2026-08-04T20:56:30,905 Created temporary directory: /tmp/pip-ephem-wheel-cache-snpo3p58 2026-08-04T20:56:30,907 Created temporary directory: /tmp/pip-build-tracker-475fpptk 2026-08-04T20:56:30,907 Initialized build tracking at /tmp/pip-build-tracker-475fpptk 2026-08-04T20:56:30,908 Created build tracker: /tmp/pip-build-tracker-475fpptk 2026-08-04T20:56:30,908 Entered build tracker: /tmp/pip-build-tracker-475fpptk 2026-08-04T20:56:30,909 Created temporary directory: /tmp/pip-wheel-da1dzd6e 2026-08-04T20:56:30,912 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-08-04T20:56:30,914 Created temporary directory: /tmp/pip-ephem-wheel-cache-8i8p1hhm 2026-08-04T20:56:30,936 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-08-04T20:56:30,940 2 location(s) to search for versions of galaxy-app: 2026-08-04T20:56:30,940 * https://pypi.org/simple/galaxy-app/ 2026-08-04T20:56:30,940 * https://www.piwheels.org/simple/galaxy-app/ 2026-08-04T20:56:30,941 Fetching project page and analyzing links: https://pypi.org/simple/galaxy-app/ 2026-08-04T20:56:30,941 Getting page https://pypi.org/simple/galaxy-app/ 2026-08-04T20:56:30,943 Found index url https://pypi.org/simple 2026-08-04T20:56:31,167 Fetched page https://pypi.org/simple/galaxy-app/ as application/vnd.pypi.simple.v1+json 2026-08-04T20:56:31,183 Found link https://files.pythonhosted.org/packages/cd/3d/994b7f4faaee2a95a31af125e96734f3daa9f39e6decd0f7a09950ef686c/galaxy-app-20.5.0.tar.gz (from 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https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-23.2.1-py3-none-any.whl#sha256=e37a8c0551dded98be57102c74e99152b15aa0369a4b28287c95e0b0e1b0c7f9 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.7) 2026-08-04T20:56:31,465 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-23.1.4-py3-none-any.whl#sha256=a0d156aebf5163d1c632ec4c512d86f60cd8848ff63bfdee5e72f0b2b1ea9942 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.7) 2026-08-04T20:56:31,466 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-23.1.3-py3-none-any.whl#sha256=31efbe6b15793cf934e6d3fa0acf8fa040a1110373f2af602c1384f2fddc61a5 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.7) 2026-08-04T20:56:31,467 Skipping link: No binaries permitted for galaxy-app: 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https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-23.0.6-py3-none-any.whl#sha256=2c529481de193d71a8c059551d9713d602fa4e7817856a393fc657711fd26a80 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.7) 2026-08-04T20:56:31,469 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-23.0.5-py3-none-any.whl#sha256=1e9b1a29eee6bf66924f5da034af625e193ea4f7fe6585b2fee5379f94add213 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.7) 2026-08-04T20:56:31,469 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-23.0.4-py3-none-any.whl#sha256=0645d80a13b5594f7067c91e672962bdc25e46a38081f18d11d0aeaa34f8ee3d (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.7) 2026-08-04T20:56:31,469 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-23.0.3-py3-none-any.whl#sha256=a65f158d80ecabd0d612e24816a2e517007a19648a67381bdee48058c8236014 (from https://www.piwheels.org/simple/galaxy-app/) (requires-python:>=3.7) 2026-08-04T20:56:31,470 Skipping link: No binaries permitted for galaxy-app: 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) 2026-08-04T20:56:31,471 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) 2026-08-04T20:56:31,471 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/) 2026-08-04T20:56:31,472 Skipping link: No binaries permitted for galaxy-app: https://archive1.piwheels.org/simple/galaxy-app/galaxy_app-20.5.0-py2.py3-none-any.whl#sha256=2aa533c8296a5843fd06ce934c7c817845b12286e6b62fb94bb685f0259d9ad0 (from https://www.piwheels.org/simple/galaxy-app/) 2026-08-04T20:56:31,472 Skipping link: not a file: https://www.piwheels.org/simple/galaxy-app/ 2026-08-04T20:56:31,473 Skipping link: not a file: https://pypi.org/simple/galaxy-app/ 2026-08-04T20:56:31,497 Given no hashes to check 1 links for project 'galaxy-app': discarding no candidates 2026-08-04T20:56:31,516 Collecting galaxy-app==26.1.1 2026-08-04T20:56:31,518 Created temporary directory: /tmp/pip-unpack-gra63wsa 2026-08-04T20:56:31,752 Downloading galaxy_app-26.1.1.tar.gz (2.0 MB) 2026-08-04T20:56:33,875 Added galaxy-app==26.1.1 from https://files.pythonhosted.org/packages/bf/7f/38097bfdc139bf726ce1782a04693a659491cb08347be078d3e77d97bf7c/galaxy_app-26.1.1.tar.gz to build tracker '/tmp/pip-build-tracker-475fpptk' 2026-08-04T20:56:33,880 Created temporary directory: /tmp/pip-build-env-cd1zr10k 2026-08-04T20:56:33,884 Installing build dependencies: started 2026-08-04T20:56:33,886 Running command pip subprocess to install build dependencies 2026-08-04T20:56:35,049 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-08-04T20:56:35,489 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-08-04T20:56:35,513 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-08-04T20:56:37,318 Collecting setuptools 2026-08-04T20:56:37,319 Obtaining dependency information for setuptools from https://www.piwheels.org/simple/setuptools/setuptools-83.0.0-py3-none-any.whl.metadata 2026-08-04T20:56:37,333 Using cached https://www.piwheels.org/simple/setuptools/setuptools-83.0.0-py3-none-any.whl.metadata (6.6 kB) 2026-08-04T20:56:37,691 Collecting setuptools-scm>=8 2026-08-04T20:56:37,692 Obtaining dependency information for setuptools-scm>=8 from https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-10.2.1-py3-none-any.whl.metadata 2026-08-04T20:56:37,704 Using cached https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-10.2.1-py3-none-any.whl.metadata (6.7 kB) 2026-08-04T20:56:37,807 Collecting vcs-versioning<3,>=2.0.0.dev0 2026-08-04T20:56:37,808 Obtaining dependency information for vcs-versioning<3,>=2.0.0.dev0 from https://www.piwheels.org/simple/vcs-versioning/vcs_versioning-2.2.3-py3-none-any.whl.metadata 2026-08-04T20:56:37,822 Using cached https://www.piwheels.org/simple/vcs-versioning/vcs_versioning-2.2.3-py3-none-any.whl.metadata (1.7 kB) 2026-08-04T20:56:38,010 Collecting packaging>=20 2026-08-04T20:56:38,010 Obtaining dependency information for packaging>=20 from https://www.piwheels.org/simple/packaging/packaging-26.3-py3-none-any.whl.metadata 2026-08-04T20:56:38,022 Using cached https://www.piwheels.org/simple/packaging/packaging-26.3-py3-none-any.whl.metadata (3.6 kB) 2026-08-04T20:56:38,250 Using cached https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-10.2.1-py3-none-any.whl (29 kB) 2026-08-04T20:56:38,282 Using cached https://www.piwheels.org/simple/packaging/packaging-26.3-py3-none-any.whl (129 kB) 2026-08-04T20:56:38,305 Using cached https://www.piwheels.org/simple/vcs-versioning/vcs_versioning-2.2.3-py3-none-any.whl (108 kB) 2026-08-04T20:56:38,406 Using cached https://www.piwheels.org/simple/setuptools/setuptools-83.0.0-py3-none-any.whl (1.0 MB) 2026-08-04T20:56:38,444 Using cached https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-10.2.1-py3-none-any.whl (29 kB) 2026-08-04T20:56:38,473 Using cached https://www.piwheels.org/simple/packaging/packaging-26.3-py3-none-any.whl (129 kB) 2026-08-04T20:56:38,502 Using cached https://www.piwheels.org/simple/vcs-versioning/vcs_versioning-2.2.3-py3-none-any.whl (108 kB) 2026-08-04T20:56:38,603 Using cached https://www.piwheels.org/simple/setuptools/setuptools-83.0.0-py3-none-any.whl (1.0 MB) 2026-08-04T20:56:41,426 Installing collected packages: setuptools, packaging, vcs-versioning, setuptools-scm 2026-08-04T20:56:46,402 Creating /tmp/pip-build-env-cd1zr10k/overlay/local/bin 2026-08-04T20:56:46,405 changing mode of /tmp/pip-build-env-cd1zr10k/overlay/local/bin/vcs-versioning to 755 2026-08-04T20:56:46,551 changing mode of /tmp/pip-build-env-cd1zr10k/overlay/local/bin/setuptools-scm to 755 2026-08-04T20:56:46,580 Successfully installed packaging-26.3 setuptools-83.0.0 setuptools-scm-10.2.1 vcs-versioning-2.2.3 2026-08-04T20:56:46,875 Installing build dependencies: finished with status 'done' 2026-08-04T20:56:46,881 Getting requirements to build wheel: started 2026-08-04T20:56:46,883 Running command Getting requirements to build wheel 2026-08-04T20:56:47,765 running egg_info 2026-08-04T20:56:47,773 writing src/galaxy_app.egg-info/PKG-INFO 2026-08-04T20:56:47,789 writing dependency_links to src/galaxy_app.egg-info/dependency_links.txt 2026-08-04T20:56:47,792 writing entry points to src/galaxy_app.egg-info/entry_points.txt 2026-08-04T20:56:47,795 writing requirements to src/galaxy_app.egg-info/requires.txt 2026-08-04T20:56:47,797 writing top-level names to src/galaxy_app.egg-info/top_level.txt 2026-08-04T20:56:47,931 listing git files failed - pretending there aren't any 2026-08-04T20:56:47,940 reading manifest file 'src/galaxy_app.egg-info/SOURCES.txt' 2026-08-04T20:56:48,053 adding license file 'LICENSE' 2026-08-04T20:56:48,088 writing manifest file 'src/galaxy_app.egg-info/SOURCES.txt' 2026-08-04T20:56:48,197 Getting requirements to build wheel: finished with status 'done' 2026-08-04T20:56:48,200 Created temporary directory: /tmp/pip-modern-metadata-x4sp8hoc 2026-08-04T20:56:48,203 Preparing metadata (pyproject.toml): started 2026-08-04T20:56:48,204 Running command Preparing metadata (pyproject.toml) 2026-08-04T20:56:49,010 running dist_info 2026-08-04T20:56:49,012 creating /tmp/pip-modern-metadata-x4sp8hoc/galaxy_app.egg-info 2026-08-04T20:56:49,020 writing /tmp/pip-modern-metadata-x4sp8hoc/galaxy_app.egg-info/PKG-INFO 2026-08-04T20:56:49,036 writing dependency_links to /tmp/pip-modern-metadata-x4sp8hoc/galaxy_app.egg-info/dependency_links.txt 2026-08-04T20:56:49,038 writing entry points to /tmp/pip-modern-metadata-x4sp8hoc/galaxy_app.egg-info/entry_points.txt 2026-08-04T20:56:49,041 writing requirements to /tmp/pip-modern-metadata-x4sp8hoc/galaxy_app.egg-info/requires.txt 2026-08-04T20:56:49,043 writing top-level names to /tmp/pip-modern-metadata-x4sp8hoc/galaxy_app.egg-info/top_level.txt 2026-08-04T20:56:49,044 writing manifest file '/tmp/pip-modern-metadata-x4sp8hoc/galaxy_app.egg-info/SOURCES.txt' 2026-08-04T20:56:49,167 listing git files failed - pretending there aren't any 2026-08-04T20:56:49,175 reading manifest file '/tmp/pip-modern-metadata-x4sp8hoc/galaxy_app.egg-info/SOURCES.txt' 2026-08-04T20:56:49,177 adding license file 'LICENSE' 2026-08-04T20:56:49,191 writing manifest file '/tmp/pip-modern-metadata-x4sp8hoc/galaxy_app.egg-info/SOURCES.txt' 2026-08-04T20:56:49,192 creating '/tmp/pip-modern-metadata-x4sp8hoc/galaxy_app-26.1.1.dist-info' 2026-08-04T20:56:49,345 Preparing metadata (pyproject.toml): finished with status 'done' 2026-08-04T20:56:49,365 Source in /tmp/pip-wheel-da1dzd6e/galaxy-app_0e2359cd9c484165beecd7c2dd187d90 has version 26.1.1, which satisfies requirement galaxy-app==26.1.1 from https://files.pythonhosted.org/packages/bf/7f/38097bfdc139bf726ce1782a04693a659491cb08347be078d3e77d97bf7c/galaxy_app-26.1.1.tar.gz 2026-08-04T20:56:49,366 Removed galaxy-app==26.1.1 from https://files.pythonhosted.org/packages/bf/7f/38097bfdc139bf726ce1782a04693a659491cb08347be078d3e77d97bf7c/galaxy_app-26.1.1.tar.gz from build tracker '/tmp/pip-build-tracker-475fpptk' 2026-08-04T20:56:49,403 Created temporary directory: /tmp/pip-unpack-9jyzlxdu 2026-08-04T20:56:49,403 Building wheels for collected packages: galaxy-app 2026-08-04T20:56:49,408 Created temporary directory: /tmp/pip-wheel-07k50h11 2026-08-04T20:56:49,409 Destination directory: /tmp/pip-wheel-07k50h11 2026-08-04T20:56:49,411 Building wheel for galaxy-app (pyproject.toml): started 2026-08-04T20:56:49,413 Running command Building wheel for galaxy-app (pyproject.toml) 2026-08-04T20:56:50,162 running bdist_wheel 2026-08-04T20:56:50,188 running build 2026-08-04T20:56:50,188 running build_py 2026-08-04T20:56:50,190 creating build/lib/tool_shed_client 2026-08-04T20:56:50,192 copying src/tool_shed_client/trs_util.py -> build/lib/tool_shed_client 2026-08-04T20:56:50,194 copying src/tool_shed_client/__init__.py -> build/lib/tool_shed_client 2026-08-04T20:56:50,196 creating build/lib/galaxy_ext 2026-08-04T20:56:50,197 copying src/galaxy_ext/__init__.py -> build/lib/galaxy_ext 2026-08-04T20:56:50,200 creating build/lib/tool_shed_client/schema 2026-08-04T20:56:50,201 copying src/tool_shed_client/schema/trs_service_info.py -> build/lib/tool_shed_client/schema 2026-08-04T20:56:50,203 copying src/tool_shed_client/schema/trs.py -> build/lib/tool_shed_client/schema 2026-08-04T20:56:50,205 copying src/tool_shed_client/schema/__init__.py -> build/lib/tool_shed_client/schema 2026-08-04T20:56:50,208 creating build/lib/galaxy_ext/container_monitor 2026-08-04T20:56:50,209 copying src/galaxy_ext/container_monitor/monitor.py -> build/lib/galaxy_ext/container_monitor 2026-08-04T20:56:50,211 copying src/galaxy_ext/container_monitor/__init__.py -> build/lib/galaxy_ext/container_monitor 2026-08-04T20:56:50,213 creating build/lib/galaxy_ext/expressions 2026-08-04T20:56:50,214 copying src/galaxy_ext/expressions/handle_job.py -> build/lib/galaxy_ext/expressions 2026-08-04T20:56:50,216 copying src/galaxy_ext/expressions/__init__.py -> build/lib/galaxy_ext/expressions 2026-08-04T20:56:50,218 creating build/lib/galaxy_ext/metadata 2026-08-04T20:56:50,219 copying src/galaxy_ext/metadata/set_metadata.py -> build/lib/galaxy_ext/metadata 2026-08-04T20:56:50,221 copying src/galaxy_ext/metadata/__init__.py -> build/lib/galaxy_ext/metadata 2026-08-04T20:56:50,223 creating build/lib/galaxy/celery 2026-08-04T20:56:50,225 copying src/galaxy/celery/helpers.py -> build/lib/galaxy/celery 2026-08-04T20:56:50,227 copying src/galaxy/celery/_serialization.py -> build/lib/galaxy/celery 2026-08-04T20:56:50,229 copying src/galaxy/celery/tasks.py -> build/lib/galaxy/celery 2026-08-04T20:56:50,232 copying src/galaxy/celery/__init__.py -> build/lib/galaxy/celery 2026-08-04T20:56:50,234 copying src/galaxy/celery/base_task.py -> build/lib/galaxy/celery 2026-08-04T20:56:50,237 creating build/lib/galaxy/authnz 2026-08-04T20:56:50,238 copying src/galaxy/authnz/keycloak.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,240 copying src/galaxy/authnz/cilogon.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,242 copying src/galaxy/authnz/managers.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,245 copying src/galaxy/authnz/auth0.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,247 copying src/galaxy/authnz/util.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,249 copying src/galaxy/authnz/psa_authnz.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,252 copying src/galaxy/authnz/oidc.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,254 copying src/galaxy/authnz/__init__.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,257 copying src/galaxy/authnz/oidc_utils.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,259 copying src/galaxy/authnz/tapis.py -> build/lib/galaxy/authnz 2026-08-04T20:56:50,261 creating build/lib/galaxy/app 2026-08-04T20:56:50,262 copying src/galaxy/app/__init__.py -> build/lib/galaxy/app 2026-08-04T20:56:50,266 creating build/lib/galaxy/actions 2026-08-04T20:56:50,267 copying src/galaxy/actions/library.py -> build/lib/galaxy/actions 2026-08-04T20:56:50,270 copying src/galaxy/actions/__init__.py -> build/lib/galaxy/actions 2026-08-04T20:56:50,273 creating build/lib/galaxy/forms 2026-08-04T20:56:50,274 copying src/galaxy/forms/forms.py -> build/lib/galaxy/forms 2026-08-04T20:56:50,276 copying src/galaxy/forms/__init__.py -> build/lib/galaxy/forms 2026-08-04T20:56:50,279 creating build/lib/galaxy/structured_app 2026-08-04T20:56:50,279 copying src/galaxy/structured_app/__init__.py -> build/lib/galaxy/structured_app 2026-08-04T20:56:50,282 creating build/lib/galaxy/work 2026-08-04T20:56:50,283 copying src/galaxy/work/context.py -> build/lib/galaxy/work 2026-08-04T20:56:50,286 copying src/galaxy/work/__init__.py -> build/lib/galaxy/work 2026-08-04T20:56:50,288 creating build/lib/galaxy/webhooks 2026-08-04T20:56:50,289 copying src/galaxy/webhooks/__init__.py -> build/lib/galaxy/webhooks 2026-08-04T20:56:50,292 creating build/lib/galaxy/carbon_emissions 2026-08-04T20:56:50,293 copying src/galaxy/carbon_emissions/__init__.py -> build/lib/galaxy/carbon_emissions 2026-08-04T20:56:50,295 creating build/lib/galaxy/config_watchers 2026-08-04T20:56:50,296 copying src/galaxy/config_watchers/__init__.py -> build/lib/galaxy/config_watchers 2026-08-04T20:56:50,299 creating build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:50,300 copying src/galaxy/app_unittest_utils/galaxy_mock.py -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:50,303 copying src/galaxy/app_unittest_utils/toolbox_support.py -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:50,305 copying src/galaxy/app_unittest_utils/tools_support.py -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:50,308 copying src/galaxy/app_unittest_utils/__init__.py -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:50,310 creating build/lib/galaxy/workflow 2026-08-04T20:56:50,311 copying src/galaxy/workflow/trs_proxy.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,313 copying src/galaxy/workflow/completion_monitor.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,316 copying src/galaxy/workflow/modules.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,322 copying src/galaxy/workflow/extract.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,325 copying src/galaxy/workflow/scheduling_manager.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,328 copying src/galaxy/workflow/run.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,331 copying src/galaxy/workflow/steps.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,334 copying src/galaxy/workflow/workflow_parameter_input_definitions.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,336 copying src/galaxy/workflow/render.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,338 copying src/galaxy/workflow/run_request.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,341 copying src/galaxy/workflow/errors.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,343 copying src/galaxy/workflow/__init__.py -> build/lib/galaxy/workflow 2026-08-04T20:56:50,345 creating build/lib/galaxy/visualization 2026-08-04T20:56:50,346 copying src/galaxy/visualization/genomes.py -> build/lib/galaxy/visualization 2026-08-04T20:56:50,349 copying src/galaxy/visualization/__init__.py -> build/lib/galaxy/visualization 2026-08-04T20:56:50,351 creating build/lib/galaxy/main_config 2026-08-04T20:56:50,352 copying src/galaxy/main_config/__init__.py -> build/lib/galaxy/main_config 2026-08-04T20:56:50,354 creating build/lib/galaxy/di 2026-08-04T20:56:50,355 copying src/galaxy/di/__init__.py -> build/lib/galaxy/di 2026-08-04T20:56:50,358 creating build/lib/galaxy/short_term_storage 2026-08-04T20:56:50,359 copying src/galaxy/short_term_storage/__init__.py -> build/lib/galaxy/short_term_storage 2026-08-04T20:56:50,362 creating build/lib/galaxy/queue_worker 2026-08-04T20:56:50,363 copying src/galaxy/queue_worker/__init__.py -> build/lib/galaxy/queue_worker 2026-08-04T20:56:50,367 creating build/lib/galaxy/dependencies 2026-08-04T20:56:50,368 copying src/galaxy/dependencies/script.py -> build/lib/galaxy/dependencies 2026-08-04T20:56:50,370 copying src/galaxy/dependencies/__init__.py -> build/lib/galaxy/dependencies 2026-08-04T20:56:50,373 creating build/lib/galaxy/sse_monitor 2026-08-04T20:56:50,374 copying src/galaxy/sse_monitor/__main__.py -> build/lib/galaxy/sse_monitor 2026-08-04T20:56:50,376 copying src/galaxy/sse_monitor/__init__.py -> build/lib/galaxy/sse_monitor 2026-08-04T20:56:50,379 creating build/lib/galaxy/tools 2026-08-04T20:56:50,380 copying src/galaxy/tools/execute.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,383 copying src/galaxy/tools/exception_handling.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,385 copying src/galaxy/tools/wrappers.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,388 copying src/galaxy/tools/remote_tool_eval.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,390 copying src/galaxy/tools/stock.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,392 copying src/galaxy/tools/execution_helpers.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,394 copying src/galaxy/tools/runtime.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,396 copying src/galaxy/tools/biotools.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,398 copying src/galaxy/tools/evaluation.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,401 copying src/galaxy/tools/repositories.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,403 copying src/galaxy/tools/data_fetch_utils.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,405 copying src/galaxy/tools/cache.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,407 copying src/galaxy/tools/recommendations.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,410 copying src/galaxy/tools/errors.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,412 copying src/galaxy/tools/__init__.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,422 copying src/galaxy/tools/special_tools.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,423 copying src/galaxy/tools/_types.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,425 copying src/galaxy/tools/data_fetch.py -> build/lib/galaxy/tools 2026-08-04T20:56:50,429 creating build/lib/galaxy/agents 2026-08-04T20:56:50,430 copying src/galaxy/agents/iwc.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,432 copying src/galaxy/agents/history.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,435 copying src/galaxy/agents/history_tools.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,437 copying src/galaxy/agents/base.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,441 copying src/galaxy/agents/registry.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,443 copying src/galaxy/agents/custom_tool.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,447 copying src/galaxy/agents/static_backend.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,449 copying src/galaxy/agents/operations.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,452 copying src/galaxy/agents/gtn_training.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,455 copying src/galaxy/agents/orchestrator.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,457 copying src/galaxy/agents/factory.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,459 copying src/galaxy/agents/tools.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,462 copying src/galaxy/agents/error_analysis.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,464 copying src/galaxy/agents/page_assistant.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,467 copying src/galaxy/agents/__init__.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,469 copying src/galaxy/agents/workflow_report.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,471 copying src/galaxy/agents/router.py -> build/lib/galaxy/agents 2026-08-04T20:56:50,474 creating build/lib/galaxy/queues 2026-08-04T20:56:50,475 copying src/galaxy/queues/__init__.py -> build/lib/galaxy/queues 2026-08-04T20:56:50,478 creating build/lib/galaxy/tool_shed 2026-08-04T20:56:50,479 copying src/galaxy/tool_shed/repository_type.py -> build/lib/galaxy/tool_shed 2026-08-04T20:56:50,481 copying src/galaxy/tool_shed/cache.py -> build/lib/galaxy/tool_shed 2026-08-04T20:56:50,482 copying src/galaxy/tool_shed/__init__.py -> build/lib/galaxy/tool_shed 2026-08-04T20:56:50,484 creating build/lib/galaxy/jobs 2026-08-04T20:56:50,485 copying src/galaxy/jobs/mapper.py -> build/lib/galaxy/jobs 2026-08-04T20:56:50,488 copying src/galaxy/jobs/manager.py -> build/lib/galaxy/jobs 2026-08-04T20:56:50,490 copying src/galaxy/jobs/rule_helper.py -> build/lib/galaxy/jobs 2026-08-04T20:56:50,493 copying src/galaxy/jobs/job_destination.py -> build/lib/galaxy/jobs 2026-08-04T20:56:50,495 copying src/galaxy/jobs/stock_rules.py -> build/lib/galaxy/jobs 2026-08-04T20:56:50,496 copying src/galaxy/jobs/command_factory.py -> build/lib/galaxy/jobs 2026-08-04T20:56:50,499 copying src/galaxy/jobs/dynamic_tool_destination.py -> build/lib/galaxy/jobs 2026-08-04T20:56:50,502 copying src/galaxy/jobs/__init__.py -> build/lib/galaxy/jobs 2026-08-04T20:56:50,506 copying src/galaxy/jobs/handler.py -> build/lib/galaxy/jobs 2026-08-04T20:56:50,511 creating build/lib/galaxy/managers 2026-08-04T20:56:50,512 copying src/galaxy/managers/display_applications.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,515 copying src/galaxy/managers/secured.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,517 copying src/galaxy/managers/history_graph.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,519 copying src/galaxy/managers/hdas.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,522 copying src/galaxy/managers/tours.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,524 copying src/galaxy/managers/markdown_util.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,527 copying src/galaxy/managers/sse.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,530 copying src/galaxy/managers/collections_util.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,532 copying src/galaxy/managers/pages.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,535 copying src/galaxy/managers/collections.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,538 copying src/galaxy/managers/base.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,542 copying src/galaxy/managers/item_tags.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,544 copying src/galaxy/managers/library_datasets.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,546 copying src/galaxy/managers/roles.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,549 copying src/galaxy/managers/notification.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,552 copying src/galaxy/managers/group_roles.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,553 copying src/galaxy/managers/session.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,555 copying src/galaxy/managers/context.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,558 copying src/galaxy/managers/citations.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,560 copying src/galaxy/managers/annotatable.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,562 copying src/galaxy/managers/sharable.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,565 copying src/galaxy/managers/folders.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,568 copying src/galaxy/managers/model_stores.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,571 copying src/galaxy/managers/history_contents.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,574 copying src/galaxy/managers/tool_data.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,576 copying src/galaxy/managers/markdown_parse.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,578 copying src/galaxy/managers/workflows.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,583 copying src/galaxy/managers/datatypes.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,585 copying src/galaxy/managers/users.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,588 copying src/galaxy/managers/licenses.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,590 copying src/galaxy/managers/agents.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,592 copying src/galaxy/managers/queue_metrics.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,594 copying src/galaxy/managers/sse_dispatch.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,597 copying src/galaxy/managers/api_keys.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,598 copying src/galaxy/managers/forms.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,601 copying src/galaxy/managers/tags.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,602 copying src/galaxy/managers/ratable.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,604 copying src/galaxy/managers/quotas.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,607 copying src/galaxy/managers/history_audit_monitor.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,609 copying src/galaxy/managers/libraries.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,611 copying src/galaxy/managers/deletable.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,613 copying src/galaxy/managers/hdcas.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,616 copying src/galaxy/managers/dbkeys.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,618 copying src/galaxy/managers/chat.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,620 copying src/galaxy/managers/file_source_instances.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,623 copying src/galaxy/managers/genomes.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,625 copying src/galaxy/managers/rbac_secured.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,627 copying src/galaxy/managers/tools.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,630 copying src/galaxy/managers/group_users.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,631 copying src/galaxy/managers/remote_files.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,634 copying src/galaxy/managers/jobs.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,637 copying src/galaxy/managers/histories.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,640 copying src/galaxy/managers/lddas.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,642 copying src/galaxy/managers/datasets.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,645 copying src/galaxy/managers/headers_encryption.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,648 copying src/galaxy/managers/executables.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,650 copying src/galaxy/managers/object_store_instances.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,652 copying src/galaxy/managers/workflow_completion.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,654 copying src/galaxy/managers/job_connections.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,657 copying src/galaxy/managers/groups.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,659 copying src/galaxy/managers/taggable.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,661 copying src/galaxy/managers/interactivetool.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,663 copying src/galaxy/managers/tasks.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,665 copying src/galaxy/managers/__init__.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,667 copying src/galaxy/managers/visualizations.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,669 copying src/galaxy/managers/credentials.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,672 copying src/galaxy/managers/dataset_storage_operations.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,676 copying src/galaxy/managers/_config_templates.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,678 copying src/galaxy/managers/landing.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,681 copying src/galaxy/managers/export_tracker.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,683 copying src/galaxy/managers/configuration.