/tools/filter_empty_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,269 copying build/lib/galaxy/tools/stock.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,271 copying build/lib/galaxy/tools/cache.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2025-11-18T19:27:12,274 copying build/lib/galaxy/queue_worker.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:12,277 creating build/bdist.linux-armv7l/wheel/galaxy/carbon_emissions 2025-11-18T19:27:12,278 copying build/lib/galaxy/carbon_emissions/carbon_intensity.csv -> build/bdist.linux-armv7l/wheel/./galaxy/carbon_emissions 2025-11-18T19:27:12,280 copying build/lib/galaxy/carbon_emissions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/carbon_emissions 2025-11-18T19:27:12,282 copying build/lib/galaxy/main_config.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:12,284 copying build/lib/galaxy/app.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:12,287 copying build/lib/galaxy/config_watchers.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:12,289 creating build/bdist.linux-armv7l/wheel/galaxy/dependencies 2025-11-18T19:27:12,290 copying build/lib/galaxy/dependencies/conditional-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,293 copying build/lib/galaxy/dependencies/lint-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,294 copying build/lib/galaxy/dependencies/script.py -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,296 copying build/lib/galaxy/dependencies/pinned-lint-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,298 copying build/lib/galaxy/dependencies/pinned-typecheck-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,300 copying build/lib/galaxy/dependencies/pinned-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,302 copying build/lib/galaxy/dependencies/dev-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,304 copying build/lib/galaxy/dependencies/update_lint_requirements.sh -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,306 copying build/lib/galaxy/dependencies/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,309 copying build/lib/galaxy/dependencies/update.sh -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2025-11-18T19:27:12,311 creating build/bdist.linux-armv7l/wheel/galaxy/jobs 2025-11-18T19:27:12,312 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/splitters 2025-11-18T19:27:12,314 copying build/lib/galaxy/jobs/splitters/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2025-11-18T19:27:12,315 copying build/lib/galaxy/jobs/splitters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2025-11-18T19:27:12,317 copying build/lib/galaxy/jobs/splitters/multi.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2025-11-18T19:27:12,320 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/rules 2025-11-18T19:27:12,321 copying build/lib/galaxy/jobs/rules/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/rules 2025-11-18T19:27:12,322 copying build/lib/galaxy/jobs/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-11-18T19:27:12,328 copying build/lib/galaxy/jobs/mapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-11-18T19:27:12,331 copying build/lib/galaxy/jobs/dynamic_tool_destination.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-11-18T19:27:12,334 copying build/lib/galaxy/jobs/manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-11-18T19:27:12,336 copying build/lib/galaxy/jobs/rule_helper.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-11-18T19:27:12,339 copying build/lib/galaxy/jobs/command_factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-11-18T19:27:12,341 copying build/lib/galaxy/jobs/stock_rules.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-11-18T19:27:12,343 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners 2025-11-18T19:27:12,344 copying build/lib/galaxy/jobs/runners/local.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,347 copying build/lib/galaxy/jobs/runners/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,350 copying build/lib/galaxy/jobs/runners/condor.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,352 copying build/lib/galaxy/jobs/runners/drmaa.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,356 copying build/lib/galaxy/jobs/runners/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,359 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util 2025-11-18T19:27:12,360 copying build/lib/galaxy/jobs/runners/util/env.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-11-18T19:27:12,363 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli 2025-11-18T19:27:12,364 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli/shell 2025-11-18T19:27:12,366 copying build/lib/galaxy/jobs/runners/util/cli/shell/local.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2025-11-18T19:27:12,368 copying build/lib/galaxy/jobs/runners/util/cli/shell/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2025-11-18T19:27:12,370 copying build/lib/galaxy/jobs/runners/util/cli/shell/rsh.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2025-11-18T19:27:12,372 copying build/lib/galaxy/jobs/runners/util/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli 2025-11-18T19:27:12,374 copying build/lib/galaxy/jobs/runners/util/cli/factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli 2025-11-18T19:27:12,377 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:12,378 copying build/lib/galaxy/jobs/runners/util/cli/job/lsf.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:12,380 copying build/lib/galaxy/jobs/runners/util/cli/job/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:12,382 copying build/lib/galaxy/jobs/runners/util/cli/job/torque.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:12,384 copying build/lib/galaxy/jobs/runners/util/cli/job/pbs.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:12,385 copying build/lib/galaxy/jobs/runners/util/cli/job/slurm.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:12,387 copying build/lib/galaxy/jobs/runners/util/cli/job/slurm_torque.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2025-11-18T19:27:12,390 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/job_script 2025-11-18T19:27:12,391 copying build/lib/galaxy/jobs/runners/util/job_script/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2025-11-18T19:27:12,394 copying build/lib/galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2025-11-18T19:27:12,396 copying build/lib/galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2025-11-18T19:27:12,398 copying build/lib/galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2025-11-18T19:27:12,400 copying build/lib/galaxy/jobs/runners/util/fork_safe_write.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-11-18T19:27:12,401 copying build/lib/galaxy/jobs/runners/util/external.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-11-18T19:27:12,403 copying build/lib/galaxy/jobs/runners/util/sudo.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-11-18T19:27:12,405 copying build/lib/galaxy/jobs/runners/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-11-18T19:27:12,407 copying build/lib/galaxy/jobs/runners/util/pykube_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-11-18T19:27:12,410 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/condor 2025-11-18T19:27:12,411 copying build/lib/galaxy/jobs/runners/util/condor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/condor 2025-11-18T19:27:12,413 copying build/lib/galaxy/jobs/runners/util/process_groups.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-11-18T19:27:12,415 copying build/lib/galaxy/jobs/runners/util/kill.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2025-11-18T19:27:12,417 copying build/lib/galaxy/jobs/runners/chronos.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,419 copying build/lib/galaxy/jobs/runners/godocker.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,421 copying build/lib/galaxy/jobs/runners/univa.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,424 copying build/lib/galaxy/jobs/runners/aws.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,427 copying build/lib/galaxy/jobs/runners/kubernetes.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,430 copying build/lib/galaxy/jobs/runners/pulsar.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,433 copying build/lib/galaxy/jobs/runners/pbs.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,435 copying build/lib/galaxy/jobs/runners/slurm.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,438 copying build/lib/galaxy/jobs/runners/cli.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,440 copying build/lib/galaxy/jobs/runners/state_handler_factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2025-11-18T19:27:12,442 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/state_handlers 2025-11-18T19:27:12,443 copying build/lib/galaxy/jobs/runners/state_handlers/resubmit.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2025-11-18T19:27:12,446 copying build/lib/galaxy/jobs/runners/state_handlers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2025-11-18T19:27:12,448 copying build/lib/galaxy/jobs/runners/state_handlers/_safe_eval.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2025-11-18T19:27:12,450 copying build/lib/galaxy/jobs/handler.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2025-11-18T19:27:12,453 creating build/bdist.linux-armv7l/wheel/galaxy/actions 2025-11-18T19:27:12,454 copying build/lib/galaxy/actions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/actions 2025-11-18T19:27:12,456 copying build/lib/galaxy/actions/library.py -> build/bdist.linux-armv7l/wheel/./galaxy/actions 2025-11-18T19:27:12,459 copying build/lib/galaxy/queues.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:12,461 copying build/lib/galaxy/main.py -> build/bdist.linux-armv7l/wheel/./galaxy 2025-11-18T19:27:12,464 creating build/bdist.linux-armv7l/wheel/galaxy/work 2025-11-18T19:27:12,465 copying build/lib/galaxy/work/context.py -> build/bdist.linux-armv7l/wheel/./galaxy/work 2025-11-18T19:27:12,467 copying build/lib/galaxy/work/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/work 2025-11-18T19:27:12,470 creating build/bdist.linux-armv7l/wheel/galaxy_ext 2025-11-18T19:27:12,471 copying build/lib/galaxy_ext/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy_ext 2025-11-18T19:27:12,473 copying build/lib/galaxy_ext/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext 2025-11-18T19:27:12,475 creating build/bdist.linux-armv7l/wheel/galaxy_ext/expressions 2025-11-18T19:27:12,476 copying build/lib/galaxy_ext/expressions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/expressions 2025-11-18T19:27:12,478 copying build/lib/galaxy_ext/expressions/handle_job.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/expressions 2025-11-18T19:27:12,480 creating build/bdist.linux-armv7l/wheel/galaxy_ext/container_monitor 2025-11-18T19:27:12,481 copying build/lib/galaxy_ext/container_monitor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/container_monitor 2025-11-18T19:27:12,483 copying build/lib/galaxy_ext/container_monitor/monitor.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/container_monitor 2025-11-18T19:27:12,485 creating build/bdist.linux-armv7l/wheel/galaxy_ext/metadata 2025-11-18T19:27:12,486 copying build/lib/galaxy_ext/metadata/set_metadata.