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,686 copying src/galaxy/managers/favorites.py -> build/lib/galaxy/managers 2026-08-04T20:56:50,688 creating build/lib/galaxy/main 2026-08-04T20:56:50,689 copying src/galaxy/main/__init__.py -> build/lib/galaxy/main 2026-08-04T20:56:50,693 creating build/lib/galaxy/workflow/resources 2026-08-04T20:56:50,694 copying src/galaxy/workflow/resources/__init__.py -> build/lib/galaxy/workflow/resources 2026-08-04T20:56:50,697 creating build/lib/galaxy/workflow/reports 2026-08-04T20:56:50,698 copying src/galaxy/workflow/reports/__init__.py -> build/lib/galaxy/workflow/reports 2026-08-04T20:56:50,700 creating build/lib/galaxy/workflow/schedulers 2026-08-04T20:56:50,701 copying src/galaxy/workflow/schedulers/core.py -> build/lib/galaxy/workflow/schedulers 2026-08-04T20:56:50,703 copying src/galaxy/workflow/schedulers/__init__.py -> build/lib/galaxy/workflow/schedulers 2026-08-04T20:56:50,705 creating build/lib/galaxy/workflow/completion_hooks 2026-08-04T20:56:50,706 copying src/galaxy/workflow/completion_hooks/base.py -> build/lib/galaxy/workflow/completion_hooks 2026-08-04T20:56:50,708 copying src/galaxy/workflow/completion_hooks/notification.py -> build/lib/galaxy/workflow/completion_hooks 2026-08-04T20:56:50,710 copying src/galaxy/workflow/completion_hooks/export.py -> build/lib/galaxy/workflow/completion_hooks 2026-08-04T20:56:50,712 copying src/galaxy/workflow/completion_hooks/__init__.py -> build/lib/galaxy/workflow/completion_hooks 2026-08-04T20:56:50,715 creating build/lib/galaxy/workflow/refactor 2026-08-04T20:56:50,716 copying src/galaxy/workflow/refactor/execute.py -> build/lib/galaxy/workflow/refactor 2026-08-04T20:56:50,719 copying src/galaxy/workflow/refactor/schema.py -> build/lib/galaxy/workflow/refactor 2026-08-04T20:56:50,721 copying src/galaxy/workflow/refactor/__init__.py -> build/lib/galaxy/workflow/refactor 2026-08-04T20:56:50,723 creating build/lib/galaxy/workflow/reports/generators 2026-08-04T20:56:50,724 copying src/galaxy/workflow/reports/generators/markdown.py -> build/lib/galaxy/workflow/reports/generators 2026-08-04T20:56:50,726 copying src/galaxy/workflow/reports/generators/__init__.py -> build/lib/galaxy/workflow/reports/generators 2026-08-04T20:56:50,728 creating build/lib/galaxy/visualization/data_providers 2026-08-04T20:56:50,729 copying src/galaxy/visualization/data_providers/registry.py -> build/lib/galaxy/visualization/data_providers 2026-08-04T20:56:50,732 copying src/galaxy/visualization/data_providers/genome.py -> build/lib/galaxy/visualization/data_providers 2026-08-04T20:56:50,735 copying src/galaxy/visualization/data_providers/cigar.py -> build/lib/galaxy/visualization/data_providers 2026-08-04T20:56:50,737 copying src/galaxy/visualization/data_providers/basic.py -> build/lib/galaxy/visualization/data_providers 2026-08-04T20:56:50,739 copying src/galaxy/visualization/data_providers/__init__.py -> build/lib/galaxy/visualization/data_providers 2026-08-04T20:56:50,742 creating build/lib/galaxy/visualization/plugins 2026-08-04T20:56:50,743 copying src/galaxy/visualization/plugins/config_parser.py -> build/lib/galaxy/visualization/plugins 2026-08-04T20:56:50,745 copying src/galaxy/visualization/plugins/registry.py -> build/lib/galaxy/visualization/plugins 2026-08-04T20:56:50,748 copying src/galaxy/visualization/plugins/datasource_testing.py -> build/lib/galaxy/visualization/plugins 2026-08-04T20:56:50,749 copying src/galaxy/visualization/plugins/resource_parser.py -> build/lib/galaxy/visualization/plugins 2026-08-04T20:56:50,752 copying src/galaxy/visualization/plugins/plugin.py -> build/lib/galaxy/visualization/plugins 2026-08-04T20:56:50,754 copying src/galaxy/visualization/plugins/__init__.py -> build/lib/galaxy/visualization/plugins 2026-08-04T20:56:50,756 creating build/lib/galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:50,757 copying src/galaxy/visualization/data_providers/phyloviz/baseparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:50,759 copying src/galaxy/visualization/data_providers/phyloviz/newickparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:50,762 copying src/galaxy/visualization/data_providers/phyloviz/nexusparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:50,764 copying src/galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:50,766 copying src/galaxy/visualization/data_providers/phyloviz/__init__.py -> build/lib/galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:50,769 creating build/lib/galaxy/tools/filters 2026-08-04T20:56:50,770 copying src/galaxy/tools/filters/__init__.py -> build/lib/galaxy/tools/filters 2026-08-04T20:56:50,773 creating build/lib/galaxy/tools/actions 2026-08-04T20:56:50,774 copying src/galaxy/tools/actions/data_manager.py -> build/lib/galaxy/tools/actions 2026-08-04T20:56:50,775 copying src/galaxy/tools/actions/upload.py -> build/lib/galaxy/tools/actions 2026-08-04T20:56:50,778 copying src/galaxy/tools/actions/data_source.py -> build/lib/galaxy/tools/actions 2026-08-04T20:56:50,779 copying src/galaxy/tools/actions/model_operations.py -> build/lib/galaxy/tools/actions 2026-08-04T20:56:50,782 copying src/galaxy/tools/actions/history_imp_exp.py -> build/lib/galaxy/tools/actions 2026-08-04T20:56:50,784 copying src/galaxy/tools/actions/__init__.py -> build/lib/galaxy/tools/actions 2026-08-04T20:56:50,788 copying src/galaxy/tools/actions/metadata.py -> build/lib/galaxy/tools/actions 2026-08-04T20:56:50,791 copying src/galaxy/tools/actions/upload_common.py -> build/lib/galaxy/tools/actions 2026-08-04T20:56:50,794 creating build/lib/galaxy/tools/imp_exp 2026-08-04T20:56:50,795 copying src/galaxy/tools/imp_exp/unpack_tar_gz_archive.py -> build/lib/galaxy/tools/imp_exp 2026-08-04T20:56:50,797 copying src/galaxy/tools/imp_exp/export_history.py -> build/lib/galaxy/tools/imp_exp 2026-08-04T20:56:50,799 copying src/galaxy/tools/imp_exp/__init__.py -> build/lib/galaxy/tools/imp_exp 2026-08-04T20:56:50,801 creating build/lib/galaxy/tools/error_reports 2026-08-04T20:56:50,802 copying src/galaxy/tools/error_reports/__init__.py -> build/lib/galaxy/tools/error_reports 2026-08-04T20:56:50,805 creating build/lib/galaxy/tools/data 2026-08-04T20:56:50,806 copying src/galaxy/tools/data/__init__.py -> build/lib/galaxy/tools/data 2026-08-04T20:56:50,809 creating build/lib/galaxy/tools/util 2026-08-04T20:56:50,810 copying src/galaxy/tools/util/maf_utilities.py -> build/lib/galaxy/tools/util 2026-08-04T20:56:50,813 copying src/galaxy/tools/util/__init__.py -> build/lib/galaxy/tools/util 2026-08-04T20:56:50,816 creating build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,817 copying src/galaxy/tools/parameters/sanitize.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,819 copying src/galaxy/tools/parameters/validation.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,822 copying src/galaxy/tools/parameters/wrapped_json.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,824 copying src/galaxy/tools/parameters/options.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,826 copying src/galaxy/tools/parameters/pagination.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,829 copying src/galaxy/tools/parameters/grouping.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,833 copying src/galaxy/tools/parameters/populate_model.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,835 copying src/galaxy/tools/parameters/meta.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,838 copying src/galaxy/tools/parameters/dynamic_options.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,841 copying src/galaxy/tools/parameters/cancelable_request.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,843 copying src/galaxy/tools/parameters/dataset_matcher.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,846 copying src/galaxy/tools/parameters/input_translation.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,848 copying src/galaxy/tools/parameters/basic.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,853 copying src/galaxy/tools/parameters/wrapped.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,855 copying src/galaxy/tools/parameters/workflow_utils.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,857 copying src/galaxy/tools/parameters/__init__.py -> build/lib/galaxy/tools/parameters 2026-08-04T20:56:50,861 creating build/lib/galaxy/tools/expressions 2026-08-04T20:56:50,862 copying src/galaxy/tools/expressions/script.py -> build/lib/galaxy/tools/expressions 2026-08-04T20:56:50,864 copying src/galaxy/tools/expressions/util.py -> build/lib/galaxy/tools/expressions 2026-08-04T20:56:50,866 copying src/galaxy/tools/expressions/evaluation.py -> build/lib/galaxy/tools/expressions 2026-08-04T20:56:50,868 copying src/galaxy/tools/expressions/__init__.py -> build/lib/galaxy/tools/expressions 2026-08-04T20:56:50,870 creating build/lib/galaxy/tools/fetch 2026-08-04T20:56:50,871 copying src/galaxy/tools/fetch/workbooks.py -> build/lib/galaxy/tools/fetch 2026-08-04T20:56:50,874 copying src/galaxy/tools/fetch/__init__.py -> build/lib/galaxy/tools/fetch 2026-08-04T20:56:50,876 creating build/lib/galaxy/tools/data_manager 2026-08-04T20:56:50,877 copying src/galaxy/tools/data_manager/manager.py -> build/lib/galaxy/tools/data_manager 2026-08-04T20:56:50,879 copying src/galaxy/tools/data_manager/__init__.py -> build/lib/galaxy/tools/data_manager 2026-08-04T20:56:50,881 creating build/lib/galaxy/tools/search 2026-08-04T20:56:50,883 copying src/galaxy/tools/search/__init__.py -> build/lib/galaxy/tools/search 2026-08-04T20:56:50,886 creating build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,887 copying src/galaxy/tools/error_reports/plugins/json.py -> build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,889 copying src/galaxy/tools/error_reports/plugins/sentry.py -> build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,891 copying src/galaxy/tools/error_reports/plugins/gitlab.py -> build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,894 copying src/galaxy/tools/error_reports/plugins/slack.py -> build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,895 copying src/galaxy/tools/error_reports/plugins/__init__.py -> build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,897 copying src/galaxy/tools/error_reports/plugins/base_git.py -> build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,899 copying src/galaxy/tools/error_reports/plugins/email.py -> build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,901 copying src/galaxy/tools/error_reports/plugins/github.py -> build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,903 copying src/galaxy/tools/error_reports/plugins/influxdb.py -> build/lib/galaxy/tools/error_reports/plugins 2026-08-04T20:56:50,906 creating build/lib/galaxy/tools/util/galaxyops 2026-08-04T20:56:50,907 copying src/galaxy/tools/util/galaxyops/__init__.py -> build/lib/galaxy/tools/util/galaxyops 2026-08-04T20:56:50,910 creating build/lib/galaxy/agents/gtn 2026-08-04T20:56:50,911 copying src/galaxy/agents/gtn/__main__.py -> build/lib/galaxy/agents/gtn 2026-08-04T20:56:50,913 copying src/galaxy/agents/gtn/build_database.py -> build/lib/galaxy/agents/gtn 2026-08-04T20:56:50,915 copying src/galaxy/agents/gtn/search.py -> build/lib/galaxy/agents/gtn 2026-08-04T20:56:50,918 copying src/galaxy/agents/gtn/__init__.py -> build/lib/galaxy/agents/gtn 2026-08-04T20:56:50,920 creating build/lib/galaxy/tool_shed/unittest_utils 2026-08-04T20:56:50,921 copying src/galaxy/tool_shed/unittest_utils/__init__.py -> build/lib/galaxy/tool_shed/unittest_utils 2026-08-04T20:56:50,924 creating build/lib/galaxy/tool_shed/galaxy_install 2026-08-04T20:56:50,925 copying src/galaxy/tool_shed/galaxy_install/client.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-08-04T20:56:50,927 copying src/galaxy/tool_shed/galaxy_install/install_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-08-04T20:56:50,931 copying src/galaxy/tool_shed/galaxy_install/installed_repository_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-08-04T20:56:50,934 copying src/galaxy/tool_shed/galaxy_install/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-08-04T20:56:50,935 copying src/galaxy/tool_shed/galaxy_install/update_repository_manager.py -> build/lib/galaxy/tool_shed/galaxy_install 2026-08-04T20:56:50,938 creating build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,940 copying src/galaxy/tool_shed/util/hg_util.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,942 copying src/galaxy/tool_shed/util/utility_container_manager.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,945 copying src/galaxy/tool_shed/util/tool_dependency_util.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,947 copying src/galaxy/tool_shed/util/container_util.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,949 copying src/galaxy/tool_shed/util/dependency_display.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,951 copying src/galaxy/tool_shed/util/tool_util.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,954 copying src/galaxy/tool_shed/util/basic_util.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,956 copying src/galaxy/tool_shed/util/metadata_util.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,958 copying src/galaxy/tool_shed/util/repository_util.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,960 copying src/galaxy/tool_shed/util/shed_util_common.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,963 copying src/galaxy/tool_shed/util/__init__.py -> build/lib/galaxy/tool_shed/util 2026-08-04T20:56:50,965 creating build/lib/galaxy/tool_shed/tools 2026-08-04T20:56:50,966 copying src/galaxy/tool_shed/tools/tool_validator.py -> build/lib/galaxy/tool_shed/tools 2026-08-04T20:56:50,968 copying src/galaxy/tool_shed/tools/data_table_manager.py -> build/lib/galaxy/tool_shed/tools 2026-08-04T20:56:50,970 copying src/galaxy/tool_shed/tools/__init__.py -> build/lib/galaxy/tool_shed/tools 2026-08-04T20:56:50,972 creating build/lib/galaxy/tool_shed/metadata 2026-08-04T20:56:50,973 copying src/galaxy/tool_shed/metadata/metadata_generator.py -> build/lib/galaxy/tool_shed/metadata 2026-08-04T20:56:50,977 copying src/galaxy/tool_shed/metadata/__init__.py -> build/lib/galaxy/tool_shed/metadata 2026-08-04T20:56:50,979 creating build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2026-08-04T20:56:50,980 copying src/galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2026-08-04T20:56:50,983 copying src/galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies 2026-08-04T20:56:50,985 creating build/lib/galaxy/tool_shed/galaxy_install/tools 2026-08-04T20:56:50,986 copying src/galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2026-08-04T20:56:50,989 copying src/galaxy/tool_shed/galaxy_install/tools/data_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2026-08-04T20:56:50,991 copying src/galaxy/tool_shed/galaxy_install/tools/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/tools 2026-08-04T20:56:50,994 creating build/lib/galaxy/tool_shed/galaxy_install/metadata 2026-08-04T20:56:50,995 copying src/galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py -> build/lib/galaxy/tool_shed/galaxy_install/metadata 2026-08-04T20:56:50,997 copying src/galaxy/tool_shed/galaxy_install/metadata/__init__.py -> build/lib/galaxy/tool_shed/galaxy_install/metadata 2026-08-04T20:56:50,999 creating build/lib/galaxy/jobs/rules 2026-08-04T20:56:51,000 copying src/galaxy/jobs/rules/__init__.py -> build/lib/galaxy/jobs/rules 2026-08-04T20:56:51,003 creating build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,004 copying src/galaxy/jobs/runners/chronos.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,006 copying src/galaxy/jobs/runners/drmaa.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,009 copying src/galaxy/jobs/runners/pulsar.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,012 copying src/galaxy/jobs/runners/local.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,014 copying src/galaxy/jobs/runners/condor.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,017 copying src/galaxy/jobs/runners/htcondor.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,020 copying src/galaxy/jobs/runners/univa.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,022 copying src/galaxy/jobs/runners/htcondor_helper.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,024 copying src/galaxy/jobs/runners/pbs.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,027 copying src/galaxy/jobs/runners/aws.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,029 copying src/galaxy/jobs/runners/slurm.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,032 copying src/galaxy/jobs/runners/cli.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,034 copying src/galaxy/jobs/runners/gcp_batch.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,037 copying src/galaxy/jobs/runners/tasks.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,039 copying src/galaxy/jobs/runners/kubernetes.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,043 copying src/galaxy/jobs/runners/__init__.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,045 copying src/galaxy/jobs/runners/state_handler_factory.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,047 copying src/galaxy/jobs/runners/godocker.py -> build/lib/galaxy/jobs/runners 2026-08-04T20:56:51,050 creating build/lib/galaxy/jobs/splitters 2026-08-04T20:56:51,051 copying src/galaxy/jobs/splitters/basic.py -> build/lib/galaxy/jobs/splitters 2026-08-04T20:56:51,053 copying src/galaxy/jobs/splitters/multi.py -> build/lib/galaxy/jobs/splitters 2026-08-04T20:56:51,055 copying src/galaxy/jobs/splitters/__init__.py -> build/lib/galaxy/jobs/splitters 2026-08-04T20:56:51,057 creating build/lib/galaxy/jobs/runners/state_handlers 2026-08-04T20:56:51,058 copying src/galaxy/jobs/runners/state_handlers/_safe_eval.py -> build/lib/galaxy/jobs/runners/state_handlers 2026-08-04T20:56:51,061 copying src/galaxy/jobs/runners/state_handlers/resubmit.py -> build/lib/galaxy/jobs/runners/state_handlers 2026-08-04T20:56:51,063 copying src/galaxy/jobs/runners/state_handlers/__init__.py -> build/lib/galaxy/jobs/runners/state_handlers 2026-08-04T20:56:51,065 creating build/lib/galaxy/jobs/runners/util 2026-08-04T20:56:51,066 copying src/galaxy/jobs/runners/util/kill.py -> build/lib/galaxy/jobs/runners/util 2026-08-04T20:56:51,068 copying src/galaxy/jobs/runners/util/env.py -> build/lib/galaxy/jobs/runners/util 2026-08-04T20:56:51,070 copying src/galaxy/jobs/runners/util/process_groups.py -> build/lib/galaxy/jobs/runners/util 2026-08-04T20:56:51,072 copying src/galaxy/jobs/runners/util/fork_safe_write.py -> build/lib/galaxy/jobs/runners/util 2026-08-04T20:56:51,074 copying src/galaxy/jobs/runners/util/pykube_util.py -> build/lib/galaxy/jobs/runners/util 2026-08-04T20:56:51,076 copying src/galaxy/jobs/runners/util/sudo.py -> build/lib/galaxy/jobs/runners/util 2026-08-04T20:56:51,078 copying src/galaxy/jobs/runners/util/__init__.py -> build/lib/galaxy/jobs/runners/util 2026-08-04T20:56:51,079 copying src/galaxy/jobs/runners/util/external.py -> build/lib/galaxy/jobs/runners/util 2026-08-04T20:56:51,082 creating build/lib/galaxy/jobs/runners/util/job_script 2026-08-04T20:56:51,083 copying src/galaxy/jobs/runners/util/job_script/__init__.py -> build/lib/galaxy/jobs/runners/util/job_script 2026-08-04T20:56:51,085 creating build/lib/galaxy/jobs/runners/util/condor 2026-08-04T20:56:51,086 copying src/galaxy/jobs/runners/util/condor/__init__.py -> build/lib/galaxy/jobs/runners/util/condor 2026-08-04T20:56:51,089 creating build/lib/galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:51,090 copying src/galaxy/jobs/runners/util/gcp_batch/helpers.py -> build/lib/galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:51,092 copying src/galaxy/jobs/runners/util/gcp_batch/__init__.py -> build/lib/galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:51,095 creating build/lib/galaxy/jobs/runners/util/cli 2026-08-04T20:56:51,096 copying src/galaxy/jobs/runners/util/cli/factory.py -> build/lib/galaxy/jobs/runners/util/cli 2026-08-04T20:56:51,097 copying src/galaxy/jobs/runners/util/cli/__init__.py -> build/lib/galaxy/jobs/runners/util/cli 2026-08-04T20:56:51,100 creating build/lib/galaxy/jobs/runners/util/cli/shell 2026-08-04T20:56:51,101 copying src/galaxy/jobs/runners/util/cli/shell/local.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2026-08-04T20:56:51,103 copying src/galaxy/jobs/runners/util/cli/shell/rsh.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2026-08-04T20:56:51,105 copying src/galaxy/jobs/runners/util/cli/shell/__init__.py -> build/lib/galaxy/jobs/runners/util/cli/shell 2026-08-04T20:56:51,107 creating build/lib/galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:51,108 copying src/galaxy/jobs/runners/util/cli/job/torque.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:51,110 copying src/galaxy/jobs/runners/util/cli/job/slurm_torque.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:51,112 copying src/galaxy/jobs/runners/util/cli/job/pbs.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:51,114 copying src/galaxy/jobs/runners/util/cli/job/slurm.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:51,116 copying src/galaxy/jobs/runners/util/cli/job/lsf.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:51,118 copying src/galaxy/jobs/runners/util/cli/job/__init__.py -> build/lib/galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:51,122 running egg_info 2026-08-04T20:56:51,129 writing src/galaxy_app.egg-info/PKG-INFO 2026-08-04T20:56:51,145 writing dependency_links to src/galaxy_app.egg-info/dependency_links.txt 2026-08-04T20:56:51,147 writing entry points to src/galaxy_app.egg-info/entry_points.txt 2026-08-04T20:56:51,150 writing requirements to src/galaxy_app.egg-info/requires.txt 2026-08-04T20:56:51,151 writing top-level names to src/galaxy_app.egg-info/top_level.txt 2026-08-04T20:56:51,256 listing git files failed - pretending there aren't any 2026-08-04T20:56:51,264 reading manifest file 'src/galaxy_app.egg-info/SOURCES.txt' 2026-08-04T20:56:51,310 adding license file 'LICENSE' 2026-08-04T20:56:51,344 writing manifest file 'src/galaxy_app.egg-info/SOURCES.txt' 2026-08-04T20:56:51,351 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled' is absent from the `packages` configuration. 2026-08-04T20:56:51,352 !! 2026-08-04T20:56:51,353 ******************************************************************************** 2026-08-04T20:56:51,354 ############################ 2026-08-04T20:56:51,354 # Package would be ignored # 2026-08-04T20:56:51,355 ############################ 2026-08-04T20:56:51,355 Python recognizes 'galaxy.tools.bundled' as an importable package[^1], 2026-08-04T20:56:51,356 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,357 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,358 package, please make sure that 'galaxy.tools.bundled' is explicitly added 2026-08-04T20:56:51,358 to the `packages` configuration field. 2026-08-04T20:56:51,359 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,360 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,361 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,362 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,363 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,364 If you don't want 'galaxy.tools.bundled' to be distributed and are 2026-08-04T20:56:51,365 already explicitly excluding 'galaxy.tools.bundled' via 2026-08-04T20:56:51,366 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,367 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,367 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,368 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,369 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,370 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,371 even if it does not contain any `.py` files. 2026-08-04T20:56:51,371 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,372 directory, all directories are treated like packages. 2026-08-04T20:56:51,372 ******************************************************************************** 2026-08-04T20:56:51,373 !! 2026-08-04T20:56:51,374 check.warn(importable) 2026-08-04T20:56:51,374 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.data_export' is absent from the `packages` configuration. 2026-08-04T20:56:51,375 !! 2026-08-04T20:56:51,376 ******************************************************************************** 2026-08-04T20:56:51,376 ############################ 2026-08-04T20:56:51,376 # Package would be ignored # 2026-08-04T20:56:51,377 ############################ 2026-08-04T20:56:51,377 Python recognizes 'galaxy.tools.bundled.data_export' as an importable package[^1], 2026-08-04T20:56:51,378 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,379 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,380 package, please make sure that 'galaxy.tools.bundled.data_export' is explicitly added 2026-08-04T20:56:51,380 to the `packages` configuration field. 2026-08-04T20:56:51,381 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,382 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,382 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,384 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,385 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,386 If you don't want 'galaxy.tools.bundled.data_export' to be distributed and are 2026-08-04T20:56:51,387 already explicitly excluding 'galaxy.tools.bundled.data_export' via 2026-08-04T20:56:51,387 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,388 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,388 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,389 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,391 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,392 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,393 even if it does not contain any `.py` files. 2026-08-04T20:56:51,393 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,394 directory, all directories are treated like packages. 2026-08-04T20:56:51,395 ******************************************************************************** 2026-08-04T20:56:51,397 !! 2026-08-04T20:56:51,398 check.warn(importable) 2026-08-04T20:56:51,398 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.data_source' is absent from the `packages` configuration. 2026-08-04T20:56:51,399 !! 2026-08-04T20:56:51,400 ******************************************************************************** 2026-08-04T20:56:51,401 ############################ 2026-08-04T20:56:51,401 # Package would be ignored # 2026-08-04T20:56:51,401 ############################ 2026-08-04T20:56:51,402 Python recognizes 'galaxy.tools.bundled.data_source' as an importable package[^1], 2026-08-04T20:56:51,402 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,403 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,404 package, please make sure that 'galaxy.tools.bundled.data_source' is explicitly added 2026-08-04T20:56:51,404 to the `packages` configuration field. 2026-08-04T20:56:51,405 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,405 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,406 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,407 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,408 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,408 If you don't want 'galaxy.tools.bundled.data_source' to be distributed and are 2026-08-04T20:56:51,409 already explicitly excluding 'galaxy.tools.bundled.data_source' via 2026-08-04T20:56:51,409 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,410 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,410 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,412 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,413 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,415 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,415 even if it does not contain any `.py` files. 2026-08-04T20:56:51,416 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,416 directory, all directories are treated like packages. 2026-08-04T20:56:51,417 ******************************************************************************** 2026-08-04T20:56:51,418 !! 2026-08-04T20:56:51,418 check.warn(importable) 2026-08-04T20:56:51,419 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.expression_tools' is absent from the `packages` configuration. 2026-08-04T20:56:51,419 !! 2026-08-04T20:56:51,421 ******************************************************************************** 2026-08-04T20:56:51,421 ############################ 2026-08-04T20:56:51,422 # Package would be ignored # 2026-08-04T20:56:51,422 ############################ 2026-08-04T20:56:51,423 Python recognizes 'galaxy.tools.bundled.expression_tools' as an importable package[^1], 2026-08-04T20:56:51,423 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,425 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,425 package, please make sure that 'galaxy.tools.bundled.expression_tools' is explicitly added 2026-08-04T20:56:51,426 to the `packages` configuration field. 2026-08-04T20:56:51,427 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,428 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,429 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,430 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,431 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,431 If you don't want 'galaxy.tools.bundled.expression_tools' to be distributed and are 2026-08-04T20:56:51,432 already explicitly excluding 'galaxy.tools.bundled.expression_tools' via 2026-08-04T20:56:51,432 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,433 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,433 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,434 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,435 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,437 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,437 even if it does not contain any `.py` files. 2026-08-04T20:56:51,438 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,438 directory, all directories are treated like packages. 2026-08-04T20:56:51,439 ******************************************************************************** 2026-08-04T20:56:51,440 !! 2026-08-04T20:56:51,440 check.warn(importable) 2026-08-04T20:56:51,441 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.extract' is absent from the `packages` configuration. 2026-08-04T20:56:51,441 !! 2026-08-04T20:56:51,442 ******************************************************************************** 2026-08-04T20:56:51,443 ############################ 2026-08-04T20:56:51,443 # Package would be ignored # 2026-08-04T20:56:51,444 ############################ 2026-08-04T20:56:51,444 Python recognizes 'galaxy.tools.bundled.extract' as an importable package[^1], 2026-08-04T20:56:51,445 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,446 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,447 package, please make sure that 'galaxy.tools.bundled.extract' is explicitly added 2026-08-04T20:56:51,447 to the `packages` configuration field. 2026-08-04T20:56:51,449 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,449 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,450 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,451 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,452 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,453 If you don't want 'galaxy.tools.bundled.extract' to be distributed and are 2026-08-04T20:56:51,454 already explicitly excluding 'galaxy.tools.bundled.extract' via 2026-08-04T20:56:51,454 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,455 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,455 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,457 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,458 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,460 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,460 even if it does not contain any `.py` files. 2026-08-04T20:56:51,460 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,461 directory, all directories are treated like packages. 2026-08-04T20:56:51,461 ******************************************************************************** 2026-08-04T20:56:51,462 !! 2026-08-04T20:56:51,463 check.warn(importable) 2026-08-04T20:56:51,463 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.filters' is absent from the `packages` configuration. 2026-08-04T20:56:51,464 !! 2026-08-04T20:56:51,464 ******************************************************************************** 2026-08-04T20:56:51,465 ############################ 2026-08-04T20:56:51,465 # Package would be ignored # 2026-08-04T20:56:51,466 ############################ 2026-08-04T20:56:51,466 Python recognizes 'galaxy.tools.bundled.filters' as an importable package[^1], 2026-08-04T20:56:51,467 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,468 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,468 package, please make sure that 'galaxy.tools.bundled.filters' is explicitly added 2026-08-04T20:56:51,469 to the `packages` configuration field. 2026-08-04T20:56:51,470 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,470 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,471 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,472 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,473 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,474 If you don't want 'galaxy.tools.bundled.filters' to be distributed and are 2026-08-04T20:56:51,474 already explicitly excluding 'galaxy.tools.bundled.filters' via 2026-08-04T20:56:51,475 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,475 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,476 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,477 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,478 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,479 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,480 even if it does not contain any `.py` files. 2026-08-04T20:56:51,481 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,481 directory, all directories are treated like packages. 2026-08-04T20:56:51,482 ******************************************************************************** 2026-08-04T20:56:51,483 !! 2026-08-04T20:56:51,484 check.warn(importable) 2026-08-04T20:56:51,484 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.filters.gff' is absent from the `packages` configuration. 2026-08-04T20:56:51,485 !! 2026-08-04T20:56:51,486 ******************************************************************************** 2026-08-04T20:56:51,487 ############################ 2026-08-04T20:56:51,487 # Package would be ignored # 2026-08-04T20:56:51,488 ############################ 2026-08-04T20:56:51,488 Python recognizes 'galaxy.tools.bundled.filters.gff' as an importable package[^1], 2026-08-04T20:56:51,489 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,490 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,491 package, please make sure that 'galaxy.tools.bundled.filters.gff' is explicitly added 2026-08-04T20:56:51,491 to the `packages` configuration field. 2026-08-04T20:56:51,492 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,492 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,493 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,494 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,495 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,496 If you don't want 'galaxy.tools.bundled.filters.gff' to be distributed and are 2026-08-04T20:56:51,496 already explicitly excluding 'galaxy.tools.bundled.filters.gff' via 2026-08-04T20:56:51,497 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,498 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,498 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,499 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,500 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,502 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,502 even if it does not contain any `.py` files. 2026-08-04T20:56:51,503 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,503 directory, all directories are treated like packages. 2026-08-04T20:56:51,504 ******************************************************************************** 2026-08-04T20:56:51,505 !! 2026-08-04T20:56:51,506 check.warn(importable) 2026-08-04T20:56:51,506 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.interactive' is absent from the `packages` configuration. 2026-08-04T20:56:51,507 !! 2026-08-04T20:56:51,508 ******************************************************************************** 2026-08-04T20:56:51,509 ############################ 2026-08-04T20:56:51,509 # Package would be ignored # 2026-08-04T20:56:51,510 ############################ 2026-08-04T20:56:51,510 Python recognizes 'galaxy.tools.bundled.interactive' as an importable package[^1], 2026-08-04T20:56:51,511 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,512 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,512 package, please make sure that 'galaxy.tools.bundled.interactive' is explicitly added 2026-08-04T20:56:51,513 to the `packages` configuration field. 2026-08-04T20:56:51,514 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,515 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,515 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,516 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,518 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,519 If you don't want 'galaxy.tools.bundled.interactive' to be distributed and are 2026-08-04T20:56:51,519 already explicitly excluding 'galaxy.tools.bundled.interactive' via 2026-08-04T20:56:51,520 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,520 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,521 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,522 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,522 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,524 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,524 even if it does not contain any `.py` files. 2026-08-04T20:56:51,525 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,525 directory, all directories are treated like packages. 2026-08-04T20:56:51,525 ******************************************************************************** 2026-08-04T20:56:51,526 !! 2026-08-04T20:56:51,527 check.warn(importable) 2026-08-04T20:56:51,527 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.maf' is absent from the `packages` configuration. 2026-08-04T20:56:51,527 !! 2026-08-04T20:56:51,529 ******************************************************************************** 2026-08-04T20:56:51,529 ############################ 2026-08-04T20:56:51,529 # Package would be ignored # 2026-08-04T20:56:51,530 ############################ 2026-08-04T20:56:51,531 Python recognizes 'galaxy.tools.bundled.maf' as an importable package[^1], 2026-08-04T20:56:51,531 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,532 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,532 package, please make sure that 'galaxy.tools.bundled.maf' is explicitly added 2026-08-04T20:56:51,533 to the `packages` configuration field. 2026-08-04T20:56:51,534 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,534 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,535 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,535 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,536 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,537 If you don't want 'galaxy.tools.bundled.maf' to be distributed and are 2026-08-04T20:56:51,538 already explicitly excluding 'galaxy.tools.bundled.maf' via 2026-08-04T20:56:51,539 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,539 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,540 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,541 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,542 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,544 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,544 even if it does not contain any `.py` files. 2026-08-04T20:56:51,545 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,545 directory, all directories are treated like packages. 2026-08-04T20:56:51,546 ******************************************************************************** 2026-08-04T20:56:51,547 !! 2026-08-04T20:56:51,547 check.warn(importable) 2026-08-04T20:56:51,548 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.meme' is absent from the `packages` configuration. 2026-08-04T20:56:51,548 !! 2026-08-04T20:56:51,550 ******************************************************************************** 2026-08-04T20:56:51,550 ############################ 2026-08-04T20:56:51,550 # Package would be ignored # 2026-08-04T20:56:51,551 ############################ 2026-08-04T20:56:51,551 Python recognizes 'galaxy.tools.bundled.meme' as an importable package[^1], 2026-08-04T20:56:51,551 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,552 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,553 package, please make sure that 'galaxy.tools.bundled.meme' is explicitly added 2026-08-04T20:56:51,553 to the `packages` configuration field. 2026-08-04T20:56:51,554 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,554 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,555 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,556 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,557 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,557 If you don't want 'galaxy.tools.bundled.meme' to be distributed and are 2026-08-04T20:56:51,558 already explicitly excluding 'galaxy.tools.bundled.meme' via 2026-08-04T20:56:51,558 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,559 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,559 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,560 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,561 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,563 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,563 even if it does not contain any `.py` files. 2026-08-04T20:56:51,563 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,564 directory, all directories are treated like packages. 2026-08-04T20:56:51,564 ******************************************************************************** 2026-08-04T20:56:51,566 !! 2026-08-04T20:56:51,566 check.warn(importable) 2026-08-04T20:56:51,567 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.metag_tools' is absent from the `packages` configuration. 2026-08-04T20:56:51,567 !! 2026-08-04T20:56:51,568 ******************************************************************************** 2026-08-04T20:56:51,569 ############################ 2026-08-04T20:56:51,569 # Package would be ignored # 2026-08-04T20:56:51,570 ############################ 2026-08-04T20:56:51,570 Python recognizes 'galaxy.tools.bundled.metag_tools' as an importable package[^1], 2026-08-04T20:56:51,570 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,571 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,572 package, please make sure that 'galaxy.tools.bundled.metag_tools' is explicitly added 2026-08-04T20:56:51,572 to the `packages` configuration field. 2026-08-04T20:56:51,573 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,574 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,575 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,576 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,576 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,577 If you don't want 'galaxy.tools.bundled.metag_tools' to be distributed and are 2026-08-04T20:56:51,578 already explicitly excluding 'galaxy.tools.bundled.metag_tools' via 2026-08-04T20:56:51,578 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,579 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,579 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,580 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,581 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,582 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,583 even if it does not contain any `.py` files. 2026-08-04T20:56:51,583 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,584 directory, all directories are treated like packages. 2026-08-04T20:56:51,584 ******************************************************************************** 2026-08-04T20:56:51,585 !! 2026-08-04T20:56:51,586 check.warn(importable) 2026-08-04T20:56:51,586 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.next_gen_conversion' is absent from the `packages` configuration. 2026-08-04T20:56:51,587 !! 2026-08-04T20:56:51,588 ******************************************************************************** 2026-08-04T20:56:51,588 ############################ 2026-08-04T20:56:51,589 # Package would be ignored # 2026-08-04T20:56:51,589 ############################ 2026-08-04T20:56:51,590 Python recognizes 'galaxy.tools.bundled.next_gen_conversion' as an importable package[^1], 2026-08-04T20:56:51,590 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,591 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,591 package, please make sure that 'galaxy.tools.bundled.next_gen_conversion' is explicitly added 2026-08-04T20:56:51,592 to the `packages` configuration field. 2026-08-04T20:56:51,593 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,594 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,594 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,595 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,596 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,597 If you don't want 'galaxy.tools.bundled.next_gen_conversion' to be distributed and are 2026-08-04T20:56:51,598 already explicitly excluding 'galaxy.tools.bundled.next_gen_conversion' via 2026-08-04T20:56:51,598 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,599 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,599 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,600 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,601 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,603 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,603 even if it does not contain any `.py` files. 2026-08-04T20:56:51,604 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,604 directory, all directories are treated like packages. 2026-08-04T20:56:51,605 ******************************************************************************** 2026-08-04T20:56:51,605 !! 2026-08-04T20:56:51,606 check.warn(importable) 2026-08-04T20:56:51,606 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.ngs_simulation' is absent from the `packages` configuration. 2026-08-04T20:56:51,607 !! 2026-08-04T20:56:51,608 ******************************************************************************** 2026-08-04T20:56:51,608 ############################ 2026-08-04T20:56:51,609 # Package would be ignored # 2026-08-04T20:56:51,609 ############################ 2026-08-04T20:56:51,609 Python recognizes 'galaxy.tools.bundled.ngs_simulation' as an importable package[^1], 2026-08-04T20:56:51,610 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,611 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,611 package, please make sure that 'galaxy.tools.bundled.ngs_simulation' is explicitly added 2026-08-04T20:56:51,612 to the `packages` configuration field. 2026-08-04T20:56:51,613 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,613 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,614 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,615 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,616 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,617 If you don't want 'galaxy.tools.bundled.ngs_simulation' to be distributed and are 2026-08-04T20:56:51,618 already explicitly excluding 'galaxy.tools.bundled.ngs_simulation' via 2026-08-04T20:56:51,618 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,619 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,619 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,620 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,621 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,623 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,623 even if it does not contain any `.py` files. 2026-08-04T20:56:51,624 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,624 directory, all directories are treated like packages. 2026-08-04T20:56:51,625 ******************************************************************************** 2026-08-04T20:56:51,626 !! 2026-08-04T20:56:51,626 check.warn(importable) 2026-08-04T20:56:51,627 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.phenotype_association' is absent from the `packages` configuration. 2026-08-04T20:56:51,627 !! 2026-08-04T20:56:51,629 ******************************************************************************** 2026-08-04T20:56:51,629 ############################ 2026-08-04T20:56:51,630 # Package would be ignored # 2026-08-04T20:56:51,630 ############################ 2026-08-04T20:56:51,631 Python recognizes 'galaxy.tools.bundled.phenotype_association' as an importable package[^1], 2026-08-04T20:56:51,632 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,633 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,633 package, please make sure that 'galaxy.tools.bundled.phenotype_association' is explicitly added 2026-08-04T20:56:51,634 to the `packages` configuration field. 2026-08-04T20:56:51,634 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,635 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,635 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,636 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,637 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,638 If you don't want 'galaxy.tools.bundled.phenotype_association' to be distributed and are 2026-08-04T20:56:51,639 already explicitly excluding 'galaxy.tools.bundled.phenotype_association' via 2026-08-04T20:56:51,639 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,640 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,640 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,641 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,642 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,644 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,644 even if it does not contain any `.py` files. 2026-08-04T20:56:51,645 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,645 directory, all directories are treated like packages. 2026-08-04T20:56:51,646 ******************************************************************************** 2026-08-04T20:56:51,647 !! 2026-08-04T20:56:51,647 check.warn(importable) 2026-08-04T20:56:51,648 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.plotting' is absent from the `packages` configuration. 2026-08-04T20:56:51,648 !! 2026-08-04T20:56:51,649 ******************************************************************************** 2026-08-04T20:56:51,650 ############################ 2026-08-04T20:56:51,650 # Package would be ignored # 2026-08-04T20:56:51,650 ############################ 2026-08-04T20:56:51,651 Python recognizes 'galaxy.tools.bundled.plotting' as an importable package[^1], 2026-08-04T20:56:51,651 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,652 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,653 package, please make sure that 'galaxy.tools.bundled.plotting' is explicitly added 2026-08-04T20:56:51,653 to the `packages` configuration field. 2026-08-04T20:56:51,654 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,655 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,656 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,657 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,658 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,659 If you don't want 'galaxy.tools.bundled.plotting' to be distributed and are 2026-08-04T20:56:51,659 already explicitly excluding 'galaxy.tools.bundled.plotting' via 2026-08-04T20:56:51,660 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,661 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,661 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,662 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,663 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,664 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,664 even if it does not contain any `.py` files. 2026-08-04T20:56:51,665 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,665 directory, all directories are treated like packages. 2026-08-04T20:56:51,665 ******************************************************************************** 2026-08-04T20:56:51,666 !! 2026-08-04T20:56:51,667 check.warn(importable) 2026-08-04T20:56:51,667 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.solid_tools' is absent from the `packages` configuration. 2026-08-04T20:56:51,668 !! 2026-08-04T20:56:51,669 ******************************************************************************** 2026-08-04T20:56:51,669 ############################ 2026-08-04T20:56:51,669 # Package would be ignored # 2026-08-04T20:56:51,670 ############################ 2026-08-04T20:56:51,670 Python recognizes 'galaxy.tools.bundled.solid_tools' as an importable package[^1], 2026-08-04T20:56:51,671 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,672 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,673 package, please make sure that 'galaxy.tools.bundled.solid_tools' is explicitly added 2026-08-04T20:56:51,673 to the `packages` configuration field. 2026-08-04T20:56:51,674 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,674 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,675 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,676 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,677 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,678 If you don't want 'galaxy.tools.bundled.solid_tools' to be distributed and are 2026-08-04T20:56:51,679 already explicitly excluding 'galaxy.tools.bundled.solid_tools' via 2026-08-04T20:56:51,679 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,680 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,680 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,681 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,682 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,684 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,685 even if it does not contain any `.py` files. 2026-08-04T20:56:51,685 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,686 directory, all directories are treated like packages. 2026-08-04T20:56:51,686 ******************************************************************************** 2026-08-04T20:56:51,687 !! 2026-08-04T20:56:51,688 check.warn(importable) 2026-08-04T20:56:51,689 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.sr_assembly' is absent from the `packages` configuration. 2026-08-04T20:56:51,690 !! 2026-08-04T20:56:51,690 ******************************************************************************** 2026-08-04T20:56:51,691 ############################ 2026-08-04T20:56:51,691 # Package would be ignored # 2026-08-04T20:56:51,692 ############################ 2026-08-04T20:56:51,692 Python recognizes 'galaxy.tools.bundled.sr_assembly' as an importable package[^1], 2026-08-04T20:56:51,693 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,694 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,694 package, please make sure that 'galaxy.tools.bundled.sr_assembly' is explicitly added 2026-08-04T20:56:51,694 to the `packages` configuration field. 2026-08-04T20:56:51,695 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,696 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,696 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,697 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,698 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,699 If you don't want 'galaxy.tools.bundled.sr_assembly' to be distributed and are 2026-08-04T20:56:51,700 already explicitly excluding 'galaxy.tools.bundled.sr_assembly' via 2026-08-04T20:56:51,700 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,700 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,701 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,702 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,703 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,704 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,705 even if it does not contain any `.py` files. 2026-08-04T20:56:51,705 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,706 directory, all directories are treated like packages. 2026-08-04T20:56:51,706 ******************************************************************************** 2026-08-04T20:56:51,707 !! 2026-08-04T20:56:51,708 check.warn(importable) 2026-08-04T20:56:51,708 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.sr_mapping' is absent from the `packages` configuration. 2026-08-04T20:56:51,709 !! 2026-08-04T20:56:51,710 ******************************************************************************** 2026-08-04T20:56:51,711 ############################ 2026-08-04T20:56:51,711 # Package would be ignored # 2026-08-04T20:56:51,712 ############################ 2026-08-04T20:56:51,712 Python recognizes 'galaxy.tools.bundled.sr_mapping' as an importable package[^1], 2026-08-04T20:56:51,713 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,714 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,714 package, please make sure that 'galaxy.tools.bundled.sr_mapping' is explicitly added 2026-08-04T20:56:51,715 to the `packages` configuration field. 2026-08-04T20:56:51,716 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,716 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,717 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,718 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,719 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,720 If you don't want 'galaxy.tools.bundled.sr_mapping' to be distributed and are 2026-08-04T20:56:51,720 already explicitly excluding 'galaxy.tools.bundled.sr_mapping' via 2026-08-04T20:56:51,721 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,721 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,722 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,723 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,723 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,725 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,725 even if it does not contain any `.py` files. 2026-08-04T20:56:51,726 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,726 directory, all directories are treated like packages. 2026-08-04T20:56:51,727 ******************************************************************************** 2026-08-04T20:56:51,728 !! 2026-08-04T20:56:51,728 check.warn(importable) 2026-08-04T20:56:51,729 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.bundled.stats' is absent from the `packages` configuration. 2026-08-04T20:56:51,729 !! 2026-08-04T20:56:51,730 ******************************************************************************** 2026-08-04T20:56:51,731 ############################ 2026-08-04T20:56:51,731 # Package would be ignored # 2026-08-04T20:56:51,732 ############################ 2026-08-04T20:56:51,732 Python recognizes 'galaxy.tools.bundled.stats' as an importable package[^1], 2026-08-04T20:56:51,733 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,733 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,734 package, please make sure that 'galaxy.tools.bundled.stats' is explicitly added 2026-08-04T20:56:51,734 to the `packages` configuration field. 2026-08-04T20:56:51,736 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,736 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,737 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,738 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,739 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,740 If you don't want 'galaxy.tools.bundled.stats' to be distributed and are 2026-08-04T20:56:51,740 already explicitly excluding 'galaxy.tools.bundled.stats' via 2026-08-04T20:56:51,740 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,741 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,742 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,743 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,744 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,745 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,746 even if it does not contain any `.py` files. 2026-08-04T20:56:51,746 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,747 directory, all directories are treated like packages. 2026-08-04T20:56:51,747 ******************************************************************************** 2026-08-04T20:56:51,748 !! 2026-08-04T20:56:51,748 check.warn(importable) 2026-08-04T20:56:51,749 /tmp/pip-build-env-cd1zr10k/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'galaxy.tools.parameters.test' is absent from the `packages` configuration. 2026-08-04T20:56:51,749 !! 2026-08-04T20:56:51,750 ******************************************************************************** 2026-08-04T20:56:51,751 ############################ 2026-08-04T20:56:51,751 # Package would be ignored # 2026-08-04T20:56:51,752 ############################ 2026-08-04T20:56:51,752 Python recognizes 'galaxy.tools.parameters.test' as an importable package[^1], 2026-08-04T20:56:51,752 but it is absent from setuptools' `packages` configuration. 2026-08-04T20:56:51,753 This leads to an ambiguous overall configuration. If you want to distribute this 2026-08-04T20:56:51,754 package, please make sure that 'galaxy.tools.parameters.test' is explicitly added 2026-08-04T20:56:51,754 to the `packages` configuration field. 2026-08-04T20:56:51,755 Alternatively, you can also rely on setuptools' discovery methods 2026-08-04T20:56:51,756 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-08-04T20:56:51,756 instead of `find_packages(...)`/`find:`). 2026-08-04T20:56:51,757 You can read more about "package discovery" on setuptools documentation page: 2026-08-04T20:56:51,758 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-08-04T20:56:51,760 If you don't want 'galaxy.tools.parameters.test' to be distributed and are 2026-08-04T20:56:51,760 already explicitly excluding 'galaxy.tools.parameters.test' via 2026-08-04T20:56:51,760 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-08-04T20:56:51,761 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-08-04T20:56:51,761 combination with a more fine grained `package-data` configuration. 2026-08-04T20:56:51,762 You can read more about "package data files" on setuptools documentation page: 2026-08-04T20:56:51,764 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-08-04T20:56:51,765 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-08-04T20:56:51,766 even if it does not contain any `.py` files. 2026-08-04T20:56:51,766 On the other hand, currently there is no concept of package data 2026-08-04T20:56:51,767 directory, all directories are treated like packages. 2026-08-04T20:56:51,767 ******************************************************************************** 2026-08-04T20:56:51,768 !! 2026-08-04T20:56:51,769 check.warn(importable) 2026-08-04T20:56:51,770 copying src/tool_shed_client/py.typed -> build/lib/tool_shed_client 2026-08-04T20:56:51,770 copying src/galaxy_ext/py.typed -> build/lib/galaxy_ext 2026-08-04T20:56:51,771 copying src/tool_shed_client/schema/gen.sh -> build/lib/tool_shed_client/schema 2026-08-04T20:56:51,771 copying src/galaxy/celery/py.typed -> build/lib/galaxy/celery 2026-08-04T20:56:51,772 copying src/galaxy/authnz/py.typed -> build/lib/galaxy/authnz 2026-08-04T20:56:51,772 copying src/galaxy/app/py.typed -> build/lib/galaxy/app 2026-08-04T20:56:51,773 copying src/galaxy/actions/py.typed -> build/lib/galaxy/actions 2026-08-04T20:56:51,774 copying src/galaxy/forms/py.typed -> build/lib/galaxy/forms 2026-08-04T20:56:51,774 copying src/galaxy/structured_app/py.typed -> build/lib/galaxy/structured_app 2026-08-04T20:56:51,775 copying src/galaxy/work/py.typed -> build/lib/galaxy/work 2026-08-04T20:56:51,775 copying src/galaxy/webhooks/py.typed -> build/lib/galaxy/webhooks 2026-08-04T20:56:51,776 copying src/galaxy/carbon_emissions/carbon_intensity.csv -> build/lib/galaxy/carbon_emissions 2026-08-04T20:56:51,776 copying src/galaxy/carbon_emissions/py.typed -> build/lib/galaxy/carbon_emissions 2026-08-04T20:56:51,776 copying src/galaxy/config_watchers/py.typed -> build/lib/galaxy/config_watchers 2026-08-04T20:56:51,777 copying src/galaxy/app_unittest_utils/fetch_workbook.csv -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:51,777 copying src/galaxy/app_unittest_utils/fetch_workbook.tsv -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:51,778 copying src/galaxy/app_unittest_utils/fetch_workbook.xlsx -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:51,779 copying src/galaxy/app_unittest_utils/fetch_workbook_list_pairs_without_ids_example.xlsx -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:51,779 copying src/galaxy/app_unittest_utils/fetch_workbook_list_without_ids_example.xlsx -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:51,779 copying src/galaxy/app_unittest_utils/fetch_workbook_paired.xlsx -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:51,780 copying src/galaxy/app_unittest_utils/fetch_workbook_paired_with_hashes.xlsx -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:51,780 copying src/galaxy/app_unittest_utils/py.typed -> build/lib/galaxy/app_unittest_utils 2026-08-04T20:56:51,781 copying src/galaxy/workflow/py.typed -> build/lib/galaxy/workflow 2026-08-04T20:56:51,782 copying src/galaxy/visualization/py.typed -> build/lib/galaxy/visualization 2026-08-04T20:56:51,782 copying src/galaxy/main_config/py.typed -> build/lib/galaxy/main_config 2026-08-04T20:56:51,783 copying src/galaxy/di/py.typed -> build/lib/galaxy/di 2026-08-04T20:56:51,783 copying src/galaxy/short_term_storage/py.typed -> build/lib/galaxy/short_term_storage 2026-08-04T20:56:51,784 copying src/galaxy/queue_worker/py.typed -> build/lib/galaxy/queue_worker 2026-08-04T20:56:51,784 copying src/galaxy/dependencies/conditional-constraints.txt -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,785 copying src/galaxy/dependencies/conditional-requirements.txt -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,785 copying src/galaxy/dependencies/dev-requirements.txt -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,786 copying src/galaxy/dependencies/lint-requirements.txt -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,786 copying src/galaxy/dependencies/pinned-lint-requirements.txt -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,787 copying src/galaxy/dependencies/pinned-requirements.txt -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,788 copying src/galaxy/dependencies/pinned-test-requirements.txt -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,788 copying src/galaxy/dependencies/pinned-typecheck-requirements.txt -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,789 copying src/galaxy/dependencies/py.typed -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,789 copying src/galaxy/dependencies/update.sh -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,790 copying src/galaxy/dependencies/update_lint_requirements.sh -> build/lib/galaxy/dependencies 2026-08-04T20:56:51,790 copying src/galaxy/tools/apply_rules.