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/metadata 2025-11-18T19:27:12,488 copying build/lib/galaxy_ext/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/metadata 2025-11-18T19:27:12,491 creating build/bdist.linux-armv7l/wheel/tool_shed_client 2025-11-18T19:27:12,492 copying build/lib/tool_shed_client/py.typed -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2025-11-18T19:27:12,494 copying build/lib/tool_shed_client/__init__.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2025-11-18T19:27:12,495 copying build/lib/tool_shed_client/trs_util.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2025-11-18T19:27:12,497 creating build/bdist.linux-armv7l/wheel/tool_shed_client/schema 2025-11-18T19:27:12,499 copying build/lib/tool_shed_client/schema/__init__.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2025-11-18T19:27:12,501 copying build/lib/tool_shed_client/schema/trs_service_info.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2025-11-18T19:27:12,503 copying build/lib/tool_shed_client/schema/trs.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2025-11-18T19:27:12,505 running install_egg_info 2025-11-18T19:27:12,520 Copying galaxy_app.egg-info to build/bdist.linux-armv7l/wheel/./galaxy_app-25.0.4-py3.11.egg-info 2025-11-18T19:27:12,535 running install_scripts 2025-11-18T19:27:12,551 creating build/bdist.linux-armv7l/wheel/galaxy_app-25.0.4.dist-info/WHEEL 2025-11-18T19:27:12,554 creating '/tmp/pip-wheel-h3nlzw8x/.tmp-h2mpa28_/galaxy_app-25.0.4-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-11-18T19:27:12,556 adding 'galaxy/__init__.py' 2025-11-18T19:27:12,562 adding 'galaxy/app.py' 2025-11-18T19:27:12,564 adding 'galaxy/config_watchers.py' 2025-11-18T19:27:12,565 adding 'galaxy/di.py' 2025-11-18T19:27:12,567 adding 'galaxy/main.py' 2025-11-18T19:27:12,569 adding 'galaxy/main_config.py' 2025-11-18T19:27:12,570 adding 'galaxy/py.typed' 2025-11-18T19:27:12,572 adding 'galaxy/queue_worker.py' 2025-11-18T19:27:12,574 adding 'galaxy/queues.py' 2025-11-18T19:27:12,575 adding 'galaxy/structured_app.py' 2025-11-18T19:27:12,577 adding 'galaxy/actions/__init__.py' 2025-11-18T19:27:12,580 adding 'galaxy/actions/library.py' 2025-11-18T19:27:12,582 adding 'galaxy/app_unittest_utils/__init__.py' 2025-11-18T19:27:12,584 adding 'galaxy/app_unittest_utils/galaxy_mock.py' 2025-11-18T19:27:12,585 adding 'galaxy/app_unittest_utils/toolbox_support.py' 2025-11-18T19:27:12,587 adding 'galaxy/app_unittest_utils/tools_support.py' 2025-11-18T19:27:12,589 adding 'galaxy/authnz/__init__.py' 2025-11-18T19:27:12,592 adding 'galaxy/authnz/custos_authnz.py' 2025-11-18T19:27:12,595 adding 'galaxy/authnz/managers.py' 2025-11-18T19:27:12,598 adding 'galaxy/authnz/psa_authnz.py' 2025-11-18T19:27:12,600 adding 'galaxy/authnz/tapis.py' 2025-11-18T19:27:12,601 adding 'galaxy/authnz/util.py' 2025-11-18T19:27:12,603 adding 'galaxy/carbon_emissions/__init__.py' 2025-11-18T19:27:12,605 adding 'galaxy/carbon_emissions/carbon_intensity.csv' 2025-11-18T19:27:12,607 adding 'galaxy/celery/__init__.py' 2025-11-18T19:27:12,608 adding 'galaxy/celery/_serialization.py' 2025-11-18T19:27:12,610 adding 'galaxy/celery/base_task.py' 2025-11-18T19:27:12,613 adding 'galaxy/celery/tasks.py' 2025-11-18T19:27:12,615 adding 'galaxy/dependencies/__init__.py' 2025-11-18T19:27:12,617 adding 'galaxy/dependencies/conditional-requirements.txt' 2025-11-18T19:27:12,618 adding 'galaxy/dependencies/dev-requirements.txt' 2025-11-18T19:27:12,619 adding 'galaxy/dependencies/lint-requirements.txt' 2025-11-18T19:27:12,621 adding 'galaxy/dependencies/pinned-lint-requirements.txt' 2025-11-18T19:27:12,622 adding 'galaxy/dependencies/pinned-requirements.txt' 2025-11-18T19:27:12,623 adding 'galaxy/dependencies/pinned-typecheck-requirements.txt' 2025-11-18T19:27:12,625 adding 'galaxy/dependencies/script.py' 2025-11-18T19:27:12,626 adding 'galaxy/dependencies/update.sh' 2025-11-18T19:27:12,627 adding 'galaxy/dependencies/update_lint_requirements.sh' 2025-11-18T19:27:12,629 adding 'galaxy/forms/__init__.py' 2025-11-18T19:27:12,631 adding 'galaxy/forms/forms.py' 2025-11-18T19:27:12,648 adding 'galaxy/jobs/__init__.py' 2025-11-18T19:27:12,651 adding 'galaxy/jobs/command_factory.py' 2025-11-18T19:27:12,659 adding 'galaxy/jobs/dynamic_tool_destination.py' 2025-11-18T19:27:12,666 adding 'galaxy/jobs/handler.py' 2025-11-18T19:27:12,668 adding 'galaxy/jobs/manager.py' 2025-11-18T19:27:12,670 adding 'galaxy/jobs/mapper.py' 2025-11-18T19:27:12,672 adding 'galaxy/jobs/rule_helper.py' 2025-11-18T19:27:12,673 adding 'galaxy/jobs/stock_rules.py' 2025-11-18T19:27:12,675 adding 'galaxy/jobs/rules/__init__.py' 2025-11-18T19:27:12,681 adding 'galaxy/jobs/runners/__init__.py' 2025-11-18T19:27:12,684 adding 'galaxy/jobs/runners/aws.py' 2025-11-18T19:27:12,687 adding 'galaxy/jobs/runners/chronos.py' 2025-11-18T19:27:12,689 adding 'galaxy/jobs/runners/cli.py' 2025-11-18T19:27:12,691 adding 'galaxy/jobs/runners/condor.py' 2025-11-18T19:27:12,694 adding 'galaxy/jobs/runners/drmaa.py' 2025-11-18T19:27:12,697 adding 'galaxy/jobs/runners/godocker.py' 2025-11-18T19:27:12,703 adding 'galaxy/jobs/runners/kubernetes.py' 2025-11-18T19:27:12,705 adding 'galaxy/jobs/runners/local.py' 2025-11-18T19:27:12,709 adding 'galaxy/jobs/runners/pbs.py' 2025-11-18T19:27:12,715 adding 'galaxy/jobs/runners/pulsar.py' 2025-11-18T19:27:12,717 adding 'galaxy/jobs/runners/slurm.py' 2025-11-18T19:27:12,719 adding 'galaxy/jobs/runners/state_handler_factory.py' 2025-11-18T19:27:12,721 adding 'galaxy/jobs/runners/tasks.py' 2025-11-18T19:27:12,724 adding 