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,791 copying src/galaxy/tools/build_list.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,791 copying src/galaxy/tools/build_list_1.2.0.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,792 copying src/galaxy/tools/convert_sample_sheet.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,793 copying src/galaxy/tools/cross_product_flat.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,793 copying src/galaxy/tools/cross_product_nested.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,794 copying src/galaxy/tools/data_fetch.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,794 copying src/galaxy/tools/duplicate_file_to_collection.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,795 copying src/galaxy/tools/extract_dataset.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,795 copying src/galaxy/tools/filter_empty_collection.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,796 copying src/galaxy/tools/filter_empty_collection_1.1.0.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,796 copying src/galaxy/tools/filter_failed_collection.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,796 copying src/galaxy/tools/filter_failed_collection_1.1.0.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,797 copying src/galaxy/tools/filter_from_file.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,797 copying src/galaxy/tools/filter_from_file_1.1.0.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,798 copying src/galaxy/tools/filter_null.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,798 copying src/galaxy/tools/filter_null_1.1.0.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,799 copying src/galaxy/tools/flatten_collection.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,799 copying src/galaxy/tools/harmonize_two_collections_list.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,800 copying src/galaxy/tools/harmonize_two_collections_list_1.0.0.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,800 copying src/galaxy/tools/keep_success_collection.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,801 copying src/galaxy/tools/keep_success_collection_1.1.0.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,801 copying src/galaxy/tools/merge_collection.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,802 copying src/galaxy/tools/model_operation_macros.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,802 copying src/galaxy/tools/nest_collection.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,803 copying src/galaxy/tools/py.typed -> build/lib/galaxy/tools 2026-08-04T20:56:51,803 copying src/galaxy/tools/relabel_from_file.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,804 copying src/galaxy/tools/sample_sheet_to_tabular.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,804 copying src/galaxy/tools/sort_collection_list.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,805 copying src/galaxy/tools/split_paired_and_unpaired.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,805 copying src/galaxy/tools/tag_collection_from_file.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,806 copying src/galaxy/tools/unzip_collection.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,806 copying src/galaxy/tools/zip_collection.xml -> build/lib/galaxy/tools 2026-08-04T20:56:51,807 creating build/lib/galaxy/tools/bundled 2026-08-04T20:56:51,807 copying src/galaxy/tools/bundled/__init__.py -> build/lib/galaxy/tools/bundled 2026-08-04T20:56:51,808 creating build/lib/galaxy/tools/bundled/data_export 2026-08-04T20:56:51,808 copying src/galaxy/tools/bundled/data_export/export_remote.py -> build/lib/galaxy/tools/bundled/data_export 2026-08-04T20:56:51,809 copying src/galaxy/tools/bundled/data_export/export_remote.xml -> build/lib/galaxy/tools/bundled/data_export 2026-08-04T20:56:51,809 creating build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,810 copying src/galaxy/tools/bundled/data_source/__init__.py -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,811 copying src/galaxy/tools/bundled/data_source/access_libraries.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,811 copying src/galaxy/tools/bundled/data_source/biomart.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,812 copying src/galaxy/tools/bundled/data_source/biomart_test.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,812 copying src/galaxy/tools/bundled/data_source/cbi_rice_mart.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,813 copying src/galaxy/tools/bundled/data_source/data_source.py -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,814 copying src/galaxy/tools/bundled/data_source/diced.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,814 copying src/galaxy/tools/bundled/data_source/ebi_sra.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,815 copying src/galaxy/tools/bundled/data_source/eupathdb.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,815 copying src/galaxy/tools/bundled/data_source/fly_modencode.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,815 copying src/galaxy/tools/bundled/data_source/flymine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,816 copying src/galaxy/tools/bundled/data_source/flymine_test.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,816 copying src/galaxy/tools/bundled/data_source/genbank.py -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,817 copying src/galaxy/tools/bundled/data_source/genbank.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,817 copying src/galaxy/tools/bundled/data_source/gramene_mart.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,818 copying src/galaxy/tools/bundled/data_source/hapmapmart.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,818 copying src/galaxy/tools/bundled/data_source/hbvar.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,819 copying src/galaxy/tools/bundled/data_source/import.py -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,819 copying src/galaxy/tools/bundled/data_source/import.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,819 copying src/galaxy/tools/bundled/data_source/intermine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,820 copying src/galaxy/tools/bundled/data_source/metabolicmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,821 copying src/galaxy/tools/bundled/data_source/microbial_import.py -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,821 copying src/galaxy/tools/bundled/data_source/microbial_import.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,822 copying src/galaxy/tools/bundled/data_source/microbial_import_code.py -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,822 copying src/galaxy/tools/bundled/data_source/modmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,823 copying src/galaxy/tools/bundled/data_source/mousemine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,823 copying src/galaxy/tools/bundled/data_source/ncbi_datasets.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,824 copying src/galaxy/tools/bundled/data_source/ratmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,824 copying src/galaxy/tools/bundled/data_source/sra.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,825 copying src/galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,825 copying src/galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,826 copying src/galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,826 copying src/galaxy/tools/bundled/data_source/upload.py -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,827 copying src/galaxy/tools/bundled/data_source/upload.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,827 copying src/galaxy/tools/bundled/data_source/worm_modencode.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,828 copying src/galaxy/tools/bundled/data_source/wormbase.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,829 copying src/galaxy/tools/bundled/data_source/wormbase_test.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,829 copying src/galaxy/tools/bundled/data_source/yeastmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,830 copying src/galaxy/tools/bundled/data_source/zebrafishmine.xml -> build/lib/galaxy/tools/bundled/data_source 2026-08-04T20:56:51,830 creating build/lib/galaxy/tools/bundled/expression_tools 2026-08-04T20:56:51,830 copying src/galaxy/tools/bundled/expression_tools/expression_macros.xml -> build/lib/galaxy/tools/bundled/expression_tools 2026-08-04T20:56:51,831 copying src/galaxy/tools/bundled/expression_tools/parse_values_from_file.xml -> build/lib/galaxy/tools/bundled/expression_tools 2026-08-04T20:56:51,831 copying src/galaxy/tools/bundled/expression_tools/pick_value.xml -> build/lib/galaxy/tools/bundled/expression_tools 2026-08-04T20:56:51,832 creating build/lib/galaxy/tools/bundled/extract 2026-08-04T20:56:51,832 copying src/galaxy/tools/bundled/extract/__init__.py -> build/lib/galaxy/tools/bundled/extract 2026-08-04T20:56:51,833 copying src/galaxy/tools/bundled/extract/extract_genomic_dna.py -> build/lib/galaxy/tools/bundled/extract 2026-08-04T20:56:51,833 copying src/galaxy/tools/bundled/extract/extract_genomic_dna.xml -> build/lib/galaxy/tools/bundled/extract 2026-08-04T20:56:51,834 copying src/galaxy/tools/bundled/extract/liftOver_wrapper.py -> build/lib/galaxy/tools/bundled/extract 2026-08-04T20:56:51,834 copying src/galaxy/tools/bundled/extract/liftOver_wrapper.xml -> build/lib/galaxy/tools/bundled/extract 2026-08-04T20:56:51,835 creating build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,835 copying src/galaxy/tools/bundled/filters/CreateInterval.pl -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,836 copying src/galaxy/tools/bundled/filters/CreateInterval.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,836 copying src/galaxy/tools/bundled/filters/__init__.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,837 copying src/galaxy/tools/bundled/filters/axt_to_concat_fasta.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,837 copying src/galaxy/tools/bundled/filters/axt_to_concat_fasta.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,838 copying src/galaxy/tools/bundled/filters/axt_to_fasta.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,838 copying src/galaxy/tools/bundled/filters/axt_to_fasta.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,839 copying src/galaxy/tools/bundled/filters/axt_to_lav.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,839 copying src/galaxy/tools/bundled/filters/axt_to_lav.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,840 copying src/galaxy/tools/bundled/filters/axt_to_lav_code.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,840 copying src/galaxy/tools/bundled/filters/bed2gff.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,841 copying src/galaxy/tools/bundled/filters/bed_to_bigbed.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,842 copying src/galaxy/tools/bundled/filters/bed_to_gff_converter.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,842 copying src/galaxy/tools/bundled/filters/catWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,843 copying src/galaxy/tools/bundled/filters/changeCase.pl -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,843 copying src/galaxy/tools/bundled/filters/changeCase.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,844 copying src/galaxy/tools/bundled/filters/commWrapper.pl -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,845 copying src/galaxy/tools/bundled/filters/commWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,845 copying src/galaxy/tools/bundled/filters/compare.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,846 copying src/galaxy/tools/bundled/filters/condense_characters.pl -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,846 copying src/galaxy/tools/bundled/filters/condense_characters.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,847 copying src/galaxy/tools/bundled/filters/convert_characters.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,849 copying src/galaxy/tools/bundled/filters/convert_characters.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,851 copying src/galaxy/tools/bundled/filters/cutWrapper.pl -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,853 copying src/galaxy/tools/bundled/filters/cutWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,856 copying src/galaxy/tools/bundled/filters/fileGrep.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,858 copying src/galaxy/tools/bundled/filters/fixedValueColumn.pl -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,860 copying src/galaxy/tools/bundled/filters/fixedValueColumn.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,862 copying src/galaxy/tools/bundled/filters/gff2bed.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,865 copying src/galaxy/tools/bundled/filters/gff_to_bed_converter.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,867 copying src/galaxy/tools/bundled/filters/grep.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,870 copying src/galaxy/tools/bundled/filters/grep_1.0.1.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,872 copying src/galaxy/tools/bundled/filters/gtf2bedgraph.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,875 copying src/galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,877 copying src/galaxy/tools/bundled/filters/headWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,879 copying src/galaxy/tools/bundled/filters/join.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,882 copying src/galaxy/tools/bundled/filters/joiner.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,885 copying src/galaxy/tools/bundled/filters/joiner2.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,887 copying src/galaxy/tools/bundled/filters/lav_to_bed.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,889 copying src/galaxy/tools/bundled/filters/lav_to_bed.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,891 copying src/galaxy/tools/bundled/filters/lav_to_bed_code.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,894 copying src/galaxy/tools/bundled/filters/mergeCols.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,896 copying src/galaxy/tools/bundled/filters/mergeCols.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,898 copying src/galaxy/tools/bundled/filters/pasteWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,900 copying src/galaxy/tools/bundled/filters/random_lines_two_pass.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,903 copying src/galaxy/tools/bundled/filters/randomlines.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,905 copying src/galaxy/tools/bundled/filters/randomlines.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,907 copying src/galaxy/tools/bundled/filters/remove_beginning.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,910 copying src/galaxy/tools/bundled/filters/secure_hash_message_digest.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,912 copying src/galaxy/tools/bundled/filters/secure_hash_message_digest.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,914 copying src/galaxy/tools/bundled/filters/sff_extract.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,917 copying src/galaxy/tools/bundled/filters/sff_extractor.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,920 copying src/galaxy/tools/bundled/filters/sorter.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,923 copying src/galaxy/tools/bundled/filters/tailWrapper.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,925 copying src/galaxy/tools/bundled/filters/trimmer.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,928 copying src/galaxy/tools/bundled/filters/trimmer.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,931 copying src/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,934 copying src/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,936 copying src/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,939 copying src/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,942 copying src/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,945 copying src/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,947 copying src/galaxy/tools/bundled/filters/uniq.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,950 copying src/galaxy/tools/bundled/filters/uniq.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,952 copying src/galaxy/tools/bundled/filters/wc_gnu.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,955 copying src/galaxy/tools/bundled/filters/wig_to_bigwig.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,957 copying src/galaxy/tools/bundled/filters/wiggle_to_simple.py -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,960 copying src/galaxy/tools/bundled/filters/wiggle_to_simple.xml -> build/lib/galaxy/tools/bundled/filters 2026-08-04T20:56:51,963 creating build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,964 copying src/galaxy/tools/bundled/filters/gff/__init__.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,966 copying src/galaxy/tools/bundled/filters/gff/extract_GFF_Features.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,969 copying src/galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml -> build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,972 copying src/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,975 copying src/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml -> build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,977 copying src/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,980 copying src/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml -> build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,983 copying src/galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py -> build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,986 copying src/galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml -> build/lib/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:51,989 creating build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:51,990 copying src/galaxy/tools/bundled/interactive/Rprofile.R -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:51,993 copying src/galaxy/tools/bundled/interactive/askomics.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:51,996 copying src/galaxy/tools/bundled/interactive/bam.iobio.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:51,999 copying src/galaxy/tools/bundled/interactive/bioconductor.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,002 copying src/galaxy/tools/bundled/interactive/blobtoolkit.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,005 copying src/galaxy/tools/bundled/interactive/cellxgene.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,008 copying src/galaxy/tools/bundled/interactive/default_notebook.ipynb -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,011 copying src/galaxy/tools/bundled/interactive/ethercalc.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,013 copying src/galaxy/tools/bundled/interactive/hic.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,016 copying src/galaxy/tools/bundled/interactive/higlass.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,019 copying src/galaxy/tools/bundled/interactive/interactivetool_askomics.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,022 copying src/galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,024 copying src/galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,027 copying src/galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,030 copying src/galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,032 copying src/galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,035 copying src/galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,038 copying src/galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,040 copying src/galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,043 copying src/galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,046 copying src/galaxy/tools/bundled/interactive/interactivetool_higlass.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,049 copying src/galaxy/tools/bundled/interactive/interactivetool_ilastik.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,052 copying src/galaxy/tools/bundled/interactive/interactivetool_isee.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,055 copying src/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,058 copying src/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,062 copying src/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,065 copying src/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.3.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,068 copying src/galaxy/tools/bundled/interactive/interactivetool_metashark.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,071 copying src/galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,074 copying src/galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,077 copying src/galaxy/tools/bundled/interactive/interactivetool_neo4j.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,080 copying src/galaxy/tools/bundled/interactive/interactivetool_openrefine.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,083 copying src/galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,086 copying src/galaxy/tools/bundled/interactive/interactivetool_panoply.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,088 copying src/galaxy/tools/bundled/interactive/interactivetool_paraview.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,091 copying src/galaxy/tools/bundled/interactive/interactivetool_pavian.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,093 copying src/galaxy/tools/bundled/interactive/interactivetool_phinch.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,096 copying src/galaxy/tools/bundled/interactive/interactivetool_pyiron.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,099 copying src/galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,102 copying src/galaxy/tools/bundled/interactive/interactivetool_radiant.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,104 copying src/galaxy/tools/bundled/interactive/interactivetool_rstudio.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,107 copying src/galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,109 copying src/galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,112 copying src/galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,114 copying src/galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,116 copying src/galaxy/tools/bundled/interactive/interactivetool_wallace.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,118 copying src/galaxy/tools/bundled/interactive/interactivetool_wilson.xml -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,120 copying src/galaxy/tools/bundled/interactive/jupyter_logo.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,124 copying src/galaxy/tools/bundled/interactive/metashark.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,126 copying src/galaxy/tools/bundled/interactive/neo4j.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,129 copying src/galaxy/tools/bundled/interactive/openrefine.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,131 copying src/galaxy/tools/bundled/interactive/panoply.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,134 copying src/galaxy/tools/bundled/interactive/pavian.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,137 copying src/galaxy/tools/bundled/interactive/phinch.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,139 copying src/galaxy/tools/bundled/interactive/qiskit.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,142 copying src/galaxy/tools/bundled/interactive/simtext_app.R -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,145 copying src/galaxy/tools/bundled/interactive/ubuntu.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,147 copying src/galaxy/tools/bundled/interactive/wallace.png -> build/lib/galaxy/tools/bundled/interactive 2026-08-04T20:56:52,150 creating build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,151 copying src/galaxy/tools/bundled/maf/__init__.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,153 copying src/galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,156 copying src/galaxy/tools/bundled/maf/interval2maf.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,159 copying src/galaxy/tools/bundled/maf/interval2maf.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,162 copying src/galaxy/tools/bundled/maf/interval2maf_pairwise.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,164 copying src/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,166 copying src/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,169 copying src/galaxy/tools/bundled/maf/macros.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,171 copying src/galaxy/tools/bundled/maf/maf_by_block_number.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,173 copying src/galaxy/tools/bundled/maf/maf_by_block_number.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,175 copying src/galaxy/tools/bundled/maf/maf_filter.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,178 copying src/galaxy/tools/bundled/maf/maf_filter.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,180 copying src/galaxy/tools/bundled/maf/maf_limit_size.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,182 copying src/galaxy/tools/bundled/maf/maf_limit_size.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,184 copying src/galaxy/tools/bundled/maf/maf_limit_to_species.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,186 copying src/galaxy/tools/bundled/maf/maf_limit_to_species.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,189 copying src/galaxy/tools/bundled/maf/maf_reverse_complement.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,191 copying src/galaxy/tools/bundled/maf/maf_reverse_complement.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,193 copying src/galaxy/tools/bundled/maf/maf_split_by_species.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,195 copying src/galaxy/tools/bundled/maf/maf_split_by_species.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,198 copying src/galaxy/tools/bundled/maf/maf_stats.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,201 copying src/galaxy/tools/bundled/maf/maf_stats.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,203 copying src/galaxy/tools/bundled/maf/maf_thread_for_species.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,205 copying src/galaxy/tools/bundled/maf/maf_thread_for_species.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,208 copying src/galaxy/tools/bundled/maf/maf_to_bed.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,210 copying src/galaxy/tools/bundled/maf/maf_to_bed.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,213 copying src/galaxy/tools/bundled/maf/maf_to_bed_code.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,215 copying src/galaxy/tools/bundled/maf/maf_to_fasta.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,218 copying src/galaxy/tools/bundled/maf/maf_to_fasta_concat.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,220 copying src/galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,222 copying src/galaxy/tools/bundled/maf/maf_to_interval.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,225 copying src/galaxy/tools/bundled/maf/maf_to_interval.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,228 copying src/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,230 copying src/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml -> build/lib/galaxy/tools/bundled/maf 2026-08-04T20:56:52,233 creating build/lib/galaxy/tools/bundled/meme 2026-08-04T20:56:52,234 copying src/galaxy/tools/bundled/meme/meme.xml -> build/lib/galaxy/tools/bundled/meme 2026-08-04T20:56:52,237 creating build/lib/galaxy/tools/bundled/metag_tools 2026-08-04T20:56:52,239 copying src/galaxy/tools/bundled/metag_tools/__init__.py -> build/lib/galaxy/tools/bundled/metag_tools 2026-08-04T20:56:52,241 copying src/galaxy/tools/bundled/metag_tools/blat_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2026-08-04T20:56:52,243 copying src/galaxy/tools/bundled/metag_tools/blat_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2026-08-04T20:56:52,245 copying src/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2026-08-04T20:56:52,248 copying src/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2026-08-04T20:56:52,250 copying src/galaxy/tools/bundled/metag_tools/shrimp_wrapper.py -> build/lib/galaxy/tools/bundled/metag_tools 2026-08-04T20:56:52,253 copying src/galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml -> build/lib/galaxy/tools/bundled/metag_tools 2026-08-04T20:56:52,256 creating build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,257 copying src/galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,260 copying src/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,262 copying src/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,264 copying src/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,266 copying src/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,269 copying src/galaxy/tools/bundled/next_gen_conversion/solid2fastq.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,272 copying src/galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,274 copying src/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,277 copying src/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml -> build/lib/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:52,279 creating build/lib/galaxy/tools/bundled/ngs_simulation 2026-08-04T20:56:52,280 copying src/galaxy/tools/bundled/ngs_simulation/__init__.py -> build/lib/galaxy/tools/bundled/ngs_simulation 2026-08-04T20:56:52,282 copying src/galaxy/tools/bundled/ngs_simulation/ngs_simulation.py -> build/lib/galaxy/tools/bundled/ngs_simulation 2026-08-04T20:56:52,285 copying src/galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml -> build/lib/galaxy/tools/bundled/ngs_simulation 2026-08-04T20:56:52,288 creating build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,289 copying src/galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,291 copying src/galaxy/tools/bundled/phenotype_association/__init__.py -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,293 copying src/galaxy/tools/bundled/phenotype_association/beam.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,296 copying src/galaxy/tools/bundled/phenotype_association/gpass.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,298 copying src/galaxy/tools/bundled/phenotype_association/gpass.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,300 copying src/galaxy/tools/bundled/phenotype_association/ldtools.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,303 copying src/galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,305 copying src/galaxy/tools/bundled/phenotype_association/linkToDavid.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,307 copying src/galaxy/tools/bundled/phenotype_association/linkToDavid.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,310 copying src/galaxy/tools/bundled/phenotype_association/linkToGProfile.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,312 copying src/galaxy/tools/bundled/phenotype_association/linkToGProfile.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,314 copying src/galaxy/tools/bundled/phenotype_association/lped_to_geno.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,317 copying src/galaxy/tools/bundled/phenotype_association/lps.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,319 copying src/galaxy/tools/bundled/phenotype_association/lps_tool_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,322 copying src/galaxy/tools/bundled/phenotype_association/master2gd_snp.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,325 copying src/galaxy/tools/bundled/phenotype_association/master2gd_snp.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,327 copying src/galaxy/tools/bundled/phenotype_association/master2pg.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,330 copying src/galaxy/tools/bundled/phenotype_association/master2pg.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,332 copying src/galaxy/tools/bundled/phenotype_association/mergeSnps.pl -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,334 copying src/galaxy/tools/bundled/phenotype_association/pagetag.py -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,337 copying src/galaxy/tools/bundled/phenotype_association/pass.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,340 copying src/galaxy/tools/bundled/phenotype_association/pass_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,342 copying src/galaxy/tools/bundled/phenotype_association/senatag.py -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,345 copying src/galaxy/tools/bundled/phenotype_association/sift.xml -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,348 copying src/galaxy/tools/bundled/phenotype_association/sift_variants_wrapper.sh -> build/lib/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:52,350 creating build/lib/galaxy/tools/bundled/plotting 2026-08-04T20:56:52,351 copying src/galaxy/tools/bundled/plotting/bar_chart.py -> build/lib/galaxy/tools/bundled/plotting 2026-08-04T20:56:52,354 copying src/galaxy/tools/bundled/plotting/bar_chart.xml -> build/lib/galaxy/tools/bundled/plotting 2026-08-04T20:56:52,356 copying src/galaxy/tools/bundled/plotting/boxplot.xml -> build/lib/galaxy/tools/bundled/plotting 2026-08-04T20:56:52,359 creating build/lib/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:52,360 copying src/galaxy/tools/bundled/solid_tools/__init__.py -> build/lib/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:52,362 copying src/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py -> build/lib/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:52,365 copying src/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml -> build/lib/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:52,368 copying src/galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py -> build/lib/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:52,370 copying src/galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh -> build/lib/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:52,372 copying src/galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml -> build/lib/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:52,375 copying src/galaxy/tools/bundled/solid_tools/solid_qual_stats.py -> build/lib/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:52,377 copying src/galaxy/tools/bundled/solid_tools/solid_qual_stats.xml -> build/lib/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:52,379 creating build/lib/galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:52,380 copying src/galaxy/tools/bundled/sr_assembly/__init__.py -> build/lib/galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:52,382 copying src/galaxy/tools/bundled/sr_assembly/velvetg.xml -> build/lib/galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:52,385 copying src/galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py -> build/lib/galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:52,387 copying src/galaxy/tools/bundled/sr_assembly/velveth.xml -> build/lib/galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:52,389 copying src/galaxy/tools/bundled/sr_assembly/velveth_wrapper.py -> build/lib/galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:52,392 creating build/lib/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:52,393 copying src/galaxy/tools/bundled/sr_mapping/PerM.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:52,396 copying src/galaxy/tools/bundled/sr_mapping/__init__.py -> build/lib/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:52,398 copying src/galaxy/tools/bundled/sr_mapping/bfast_wrapper.py -> build/lib/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:52,401 copying src/galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:52,404 copying src/galaxy/tools/bundled/sr_mapping/fastq_statistics.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:52,407 copying src/galaxy/tools/bundled/sr_mapping/mosaik.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:52,409 copying src/galaxy/tools/bundled/sr_mapping/srma_wrapper.py -> build/lib/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:52,411 copying src/galaxy/tools/bundled/sr_mapping/srma_wrapper.xml -> build/lib/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:52,414 creating build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,415 copying src/galaxy/tools/bundled/stats/__init__.py -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,417 copying src/galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,420 copying src/galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,422 copying src/galaxy/tools/bundled/stats/filtering.py -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,425 copying src/galaxy/tools/bundled/stats/filtering.xml -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,427 copying src/galaxy/tools/bundled/stats/filtering_1_1_0.xml -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,430 copying src/galaxy/tools/bundled/stats/grouping.py -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,433 copying src/galaxy/tools/bundled/stats/grouping.xml -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,436 copying src/galaxy/tools/bundled/stats/gsummary.py -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,439 copying src/galaxy/tools/bundled/stats/gsummary.xml -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,441 copying src/galaxy/tools/bundled/stats/gsummary.xml.groups -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,443 copying src/galaxy/tools/bundled/stats/r_wrapper.sh -> build/lib/galaxy/tools/bundled/stats 2026-08-04T20:56:52,445 copying src/galaxy/agents/py.typed -> build/lib/galaxy/agents 2026-08-04T20:56:52,447 copying src/galaxy/queues/py.typed -> build/lib/galaxy/queues 2026-08-04T20:56:52,449 copying src/galaxy/tool_shed/py.typed -> build/lib/galaxy/tool_shed 2026-08-04T20:56:52,452 copying src/galaxy/jobs/py.typed -> build/lib/galaxy/jobs 2026-08-04T20:56:52,454 copying src/galaxy/managers/licenses.json -> build/lib/galaxy/managers 2026-08-04T20:56:52,459 copying src/galaxy/managers/markdown_export_base.css -> build/lib/galaxy/managers 2026-08-04T20:56:52,461 copying src/galaxy/managers/py.typed -> build/lib/galaxy/managers 2026-08-04T20:56:52,463 copying src/galaxy/main/py.typed -> build/lib/galaxy/main 2026-08-04T20:56:52,465 creating build/lib/galaxy/authnz/xsd 2026-08-04T20:56:52,466 copying src/galaxy/authnz/xsd/oidc_backends_config.xsd -> build/lib/galaxy/authnz/xsd 2026-08-04T20:56:52,469 copying src/galaxy/workflow/resources/example.py.sample -> build/lib/galaxy/workflow/resources 2026-08-04T20:56:52,471 copying src/galaxy/tools/imp_exp/exp_history_to_archive.xml -> build/lib/galaxy/tools/imp_exp 2026-08-04T20:56:52,473 copying src/galaxy/tools/imp_exp/exp_history_to_uri.xml -> build/lib/galaxy/tools/imp_exp 2026-08-04T20:56:52,475 copying src/galaxy/tools/imp_exp/imp_history_from_archive.xml -> build/lib/galaxy/tools/imp_exp 2026-08-04T20:56:52,477 creating build/lib/galaxy/tools/parameters/test 2026-08-04T20:56:52,478 copying src/galaxy/tools/parameters/test/1.bed -> build/lib/galaxy/tools/parameters/test 2026-08-04T20:56:52,481 copying src/galaxy/tools/parameters/test/1.tabular -> build/lib/galaxy/tools/parameters/test 2026-08-04T20:56:52,483 copying src/galaxy/tools/parameters/test/empty.txt -> build/lib/galaxy/tools/parameters/test 2026-08-04T20:56:52,485 copying src/galaxy/tools/expressions/cwlNodeEngine.js -> build/lib/galaxy/tools/expressions 2026-08-04T20:56:52,487 creating build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,488 copying src/galaxy/agents/prompts/custom_tool_container_critic.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,490 copying src/galaxy/agents/prompts/custom_tool_critic.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,493 copying src/galaxy/agents/prompts/custom_tool_structured.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,495 copying src/galaxy/agents/prompts/error_analysis.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,497 copying src/galaxy/agents/prompts/gtn_training.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,500 copying src/galaxy/agents/prompts/history_analyzer.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,502 copying src/galaxy/agents/prompts/orchestrator.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,504 copying src/galaxy/agents/prompts/page_assistant.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,507 copying src/galaxy/agents/prompts/router.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,510 copying src/galaxy/agents/prompts/tool_recommendation.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,512 copying src/galaxy/agents/prompts/workflow_report.md -> build/lib/galaxy/agents/prompts 2026-08-04T20:56:52,515 copying src/galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh -> build/lib/galaxy/jobs/runners/util/job_script 2026-08-04T20:56:52,517 copying src/galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh -> build/lib/galaxy/jobs/runners/util/job_script 2026-08-04T20:56:52,519 copying src/galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh -> build/lib/galaxy/jobs/runners/util/job_script 2026-08-04T20:56:52,522 copying src/galaxy/jobs/runners/util/gcp_batch/container_script.sh -> build/lib/galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:52,525 copying src/galaxy/jobs/runners/util/gcp_batch/direct_script.sh -> build/lib/galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:52,576 installing to build/bdist.linux-armv7l/wheel 2026-08-04T20:56:52,577 running install 2026-08-04T20:56:52,599 running install_lib 2026-08-04T20:56:52,606 creating build/bdist.linux-armv7l/wheel 2026-08-04T20:56:52,609 creating build/bdist.linux-armv7l/wheel/tool_shed_client 2026-08-04T20:56:52,610 copying build/lib/tool_shed_client/trs_util.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2026-08-04T20:56:52,612 creating build/bdist.linux-armv7l/wheel/tool_shed_client/schema 2026-08-04T20:56:52,613 copying build/lib/tool_shed_client/schema/trs_service_info.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2026-08-04T20:56:52,616 copying build/lib/tool_shed_client/schema/trs.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2026-08-04T20:56:52,618 copying build/lib/tool_shed_client/schema/gen.sh -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2026-08-04T20:56:52,620 copying build/lib/tool_shed_client/schema/__init__.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client/schema 2026-08-04T20:56:52,622 copying build/lib/tool_shed_client/__init__.py -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2026-08-04T20:56:52,624 copying build/lib/tool_shed_client/py.typed -> build/bdist.linux-armv7l/wheel/./tool_shed_client 2026-08-04T20:56:52,626 creating build/bdist.linux-armv7l/wheel/galaxy_ext 2026-08-04T20:56:52,628 creating build/bdist.linux-armv7l/wheel/galaxy_ext/container_monitor 2026-08-04T20:56:52,629 copying build/lib/galaxy_ext/container_monitor/monitor.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/container_monitor 2026-08-04T20:56:52,631 copying build/lib/galaxy_ext/container_monitor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/container_monitor 2026-08-04T20:56:52,633 creating build/bdist.linux-armv7l/wheel/galaxy_ext/expressions 2026-08-04T20:56:52,634 copying build/lib/galaxy_ext/expressions/handle_job.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/expressions 2026-08-04T20:56:52,636 copying build/lib/galaxy_ext/expressions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/expressions 2026-08-04T20:56:52,637 copying build/lib/galaxy_ext/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext 2026-08-04T20:56:52,640 creating build/bdist.linux-armv7l/wheel/galaxy_ext/metadata 2026-08-04T20:56:52,641 copying build/lib/galaxy_ext/metadata/set_metadata.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/metadata 2026-08-04T20:56:52,643 copying build/lib/galaxy_ext/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy_ext/metadata 2026-08-04T20:56:52,645 copying build/lib/galaxy_ext/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy_ext 2026-08-04T20:56:52,647 creating build/bdist.linux-armv7l/wheel/galaxy 2026-08-04T20:56:52,649 creating build/bdist.linux-armv7l/wheel/galaxy/celery 2026-08-04T20:56:52,650 copying build/lib/galaxy/celery/helpers.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-08-04T20:56:52,652 copying build/lib/galaxy/celery/_serialization.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-08-04T20:56:52,654 copying build/lib/galaxy/celery/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-08-04T20:56:52,657 copying build/lib/galaxy/celery/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-08-04T20:56:52,659 copying build/lib/galaxy/celery/base_task.py -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-08-04T20:56:52,661 copying build/lib/galaxy/celery/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/celery 2026-08-04T20:56:52,663 creating build/bdist.linux-armv7l/wheel/galaxy/authnz 2026-08-04T20:56:52,664 copying build/lib/galaxy/authnz/keycloak.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,667 creating build/bdist.linux-armv7l/wheel/galaxy/authnz/xsd 2026-08-04T20:56:52,668 copying build/lib/galaxy/authnz/xsd/oidc_backends_config.xsd -> build/bdist.linux-armv7l/wheel/./galaxy/authnz/xsd 2026-08-04T20:56:52,671 copying build/lib/galaxy/authnz/cilogon.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,673 copying build/lib/galaxy/authnz/managers.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,675 copying build/lib/galaxy/authnz/auth0.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,677 copying build/lib/galaxy/authnz/util.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,679 copying build/lib/galaxy/authnz/psa_authnz.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,682 copying build/lib/galaxy/authnz/oidc.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,684 copying build/lib/galaxy/authnz/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,686 copying build/lib/galaxy/authnz/oidc_utils.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,688 copying build/lib/galaxy/authnz/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,690 copying build/lib/galaxy/authnz/tapis.py -> build/bdist.linux-armv7l/wheel/./galaxy/authnz 2026-08-04T20:56:52,692 creating build/bdist.linux-armv7l/wheel/galaxy/app 2026-08-04T20:56:52,693 copying build/lib/galaxy/app/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/app 2026-08-04T20:56:52,696 copying build/lib/galaxy/app/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/app 2026-08-04T20:56:52,698 creating build/bdist.linux-armv7l/wheel/galaxy/actions 2026-08-04T20:56:52,699 copying build/lib/galaxy/actions/library.py -> build/bdist.linux-armv7l/wheel/./galaxy/actions 2026-08-04T20:56:52,702 copying build/lib/galaxy/actions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/actions 2026-08-04T20:56:52,703 copying build/lib/galaxy/actions/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/actions 2026-08-04T20:56:52,705 creating build/bdist.linux-armv7l/wheel/galaxy/forms 2026-08-04T20:56:52,706 copying build/lib/galaxy/forms/forms.py -> build/bdist.linux-armv7l/wheel/./galaxy/forms 2026-08-04T20:56:52,708 copying build/lib/galaxy/forms/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/forms 2026-08-04T20:56:52,710 copying build/lib/galaxy/forms/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/forms 2026-08-04T20:56:52,712 creating build/bdist.linux-armv7l/wheel/galaxy/structured_app 2026-08-04T20:56:52,713 copying build/lib/galaxy/structured_app/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/structured_app 2026-08-04T20:56:52,715 copying build/lib/galaxy/structured_app/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/structured_app 2026-08-04T20:56:52,717 creating build/bdist.linux-armv7l/wheel/galaxy/work 2026-08-04T20:56:52,718 copying build/lib/galaxy/work/context.py -> build/bdist.linux-armv7l/wheel/./galaxy/work 2026-08-04T20:56:52,721 copying build/lib/galaxy/work/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/work 2026-08-04T20:56:52,722 copying build/lib/galaxy/work/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/work 2026-08-04T20:56:52,724 creating build/bdist.linux-armv7l/wheel/galaxy/webhooks 2026-08-04T20:56:52,725 copying build/lib/galaxy/webhooks/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/webhooks 2026-08-04T20:56:52,728 copying build/lib/galaxy/webhooks/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/webhooks 2026-08-04T20:56:52,730 creating build/bdist.linux-armv7l/wheel/galaxy/carbon_emissions 2026-08-04T20:56:52,731 copying build/lib/galaxy/carbon_emissions/carbon_intensity.csv -> build/bdist.linux-armv7l/wheel/./galaxy/carbon_emissions 2026-08-04T20:56:52,734 copying build/lib/galaxy/carbon_emissions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/carbon_emissions 2026-08-04T20:56:52,735 copying build/lib/galaxy/carbon_emissions/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/carbon_emissions 2026-08-04T20:56:52,738 creating build/bdist.linux-armv7l/wheel/galaxy/config_watchers 2026-08-04T20:56:52,739 copying build/lib/galaxy/config_watchers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/config_watchers 2026-08-04T20:56:52,741 copying build/lib/galaxy/config_watchers/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/config_watchers 2026-08-04T20:56:52,744 creating build/bdist.linux-armv7l/wheel/galaxy/app_unittest_utils 2026-08-04T20:56:52,745 copying build/lib/galaxy/app_unittest_utils/fetch_workbook.csv -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,747 copying build/lib/galaxy/app_unittest_utils/galaxy_mock.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,749 copying build/lib/galaxy/app_unittest_utils/toolbox_support.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,752 copying build/lib/galaxy/app_unittest_utils/fetch_workbook.xlsx -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,754 copying build/lib/galaxy/app_unittest_utils/fetch_workbook_list_pairs_without_ids_example.xlsx -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,756 copying build/lib/galaxy/app_unittest_utils/tools_support.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,758 copying build/lib/galaxy/app_unittest_utils/fetch_workbook_paired.xlsx -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,760 copying build/lib/galaxy/app_unittest_utils/fetch_workbook_paired_with_hashes.xlsx -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,762 copying build/lib/galaxy/app_unittest_utils/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,764 copying build/lib/galaxy/app_unittest_utils/fetch_workbook_list_without_ids_example.xlsx -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,766 copying build/lib/galaxy/app_unittest_utils/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,767 copying build/lib/galaxy/app_unittest_utils/fetch_workbook.tsv -> build/bdist.linux-armv7l/wheel/./galaxy/app_unittest_utils 2026-08-04T20:56:52,769 creating build/bdist.linux-armv7l/wheel/galaxy/workflow 2026-08-04T20:56:52,771 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/resources 2026-08-04T20:56:52,772 copying build/lib/galaxy/workflow/resources/example.py.sample -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/resources 2026-08-04T20:56:52,774 copying build/lib/galaxy/workflow/resources/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/resources 2026-08-04T20:56:52,776 copying build/lib/galaxy/workflow/trs_proxy.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,779 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/reports 2026-08-04T20:56:52,780 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/reports/generators 2026-08-04T20:56:52,781 copying build/lib/galaxy/workflow/reports/generators/markdown.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports/generators 2026-08-04T20:56:52,783 copying build/lib/galaxy/workflow/reports/generators/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports/generators 2026-08-04T20:56:52,785 copying build/lib/galaxy/workflow/reports/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/reports 2026-08-04T20:56:52,787 copying build/lib/galaxy/workflow/completion_monitor.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,789 copying build/lib/galaxy/workflow/modules.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,794 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/schedulers 2026-08-04T20:56:52,795 copying build/lib/galaxy/workflow/schedulers/core.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/schedulers 2026-08-04T20:56:52,796 copying build/lib/galaxy/workflow/schedulers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/schedulers 2026-08-04T20:56:52,798 copying build/lib/galaxy/workflow/extract.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,801 copying build/lib/galaxy/workflow/scheduling_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,803 copying build/lib/galaxy/workflow/run.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,807 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/completion_hooks 2026-08-04T20:56:52,808 copying build/lib/galaxy/workflow/completion_hooks/base.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/completion_hooks 2026-08-04T20:56:52,809 copying build/lib/galaxy/workflow/completion_hooks/notification.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/completion_hooks 2026-08-04T20:56:52,812 copying build/lib/galaxy/workflow/completion_hooks/export.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/completion_hooks 2026-08-04T20:56:52,814 copying build/lib/galaxy/workflow/completion_hooks/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/completion_hooks 2026-08-04T20:56:52,816 copying build/lib/galaxy/workflow/steps.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,818 copying build/lib/galaxy/workflow/workflow_parameter_input_definitions.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,819 copying build/lib/galaxy/workflow/render.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,821 copying build/lib/galaxy/workflow/run_request.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,824 copying build/lib/galaxy/workflow/errors.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,826 copying build/lib/galaxy/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,828 creating build/bdist.linux-armv7l/wheel/galaxy/workflow/refactor 2026-08-04T20:56:52,829 copying build/lib/galaxy/workflow/refactor/execute.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2026-08-04T20:56:52,831 copying build/lib/galaxy/workflow/refactor/schema.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2026-08-04T20:56:52,834 copying build/lib/galaxy/workflow/refactor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/workflow/refactor 2026-08-04T20:56:52,835 copying build/lib/galaxy/workflow/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/workflow 2026-08-04T20:56:52,837 creating build/bdist.linux-armv7l/wheel/galaxy/visualization 2026-08-04T20:56:52,838 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/data_providers 2026-08-04T20:56:52,840 copying build/lib/galaxy/visualization/data_providers/registry.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-08-04T20:56:52,842 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:52,844 copying build/lib/galaxy/visualization/data_providers/phyloviz/baseparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:52,846 copying build/lib/galaxy/visualization/data_providers/phyloviz/newickparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:52,848 copying build/lib/galaxy/visualization/data_providers/phyloviz/nexusparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:52,850 copying build/lib/galaxy/visualization/data_providers/phyloviz/phyloxmlparser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:52,852 copying build/lib/galaxy/visualization/data_providers/phyloviz/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers/phyloviz 2026-08-04T20:56:52,854 copying build/lib/galaxy/visualization/data_providers/genome.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-08-04T20:56:52,858 copying build/lib/galaxy/visualization/data_providers/cigar.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-08-04T20:56:52,860 copying build/lib/galaxy/visualization/data_providers/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-08-04T20:56:52,862 copying build/lib/galaxy/visualization/data_providers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/data_providers 2026-08-04T20:56:52,864 copying build/lib/galaxy/visualization/genomes.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization 2026-08-04T20:56:52,866 copying build/lib/galaxy/visualization/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization 2026-08-04T20:56:52,868 copying build/lib/galaxy/visualization/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/visualization 2026-08-04T20:56:52,870 creating build/bdist.linux-armv7l/wheel/galaxy/visualization/plugins 2026-08-04T20:56:52,871 copying build/lib/galaxy/visualization/plugins/config_parser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-08-04T20:56:52,873 copying build/lib/galaxy/visualization/plugins/registry.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-08-04T20:56:52,875 copying build/lib/galaxy/visualization/plugins/datasource_testing.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-08-04T20:56:52,877 copying build/lib/galaxy/visualization/plugins/resource_parser.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-08-04T20:56:52,879 copying build/lib/galaxy/visualization/plugins/plugin.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-08-04T20:56:52,881 copying build/lib/galaxy/visualization/plugins/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/visualization/plugins 2026-08-04T20:56:52,883 creating build/bdist.linux-armv7l/wheel/galaxy/main_config 2026-08-04T20:56:52,884 copying build/lib/galaxy/main_config/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/main_config 2026-08-04T20:56:52,886 copying build/lib/galaxy/main_config/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/main_config 2026-08-04T20:56:52,888 creating build/bdist.linux-armv7l/wheel/galaxy/di 2026-08-04T20:56:52,889 copying build/lib/galaxy/di/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/di 2026-08-04T20:56:52,891 copying build/lib/galaxy/di/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/di 2026-08-04T20:56:52,893 creating build/bdist.linux-armv7l/wheel/galaxy/short_term_storage 2026-08-04T20:56:52,894 copying build/lib/galaxy/short_term_storage/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/short_term_storage 2026-08-04T20:56:52,896 copying build/lib/galaxy/short_term_storage/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/short_term_storage 2026-08-04T20:56:52,898 creating build/bdist.linux-armv7l/wheel/galaxy/queue_worker 2026-08-04T20:56:52,899 copying build/lib/galaxy/queue_worker/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/queue_worker 2026-08-04T20:56:52,901 copying build/lib/galaxy/queue_worker/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/queue_worker 2026-08-04T20:56:52,904 creating build/bdist.linux-armv7l/wheel/galaxy/dependencies 2026-08-04T20:56:52,905 copying build/lib/galaxy/dependencies/lint-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,906 copying build/lib/galaxy/dependencies/update_lint_requirements.sh -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,908 copying build/lib/galaxy/dependencies/pinned-lint-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,910 copying build/lib/galaxy/dependencies/pinned-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,912 copying build/lib/galaxy/dependencies/conditional-constraints.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,914 copying build/lib/galaxy/dependencies/script.py -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,916 copying build/lib/galaxy/dependencies/pinned-test-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,918 copying build/lib/galaxy/dependencies/update.sh -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,920 copying build/lib/galaxy/dependencies/dev-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,922 copying build/lib/galaxy/dependencies/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,924 copying build/lib/galaxy/dependencies/conditional-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,926 copying build/lib/galaxy/dependencies/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,927 copying build/lib/galaxy/dependencies/pinned-typecheck-requirements.txt -> build/bdist.linux-armv7l/wheel/./galaxy/dependencies 2026-08-04T20:56:52,930 creating build/bdist.linux-armv7l/wheel/galaxy/sse_monitor 2026-08-04T20:56:52,931 copying build/lib/galaxy/sse_monitor/__main__.py -> build/bdist.linux-armv7l/wheel/./galaxy/sse_monitor 2026-08-04T20:56:52,932 copying build/lib/galaxy/sse_monitor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/sse_monitor 2026-08-04T20:56:52,935 creating build/bdist.linux-armv7l/wheel/galaxy/tools 2026-08-04T20:56:52,936 copying build/lib/galaxy/tools/execute.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,940 creating build/bdist.linux-armv7l/wheel/galaxy/tools/filters 2026-08-04T20:56:52,941 copying build/lib/galaxy/tools/filters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/filters 2026-08-04T20:56:52,942 copying build/lib/galaxy/tools/split_paired_and_unpaired.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,945 copying build/lib/galaxy/tools/tag_collection_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,947 copying build/lib/galaxy/tools/exception_handling.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,949 copying build/lib/galaxy/tools/zip_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,951 creating build/bdist.linux-armv7l/wheel/galaxy/tools/actions 2026-08-04T20:56:52,952 copying build/lib/galaxy/tools/actions/data_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-08-04T20:56:52,954 copying build/lib/galaxy/tools/actions/upload.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-08-04T20:56:52,957 copying build/lib/galaxy/tools/actions/data_source.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-08-04T20:56:52,958 copying build/lib/galaxy/tools/actions/model_operations.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-08-04T20:56:52,961 copying build/lib/galaxy/tools/actions/history_imp_exp.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-08-04T20:56:52,963 copying build/lib/galaxy/tools/actions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-08-04T20:56:52,967 copying build/lib/galaxy/tools/actions/metadata.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-08-04T20:56:52,969 copying build/lib/galaxy/tools/actions/upload_common.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/actions 2026-08-04T20:56:52,972 creating build/bdist.linux-armv7l/wheel/galaxy/tools/imp_exp 2026-08-04T20:56:52,973 copying build/lib/galaxy/tools/imp_exp/unpack_tar_gz_archive.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-08-04T20:56:52,975 copying build/lib/galaxy/tools/imp_exp/export_history.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-08-04T20:56:52,977 copying build/lib/galaxy/tools/imp_exp/exp_history_to_archive.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-08-04T20:56:52,979 copying build/lib/galaxy/tools/imp_exp/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-08-04T20:56:52,981 copying build/lib/galaxy/tools/imp_exp/imp_history_from_archive.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-08-04T20:56:52,982 copying build/lib/galaxy/tools/imp_exp/exp_history_to_uri.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/imp_exp 2026-08-04T20:56:52,984 copying build/lib/galaxy/tools/wrappers.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,987 copying build/lib/galaxy/tools/filter_empty_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,989 copying build/lib/galaxy/tools/remote_tool_eval.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,992 copying build/lib/galaxy/tools/filter_failed_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,994 copying build/lib/galaxy/tools/cross_product_nested.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,996 copying build/lib/galaxy/tools/build_list_1.2.