'galaxy/jobs/runners/univa.py' 2025-11-18T19:27:12,726 adding 'galaxy/jobs/runners/state_handlers/__init__.py' 2025-11-18T19:27:12,728 adding 'galaxy/jobs/runners/state_handlers/_safe_eval.py' 2025-11-18T19:27:12,729 adding 'galaxy/jobs/runners/state_handlers/resubmit.py' 2025-11-18T19:27:12,731 adding 'galaxy/jobs/runners/util/__init__.py' 2025-11-18T19:27:12,732 adding 'galaxy/jobs/runners/util/env.py' 2025-11-18T19:27:12,734 adding 'galaxy/jobs/runners/util/external.py' 2025-11-18T19:27:12,735 adding 'galaxy/jobs/runners/util/fork_safe_write.py' 2025-11-18T19:27:12,736 adding 'galaxy/jobs/runners/util/kill.py' 2025-11-18T19:27:12,737 adding 'galaxy/jobs/runners/util/process_groups.py' 2025-11-18T19:27:12,739 adding 'galaxy/jobs/runners/util/pykube_util.py' 2025-11-18T19:27:12,740 adding 'galaxy/jobs/runners/util/sudo.py' 2025-11-18T19:27:12,742 adding 'galaxy/jobs/runners/util/cli/__init__.py' 2025-11-18T19:27:12,743 adding 'galaxy/jobs/runners/util/cli/factory.py' 2025-11-18T19:27:12,745 adding 'galaxy/jobs/runners/util/cli/job/__init__.py' 2025-11-18T19:27:12,747 adding 'galaxy/jobs/runners/util/cli/job/lsf.py' 2025-11-18T19:27:12,748 adding 'galaxy/jobs/runners/util/cli/job/pbs.py' 2025-11-18T19:27:12,749 adding 'galaxy/jobs/runners/util/cli/job/slurm.py' 2025-11-18T19:27:12,750 adding 'galaxy/jobs/runners/util/cli/job/slurm_torque.py' 2025-11-18T19:27:12,752 adding 'galaxy/jobs/runners/util/cli/job/torque.py' 2025-11-18T19:27:12,754 adding 'galaxy/jobs/runners/util/cli/shell/__init__.py' 2025-11-18T19:27:12,755 adding 'galaxy/jobs/runners/util/cli/shell/local.py' 2025-11-18T19:27:12,756 adding 'galaxy/jobs/runners/util/cli/shell/rsh.py' 2025-11-18T19:27:12,759 adding 'galaxy/jobs/runners/util/condor/__init__.py' 2025-11-18T19:27:12,760 adding 'galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh' 2025-11-18T19:27:12,762 adding 'galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh' 2025-11-18T19:27:12,763 adding 'galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh' 2025-11-18T19:27:12,765 adding 'galaxy/jobs/runners/util/job_script/__init__.py' 2025-11-18T19:27:12,766 adding 'galaxy/jobs/splitters/__init__.py' 2025-11-18T19:27:12,767 adding 'galaxy/jobs/splitters/basic.py' 2025-11-18T19:27:12,769 adding 'galaxy/jobs/splitters/multi.py' 2025-11-18T19:27:12,772 adding 'galaxy/managers/__init__.py' 2025-11-18T19:27:12,774 adding 'galaxy/managers/_config_templates.py' 2025-11-18T19:27:12,776 adding 'galaxy/managers/annotatable.py' 2025-11-18T19:27:12,777 adding 'galaxy/managers/api_keys.py' 2025-11-18T19:27:12,785 adding 'galaxy/managers/base.py' 2025-11-18T19:27:12,786 adding 'galaxy/managers/chat.py' 2025-11-18T19:27:12,788 adding 'galaxy/managers/citations.py' 2025-11-18T19:27:12,792 adding 'galaxy/managers/collections.py' 2025-11-18T19:27:12,794 adding 'galaxy/managers/collections_util.py' 2025-11-18T19:27:12,796 adding 'galaxy/managers/configuration.py' 2025-11-18T19:27:12,798 adding 'galaxy/managers/context.py' 2025-11-18T19:27:12,803 adding 'galaxy/managers/datasets.py' 2025-11-18T19:27:12,805 adding 'galaxy/managers/datatypes.py' 2025-11-18T19:27:12,807 adding 'galaxy/managers/dbkeys.py' 2025-11-18T19:27:12,808 adding 'galaxy/managers/deletable.py' 2025-11-18T19:27:12,809 adding 'galaxy/managers/display_applications.py' 2025-11-18T19:27:12,811 adding 'galaxy/managers/executables.py' 2025-11-18T19:27:12,812 adding 'galaxy/managers/export_tracker.py' 2025-11-18T19:27:12,815 adding 'galaxy/managers/file_source_instances.py' 2025-11-18T19:27:12,818 adding 'galaxy/managers/folders.py' 2025-11-18T19:27:12,820 adding 'galaxy/managers/forms.py' 2025-11-18T19:27:12,821 adding 'galaxy/managers/genomes.py' 2025-11-18T19:27:12,822 adding 'galaxy/managers/group_roles.py' 2025-11-18T19:27:12,824 adding 'galaxy/managers/group_users.py' 2025-11-18T19:27:12,825 adding 'galaxy/managers/groups.py' 2025-11-18T19:27:12,828 adding 'galaxy/managers/hdas.py' 2025-11-18T19:27:12,830 adding 'galaxy/managers/hdcas.py' 2025-11-18T19:27:12,835 adding 'galaxy/managers/histories.py' 2025-11-18T19:27:12,839 adding 'galaxy/managers/history_contents.py' 2025-11-18T19:27:12,841 adding 'galaxy/managers/interactivetool.py' 2025-11-18T19:27:12,842 adding 'galaxy/managers/item_tags.py' 2025-11-18T19:27:12,844 adding 'galaxy/managers/job_connections.py' 2025-11-18T19:27:12,853 adding 'galaxy/managers/jobs.py' 2025-11-18T19:27:12,855 adding 'galaxy/managers/landing.py' 2025-11-18T19:27:12,856 adding 'galaxy/managers/lddas.py' 2025-11-18T19:27:12,858 adding 'galaxy/managers/libraries.py' 2025-11-18T19:27:12,860 adding 'galaxy/managers/library_datasets.py' 2025-11-18T19:27:12,871 adding 'galaxy/managers/licenses.json' 2025-11-18T19:27:12,873 adding 'galaxy/managers/licenses.py' 2025-11-18T19:27:12,874 adding 'galaxy/managers/markdown_export_base.css' 2025-11-18T19:27:12,876 adding 'galaxy/managers/markdown_parse.py' 2025-11-18T19:27:12,881 adding 'galaxy/managers/markdown_util.py' 2025-11-18T19:27:12,883 adding 'galaxy/managers/metrics.py' 2025-11-18T19:27:12,885 adding 'galaxy/managers/model_stores.py' 2025-11-18T19:27:12,889 adding 'galaxy/managers/notification.py' 2025-11-18T19:27:12,891 adding 'galaxy/managers/object_store_instances.py' 2025-11-18T19:27:12,894 adding 'galaxy/managers/pages.py' 2025-11-18T19:27:12,896 adding 'galaxy/managers/quotas.py' 2025-11-18T19:27:12,897 adding 'galaxy/managers/ratable.py' 2025-11-18T19:27:12,899 adding 'galaxy/managers/rbac_secured.py' 2025-11-18T19:27:12,901 adding 'galaxy/managers/remote_files.py' 2025-11-18T19:27:12,902 adding 'galaxy/managers/roles.py' 2025-11-18T19:27:12,904 adding 'galaxy/managers/secured.py' 2025-11-18T19:27:12,905 adding 'galaxy/managers/session.py' 2025-11-18T19:27:12,908 adding 'galaxy/managers/sharable.py' 2025-11-18T19:27:12,909 adding 'galaxy/managers/taggable.py' 2025-11-18T19:27:12,911 adding 'galaxy/managers/tags.py' 2025-11-18T19:27:12,912 adding 'galaxy/managers/tasks.py' 2025-11-18T19:27:12,914 adding 'galaxy/managers/tool_data.py' 2025-11-18T19:27:12,915 adding 'galaxy/managers/tools.py' 2025-11-18T19:27:12,920 adding 'galaxy/managers/users.py' 2025-11-18T19:27:12,922 adding 'galaxy/managers/visualizations.py' 2025-11-18T19:27:12,934 adding 'galaxy/managers/workflows.py' 2025-11-18T19:27:12,937 adding 'galaxy/short_term_storage/__init__.py' 2025-11-18T19:27:12,939 adding 'galaxy/tool_shed/__init__.py' 2025-11-18T19:27:12,940 adding 'galaxy/tool_shed/cache.py' 2025-11-18T19:27:12,941 adding 'galaxy/tool_shed/repository_type.py' 2025-11-18T19:27:12,943 adding 'galaxy/tool_shed/galaxy_install/__init__.py' 2025-11-18T19:27:12,944 adding 'galaxy/tool_shed/galaxy_install/client.py' 2025-11-18T19:27:12,949 adding 'galaxy/tool_shed/galaxy_install/install_manager.py' 2025-11-18T19:27:12,954 adding 'galaxy/tool_shed/galaxy_install/installed_repository_manager.py' 2025-11-18T19:27:12,956 adding 'galaxy/tool_shed/galaxy_install/update_repository_manager.py' 2025-11-18T19:27:12,958 adding 'galaxy/tool_shed/galaxy_install/metadata/__init__.py' 2025-11-18T19:27:12,960 adding 'galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py' 2025-11-18T19:27:12,962 adding 'galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py' 2025-11-18T19:27:12,965 adding 'galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py' 2025-11-18T19:27:12,967 adding 'galaxy/tool_shed/galaxy_install/tools/__init__.py' 2025-11-18T19:27:12,969 adding 'galaxy/tool_shed/galaxy_install/tools/data_manager.py' 2025-11-18T19:27:12,972 adding 'galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py' 2025-11-18T19:27:12,974 adding 'galaxy/tool_shed/metadata/__init__.py' 2025-11-18T19:27:12,979 adding 'galaxy/tool_shed/metadata/metadata_generator.py' 2025-11-18T19:27:12,981 adding 'galaxy/tool_shed/tools/__init__.py' 2025-11-18T19:27:12,983 adding 'galaxy/tool_shed/tools/data_table_manager.py' 2025-11-18T19:27:12,984 adding 'galaxy/tool_shed/tools/tool_validator.py' 2025-11-18T19:27:12,986 adding 'galaxy/tool_shed/unittest_utils/__init__.py' 2025-11-18T19:27:12,988 adding 'galaxy/tool_shed/util/__init__.py' 2025-11-18T19:27:12,989 adding 'galaxy/tool_shed/util/basic_util.py' 2025-11-18T19:27:12,991 adding 'galaxy/tool_shed/util/container_util.py' 2025-11-18T19:27:12,993 adding 'galaxy/tool_shed/util/dependency_display.py' 2025-11-18T19:27:12,995 adding 'galaxy/tool_shed/util/hg_util.py' 2025-11-18T19:27:12,996 adding 'galaxy/tool_shed/util/metadata_util.py' 2025-11-18T19:27:13,000 adding 'galaxy/tool_shed/util/repository_util.py' 2025-11-18T19:27:13,002 adding 'galaxy/tool_shed/util/shed_util_common.py' 2025-11-18T19:27:13,004 adding 'galaxy/tool_shed/util/tool_dependency_util.py' 2025-11-18T19:27:13,006 adding 'galaxy/tool_shed/util/tool_util.py' 2025-11-18T19:27:13,009 adding 'galaxy/tool_shed/util/utility_container_manager.py' 2025-11-18T19:27:13,035 adding 'galaxy/tools/__init__.py' 2025-11-18T19:27:13,037 adding 'galaxy/tools/_types.py' 2025-11-18T19:27:13,039 adding 'galaxy/tools/apply_rules.xml' 2025-11-18T19:27:13,040 adding 'galaxy/tools/biotools.py' 2025-11-18T19:27:13,041 adding 'galaxy/tools/build_list.xml' 2025-11-18T19:27:13,042 adding 'galaxy/tools/build_list_1.2.0.xml' 2025-11-18T19:27:13,044 adding 'galaxy/tools/cache.py' 2025-11-18T19:27:13,046 adding 'galaxy/tools/cross_product_flat.xml' 2025-11-18T19:27:13,048 adding 'galaxy/tools/cross_product_nested.xml' 2025-11-18T19:27:13,051 adding 'galaxy/tools/data_fetch.py' 2025-11-18T19:27:13,052 adding 'galaxy/tools/data_fetch.xml' 2025-11-18T19:27:13,054 adding 'galaxy/tools/duplicate_file_to_collection.xml' 2025-11-18T19:27:13,056 adding 'galaxy/tools/errors.py' 2025-11-18T19:27:13,061 adding 'galaxy/tools/evaluation.py' 2025-11-18T19:27:13,063 adding 'galaxy/tools/exception_handling.py' 2025-11-18T19:27:13,066 adding 'galaxy/tools/execute.py' 2025-11-18T19:27:13,068 adding 'galaxy/tools/execution_helpers.py' 2025-11-18T19:27:13,069 adding 'galaxy/tools/extract_dataset.xml' 2025-11-18T19:27:13,071 adding 'galaxy/tools/filter_empty_collection.xml' 2025-11-18T19:27:13,072 adding 'galaxy/tools/filter_empty_collection_1.1.0.xml' 2025-11-18T19:27:13,073 adding 'galaxy/tools/filter_failed_collection.xml' 2025-11-18T19:27:13,075 adding 'galaxy/tools/filter_from_file.xml' 2025-11-18T19:27:13,076 adding 'galaxy/tools/filter_from_file_1.1.0.xml' 2025-11-18T19:27:13,077 adding 'galaxy/tools/filter_null.xml' 2025-11-18T19:27:13,079 adding 'galaxy/tools/filter_null_1.1.0.xml' 2025-11-18T19:27:13,080 adding 'galaxy/tools/flatten_collection.xml' 2025-11-18T19:27:13,081 adding 'galaxy/tools/harmonize_two_collections_list.xml' 2025-11-18T19:27:13,083 adding 'galaxy/tools/keep_success_collection.xml' 2025-11-18T19:27:13,084 adding 'galaxy/tools/keep_success_collection_1.1.0.xml' 2025-11-18T19:27:13,086 adding 'galaxy/tools/merge_collection.xml' 2025-11-18T19:27:13,088 adding 'galaxy/tools/model_operation_macros.xml' 2025-11-18T19:27:13,090 adding 'galaxy/tools/recommendations.py' 2025-11-18T19:27:13,092 adding 'galaxy/tools/relabel_from_file.xml' 2025-11-18T19:27:13,094 adding 'galaxy/tools/remote_tool_eval.py' 2025-11-18T19:27:13,095 adding 'galaxy/tools/repositories.py' 2025-11-18T19:27:13,097 adding 'galaxy/tools/sort_collection_list.xml' 2025-11-18T19:27:13,098 adding 'galaxy/tools/special_tools.py' 