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:52,998 copying build/lib/galaxy/tools/sort_collection_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,000 copying build/lib/galaxy/tools/filter_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,003 copying build/lib/galaxy/tools/merge_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,005 copying build/lib/galaxy/tools/harmonize_two_collections_list_1.0.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,008 copying build/lib/galaxy/tools/model_operation_macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,009 copying build/lib/galaxy/tools/stock.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,011 copying build/lib/galaxy/tools/sample_sheet_to_tabular.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,014 copying build/lib/galaxy/tools/nest_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,016 copying build/lib/galaxy/tools/extract_dataset.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,018 copying build/lib/galaxy/tools/execution_helpers.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,020 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled 2026-08-04T20:56:53,022 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:53,023 copying build/lib/galaxy/tools/bundled/sr_mapping/bfast_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:53,026 copying build/lib/galaxy/tools/bundled/sr_mapping/PerM.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:53,029 copying build/lib/galaxy/tools/bundled/sr_mapping/srma_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:53,031 copying build/lib/galaxy/tools/bundled/sr_mapping/mosaik.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:53,033 copying build/lib/galaxy/tools/bundled/sr_mapping/bfast_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:53,036 copying build/lib/galaxy/tools/bundled/sr_mapping/fastq_statistics.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:53,038 copying build/lib/galaxy/tools/bundled/sr_mapping/srma_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:53,041 copying build/lib/galaxy/tools/bundled/sr_mapping/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_mapping 2026-08-04T20:56:53,043 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/filters 2026-08-04T20:56:53,045 copying build/lib/galaxy/tools/bundled/filters/convert_characters.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,047 copying build/lib/galaxy/tools/bundled/filters/condense_characters.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,049 copying build/lib/galaxy/tools/bundled/filters/changeCase.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,050 copying build/lib/galaxy/tools/bundled/filters/tailWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,052 copying build/lib/galaxy/tools/bundled/filters/CreateInterval.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,055 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,056 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,058 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,060 copying build/lib/galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,062 copying build/lib/galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,065 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,067 copying build/lib/galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,069 copying build/lib/galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,071 copying build/lib/galaxy/tools/bundled/filters/gff/extract_GFF_Features.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,073 copying build/lib/galaxy/tools/bundled/filters/gff/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters/gff 2026-08-04T20:56:53,074 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,076 copying build/lib/galaxy/tools/bundled/filters/joiner2.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,078 copying build/lib/galaxy/tools/bundled/filters/headWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,080 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,082 copying build/lib/galaxy/tools/bundled/filters/commWrapper.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,084 copying build/lib/galaxy/tools/bundled/filters/cutWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,086 copying build/lib/galaxy/tools/bundled/filters/gff2bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,088 copying build/lib/galaxy/tools/bundled/filters/bed_to_gff_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,090 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,093 copying build/lib/galaxy/tools/bundled/filters/condense_characters.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,094 copying build/lib/galaxy/tools/bundled/filters/joiner.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,097 copying build/lib/galaxy/tools/bundled/filters/pasteWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,099 copying build/lib/galaxy/tools/bundled/filters/randomlines.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,101 copying build/lib/galaxy/tools/bundled/filters/grep_1.0.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,103 copying build/lib/galaxy/tools/bundled/filters/uniq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,105 copying build/lib/galaxy/tools/bundled/filters/random_lines_two_pass.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,108 copying build/lib/galaxy/tools/bundled/filters/trimmer.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,109 copying build/lib/galaxy/tools/bundled/filters/fileGrep.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,111 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,113 copying build/lib/galaxy/tools/bundled/filters/commWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,115 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,116 copying build/lib/galaxy/tools/bundled/filters/gff_to_bed_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,119 copying build/lib/galaxy/tools/bundled/filters/randomlines.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,120 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,122 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,124 copying build/lib/galaxy/tools/bundled/filters/sff_extractor.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,126 copying build/lib/galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,128 copying build/lib/galaxy/tools/bundled/filters/secure_hash_message_digest.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,130 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,132 copying build/lib/galaxy/tools/bundled/filters/sorter.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,134 copying build/lib/galaxy/tools/bundled/filters/CreateInterval.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,136 copying build/lib/galaxy/tools/bundled/filters/remove_beginning.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,138 copying build/lib/galaxy/tools/bundled/filters/wiggle_to_simple.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,140 copying build/lib/galaxy/tools/bundled/filters/uniq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,142 copying build/lib/galaxy/tools/bundled/filters/secure_hash_message_digest.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,144 copying build/lib/galaxy/tools/bundled/filters/axt_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,146 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,148 copying build/lib/galaxy/tools/bundled/filters/gtf2bedgraph.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,150 copying build/lib/galaxy/tools/bundled/filters/wiggle_to_simple.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,152 copying build/lib/galaxy/tools/bundled/filters/compare.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,154 copying build/lib/galaxy/tools/bundled/filters/mergeCols.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,155 copying build/lib/galaxy/tools/bundled/filters/trimmer.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,158 copying build/lib/galaxy/tools/bundled/filters/axt_to_lav_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,160 copying build/lib/galaxy/tools/bundled/filters/axt_to_concat_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,162 copying build/lib/galaxy/tools/bundled/filters/fixedValueColumn.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,163 copying build/lib/galaxy/tools/bundled/filters/fixedValueColumn.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,165 copying build/lib/galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,167 copying build/lib/galaxy/tools/bundled/filters/bed2gff.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,169 copying build/lib/galaxy/tools/bundled/filters/convert_characters.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,171 copying build/lib/galaxy/tools/bundled/filters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,172 copying build/lib/galaxy/tools/bundled/filters/sff_extract.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,175 copying build/lib/galaxy/tools/bundled/filters/catWrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,177 copying build/lib/galaxy/tools/bundled/filters/bed_to_bigbed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,179 copying build/lib/galaxy/tools/bundled/filters/mergeCols.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,181 copying build/lib/galaxy/tools/bundled/filters/axt_to_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,182 copying build/lib/galaxy/tools/bundled/filters/lav_to_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,184 copying build/lib/galaxy/tools/bundled/filters/wig_to_bigwig.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,186 copying build/lib/galaxy/tools/bundled/filters/axt_to_concat_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,188 copying build/lib/galaxy/tools/bundled/filters/grep.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,190 copying build/lib/galaxy/tools/bundled/filters/wc_gnu.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,192 copying build/lib/galaxy/tools/bundled/filters/cutWrapper.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,194 copying build/lib/galaxy/tools/bundled/filters/join.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,197 copying build/lib/galaxy/tools/bundled/filters/changeCase.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/filters 2026-08-04T20:56:53,199 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/expression_tools 2026-08-04T20:56:53,200 copying build/lib/galaxy/tools/bundled/expression_tools/pick_value.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2026-08-04T20:56:53,203 copying build/lib/galaxy/tools/bundled/expression_tools/expression_macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2026-08-04T20:56:53,205 copying build/lib/galaxy/tools/bundled/expression_tools/parse_values_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/expression_tools 2026-08-04T20:56:53,207 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/stats 2026-08-04T20:56:53,208 copying build/lib/galaxy/tools/bundled/stats/grouping.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,210 copying build/lib/galaxy/tools/bundled/stats/gsummary.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,212 copying build/lib/galaxy/tools/bundled/stats/gsummary.xml.groups -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,214 copying build/lib/galaxy/tools/bundled/stats/aggregate_scores_in_intervals.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,217 copying build/lib/galaxy/tools/bundled/stats/filtering.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,219 copying build/lib/galaxy/tools/bundled/stats/filtering.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,221 copying build/lib/galaxy/tools/bundled/stats/grouping.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,223 copying build/lib/galaxy/tools/bundled/stats/gsummary.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,226 copying build/lib/galaxy/tools/bundled/stats/aggregate_binned_scores_in_intervals.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,228 copying build/lib/galaxy/tools/bundled/stats/filtering_1_1_0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,230 copying build/lib/galaxy/tools/bundled/stats/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,232 copying build/lib/galaxy/tools/bundled/stats/r_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/stats 2026-08-04T20:56:53,234 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/solid_tools 2026-08-04T20:56:53,235 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_boxplot.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-08-04T20:56:53,237 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_stats.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-08-04T20:56:53,240 copying build/lib/galaxy/tools/bundled/solid_tools/solid_qual_stats.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-08-04T20:56:53,242 copying build/lib/galaxy/tools/bundled/solid_tools/qualsolid_boxplot_graph.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-08-04T20:56:53,244 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-08-04T20:56:53,245 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-08-04T20:56:53,248 copying build/lib/galaxy/tools/bundled/solid_tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-08-04T20:56:53,249 copying build/lib/galaxy/tools/bundled/solid_tools/maq_cs_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/solid_tools 2026-08-04T20:56:53,253 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/data_source 2026-08-04T20:56:53,254 copying build/lib/galaxy/tools/bundled/data_source/flymine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,256 copying build/lib/galaxy/tools/bundled/data_source/ratmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,258 copying build/lib/galaxy/tools/bundled/data_source/gramene_mart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,260 copying build/lib/galaxy/tools/bundled/data_source/biomart_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,263 copying build/lib/galaxy/tools/bundled/data_source/worm_modencode.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,264 copying build/lib/galaxy/tools/bundled/data_source/metabolicmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,266 copying build/lib/galaxy/tools/bundled/data_source/eupathdb.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,268 copying build/lib/galaxy/tools/bundled/data_source/microbial_import.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,270 copying build/lib/galaxy/tools/bundled/data_source/genbank.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,272 copying build/lib/galaxy/tools/bundled/data_source/genbank.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,274 copying build/lib/galaxy/tools/bundled/data_source/upload.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,276 copying build/lib/galaxy/tools/bundled/data_source/zebrafishmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,278 copying build/lib/galaxy/tools/bundled/data_source/hapmapmart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,280 copying build/lib/galaxy/tools/bundled/data_source/wormbase.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,282 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,284 copying build/lib/galaxy/tools/bundled/data_source/data_source.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,286 copying build/lib/galaxy/tools/bundled/data_source/ncbi_datasets.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,288 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,290 copying build/lib/galaxy/tools/bundled/data_source/access_libraries.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,291 copying build/lib/galaxy/tools/bundled/data_source/microbial_import.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,294 copying build/lib/galaxy/tools/bundled/data_source/flymine_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,296 copying build/lib/galaxy/tools/bundled/data_source/cbi_rice_mart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,298 copying build/lib/galaxy/tools/bundled/data_source/fly_modencode.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,300 copying build/lib/galaxy/tools/bundled/data_source/biomart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,302 copying build/lib/galaxy/tools/bundled/data_source/yeastmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,303 copying build/lib/galaxy/tools/bundled/data_source/diced.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,305 copying build/lib/galaxy/tools/bundled/data_source/microbial_import_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,308 copying build/lib/galaxy/tools/bundled/data_source/import.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,309 copying build/lib/galaxy/tools/bundled/data_source/wormbase_test.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,311 copying build/lib/galaxy/tools/bundled/data_source/import.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,313 copying build/lib/galaxy/tools/bundled/data_source/modmine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,315 copying build/lib/galaxy/tools/bundled/data_source/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,317 copying build/lib/galaxy/tools/bundled/data_source/mousemine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,318 copying build/lib/galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,320 copying build/lib/galaxy/tools/bundled/data_source/intermine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,322 copying build/lib/galaxy/tools/bundled/data_source/ebi_sra.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,324 copying build/lib/galaxy/tools/bundled/data_source/sra.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,326 copying build/lib/galaxy/tools/bundled/data_source/upload.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,328 copying build/lib/galaxy/tools/bundled/data_source/hbvar.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_source 2026-08-04T20:56:53,331 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/extract 2026-08-04T20:56:53,332 copying build/lib/galaxy/tools/bundled/extract/liftOver_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-08-04T20:56:53,334 copying build/lib/galaxy/tools/bundled/extract/extract_genomic_dna.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-08-04T20:56:53,337 copying build/lib/galaxy/tools/bundled/extract/liftOver_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-08-04T20:56:53,339 copying build/lib/galaxy/tools/bundled/extract/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-08-04T20:56:53,340 copying build/lib/galaxy/tools/bundled/extract/extract_genomic_dna.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/extract 2026-08-04T20:56:53,344 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/interactive 2026-08-04T20:56:53,345 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_radiant.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,347 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_isee.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,350 copying build/lib/galaxy/tools/bundled/interactive/default_notebook.ipynb -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,351 copying build/lib/galaxy/tools/bundled/interactive/simtext_app.R -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,354 copying build/lib/galaxy/tools/bundled/interactive/wallace.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,357 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,359 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,361 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,363 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_neo4j.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,365 copying build/lib/galaxy/tools/bundled/interactive/jupyter_logo.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,368 copying build/lib/galaxy/tools/bundled/interactive/panoply.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,370 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pyiron.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,373 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,375 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_wallace.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,377 copying build/lib/galaxy/tools/bundled/interactive/pavian.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,379 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_phinch.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,381 copying build/lib/galaxy/tools/bundled/interactive/higlass.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,383 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_askomics.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,385 copying build/lib/galaxy/tools/bundled/interactive/blobtoolkit.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,388 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_wilson.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,390 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_panoply.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,392 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,394 copying build/lib/galaxy/tools/bundled/interactive/bam.iobio.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,396 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,398 copying build/lib/galaxy/tools/bundled/interactive/hic.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,400 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,402 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,404 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_paraview.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,406 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,408 copying build/lib/galaxy/tools/bundled/interactive/ubuntu.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,411 copying build/lib/galaxy/tools/bundled/interactive/bioconductor.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,413 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_pavian.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,415 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_rstudio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,417 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_metashark.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,419 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,421 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,423 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_openrefine.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,425 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,427 copying build/lib/galaxy/tools/bundled/interactive/Rprofile.R -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,429 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.3.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,432 copying build/lib/galaxy/tools/bundled/interactive/phinch.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,434 copying build/lib/galaxy/tools/bundled/interactive/openrefine.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,436 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ilastik.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,438 copying build/lib/galaxy/tools/bundled/interactive/neo4j.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,440 copying build/lib/galaxy/tools/bundled/interactive/qiskit.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,443 copying build/lib/galaxy/tools/bundled/interactive/metashark.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,445 copying build/lib/galaxy/tools/bundled/interactive/askomics.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,447 copying build/lib/galaxy/tools/bundled/interactive/cellxgene.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,450 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,452 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,454 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,456 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,458 copying build/lib/galaxy/tools/bundled/interactive/ethercalc.png -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,461 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,463 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_higlass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,466 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,468 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,471 copying build/lib/galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/interactive 2026-08-04T20:56:53,474 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/meme 2026-08-04T20:56:53,475 copying build/lib/galaxy/tools/bundled/meme/meme.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/meme 2026-08-04T20:56:53,478 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,479 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,482 copying build/lib/galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,483 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,485 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid2fastq.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,488 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,490 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,492 copying build/lib/galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,494 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,496 copying build/lib/galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/next_gen_conversion 2026-08-04T20:56:53,499 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,500 copying build/lib/galaxy/tools/bundled/phenotype_association/master2pg.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,502 copying build/lib/galaxy/tools/bundled/phenotype_association/lped_to_geno.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,504 copying build/lib/galaxy/tools/bundled/phenotype_association/gpass.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,506 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToDavid.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,508 copying build/lib/galaxy/tools/bundled/phenotype_association/pass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,510 copying build/lib/galaxy/tools/bundled/phenotype_association/sift.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,513 copying build/lib/galaxy/tools/bundled/phenotype_association/senatag.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,516 copying build/lib/galaxy/tools/bundled/phenotype_association/ldtools.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,518 copying build/lib/galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,520 copying build/lib/galaxy/tools/bundled/phenotype_association/pass_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,521 copying build/lib/galaxy/tools/bundled/phenotype_association/lps.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,524 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToGProfile.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,526 copying build/lib/galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,528 copying build/lib/galaxy/tools/bundled/phenotype_association/beam.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,530 copying build/lib/galaxy/tools/bundled/phenotype_association/gpass.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,532 copying build/lib/galaxy/tools/bundled/phenotype_association/master2gd_snp.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,534 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToDavid.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,536 copying build/lib/galaxy/tools/bundled/phenotype_association/sift_variants_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,538 copying build/lib/galaxy/tools/bundled/phenotype_association/linkToGProfile.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,540 copying build/lib/galaxy/tools/bundled/phenotype_association/master2gd_snp.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,542 copying build/lib/galaxy/tools/bundled/phenotype_association/pagetag.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,545 copying build/lib/galaxy/tools/bundled/phenotype_association/mergeSnps.pl -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,547 copying build/lib/galaxy/tools/bundled/phenotype_association/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,548 copying build/lib/galaxy/tools/bundled/phenotype_association/lps_tool_wrapper.sh -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,550 copying build/lib/galaxy/tools/bundled/phenotype_association/master2pg.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/phenotype_association 2026-08-04T20:56:53,553 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/ngs_simulation 2026-08-04T20:56:53,554 copying build/lib/galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2026-08-04T20:56:53,556 copying build/lib/galaxy/tools/bundled/ngs_simulation/ngs_simulation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2026-08-04T20:56:53,559 copying build/lib/galaxy/tools/bundled/ngs_simulation/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/ngs_simulation 2026-08-04T20:56:53,561 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/metag_tools 2026-08-04T20:56:53,562 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-08-04T20:56:53,565 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-08-04T20:56:53,567 copying build/lib/galaxy/tools/bundled/metag_tools/blat_wrapper.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-08-04T20:56:53,569 copying build/lib/galaxy/tools/bundled/metag_tools/blat_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-08-04T20:56:53,571 copying build/lib/galaxy/tools/bundled/metag_tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-08-04T20:56:53,573 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-08-04T20:56:53,576 copying build/lib/galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/metag_tools 2026-08-04T20:56:53,578 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/plotting 2026-08-04T20:56:53,579 copying build/lib/galaxy/tools/bundled/plotting/bar_chart.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2026-08-04T20:56:53,582 copying build/lib/galaxy/tools/bundled/plotting/boxplot.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2026-08-04T20:56:53,584 copying build/lib/galaxy/tools/bundled/plotting/bar_chart.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/plotting 2026-08-04T20:56:53,586 copying build/lib/galaxy/tools/bundled/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled 2026-08-04T20:56:53,588 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/maf 2026-08-04T20:56:53,589 copying build/lib/galaxy/tools/bundled/maf/maf_by_block_number.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,591 copying build/lib/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,594 copying build/lib/galaxy/tools/bundled/maf/maf_split_by_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,596 copying build/lib/galaxy/tools/bundled/maf/interval2maf.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,598 copying build/lib/galaxy/tools/bundled/maf/maf_by_block_number.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,600 copying build/lib/galaxy/tools/bundled/maf/maf_reverse_complement.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,602 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,605 copying build/lib/galaxy/tools/bundled/maf/maf_filter.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,607 copying build/lib/galaxy/tools/bundled/maf/interval2maf_pairwise.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,609 copying build/lib/galaxy/tools/bundled/maf/maf_limit_size.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,611 copying build/lib/galaxy/tools/bundled/maf/maf_limit_to_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,613 copying build/lib/galaxy/tools/bundled/maf/maf_filter.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,615 copying build/lib/galaxy/tools/bundled/maf/maf_limit_size.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,618 copying build/lib/galaxy/tools/bundled/maf/maf_stats.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,621 copying build/lib/galaxy/tools/bundled/maf/maf_stats.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,624 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,626 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta_concat.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,629 copying build/lib/galaxy/tools/bundled/maf/maf_thread_for_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,632 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed_code.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,634 copying build/lib/galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,637 copying build/lib/galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,640 copying build/lib/galaxy/tools/bundled/maf/interval2maf.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,643 copying build/lib/galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,646 copying build/lib/galaxy/tools/bundled/maf/macros.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,649 copying build/lib/galaxy/tools/bundled/maf/maf_to_bed.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,651 copying build/lib/galaxy/tools/bundled/maf/maf_to_interval.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,654 copying build/lib/galaxy/tools/bundled/maf/maf_limit_to_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,656 copying build/lib/galaxy/tools/bundled/maf/maf_split_by_species.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,658 copying build/lib/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,661 copying build/lib/galaxy/tools/bundled/maf/maf_reverse_complement.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,664 copying build/lib/galaxy/tools/bundled/maf/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,666 copying build/lib/galaxy/tools/bundled/maf/maf_to_interval.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,669 copying build/lib/galaxy/tools/bundled/maf/maf_thread_for_species.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,672 copying build/lib/galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/maf 2026-08-04T20:56:53,675 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/data_export 2026-08-04T20:56:53,677 copying build/lib/galaxy/tools/bundled/data_export/export_remote.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_export 2026-08-04T20:56:53,680 copying build/lib/galaxy/tools/bundled/data_export/export_remote.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/data_export 2026-08-04T20:56:53,683 creating build/bdist.linux-armv7l/wheel/galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:53,685 copying build/lib/galaxy/tools/bundled/sr_assembly/velvetg.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:53,688 copying build/lib/galaxy/tools/bundled/sr_assembly/velveth.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:53,691 copying build/lib/galaxy/tools/bundled/sr_assembly/velvetg_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:53,694 copying build/lib/galaxy/tools/bundled/sr_assembly/velveth_wrapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:53,696 copying build/lib/galaxy/tools/bundled/sr_assembly/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/bundled/sr_assembly 2026-08-04T20:56:53,698 copying build/lib/galaxy/tools/keep_success_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,701 creating build/bdist.linux-armv7l/wheel/galaxy/tools/error_reports 2026-08-04T20:56:53,703 copying build/lib/galaxy/tools/error_reports/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports 2026-08-04T20:56:53,706 creating build/bdist.linux-armv7l/wheel/galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,708 copying build/lib/galaxy/tools/error_reports/plugins/json.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,710 copying build/lib/galaxy/tools/error_reports/plugins/sentry.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,713 copying build/lib/galaxy/tools/error_reports/plugins/gitlab.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,716 copying build/lib/galaxy/tools/error_reports/plugins/slack.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,718 copying build/lib/galaxy/tools/error_reports/plugins/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,720 copying build/lib/galaxy/tools/error_reports/plugins/base_git.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,722 copying build/lib/galaxy/tools/error_reports/plugins/email.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,724 copying build/lib/galaxy/tools/error_reports/plugins/github.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,726 copying build/lib/galaxy/tools/error_reports/plugins/influxdb.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/error_reports/plugins 2026-08-04T20:56:53,728 copying build/lib/galaxy/tools/keep_success_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,730 creating build/bdist.linux-armv7l/wheel/galaxy/tools/data 2026-08-04T20:56:53,731 copying build/lib/galaxy/tools/data/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data 2026-08-04T20:56:53,734 copying build/lib/galaxy/tools/unzip_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,736 copying build/lib/galaxy/tools/cross_product_flat.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,738 copying build/lib/galaxy/tools/harmonize_two_collections_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,741 copying build/lib/galaxy/tools/runtime.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,743 copying build/lib/galaxy/tools/biotools.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,746 creating build/bdist.linux-armv7l/wheel/galaxy/tools/util 2026-08-04T20:56:53,747 copying build/lib/galaxy/tools/util/maf_utilities.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util 2026-08-04T20:56:53,751 creating build/bdist.linux-armv7l/wheel/galaxy/tools/util/galaxyops 2026-08-04T20:56:53,752 copying build/lib/galaxy/tools/util/galaxyops/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util/galaxyops 2026-08-04T20:56:53,754 copying build/lib/galaxy/tools/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/util 2026-08-04T20:56:53,756 copying build/lib/galaxy/tools/duplicate_file_to_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,758 creating build/bdist.linux-armv7l/wheel/galaxy/tools/parameters 2026-08-04T20:56:53,759 copying build/lib/galaxy/tools/parameters/sanitize.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,762 copying build/lib/galaxy/tools/parameters/validation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,765 copying build/lib/galaxy/tools/parameters/wrapped_json.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,767 copying build/lib/galaxy/tools/parameters/options.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,769 copying build/lib/galaxy/tools/parameters/pagination.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,771 copying build/lib/galaxy/tools/parameters/grouping.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,774 copying build/lib/galaxy/tools/parameters/populate_model.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,777 copying build/lib/galaxy/tools/parameters/meta.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,780 copying build/lib/galaxy/tools/parameters/dynamic_options.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,783 copying build/lib/galaxy/tools/parameters/cancelable_request.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,785 copying build/lib/galaxy/tools/parameters/dataset_matcher.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,787 copying build/lib/galaxy/tools/parameters/input_translation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,790 copying build/lib/galaxy/tools/parameters/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,794 copying build/lib/galaxy/tools/parameters/wrapped.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,797 creating build/bdist.linux-armv7l/wheel/galaxy/tools/parameters/test 2026-08-04T20:56:53,798 copying build/lib/galaxy/tools/parameters/test/1.bed -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters/test 2026-08-04T20:56:53,801 copying build/lib/galaxy/tools/parameters/test/empty.txt -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters/test 2026-08-04T20:56:53,802 copying build/lib/galaxy/tools/parameters/test/1.tabular -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters/test 2026-08-04T20:56:53,804 copying build/lib/galaxy/tools/parameters/workflow_utils.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,806 copying build/lib/galaxy/tools/parameters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/parameters 2026-08-04T20:56:53,809 copying build/lib/galaxy/tools/evaluation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,812 copying build/lib/galaxy/tools/data_fetch.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,814 copying build/lib/galaxy/tools/filter_null.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,816 copying build/lib/galaxy/tools/convert_sample_sheet.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,818 copying build/lib/galaxy/tools/filter_null_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,820 creating build/bdist.linux-armv7l/wheel/galaxy/tools/expressions 2026-08-04T20:56:53,821 copying build/lib/galaxy/tools/expressions/script.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-08-04T20:56:53,823 copying build/lib/galaxy/tools/expressions/util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-08-04T20:56:53,825 copying build/lib/galaxy/tools/expressions/evaluation.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-08-04T20:56:53,827 copying build/lib/galaxy/tools/expressions/cwlNodeEngine.js -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-08-04T20:56:53,829 copying build/lib/galaxy/tools/expressions/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/expressions 2026-08-04T20:56:53,831 copying build/lib/galaxy/tools/repositories.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,833 copying build/lib/galaxy/tools/filter_from_file_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,835 copying build/lib/galaxy/tools/filter_failed_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,837 copying build/lib/galaxy/tools/data_fetch_utils.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,839 copying build/lib/galaxy/tools/cache.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,842 copying build/lib/galaxy/tools/filter_empty_collection_1.1.0.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,844 copying build/lib/galaxy/tools/relabel_from_file.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,847 creating build/bdist.linux-armv7l/wheel/galaxy/tools/fetch 2026-08-04T20:56:53,848 copying build/lib/galaxy/tools/fetch/workbooks.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/fetch 2026-08-04T20:56:53,850 copying build/lib/galaxy/tools/fetch/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/fetch 2026-08-04T20:56:53,852 copying build/lib/galaxy/tools/recommendations.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,855 creating build/bdist.linux-armv7l/wheel/galaxy/tools/data_manager 2026-08-04T20:56:53,856 copying build/lib/galaxy/tools/data_manager/manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data_manager 2026-08-04T20:56:53,858 copying build/lib/galaxy/tools/data_manager/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/data_manager 2026-08-04T20:56:53,860 creating build/bdist.linux-armv7l/wheel/galaxy/tools/search 2026-08-04T20:56:53,861 copying build/lib/galaxy/tools/search/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools/search 2026-08-04T20:56:53,864 copying build/lib/galaxy/tools/apply_rules.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,866 copying build/lib/galaxy/tools/flatten_collection.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,868 copying build/lib/galaxy/tools/errors.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,870 copying build/lib/galaxy/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,876 copying build/lib/galaxy/tools/build_list.xml -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,878 copying build/lib/galaxy/tools/special_tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,879 copying build/lib/galaxy/tools/_types.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,881 copying build/lib/galaxy/tools/data_fetch.py -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,884 copying build/lib/galaxy/tools/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/tools 2026-08-04T20:56:53,886 creating build/bdist.linux-armv7l/wheel/galaxy/agents 2026-08-04T20:56:53,887 copying build/lib/galaxy/agents/iwc.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,890 copying build/lib/galaxy/agents/history.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,893 copying build/lib/galaxy/agents/history_tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,895 copying build/lib/galaxy/agents/base.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,897 copying build/lib/galaxy/agents/registry.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,900 copying build/lib/galaxy/agents/custom_tool.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,903 copying build/lib/galaxy/agents/static_backend.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,905 copying build/lib/galaxy/agents/operations.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,909 copying build/lib/galaxy/agents/gtn_training.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,911 copying build/lib/galaxy/agents/orchestrator.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,914 copying build/lib/galaxy/agents/factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,916 copying build/lib/galaxy/agents/tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,918 copying build/lib/galaxy/agents/error_analysis.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,922 creating build/bdist.linux-armv7l/wheel/galaxy/agents/prompts 2026-08-04T20:56:53,923 copying build/lib/galaxy/agents/prompts/page_assistant.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,926 copying build/lib/galaxy/agents/prompts/error_analysis.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,928 copying build/lib/galaxy/agents/prompts/gtn_training.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,929 copying build/lib/galaxy/agents/prompts/custom_tool_structured.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,932 copying build/lib/galaxy/agents/prompts/router.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,934 copying build/lib/galaxy/agents/prompts/history_analyzer.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,936 copying build/lib/galaxy/agents/prompts/orchestrator.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,937 copying build/lib/galaxy/agents/prompts/tool_recommendation.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,939 copying build/lib/galaxy/agents/prompts/custom_tool_container_critic.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,941 copying build/lib/galaxy/agents/prompts/custom_tool_critic.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,943 copying build/lib/galaxy/agents/prompts/workflow_report.md -> build/bdist.linux-armv7l/wheel/./galaxy/agents/prompts 2026-08-04T20:56:53,945 copying build/lib/galaxy/agents/page_assistant.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,947 copying build/lib/galaxy/agents/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,949 copying build/lib/galaxy/agents/workflow_report.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,952 creating build/bdist.linux-armv7l/wheel/galaxy/agents/gtn 2026-08-04T20:56:53,953 copying build/lib/galaxy/agents/gtn/__main__.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents/gtn 2026-08-04T20:56:53,955 copying build/lib/galaxy/agents/gtn/build_database.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents/gtn 2026-08-04T20:56:53,958 copying build/lib/galaxy/agents/gtn/search.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents/gtn 2026-08-04T20:56:53,961 copying build/lib/galaxy/agents/gtn/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents/gtn 2026-08-04T20:56:53,962 copying build/lib/galaxy/agents/router.py -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,965 copying build/lib/galaxy/agents/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/agents 2026-08-04T20:56:53,967 creating build/bdist.linux-armv7l/wheel/galaxy/queues 2026-08-04T20:56:53,969 copying build/lib/galaxy/queues/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/queues 2026-08-04T20:56:53,971 copying build/lib/galaxy/queues/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/queues 2026-08-04T20:56:53,973 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed 2026-08-04T20:56:53,974 copying build/lib/galaxy/tool_shed/repository_type.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2026-08-04T20:56:53,977 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/unittest_utils 2026-08-04T20:56:53,978 copying build/lib/galaxy/tool_shed/unittest_utils/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/unittest_utils 2026-08-04T20:56:53,982 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install 2026-08-04T20:56:53,983 copying build/lib/galaxy/tool_shed/galaxy_install/client.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-08-04T20:56:53,985 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/repository_dependencies 2026-08-04T20:56:53,986 copying build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/repository_dependencies 2026-08-04T20:56:53,990 copying build/lib/galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/repository_dependencies 2026-08-04T20:56:53,992 copying build/lib/galaxy/tool_shed/galaxy_install/install_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-08-04T20:56:53,995 copying build/lib/galaxy/tool_shed/galaxy_install/installed_repository_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-08-04T20:56:53,998 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/tools 2026-08-04T20:56:53,999 copying build/lib/galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2026-08-04T20:56:54,002 copying build/lib/galaxy/tool_shed/galaxy_install/tools/data_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2026-08-04T20:56:54,004 copying build/lib/galaxy/tool_shed/galaxy_install/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/tools 2026-08-04T20:56:54,006 copying build/lib/galaxy/tool_shed/galaxy_install/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-08-04T20:56:54,007 copying build/lib/galaxy/tool_shed/galaxy_install/update_repository_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install 2026-08-04T20:56:54,010 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/galaxy_install/metadata 2026-08-04T20:56:54,011 copying build/lib/galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/metadata 2026-08-04T20:56:54,014 copying build/lib/galaxy/tool_shed/galaxy_install/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/galaxy_install/metadata 2026-08-04T20:56:54,016 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/util 2026-08-04T20:56:54,017 copying build/lib/galaxy/tool_shed/util/hg_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,019 copying build/lib/galaxy/tool_shed/util/utility_container_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,022 copying build/lib/galaxy/tool_shed/util/tool_dependency_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,024 copying build/lib/galaxy/tool_shed/util/container_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,026 copying build/lib/galaxy/tool_shed/util/dependency_display.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,028 copying build/lib/galaxy/tool_shed/util/tool_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,031 copying build/lib/galaxy/tool_shed/util/basic_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,033 copying build/lib/galaxy/tool_shed/util/metadata_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,034 copying build/lib/galaxy/tool_shed/util/repository_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,037 copying build/lib/galaxy/tool_shed/util/shed_util_common.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,039 copying build/lib/galaxy/tool_shed/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/util 2026-08-04T20:56:54,042 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/tools 2026-08-04T20:56:54,042 copying build/lib/galaxy/tool_shed/tools/tool_validator.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2026-08-04T20:56:54,045 copying build/lib/galaxy/tool_shed/tools/data_table_manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2026-08-04T20:56:54,047 copying build/lib/galaxy/tool_shed/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/tools 2026-08-04T20:56:54,049 copying build/lib/galaxy/tool_shed/cache.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2026-08-04T20:56:54,051 copying build/lib/galaxy/tool_shed/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2026-08-04T20:56:54,053 creating build/bdist.linux-armv7l/wheel/galaxy/tool_shed/metadata 2026-08-04T20:56:54,053 copying build/lib/galaxy/tool_shed/metadata/metadata_generator.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/metadata 2026-08-04T20:56:54,057 copying build/lib/galaxy/tool_shed/metadata/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed/metadata 2026-08-04T20:56:54,058 copying build/lib/galaxy/tool_shed/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/tool_shed 2026-08-04T20:56:54,060 creating build/bdist.linux-armv7l/wheel/galaxy/jobs 2026-08-04T20:56:54,061 copying build/lib/galaxy/jobs/mapper.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,064 copying build/lib/galaxy/jobs/manager.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,066 copying build/lib/galaxy/jobs/rule_helper.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,068 copying build/lib/galaxy/jobs/job_destination.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,070 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/rules 2026-08-04T20:56:54,071 copying build/lib/galaxy/jobs/rules/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/rules 2026-08-04T20:56:54,073 copying build/lib/galaxy/jobs/stock_rules.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,075 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners 2026-08-04T20:56:54,077 copying build/lib/galaxy/jobs/runners/chronos.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,079 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/state_handlers 2026-08-04T20:56:54,080 copying build/lib/galaxy/jobs/runners/state_handlers/_safe_eval.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2026-08-04T20:56:54,083 copying build/lib/galaxy/jobs/runners/state_handlers/resubmit.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2026-08-04T20:56:54,085 copying build/lib/galaxy/jobs/runners/state_handlers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/state_handlers 2026-08-04T20:56:54,087 copying build/lib/galaxy/jobs/runners/drmaa.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,090 copying build/lib/galaxy/jobs/runners/pulsar.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,093 copying build/lib/galaxy/jobs/runners/local.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,095 copying build/lib/galaxy/jobs/runners/condor.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,098 copying build/lib/galaxy/jobs/runners/htcondor.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,101 copying build/lib/galaxy/jobs/runners/univa.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,103 copying build/lib/galaxy/jobs/runners/htcondor_helper.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,105 copying build/lib/galaxy/jobs/runners/pbs.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,108 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util 2026-08-04T20:56:54,109 copying build/lib/galaxy/jobs/runners/util/kill.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-08-04T20:56:54,112 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/job_script 2026-08-04T20:56:54,113 copying build/lib/galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2026-08-04T20:56:54,115 copying build/lib/galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2026-08-04T20:56:54,117 copying build/lib/galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2026-08-04T20:56:54,119 copying build/lib/galaxy/jobs/runners/util/job_script/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/job_script 2026-08-04T20:56:54,121 copying build/lib/galaxy/jobs/runners/util/env.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-08-04T20:56:54,123 copying build/lib/galaxy/jobs/runners/util/process_groups.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-08-04T20:56:54,125 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/condor 2026-08-04T20:56:54,126 copying build/lib/galaxy/jobs/runners/util/condor/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/condor 2026-08-04T20:56:54,128 copying build/lib/galaxy/jobs/runners/util/fork_safe_write.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-08-04T20:56:54,130 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:54,131 copying build/lib/galaxy/jobs/runners/util/gcp_batch/container_script.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:54,133 copying build/lib/galaxy/jobs/runners/util/gcp_batch/direct_script.sh -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:54,135 copying build/lib/galaxy/jobs/runners/util/gcp_batch/helpers.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:54,137 copying build/lib/galaxy/jobs/runners/util/gcp_batch/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/gcp_batch 2026-08-04T20:56:54,138 copying build/lib/galaxy/jobs/runners/util/pykube_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-08-04T20:56:54,141 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli 2026-08-04T20:56:54,143 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli/shell 2026-08-04T20:56:54,144 copying build/lib/galaxy/jobs/runners/util/cli/shell/local.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2026-08-04T20:56:54,146 copying build/lib/galaxy/jobs/runners/util/cli/shell/rsh.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2026-08-04T20:56:54,148 copying build/lib/galaxy/jobs/runners/util/cli/shell/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/shell 2026-08-04T20:56:54,151 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:54,152 copying build/lib/galaxy/jobs/runners/util/cli/job/torque.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:54,154 copying build/lib/galaxy/jobs/runners/util/cli/job/slurm_torque.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:54,156 copying build/lib/galaxy/jobs/runners/util/cli/job/pbs.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:54,158 copying build/lib/galaxy/jobs/runners/util/cli/job/slurm.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:54,160 copying build/lib/galaxy/jobs/runners/util/cli/job/lsf.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:54,162 copying build/lib/galaxy/jobs/runners/util/cli/job/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli/job 2026-08-04T20:56:54,164 copying build/lib/galaxy/jobs/runners/util/cli/factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli 2026-08-04T20:56:54,166 copying build/lib/galaxy/jobs/runners/util/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util/cli 2026-08-04T20:56:54,168 copying build/lib/galaxy/jobs/runners/util/sudo.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-08-04T20:56:54,170 copying build/lib/galaxy/jobs/runners/util/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-08-04T20:56:54,171 copying build/lib/galaxy/jobs/runners/util/external.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners/util 2026-08-04T20:56:54,173 copying build/lib/galaxy/jobs/runners/aws.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,175 copying build/lib/galaxy/jobs/runners/slurm.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,178 copying build/lib/galaxy/jobs/runners/cli.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,180 copying build/lib/galaxy/jobs/runners/gcp_batch.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,183 copying build/lib/galaxy/jobs/runners/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,185 copying build/lib/galaxy/jobs/runners/kubernetes.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,188 copying build/lib/galaxy/jobs/runners/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,191 copying build/lib/galaxy/jobs/runners/state_handler_factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,192 copying build/lib/galaxy/jobs/runners/godocker.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/runners 2026-08-04T20:56:54,195 copying build/lib/galaxy/jobs/command_factory.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,197 copying build/lib/galaxy/jobs/dynamic_tool_destination.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,201 creating build/bdist.linux-armv7l/wheel/galaxy/jobs/splitters 2026-08-04T20:56:54,202 copying build/lib/galaxy/jobs/splitters/basic.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2026-08-04T20:56:54,204 copying build/lib/galaxy/jobs/splitters/multi.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2026-08-04T20:56:54,206 copying build/lib/galaxy/jobs/splitters/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs/splitters 2026-08-04T20:56:54,207 copying build/lib/galaxy/jobs/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,211 copying build/lib/galaxy/jobs/handler.py -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,214 copying build/lib/galaxy/jobs/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/jobs 2026-08-04T20:56:54,217 creating build/bdist.linux-armv7l/wheel/galaxy/managers 2026-08-04T20:56:54,218 copying build/lib/galaxy/managers/display_applications.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,220 copying build/lib/galaxy/managers/secured.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,223 copying build/lib/galaxy/managers/history_graph.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,225 copying build/lib/galaxy/managers/hdas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,228 copying build/lib/galaxy/managers/tours.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,231 copying build/lib/galaxy/managers/markdown_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,235 copying build/lib/galaxy/managers/sse.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,238 copying build/lib/galaxy/managers/collections_util.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,241 copying build/lib/galaxy/managers/pages.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,243 copying build/lib/galaxy/managers/collections.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,246 copying build/lib/galaxy/managers/base.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,250 copying build/lib/galaxy/managers/licenses.json -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,255 copying build/lib/galaxy/managers/item_tags.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,256 copying build/lib/galaxy/managers/library_datasets.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,259 copying build/lib/galaxy/managers/roles.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,261 copying build/lib/galaxy/managers/notification.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,263 copying build/lib/galaxy/managers/group_roles.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,265 copying build/lib/galaxy/managers/session.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,266 copying build/lib/galaxy/managers/context.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,269 copying build/lib/galaxy/managers/citations.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,271 copying build/lib/galaxy/managers/annotatable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,273 copying build/lib/galaxy/managers/sharable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,275 copying build/lib/galaxy/managers/folders.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,278 copying build/lib/galaxy/managers/model_stores.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,280 copying build/lib/galaxy/managers/history_contents.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,283 copying build/lib/galaxy/managers/tool_data.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,285 copying build/lib/galaxy/managers/markdown_parse.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,287 copying build/lib/galaxy/managers/workflows.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,291 copying build/lib/galaxy/managers/datatypes.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,293 copying build/lib/galaxy/managers/users.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,296 copying build/lib/galaxy/managers/licenses.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,298 copying build/lib/galaxy/managers/agents.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,300 copying build/lib/galaxy/managers/queue_metrics.