2025-11-18T19:27:13,100 adding 'galaxy/tools/split_paired_and_unpaired.xml' 2025-11-18T19:27:13,101 adding 'galaxy/tools/stock.py' 2025-11-18T19:27:13,102 adding 'galaxy/tools/tag_collection_from_file.xml' 2025-11-18T19:27:13,103 adding 'galaxy/tools/unzip_collection.xml' 2025-11-18T19:27:13,107 adding 'galaxy/tools/wrappers.py' 2025-11-18T19:27:13,109 adding 'galaxy/tools/zip_collection.xml' 2025-11-18T19:27:13,117 adding 'galaxy/tools/actions/__init__.py' 2025-11-18T19:27:13,119 adding 'galaxy/tools/actions/data_manager.py' 2025-11-18T19:27:13,120 adding 'galaxy/tools/actions/data_source.py' 2025-11-18T19:27:13,122 adding 'galaxy/tools/actions/history_imp_exp.py' 2025-11-18T19:27:13,124 adding 'galaxy/tools/actions/metadata.py' 2025-11-18T19:27:13,125 adding 'galaxy/tools/actions/model_operations.py' 2025-11-18T19:27:13,127 adding 'galaxy/tools/actions/upload.py' 2025-11-18T19:27:13,129 adding 'galaxy/tools/actions/upload_common.py' 2025-11-18T19:27:13,131 adding 'galaxy/tools/bundled/__init__.py' 2025-11-18T19:27:13,133 adding 'galaxy/tools/bundled/data_export/export_remote.py' 2025-11-18T19:27:13,134 adding 'galaxy/tools/bundled/data_export/export_remote.xml' 2025-11-18T19:27:13,136 adding 'galaxy/tools/bundled/data_source/__init__.py' 2025-11-18T19:27:13,138 adding 'galaxy/tools/bundled/data_source/access_libraries.xml' 2025-11-18T19:27:13,139 adding 'galaxy/tools/bundled/data_source/biomart.xml' 2025-11-18T19:27:13,140 adding 'galaxy/tools/bundled/data_source/biomart_test.xml' 2025-11-18T19:27:13,142 adding 'galaxy/tools/bundled/data_source/cbi_rice_mart.xml' 2025-11-18T19:27:13,143 adding 'galaxy/tools/bundled/data_source/data_source.py' 2025-11-18T19:27:13,145 adding 'galaxy/tools/bundled/data_source/diced.xml' 2025-11-18T19:27:13,146 adding 'galaxy/tools/bundled/data_source/ebi_sra.xml' 2025-11-18T19:27:13,147 adding 'galaxy/tools/bundled/data_source/eupathdb.xml' 2025-11-18T19:27:13,148 adding 'galaxy/tools/bundled/data_source/fly_modencode.xml' 2025-11-18T19:27:13,150 adding 'galaxy/tools/bundled/data_source/flymine.xml' 2025-11-18T19:27:13,151 adding 'galaxy/tools/bundled/data_source/flymine_test.xml' 2025-11-18T19:27:13,152 adding 'galaxy/tools/bundled/data_source/genbank.py' 2025-11-18T19:27:13,153 adding 'galaxy/tools/bundled/data_source/genbank.xml' 2025-11-18T19:27:13,155 adding 'galaxy/tools/bundled/data_source/gramene_mart.xml' 2025-11-18T19:27:13,156 adding 'galaxy/tools/bundled/data_source/hapmapmart.xml' 2025-11-18T19:27:13,157 adding 'galaxy/tools/bundled/data_source/hbvar.xml' 2025-11-18T19:27:13,159 adding 'galaxy/tools/bundled/data_source/import.py' 2025-11-18T19:27:13,160 adding 'galaxy/tools/bundled/data_source/import.xml' 2025-11-18T19:27:13,161 adding 'galaxy/tools/bundled/data_source/intermine.xml' 2025-11-18T19:27:13,163 adding 'galaxy/tools/bundled/data_source/metabolicmine.xml' 2025-11-18T19:27:13,164 adding 'galaxy/tools/bundled/data_source/microbial_import.py' 2025-11-18T19:27:13,165 adding 'galaxy/tools/bundled/data_source/microbial_import.xml' 2025-11-18T19:27:13,167 adding 'galaxy/tools/bundled/data_source/microbial_import_code.py' 2025-11-18T19:27:13,168 adding 'galaxy/tools/bundled/data_source/modmine.xml' 2025-11-18T19:27:13,170 adding 'galaxy/tools/bundled/data_source/mousemine.xml' 2025-11-18T19:27:13,171 adding 'galaxy/tools/bundled/data_source/ncbi_datasets.xml' 2025-11-18T19:27:13,172 adding 'galaxy/tools/bundled/data_source/ratmine.xml' 2025-11-18T19:27:13,174 adding 'galaxy/tools/bundled/data_source/sra.xml' 2025-11-18T19:27:13,175 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml' 2025-11-18T19:27:13,177 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml' 2025-11-18T19:27:13,178 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml' 2025-11-18T19:27:13,180 adding 'galaxy/tools/bundled/data_source/upload.py' 2025-11-18T19:27:13,182 adding 'galaxy/tools/bundled/data_source/upload.xml' 2025-11-18T19:27:13,183 adding 'galaxy/tools/bundled/data_source/worm_modencode.xml' 2025-11-18T19:27:13,185 adding 'galaxy/tools/bundled/data_source/wormbase.xml' 2025-11-18T19:27:13,186 adding 'galaxy/tools/bundled/data_source/wormbase_test.xml' 2025-11-18T19:27:13,187 adding 'galaxy/tools/bundled/data_source/yeastmine.xml' 2025-11-18T19:27:13,188 adding 'galaxy/tools/bundled/data_source/zebrafishmine.xml' 2025-11-18T19:27:13,190 adding 'galaxy/tools/bundled/expression_tools/expression_macros.xml' 2025-11-18T19:27:13,191 adding 'galaxy/tools/bundled/expression_tools/parse_values_from_file.xml' 2025-11-18T19:27:13,193 adding 'galaxy/tools/bundled/expression_tools/pick_value.xml' 2025-11-18T19:27:13,194 adding 'galaxy/tools/bundled/extract/__init__.py' 2025-11-18T19:27:13,196 adding 'galaxy/tools/bundled/extract/extract_genomic_dna.py' 2025-11-18T19:27:13,198 adding 'galaxy/tools/bundled/extract/extract_genomic_dna.xml' 2025-11-18T19:27:13,199 adding 'galaxy/tools/bundled/extract/liftOver_wrapper.py' 2025-11-18T19:27:13,201 adding 'galaxy/tools/bundled/extract/liftOver_wrapper.xml' 2025-11-18T19:27:13,204 adding 'galaxy/tools/bundled/filters/CreateInterval.pl' 2025-11-18T19:27:13,205 adding 'galaxy/tools/bundled/filters/CreateInterval.xml' 2025-11-18T19:27:13,206 adding 'galaxy/tools/bundled/filters/__init__.py' 2025-11-18T19:27:13,208 adding 'galaxy/tools/bundled/filters/axt_to_concat_fasta.py' 2025-11-18T19:27:13,209 adding 'galaxy/tools/bundled/filters/axt_to_concat_fasta.xml' 2025-11-18T19:27:13,210 adding 'galaxy/tools/bundled/filters/axt_to_fasta.py' 2025-11-18T19:27:13,212 adding 'galaxy/tools/bundled/filters/axt_to_fasta.xml' 2025-11-18T19:27:13,213 adding 'galaxy/tools/bundled/filters/axt_to_lav.py' 2025-11-18T19:27:13,215 adding 'galaxy/tools/bundled/filters/axt_to_lav.xml' 2025-11-18T19:27:13,216 adding 'galaxy/tools/bundled/filters/axt_to_lav_code.py' 2025-11-18T19:27:13,217 adding 'galaxy/tools/bundled/filters/bed2gff.xml' 2025-11-18T19:27:13,219 adding 'galaxy/tools/bundled/filters/bed_to_bigbed.xml' 2025-11-18T19:27:13,220 adding 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'galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py' 2025-11-18T19:27:13,523 adding 'galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml' 2025-11-18T19:27:13,524 adding 'galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py' 2025-11-18T19:27:13,525 adding 'galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh' 2025-11-18T19:27:13,527 adding 'galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml' 2025-11-18T19:27:13,529 adding 'galaxy/tools/bundled/solid_tools/solid_qual_stats.py' 2025-11-18T19:27:13,530 adding 'galaxy/tools/bundled/solid_tools/solid_qual_stats.xml' 2025-11-18T19:27:13,532 adding 'galaxy/tools/bundled/sr_assembly/__init__.py' 2025-11-18T19:27:13,535 adding 'galaxy/tools/bundled/sr_assembly/velvetg.xml' 2025-11-18T19:27:13,537 adding 'galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py' 2025-11-18T19:27:13,538 adding 'galaxy/tools/bundled/sr_assembly/velveth.xml' 2025-11-18T19:27:13,540 adding 'galaxy/tools/bundled/sr_assembly/velveth_wrapper.py' 2025-11-18T19:27:13,543 adding 'galaxy/tools/bundled/sr_mapping/PerM.xml' 2025-11-18T19:27:13,544 adding 'galaxy/tools/bundled/sr_mapping/__init__.py' 2025-11-18T19:27:13,546 adding 'galaxy/tools/bundled/sr_mapping/bfast_wrapper.py' 2025-11-18T19:27:13,549 adding 'galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml' 2025-11-18T19:27:13,551 adding 'galaxy/tools/bundled/sr_mapping/fastq_statistics.xml' 2025-11-18T19:27:13,552 adding 'galaxy/tools/bundled/sr_mapping/mosaik.xml' 2025-11-18T19:27:13,554 adding 'galaxy/tools/bundled/sr_mapping/srma_wrapper.py' 2025-11-18T19:27:13,556 adding 'galaxy/tools/bundled/sr_mapping/srma_wrapper.xml' 2025-11-18T19:27:13,557 adding 'galaxy/tools/bundled/stats/__init__.py' 2025-11-18T19:27:13,559 adding 'galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml' 2025-11-18T19:27:13,560 adding 'galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py' 2025-11-18T19:27:13,562 adding 'galaxy/tools/bundled/stats/filtering.py' 2025-11-18T19:27:13,564 adding 'galaxy/tools/bundled/stats/filtering.xml' 2025-11-18T19:27:13,565 adding 'galaxy/tools/bundled/stats/filtering_1_1_0.xml' 2025-11-18T19:27:13,567 adding 'galaxy/tools/bundled/stats/grouping.py' 2025-11-18T19:27:13,569 adding 'galaxy/tools/bundled/stats/grouping.xml' 2025-11-18T19:27:13,570 adding 'galaxy/tools/bundled/stats/gsummary.py' 2025-11-18T19:27:13,571 adding 'galaxy/tools/bundled/stats/gsummary.xml' 2025-11-18T19:27:13,573 adding 'galaxy/tools/bundled/stats/r_wrapper.sh' 2025-11-18T19:27:13,575 adding 'galaxy/tools/data/__init__.py' 2025-11-18T19:27:13,576 adding 'galaxy/tools/data_manager/__init__.py' 2025-11-18T19:27:13,578 adding 'galaxy/tools/data_manager/manager.py' 2025-11-18T19:27:13,580 adding 'galaxy/tools/error_reports/__init__.py' 2025-11-18T19:27:13,582 adding 'galaxy/tools/error_reports/plugins/__init__.py' 2025-11-18T19:27:13,583 adding 'galaxy/tools/error_reports/plugins/base_git.py' 2025-11-18T19:27:13,584 adding 'galaxy/tools/error_reports/plugins/email.py' 2025-11-18T19:27:13,586 adding 'galaxy/tools/error_reports/plugins/github.py' 2025-11-18T19:27:13,588 adding 'galaxy/tools/error_reports/plugins/gitlab.py' 2025-11-18T19:27:13,589 adding 'galaxy/tools/error_reports/plugins/influxdb.py' 2025-11-18T19:27:13,591 adding 'galaxy/tools/error_reports/plugins/json.py' 2025-11-18T19:27:13,592 adding 'galaxy/tools/error_reports/plugins/sentry.py' 2025-11-18T19:27:13,593 adding 'galaxy/tools/error_reports/plugins/slack.py' 2025-11-18T19:27:13,595 adding 'galaxy/tools/expressions/__init__.py' 2025-11-18T19:27:13,596 adding 'galaxy/tools/expressions/cwlNodeEngine.js' 2025-11-18T19:27:13,598 adding 'galaxy/tools/expressions/evaluation.py' 2025-11-18T19:27:13,599 adding 'galaxy/tools/expressions/script.py' 2025-11-18T19:27:13,600 adding 'galaxy/tools/expressions/util.py' 2025-11-18T19:27:13,602 adding 'galaxy/tools/filters/__init__.py' 2025-11-18T19:27:13,604 adding 'galaxy/tools/imp_exp/__init__.py' 2025-11-18T19:27:13,605 adding 'galaxy/tools/imp_exp/exp_history_to_archive.xml' 2025-11-18T19:27:13,606 adding 'galaxy/tools/imp_exp/exp_history_to_uri.xml' 2025-11-18T19:27:13,607 adding 'galaxy/tools/imp_exp/export_history.py' 2025-11-18T19:27:13,609 adding 'galaxy/tools/imp_exp/imp_history_from_archive.xml' 2025-11-18T19:27:13,610 adding 'galaxy/tools/imp_exp/unpack_tar_gz_archive.py' 2025-11-18T19:27:13,614 adding 'galaxy/tools/parameters/__init__.py' 2025-11-18T19:27:13,627 adding 'galaxy/tools/parameters/basic.py' 2025-11-18T19:27:13,629 adding 'galaxy/tools/parameters/cancelable_request.py' 2025-11-18T19:27:13,631 adding 'galaxy/tools/parameters/dataset_matcher.py' 2025-11-18T19:27:13,637 adding 'galaxy/tools/parameters/dynamic_options.py' 2025-11-18T19:27:13,641 adding 'galaxy/tools/parameters/grouping.py' 2025-11-18T19:27:13,642 adding 'galaxy/tools/parameters/input_translation.py' 2025-11-18T19:27:13,645 adding 'galaxy/tools/parameters/meta.py' 2025-11-18T19:27:13,646 adding 'galaxy/tools/parameters/options.py' 2025-11-18T19:27:13,647 adding 'galaxy/tools/parameters/populate_model.py' 2025-11-18T19:27:13,649 adding 'galaxy/tools/parameters/sanitize.py' 2025-11-18T19:27:13,651 adding 'galaxy/tools/parameters/validation.py' 2025-11-18T19:27:13,653 adding 'galaxy/tools/parameters/workflow_utils.py' 2025-11-18T19:27:13,654 adding 'galaxy/tools/parameters/wrapped.py' 2025-11-18T19:27:13,656 adding 'galaxy/tools/parameters/wrapped_json.py' 2025-11-18T19:27:13,659 adding 'galaxy/tools/search/__init__.py' 2025-11-18T19:27:13,661 adding 'galaxy/tools/util/__init__.py' 2025-11-18T19:27:13,664 adding 'galaxy/tools/util/maf_utilities.py' 2025-11-18T19:27:13,666 adding 'galaxy/tools/util/galaxyops/__init__.py' 2025-11-18T19:27:13,668 adding 'galaxy/visualization/__init__.py' 2025-11-18T19:27:13,670 adding 'galaxy/visualization/genomes.py' 2025-11-18T19:27:13,672 adding 'galaxy/visualization/data_providers/__init__.py' 2025-11-18T19:27:13,673 adding 'galaxy/visualization/data_providers/basic.py' 2025-11-18T19:27:13,674 adding 'galaxy/visualization/data_providers/cigar.py' 2025-11-18T19:27:13,681 adding 'galaxy/visualization/data_providers/genome.py' 2025-11-18T19:27:13,683 adding 'galaxy/visualization/data_providers/registry.py' 2025-11-18T19:27:13,685 adding 'galaxy/visualization/data_providers/phyloviz/__init__.py' 2025-11-18T19:27:13,686 adding 'galaxy/visualization/data_providers/phyloviz/baseparser.py' 2025-11-18T19:27:13,688 adding 'galaxy/visualization/data_providers/phyloviz/newickparser.py' 2025-11-18T19:27:13,689 adding 'galaxy/visualization/data_providers/phyloviz/nexusparser.py' 2025-11-18T19:27:13,691 adding 'galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py' 2025-11-18T19:27:13,692 adding 'galaxy/visualization/genome/__init__.py' 2025-11-18T19:27:13,694 adding 'galaxy/visualization/plugins/__init__.py' 2025-11-18T19:27:13,697 adding 'galaxy/visualization/plugins/config_parser.py' 2025-11-18T19:27:13,698 adding 'galaxy/visualization/plugins/datasource_testing.py' 2025-11-18T19:27:13,700 adding 'galaxy/visualization/plugins/plugin.py' 2025-11-18T19:27:13,702 adding 'galaxy/visualization/plugins/registry.py' 2025-11-18T19:27:13,704 adding 'galaxy/visualization/plugins/resource_parser.py' 2025-11-18T19:27:13,705 adding 'galaxy/visualization/plugins/utils.py' 2025-11-18T19:27:13,707 adding 'galaxy/visualization/tracks/__init__.py' 2025-11-18T19:27:13,709 adding 'galaxy/webhooks/__init__.py' 2025-11-18T19:27:13,710 adding 'galaxy/work/__init__.py' 2025-11-18T19:27:13,712 adding 'galaxy/work/context.py' 2025-11-18T19:27:13,714 adding 'galaxy/workflow/__init__.py' 2025-11-18T19:27:13,716 adding 'galaxy/workflow/extract.py' 2025-11-18T19:27:13,731 adding 'galaxy/workflow/modules.py' 2025-11-18T19:27:13,733 adding 'galaxy/workflow/render.py' 2025-11-18T19:27:13,737 adding 'galaxy/workflow/run.py' 2025-11-18T19:27:13,741 adding 'galaxy/workflow/run_request.py' 2025-11-18T19:27:13,744 adding 'galaxy/workflow/scheduling_manager.py' 2025-11-18T19:27:13,745 adding 'galaxy/workflow/steps.py' 2025-11-18T19:27:13,747 adding 'galaxy/workflow/trs_proxy.py' 2025-11-18T19:27:13,748 adding 'galaxy/workflow/workflow_parameter_input_definitions.py' 2025-11-18T19:27:13,750 adding 'galaxy/workflow/refactor/__init__.py' 2025-11-18T19:27:13,753 adding 'galaxy/workflow/refactor/execute.py' 2025-11-18T19:27:13,755 adding 'galaxy/workflow/refactor/schema.py' 2025-11-18T19:27:13,757 adding 'galaxy/workflow/reports/__init__.py' 2025-11-18T19:27:13,759 adding 'galaxy/workflow/reports/generators/__init__.py' 2025-11-18T19:27:13,760 adding 'galaxy/workflow/reports/generators/markdown.py' 2025-11-18T19:27:13,762 adding 'galaxy/workflow/resources/__init__.py' 2025-11-18T19:27:13,764 adding 'galaxy/workflow/resources/example.py.sample' 2025-11-18T19:27:13,765 adding 'galaxy/workflow/schedulers/__init__.py' 2025-11-18T19:27:13,767 adding 'galaxy/workflow/schedulers/core.py' 2025-11-18T19:27:13,770 adding 'galaxy_app-25.0.4.dist-info/licenses/LICENSE' 2025-11-18T19:27:13,772 adding 'galaxy_ext/__init__.py' 2025-11-18T19:27:13,773 adding 'galaxy_ext/py.typed' 2025-11-18T19:27:13,775 adding 'galaxy_ext/container_monitor/__init__.py' 2025-11-18T19:27:13,776 adding 'galaxy_ext/container_monitor/monitor.py' 2025-11-18T19:27:13,778 adding 'galaxy_ext/expressions/__init__.py' 2025-11-18T19:27:13,779 adding 'galaxy_ext/expressions/handle_job.py' 2025-11-18T19:27:13,780 adding 'galaxy_ext/metadata/__init__.py' 2025-11-18T19:27:13,781 adding 'galaxy_ext/metadata/set_metadata.py' 2025-11-18T19:27:13,783 adding 'tool_shed_client/__init__.py' 2025-11-18T19:27:13,784 adding 'tool_shed_client/py.typed' 2025-11-18T19:27:13,785 adding 'tool_shed_client/trs_util.py' 2025-11-18T19:27:13,787 adding 'tool_shed_client/schema/__init__.py' 2025-11-18T19:27:13,789 adding 'tool_shed_client/schema/trs.py' 2025-11-18T19:27:13,790 adding 'tool_shed_client/schema/trs_service_info.py' 2025-11-18T19:27:13,802 adding 'galaxy_app-25.0.4.dist-info/METADATA' 2025-11-18T19:27:13,804 adding 'galaxy_app-25.0.4.dist-info/WHEEL' 2025-11-18T19:27:13,805 adding 'galaxy_app-25.0.4.dist-info/entry_points.txt' 2025-11-18T19:27:13,806 adding 'galaxy_app-25.0.4.dist-info/top_level.txt' 2025-11-18T19:27:13,816 adding 'galaxy_app-25.0.4.dist-info/RECORD' 2025-11-18T19:27:13,840 removing build/bdist.linux-armv7l/wheel 2025-11-18T19:27:14,101 Building wheel for galaxy-app (pyproject.toml): finished with status 'done' 2025-11-18T19:27:14,138 Created wheel for galaxy-app: filename=galaxy_app-25.0.4-py3-none-any.whl size=1550546 sha256=40c9bde9c5eb59f49ac82777c9bede1957b6314d53817cd0f36aa3b06711c6c5 2025-11-18T19:27:14,139 Stored in directory: /tmp/pip-ephem-wheel-cache-t001x7dz/wheels/1c/7a/65/c06f689f0e9acbf3ee9e09ccc4aeace5043d2abb228735425b 2025-11-18T19:27:14,227 Successfully built galaxy-app 2025-11-18T19:27:14,266 Removed build tracker: '/tmp/pip-build-tracker-iax7duy6'