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,302 copying build/lib/galaxy/managers/sse_dispatch.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,305 copying build/lib/galaxy/managers/api_keys.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,307 copying build/lib/galaxy/managers/forms.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,309 copying build/lib/galaxy/managers/tags.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,311 copying build/lib/galaxy/managers/ratable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,313 copying build/lib/galaxy/managers/quotas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,316 copying build/lib/galaxy/managers/history_audit_monitor.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,318 copying build/lib/galaxy/managers/libraries.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,321 copying build/lib/galaxy/managers/deletable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,323 copying build/lib/galaxy/managers/hdcas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,325 copying build/lib/galaxy/managers/dbkeys.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,328 copying build/lib/galaxy/managers/chat.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,330 copying build/lib/galaxy/managers/markdown_export_base.css -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,332 copying build/lib/galaxy/managers/file_source_instances.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,334 copying build/lib/galaxy/managers/genomes.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,337 copying build/lib/galaxy/managers/rbac_secured.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,339 copying build/lib/galaxy/managers/tools.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,341 copying build/lib/galaxy/managers/group_users.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,343 copying build/lib/galaxy/managers/remote_files.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,345 copying build/lib/galaxy/managers/jobs.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,348 copying build/lib/galaxy/managers/histories.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,352 copying build/lib/galaxy/managers/lddas.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,354 copying build/lib/galaxy/managers/datasets.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,357 copying build/lib/galaxy/managers/headers_encryption.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,359 copying build/lib/galaxy/managers/executables.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,361 copying build/lib/galaxy/managers/object_store_instances.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,363 copying build/lib/galaxy/managers/workflow_completion.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,365 copying build/lib/galaxy/managers/job_connections.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,368 copying build/lib/galaxy/managers/groups.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,370 copying build/lib/galaxy/managers/taggable.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,372 copying build/lib/galaxy/managers/interactivetool.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,374 copying build/lib/galaxy/managers/tasks.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,376 copying build/lib/galaxy/managers/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,378 copying build/lib/galaxy/managers/visualizations.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,380 copying build/lib/galaxy/managers/credentials.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,382 copying build/lib/galaxy/managers/dataset_storage_operations.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,386 copying build/lib/galaxy/managers/_config_templates.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,388 copying build/lib/galaxy/managers/landing.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,391 copying build/lib/galaxy/managers/export_tracker.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,394 copying build/lib/galaxy/managers/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,395 copying build/lib/galaxy/managers/configuration.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,398 copying build/lib/galaxy/managers/favorites.py -> build/bdist.linux-armv7l/wheel/./galaxy/managers 2026-08-04T20:56:54,400 creating build/bdist.linux-armv7l/wheel/galaxy/main 2026-08-04T20:56:54,402 copying build/lib/galaxy/main/__init__.py -> build/bdist.linux-armv7l/wheel/./galaxy/main 2026-08-04T20:56:54,404 copying build/lib/galaxy/main/py.typed -> build/bdist.linux-armv7l/wheel/./galaxy/main 2026-08-04T20:56:54,405 running install_egg_info 2026-08-04T20:56:54,412 Copying src/galaxy_app.egg-info to build/bdist.linux-armv7l/wheel/./galaxy_app-26.1.1-py3.11.egg-info 2026-08-04T20:56:54,427 running install_scripts 2026-08-04T20:56:54,441 creating build/bdist.linux-armv7l/wheel/galaxy_app-26.1.1.dist-info/WHEEL 2026-08-04T20:56:54,444 creating '/tmp/pip-wheel-07k50h11/.tmp-c7j9bfgi/galaxy_app-26.1.1-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-08-04T20:56:54,447 adding 'galaxy/actions/__init__.py' 2026-08-04T20:56:54,450 adding 'galaxy/actions/library.py' 2026-08-04T20:56:54,451 adding 'galaxy/actions/py.typed' 2026-08-04T20:56:54,453 adding 'galaxy/agents/__init__.py' 2026-08-04T20:56:54,458 adding 'galaxy/agents/base.py' 2026-08-04T20:56:54,464 adding 'galaxy/agents/custom_tool.py' 2026-08-04T20:56:54,466 adding 'galaxy/agents/error_analysis.py' 2026-08-04T20:56:54,467 adding 'galaxy/agents/factory.py' 2026-08-04T20:56:54,470 adding 'galaxy/agents/gtn_training.py' 2026-08-04T20:56:54,472 adding 'galaxy/agents/history.py' 2026-08-04T20:56:54,473 adding 'galaxy/agents/history_tools.py' 2026-08-04T20:56:54,475 adding 'galaxy/agents/iwc.py' 2026-08-04T20:56:54,479 adding 'galaxy/agents/operations.py' 2026-08-04T20:56:54,481 adding 'galaxy/agents/orchestrator.py' 2026-08-04T20:56:54,483 adding 'galaxy/agents/page_assistant.py' 2026-08-04T20:56:54,485 adding 'galaxy/agents/py.typed' 2026-08-04T20:56:54,486 adding 'galaxy/agents/registry.py' 2026-08-04T20:56:54,491 adding 'galaxy/agents/router.py' 2026-08-04T20:56:54,492 adding 'galaxy/agents/static_backend.py' 2026-08-04T20:56:54,496 adding 'galaxy/agents/tools.py' 2026-08-04T20:56:54,497 adding 'galaxy/agents/workflow_report.py' 2026-08-04T20:56:54,499 adding 'galaxy/agents/gtn/__init__.py' 2026-08-04T20:56:54,501 adding 'galaxy/agents/gtn/__main__.py' 2026-08-04T20:56:54,503 adding 'galaxy/agents/gtn/build_database.py' 2026-08-04T20:56:54,506 adding 'galaxy/agents/gtn/search.py' 2026-08-04T20:56:54,508 adding 'galaxy/agents/prompts/custom_tool_container_critic.md' 2026-08-04T20:56:54,510 adding 'galaxy/agents/prompts/custom_tool_critic.md' 2026-08-04T20:56:54,512 adding 'galaxy/agents/prompts/custom_tool_structured.md' 2026-08-04T20:56:54,513 adding 'galaxy/agents/prompts/error_analysis.md' 2026-08-04T20:56:54,515 adding 'galaxy/agents/prompts/gtn_training.md' 2026-08-04T20:56:54,516 adding 'galaxy/agents/prompts/history_analyzer.md' 2026-08-04T20:56:54,517 adding 'galaxy/agents/prompts/orchestrator.md' 2026-08-04T20:56:54,519 adding 'galaxy/agents/prompts/page_assistant.md' 2026-08-04T20:56:54,522 adding 'galaxy/agents/prompts/router.md' 2026-08-04T20:56:54,524 adding 'galaxy/agents/prompts/tool_recommendation.md' 2026-08-04T20:56:54,525 adding 'galaxy/agents/prompts/workflow_report.md' 2026-08-04T20:56:54,532 adding 'galaxy/app/__init__.py' 2026-08-04T20:56:54,534 adding 'galaxy/app/py.typed' 2026-08-04T20:56:54,535 adding 'galaxy/app_unittest_utils/__init__.py' 2026-08-04T20:56:54,537 adding 'galaxy/app_unittest_utils/fetch_workbook.csv' 2026-08-04T20:56:54,538 adding 'galaxy/app_unittest_utils/fetch_workbook.tsv' 2026-08-04T20:56:54,539 adding 'galaxy/app_unittest_utils/fetch_workbook.xlsx' 2026-08-04T20:56:54,541 adding 'galaxy/app_unittest_utils/fetch_workbook_list_pairs_without_ids_example.xlsx' 2026-08-04T20:56:54,543 adding 'galaxy/app_unittest_utils/fetch_workbook_list_without_ids_example.xlsx' 2026-08-04T20:56:54,545 adding 'galaxy/app_unittest_utils/fetch_workbook_paired.xlsx' 2026-08-04T20:56:54,547 adding 'galaxy/app_unittest_utils/fetch_workbook_paired_with_hashes.xlsx' 2026-08-04T20:56:54,549 adding 'galaxy/app_unittest_utils/galaxy_mock.py' 2026-08-04T20:56:54,550 adding 'galaxy/app_unittest_utils/py.typed' 2026-08-04T20:56:54,552 adding 'galaxy/app_unittest_utils/toolbox_support.py' 2026-08-04T20:56:54,553 adding 'galaxy/app_unittest_utils/tools_support.py' 2026-08-04T20:56:54,555 adding 'galaxy/authnz/__init__.py' 2026-08-04T20:56:54,556 adding 'galaxy/authnz/auth0.py' 2026-08-04T20:56:54,558 adding 'galaxy/authnz/cilogon.py' 2026-08-04T20:56:54,559 adding 'galaxy/authnz/keycloak.py' 2026-08-04T20:56:54,562 adding 'galaxy/authnz/managers.py' 2026-08-04T20:56:54,564 adding 'galaxy/authnz/oidc.py' 2026-08-04T20:56:54,565 adding 'galaxy/authnz/oidc_utils.py' 2026-08-04T20:56:54,572 adding 'galaxy/authnz/psa_authnz.py' 2026-08-04T20:56:54,573 adding 'galaxy/authnz/py.typed' 2026-08-04T20:56:54,575 adding 'galaxy/authnz/tapis.py' 2026-08-04T20:56:54,576 adding 'galaxy/authnz/util.py' 2026-08-04T20:56:54,578 adding 'galaxy/authnz/xsd/oidc_backends_config.xsd' 2026-08-04T20:56:54,580 adding 'galaxy/carbon_emissions/__init__.py' 2026-08-04T20:56:54,582 adding 'galaxy/carbon_emissions/carbon_intensity.csv' 2026-08-04T20:56:54,583 adding 'galaxy/carbon_emissions/py.typed' 2026-08-04T20:56:54,585 adding 'galaxy/celery/__init__.py' 2026-08-04T20:56:54,587 adding 'galaxy/celery/_serialization.py' 2026-08-04T20:56:54,589 adding 'galaxy/celery/base_task.py' 2026-08-04T20:56:54,590 adding 'galaxy/celery/helpers.py' 2026-08-04T20:56:54,591 adding 'galaxy/celery/py.typed' 2026-08-04T20:56:54,595 adding 'galaxy/celery/tasks.py' 2026-08-04T20:56:54,598 adding 'galaxy/config_watchers/__init__.py' 2026-08-04T20:56:54,599 adding 'galaxy/config_watchers/py.typed' 2026-08-04T20:56:54,601 adding 'galaxy/dependencies/__init__.py' 2026-08-04T20:56:54,602 adding 'galaxy/dependencies/conditional-constraints.txt' 2026-08-04T20:56:54,604 adding 'galaxy/dependencies/conditional-requirements.txt' 2026-08-04T20:56:54,606 adding 'galaxy/dependencies/dev-requirements.txt' 2026-08-04T20:56:54,607 adding 'galaxy/dependencies/lint-requirements.txt' 2026-08-04T20:56:54,608 adding 'galaxy/dependencies/pinned-lint-requirements.txt' 2026-08-04T20:56:54,610 adding 'galaxy/dependencies/pinned-requirements.txt' 2026-08-04T20:56:54,611 adding 'galaxy/dependencies/pinned-test-requirements.txt' 2026-08-04T20:56:54,613 adding 'galaxy/dependencies/pinned-typecheck-requirements.txt' 2026-08-04T20:56:54,614 adding 'galaxy/dependencies/py.typed' 2026-08-04T20:56:54,615 adding 'galaxy/dependencies/script.py' 2026-08-04T20:56:54,616 adding 'galaxy/dependencies/update.sh' 2026-08-04T20:56:54,618 adding 'galaxy/dependencies/update_lint_requirements.sh' 2026-08-04T20:56:54,620 adding 'galaxy/di/__init__.py' 2026-08-04T20:56:54,621 adding 'galaxy/di/py.typed' 2026-08-04T20:56:54,622 adding 'galaxy/forms/__init__.py' 2026-08-04T20:56:54,624 adding 'galaxy/forms/forms.py' 2026-08-04T20:56:54,625 adding 'galaxy/forms/py.typed' 2026-08-04T20:56:54,643 adding 'galaxy/jobs/__init__.py' 2026-08-04T20:56:54,646 adding 'galaxy/jobs/command_factory.py' 2026-08-04T20:56:54,654 adding 'galaxy/jobs/dynamic_tool_destination.py' 2026-08-04T20:56:54,661 adding 'galaxy/jobs/handler.py' 2026-08-04T20:56:54,663 adding 'galaxy/jobs/job_destination.py' 2026-08-04T20:56:54,664 adding 'galaxy/jobs/manager.py' 2026-08-04T20:56:54,666 adding 'galaxy/jobs/mapper.py' 2026-08-04T20:56:54,667 adding 'galaxy/jobs/py.typed' 2026-08-04T20:56:54,669 adding 'galaxy/jobs/rule_helper.py' 2026-08-04T20:56:54,670 adding 'galaxy/jobs/stock_rules.py' 2026-08-04T20:56:54,672 adding 'galaxy/jobs/rules/__init__.py' 2026-08-04T20:56:54,678 adding 'galaxy/jobs/runners/__init__.py' 2026-08-04T20:56:54,681 adding 'galaxy/jobs/runners/aws.py' 2026-08-04T20:56:54,683 adding 'galaxy/jobs/runners/chronos.py' 2026-08-04T20:56:54,686 adding 'galaxy/jobs/runners/cli.py' 2026-08-04T20:56:54,688 adding 'galaxy/jobs/runners/condor.py' 2026-08-04T20:56:54,691 adding 'galaxy/jobs/runners/drmaa.py' 2026-08-04T20:56:54,695 adding 'galaxy/jobs/runners/gcp_batch.py' 2026-08-04T20:56:54,698 adding 'galaxy/jobs/runners/godocker.py' 2026-08-04T20:56:54,702 adding 'galaxy/jobs/runners/htcondor.py' 2026-08-04T20:56:54,704 adding 'galaxy/jobs/runners/htcondor_helper.py' 2026-08-04T20:56:54,710 adding 'galaxy/jobs/runners/kubernetes.py' 2026-08-04T20:56:54,712 adding 'galaxy/jobs/runners/local.py' 2026-08-04T20:56:54,715 adding 'galaxy/jobs/runners/pbs.py' 2026-08-04T20:56:54,722 adding 'galaxy/jobs/runners/pulsar.py' 2026-08-04T20:56:54,725 adding 'galaxy/jobs/runners/slurm.py' 2026-08-04T20:56:54,726 adding 'galaxy/jobs/runners/state_handler_factory.py' 2026-08-04T20:56:54,728 adding 'galaxy/jobs/runners/tasks.py' 2026-08-04T20:56:54,732 adding 'galaxy/jobs/runners/univa.py' 2026-08-04T20:56:54,733 adding 'galaxy/jobs/runners/state_handlers/__init__.py' 2026-08-04T20:56:54,735 adding 'galaxy/jobs/runners/state_handlers/_safe_eval.py' 2026-08-04T20:56:54,737 adding 'galaxy/jobs/runners/state_handlers/resubmit.py' 2026-08-04T20:56:54,739 adding 'galaxy/jobs/runners/util/__init__.py' 2026-08-04T20:56:54,740 adding 'galaxy/jobs/runners/util/env.py' 2026-08-04T20:56:54,741 adding 'galaxy/jobs/runners/util/external.py' 2026-08-04T20:56:54,742 adding 'galaxy/jobs/runners/util/fork_safe_write.py' 2026-08-04T20:56:54,744 adding 'galaxy/jobs/runners/util/kill.py' 2026-08-04T20:56:54,745 adding 'galaxy/jobs/runners/util/process_groups.py' 2026-08-04T20:56:54,747 adding 'galaxy/jobs/runners/util/pykube_util.py' 2026-08-04T20:56:54,748 adding 'galaxy/jobs/runners/util/sudo.py' 2026-08-04T20:56:54,750 adding 'galaxy/jobs/runners/util/cli/__init__.py' 2026-08-04T20:56:54,751 adding 'galaxy/jobs/runners/util/cli/factory.py' 2026-08-04T20:56:54,753 adding 'galaxy/jobs/runners/util/cli/job/__init__.py' 2026-08-04T20:56:54,754 adding 'galaxy/jobs/runners/util/cli/job/lsf.py' 2026-08-04T20:56:54,756 adding 'galaxy/jobs/runners/util/cli/job/pbs.py' 2026-08-04T20:56:54,757 adding 'galaxy/jobs/runners/util/cli/job/slurm.py' 2026-08-04T20:56:54,759 adding 'galaxy/jobs/runners/util/cli/job/slurm_torque.py' 2026-08-04T20:56:54,760 adding 'galaxy/jobs/runners/util/cli/job/torque.py' 2026-08-04T20:56:54,762 adding 'galaxy/jobs/runners/util/cli/shell/__init__.py' 2026-08-04T20:56:54,763 adding 'galaxy/jobs/runners/util/cli/shell/local.py' 2026-08-04T20:56:54,765 adding 'galaxy/jobs/runners/util/cli/shell/rsh.py' 2026-08-04T20:56:54,767 adding 'galaxy/jobs/runners/util/condor/__init__.py' 2026-08-04T20:56:54,768 adding 'galaxy/jobs/runners/util/gcp_batch/__init__.py' 2026-08-04T20:56:54,770 adding 'galaxy/jobs/runners/util/gcp_batch/container_script.sh' 2026-08-04T20:56:54,772 adding 'galaxy/jobs/runners/util/gcp_batch/direct_script.sh' 2026-08-04T20:56:54,773 adding 'galaxy/jobs/runners/util/gcp_batch/helpers.py' 2026-08-04T20:56:54,775 adding 'galaxy/jobs/runners/util/job_script/CLUSTER_SLOTS_STATEMENT.sh' 2026-08-04T20:56:54,777 adding 'galaxy/jobs/runners/util/job_script/DEFAULT_JOB_FILE_TEMPLATE.sh' 2026-08-04T20:56:54,778 adding 'galaxy/jobs/runners/util/job_script/MEMORY_STATEMENT_TEMPLATE.sh' 2026-08-04T20:56:54,780 adding 'galaxy/jobs/runners/util/job_script/__init__.py' 2026-08-04T20:56:54,781 adding 'galaxy/jobs/splitters/__init__.py' 2026-08-04T20:56:54,783 adding 'galaxy/jobs/splitters/basic.py' 2026-08-04T20:56:54,784 adding 'galaxy/jobs/splitters/multi.py' 2026-08-04T20:56:54,787 adding 'galaxy/main/__init__.py' 2026-08-04T20:56:54,788 adding 'galaxy/main/py.typed' 2026-08-04T20:56:54,790 adding 'galaxy/main_config/__init__.py' 2026-08-04T20:56:54,791 adding 'galaxy/main_config/py.typed' 2026-08-04T20:56:54,794 adding 'galaxy/managers/__init__.py' 2026-08-04T20:56:54,797 adding 'galaxy/managers/_config_templates.py' 2026-08-04T20:56:54,798 adding 'galaxy/managers/agents.py' 2026-08-04T20:56:54,800 adding 'galaxy/managers/annotatable.py' 2026-08-04T20:56:54,801 adding 'galaxy/managers/api_keys.py' 2026-08-04T20:56:54,809 adding 'galaxy/managers/base.py' 2026-08-04T20:56:54,812 adding 'galaxy/managers/chat.py' 2026-08-04T20:56:54,813 adding 'galaxy/managers/citations.py' 2026-08-04T20:56:54,818 adding 'galaxy/managers/collections.py' 2026-08-04T20:56:54,820 adding 'galaxy/managers/collections_util.py' 2026-08-04T20:56:54,822 adding 'galaxy/managers/configuration.py' 2026-08-04T20:56:54,824 adding 'galaxy/managers/context.py' 2026-08-04T20:56:54,826 adding 'galaxy/managers/credentials.py' 2026-08-04T20:56:54,833 adding 'galaxy/managers/dataset_storage_operations.py' 2026-08-04T20:56:54,838 adding 'galaxy/managers/datasets.py' 2026-08-04T20:56:54,840 adding 'galaxy/managers/datatypes.py' 2026-08-04T20:56:54,842 adding 'galaxy/managers/dbkeys.py' 2026-08-04T20:56:54,843 adding 'galaxy/managers/deletable.py' 2026-08-04T20:56:54,845 adding 'galaxy/managers/display_applications.py' 2026-08-04T20:56:54,846 adding 'galaxy/managers/executables.py' 2026-08-04T20:56:54,848 adding 'galaxy/managers/export_tracker.py' 2026-08-04T20:56:54,849 adding 'galaxy/managers/favorites.py' 2026-08-04T20:56:54,853 adding 'galaxy/managers/file_source_instances.py' 2026-08-04T20:56:54,856 adding 'galaxy/managers/folders.py' 2026-08-04T20:56:54,857 adding 'galaxy/managers/forms.py' 2026-08-04T20:56:54,859 adding 'galaxy/managers/genomes.py' 2026-08-04T20:56:54,860 adding 'galaxy/managers/group_roles.py' 2026-08-04T20:56:54,861 adding 'galaxy/managers/group_users.py' 2026-08-04T20:56:54,863 adding 'galaxy/managers/groups.py' 2026-08-04T20:56:54,866 adding 'galaxy/managers/hdas.py' 2026-08-04T20:56:54,869 adding 'galaxy/managers/hdcas.py' 2026-08-04T20:56:54,871 adding 'galaxy/managers/headers_encryption.py' 2026-08-04T20:56:54,876 adding 'galaxy/managers/histories.py' 2026-08-04T20:56:54,878 adding 'galaxy/managers/history_audit_monitor.py' 2026-08-04T20:56:54,883 adding 'galaxy/managers/history_contents.py' 2026-08-04T20:56:54,886 adding 'galaxy/managers/history_graph.py' 2026-08-04T20:56:54,889 adding 'galaxy/managers/interactivetool.py' 2026-08-04T20:56:54,890 adding 'galaxy/managers/item_tags.py' 2026-08-04T20:56:54,892 adding 'galaxy/managers/job_connections.py' 2026-08-04T20:56:54,903 adding 'galaxy/managers/jobs.py' 2026-08-04T20:56:54,906 adding 'galaxy/managers/landing.py' 2026-08-04T20:56:54,907 adding 'galaxy/managers/lddas.py' 2026-08-04T20:56:54,909 adding 'galaxy/managers/libraries.py' 2026-08-04T20:56:54,912 adding 'galaxy/managers/library_datasets.py' 2026-08-04T20:56:54,922 adding 'galaxy/managers/licenses.json' 2026-08-04T20:56:54,925 adding 'galaxy/managers/licenses.py' 2026-08-04T20:56:54,927 adding 'galaxy/managers/markdown_export_base.css' 2026-08-04T20:56:54,928 adding 'galaxy/managers/markdown_parse.py' 2026-08-04T20:56:54,934 adding 'galaxy/managers/markdown_util.py' 2026-08-04T20:56:54,937 adding 'galaxy/managers/model_stores.py' 2026-08-04T20:56:54,941 adding 'galaxy/managers/notification.py' 2026-08-04T20:56:54,943 adding 'galaxy/managers/object_store_instances.py' 2026-08-04T20:56:54,947 adding 'galaxy/managers/pages.py' 2026-08-04T20:56:54,948 adding 'galaxy/managers/py.typed' 2026-08-04T20:56:54,950 adding 'galaxy/managers/queue_metrics.py' 2026-08-04T20:56:54,952 adding 'galaxy/managers/quotas.py' 2026-08-04T20:56:54,953 adding 'galaxy/managers/ratable.py' 2026-08-04T20:56:54,955 adding 'galaxy/managers/rbac_secured.py' 2026-08-04T20:56:54,957 adding 'galaxy/managers/remote_files.py' 2026-08-04T20:56:54,958 adding 'galaxy/managers/roles.py' 2026-08-04T20:56:54,960 adding 'galaxy/managers/secured.py' 2026-08-04T20:56:54,961 adding 'galaxy/managers/session.py' 2026-08-04T20:56:54,964 adding 'galaxy/managers/sharable.py' 2026-08-04T20:56:54,966 adding 'galaxy/managers/sse.py' 2026-08-04T20:56:54,968 adding 'galaxy/managers/sse_dispatch.py' 2026-08-04T20:56:54,970 adding 'galaxy/managers/taggable.py' 2026-08-04T20:56:54,971 adding 'galaxy/managers/tags.py' 2026-08-04T20:56:54,972 adding 'galaxy/managers/tasks.py' 2026-08-04T20:56:54,974 adding 'galaxy/managers/tool_data.py' 2026-08-04T20:56:54,976 adding 'galaxy/managers/tools.py' 2026-08-04T20:56:54,978 adding 'galaxy/managers/tours.py' 2026-08-04T20:56:54,983 adding 'galaxy/managers/users.py' 2026-08-04T20:56:54,985 adding 'galaxy/managers/visualizations.py' 2026-08-04T20:56:54,987 adding 'galaxy/managers/workflow_completion.py' 2026-08-04T20:56:55,000 adding 'galaxy/managers/workflows.py' 2026-08-04T20:56:55,004 adding 'galaxy/queue_worker/__init__.py' 2026-08-04T20:56:55,006 adding 'galaxy/queue_worker/py.typed' 2026-08-04T20:56:55,008 adding 'galaxy/queues/__init__.py' 2026-08-04T20:56:55,009 adding 'galaxy/queues/py.typed' 2026-08-04T20:56:55,011 adding 'galaxy/short_term_storage/__init__.py' 2026-08-04T20:56:55,012 adding 'galaxy/short_term_storage/py.typed' 2026-08-04T20:56:55,014 adding 'galaxy/sse_monitor/__init__.py' 2026-08-04T20:56:55,015 adding 'galaxy/sse_monitor/__main__.py' 2026-08-04T20:56:55,017 adding 'galaxy/structured_app/__init__.py' 2026-08-04T20:56:55,018 adding 'galaxy/structured_app/py.typed' 2026-08-04T20:56:55,020 adding 'galaxy/tool_shed/__init__.py' 2026-08-04T20:56:55,021 adding 'galaxy/tool_shed/cache.py' 2026-08-04T20:56:55,023 adding 'galaxy/tool_shed/py.typed' 2026-08-04T20:56:55,024 adding 'galaxy/tool_shed/repository_type.py' 2026-08-04T20:56:55,026 adding 'galaxy/tool_shed/galaxy_install/__init__.py' 2026-08-04T20:56:55,027 adding 'galaxy/tool_shed/galaxy_install/client.py' 2026-08-04T20:56:55,032 adding 'galaxy/tool_shed/galaxy_install/install_manager.py' 2026-08-04T20:56:55,037 adding 'galaxy/tool_shed/galaxy_install/installed_repository_manager.py' 2026-08-04T20:56:55,039 adding 'galaxy/tool_shed/galaxy_install/update_repository_manager.py' 2026-08-04T20:56:55,041 adding 'galaxy/tool_shed/galaxy_install/metadata/__init__.py' 2026-08-04T20:56:55,042 adding 'galaxy/tool_shed/galaxy_install/metadata/installed_repository_metadata_manager.py' 2026-08-04T20:56:55,044 adding 'galaxy/tool_shed/galaxy_install/repository_dependencies/__init__.py' 2026-08-04T20:56:55,048 adding 'galaxy/tool_shed/galaxy_install/repository_dependencies/repository_dependency_manager.py' 2026-08-04T20:56:55,050 adding 'galaxy/tool_shed/galaxy_install/tools/__init__.py' 2026-08-04T20:56:55,052 adding 'galaxy/tool_shed/galaxy_install/tools/data_manager.py' 2026-08-04T20:56:55,055 adding 'galaxy/tool_shed/galaxy_install/tools/tool_panel_manager.py' 2026-08-04T20:56:55,056 adding 'galaxy/tool_shed/metadata/__init__.py' 2026-08-04T20:56:55,062 adding 'galaxy/tool_shed/metadata/metadata_generator.py' 2026-08-04T20:56:55,064 adding 'galaxy/tool_shed/tools/__init__.py' 2026-08-04T20:56:55,067 adding 'galaxy/tool_shed/tools/data_table_manager.py' 2026-08-04T20:56:55,068 adding 'galaxy/tool_shed/tools/tool_validator.py' 2026-08-04T20:56:55,070 adding 'galaxy/tool_shed/unittest_utils/__init__.py' 2026-08-04T20:56:55,072 adding 'galaxy/tool_shed/util/__init__.py' 2026-08-04T20:56:55,074 adding 'galaxy/tool_shed/util/basic_util.py' 2026-08-04T20:56:55,075 adding 'galaxy/tool_shed/util/container_util.py' 2026-08-04T20:56:55,077 adding 'galaxy/tool_shed/util/dependency_display.py' 2026-08-04T20:56:55,079 adding 'galaxy/tool_shed/util/hg_util.py' 2026-08-04T20:56:55,080 adding 'galaxy/tool_shed/util/metadata_util.py' 2026-08-04T20:56:55,084 adding 'galaxy/tool_shed/util/repository_util.py' 2026-08-04T20:56:55,086 adding 'galaxy/tool_shed/util/shed_util_common.py' 2026-08-04T20:56:55,088 adding 'galaxy/tool_shed/util/tool_dependency_util.py' 2026-08-04T20:56:55,090 adding 'galaxy/tool_shed/util/tool_util.py' 2026-08-04T20:56:55,094 adding 'galaxy/tool_shed/util/utility_container_manager.py' 2026-08-04T20:56:55,121 adding 'galaxy/tools/__init__.py' 2026-08-04T20:56:55,124 adding 'galaxy/tools/_types.py' 2026-08-04T20:56:55,126 adding 'galaxy/tools/apply_rules.xml' 2026-08-04T20:56:55,127 adding 'galaxy/tools/biotools.py' 2026-08-04T20:56:55,128 adding 'galaxy/tools/build_list.xml' 2026-08-04T20:56:55,130 adding 'galaxy/tools/build_list_1.2.0.xml' 2026-08-04T20:56:55,131 adding 'galaxy/tools/cache.py' 2026-08-04T20:56:55,133 adding 'galaxy/tools/convert_sample_sheet.xml' 2026-08-04T20:56:55,134 adding 'galaxy/tools/cross_product_flat.xml' 2026-08-04T20:56:55,136 adding 'galaxy/tools/cross_product_nested.xml' 2026-08-04T20:56:55,139 adding 'galaxy/tools/data_fetch.py' 2026-08-04T20:56:55,140 adding 'galaxy/tools/data_fetch.xml' 2026-08-04T20:56:55,142 adding 'galaxy/tools/data_fetch_utils.py' 2026-08-04T20:56:55,143 adding 'galaxy/tools/duplicate_file_to_collection.xml' 2026-08-04T20:56:55,145 adding 'galaxy/tools/errors.py' 2026-08-04T20:56:55,151 adding 'galaxy/tools/evaluation.py' 2026-08-04T20:56:55,152 adding 'galaxy/tools/exception_handling.py' 2026-08-04T20:56:55,157 adding 'galaxy/tools/execute.py' 2026-08-04T20:56:55,159 adding 'galaxy/tools/execution_helpers.py' 2026-08-04T20:56:55,160 adding 'galaxy/tools/extract_dataset.xml' 2026-08-04T20:56:55,161 adding 'galaxy/tools/filter_empty_collection.xml' 2026-08-04T20:56:55,163 adding 'galaxy/tools/filter_empty_collection_1.1.0.xml' 2026-08-04T20:56:55,164 adding 'galaxy/tools/filter_failed_collection.xml' 2026-08-04T20:56:55,165 adding 'galaxy/tools/filter_failed_collection_1.1.0.xml' 2026-08-04T20:56:55,167 adding 'galaxy/tools/filter_from_file.xml' 2026-08-04T20:56:55,168 adding 'galaxy/tools/filter_from_file_1.1.0.xml' 2026-08-04T20:56:55,170 adding 'galaxy/tools/filter_null.xml' 2026-08-04T20:56:55,171 adding 'galaxy/tools/filter_null_1.1.0.xml' 2026-08-04T20:56:55,172 adding 'galaxy/tools/flatten_collection.xml' 2026-08-04T20:56:55,174 adding 'galaxy/tools/harmonize_two_collections_list.xml' 2026-08-04T20:56:55,176 adding 'galaxy/tools/harmonize_two_collections_list_1.0.0.xml' 2026-08-04T20:56:55,177 adding 'galaxy/tools/keep_success_collection.xml' 2026-08-04T20:56:55,178 adding 'galaxy/tools/keep_success_collection_1.1.0.xml' 2026-08-04T20:56:55,180 adding 'galaxy/tools/merge_collection.xml' 2026-08-04T20:56:55,182 adding 'galaxy/tools/model_operation_macros.xml' 2026-08-04T20:56:55,183 adding 'galaxy/tools/nest_collection.xml' 2026-08-04T20:56:55,184 adding 'galaxy/tools/py.typed' 2026-08-04T20:56:55,187 adding 'galaxy/tools/recommendations.py' 2026-08-04T20:56:55,188 adding 'galaxy/tools/relabel_from_file.xml' 2026-08-04T20:56:55,190 adding 'galaxy/tools/remote_tool_eval.py' 2026-08-04T20:56:55,191 adding 'galaxy/tools/repositories.py' 2026-08-04T20:56:55,193 adding 'galaxy/tools/runtime.py' 2026-08-04T20:56:55,195 adding 'galaxy/tools/sample_sheet_to_tabular.xml' 2026-08-04T20:56:55,196 adding 'galaxy/tools/sort_collection_list.xml' 2026-08-04T20:56:55,198 adding 'galaxy/tools/special_tools.py' 2026-08-04T20:56:55,199 adding 'galaxy/tools/split_paired_and_unpaired.xml' 2026-08-04T20:56:55,200 adding 'galaxy/tools/stock.py' 2026-08-04T20:56:55,202 adding 'galaxy/tools/tag_collection_from_file.xml' 2026-08-04T20:56:55,203 adding 'galaxy/tools/unzip_collection.xml' 2026-08-04T20:56:55,207 adding 'galaxy/tools/wrappers.py' 2026-08-04T20:56:55,209 adding 'galaxy/tools/zip_collection.xml' 2026-08-04T20:56:55,217 adding 'galaxy/tools/actions/__init__.py' 2026-08-04T20:56:55,219 adding 'galaxy/tools/actions/data_manager.py' 2026-08-04T20:56:55,220 adding 'galaxy/tools/actions/data_source.py' 2026-08-04T20:56:55,222 adding 'galaxy/tools/actions/history_imp_exp.py' 2026-08-04T20:56:55,224 adding 'galaxy/tools/actions/metadata.py' 2026-08-04T20:56:55,226 adding 'galaxy/tools/actions/model_operations.py' 2026-08-04T20:56:55,227 adding 'galaxy/tools/actions/upload.py' 2026-08-04T20:56:55,230 adding 'galaxy/tools/actions/upload_common.py' 2026-08-04T20:56:55,232 adding 'galaxy/tools/bundled/__init__.py' 2026-08-04T20:56:55,234 adding 'galaxy/tools/bundled/data_export/export_remote.py' 2026-08-04T20:56:55,236 adding 'galaxy/tools/bundled/data_export/export_remote.xml' 2026-08-04T20:56:55,238 adding 'galaxy/tools/bundled/data_source/__init__.py' 2026-08-04T20:56:55,239 adding 'galaxy/tools/bundled/data_source/access_libraries.xml' 2026-08-04T20:56:55,240 adding 'galaxy/tools/bundled/data_source/biomart.xml' 2026-08-04T20:56:55,242 adding 'galaxy/tools/bundled/data_source/biomart_test.xml' 2026-08-04T20:56:55,243 adding 'galaxy/tools/bundled/data_source/cbi_rice_mart.xml' 2026-08-04T20:56:55,245 adding 'galaxy/tools/bundled/data_source/data_source.py' 2026-08-04T20:56:55,246 adding 'galaxy/tools/bundled/data_source/diced.xml' 2026-08-04T20:56:55,247 adding 'galaxy/tools/bundled/data_source/ebi_sra.xml' 2026-08-04T20:56:55,248 adding 'galaxy/tools/bundled/data_source/eupathdb.xml' 2026-08-04T20:56:55,249 adding 'galaxy/tools/bundled/data_source/fly_modencode.xml' 2026-08-04T20:56:55,251 adding 'galaxy/tools/bundled/data_source/flymine.xml' 2026-08-04T20:56:55,252 adding 'galaxy/tools/bundled/data_source/flymine_test.xml' 2026-08-04T20:56:55,253 adding 'galaxy/tools/bundled/data_source/genbank.py' 2026-08-04T20:56:55,254 adding 'galaxy/tools/bundled/data_source/genbank.xml' 2026-08-04T20:56:55,255 adding 'galaxy/tools/bundled/data_source/gramene_mart.xml' 2026-08-04T20:56:55,257 adding 'galaxy/tools/bundled/data_source/hapmapmart.xml' 2026-08-04T20:56:55,258 adding 'galaxy/tools/bundled/data_source/hbvar.xml' 2026-08-04T20:56:55,259 adding 'galaxy/tools/bundled/data_source/import.py' 2026-08-04T20:56:55,261 adding 'galaxy/tools/bundled/data_source/import.xml' 2026-08-04T20:56:55,262 adding 'galaxy/tools/bundled/data_source/intermine.xml' 2026-08-04T20:56:55,263 adding 'galaxy/tools/bundled/data_source/metabolicmine.xml' 2026-08-04T20:56:55,264 adding 'galaxy/tools/bundled/data_source/microbial_import.py' 2026-08-04T20:56:55,266 adding 'galaxy/tools/bundled/data_source/microbial_import.xml' 2026-08-04T20:56:55,267 adding 'galaxy/tools/bundled/data_source/microbial_import_code.py' 2026-08-04T20:56:55,269 adding 'galaxy/tools/bundled/data_source/modmine.xml' 2026-08-04T20:56:55,270 adding 'galaxy/tools/bundled/data_source/mousemine.xml' 2026-08-04T20:56:55,271 adding 'galaxy/tools/bundled/data_source/ncbi_datasets.xml' 2026-08-04T20:56:55,272 adding 'galaxy/tools/bundled/data_source/ratmine.xml' 2026-08-04T20:56:55,274 adding 'galaxy/tools/bundled/data_source/sra.xml' 2026-08-04T20:56:55,275 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser.xml' 2026-08-04T20:56:55,276 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser_archaea.xml' 2026-08-04T20:56:55,278 adding 'galaxy/tools/bundled/data_source/ucsc_tablebrowser_test.xml' 2026-08-04T20:56:55,280 adding 'galaxy/tools/bundled/data_source/upload.py' 2026-08-04T20:56:55,282 adding 'galaxy/tools/bundled/data_source/upload.xml' 2026-08-04T20:56:55,283 adding 'galaxy/tools/bundled/data_source/worm_modencode.xml' 2026-08-04T20:56:55,285 adding 'galaxy/tools/bundled/data_source/wormbase.xml' 2026-08-04T20:56:55,286 adding 'galaxy/tools/bundled/data_source/wormbase_test.xml' 2026-08-04T20:56:55,287 adding 'galaxy/tools/bundled/data_source/yeastmine.xml' 2026-08-04T20:56:55,289 adding 'galaxy/tools/bundled/data_source/zebrafishmine.xml' 2026-08-04T20:56:55,290 adding 'galaxy/tools/bundled/expression_tools/expression_macros.xml' 2026-08-04T20:56:55,292 adding 'galaxy/tools/bundled/expression_tools/parse_values_from_file.xml' 2026-08-04T20:56:55,294 adding 'galaxy/tools/bundled/expression_tools/pick_value.xml' 2026-08-04T20:56:55,295 adding 'galaxy/tools/bundled/extract/__init__.py' 2026-08-04T20:56:55,298 adding 'galaxy/tools/bundled/extract/extract_genomic_dna.py' 2026-08-04T20:56:55,299 adding 'galaxy/tools/bundled/extract/extract_genomic_dna.xml' 2026-08-04T20:56:55,301 adding 'galaxy/tools/bundled/extract/liftOver_wrapper.py' 2026-08-04T20:56:55,302 adding 'galaxy/tools/bundled/extract/liftOver_wrapper.xml' 2026-08-04T20:56:55,305 adding 'galaxy/tools/bundled/filters/CreateInterval.pl' 2026-08-04T20:56:55,306 adding 'galaxy/tools/bundled/filters/CreateInterval.xml' 2026-08-04T20:56:55,307 adding 'galaxy/tools/bundled/filters/__init__.py' 2026-08-04T20:56:55,309 adding 'galaxy/tools/bundled/filters/axt_to_concat_fasta.py' 2026-08-04T20:56:55,310 adding 'galaxy/tools/bundled/filters/axt_to_concat_fasta.xml' 2026-08-04T20:56:55,311 adding 'galaxy/tools/bundled/filters/axt_to_fasta.py' 2026-08-04T20:56:55,313 adding 'galaxy/tools/bundled/filters/axt_to_fasta.xml' 2026-08-04T20:56:55,314 adding 'galaxy/tools/bundled/filters/axt_to_lav.py' 2026-08-04T20:56:55,316 adding 'galaxy/tools/bundled/filters/axt_to_lav.xml' 2026-08-04T20:56:55,317 adding 'galaxy/tools/bundled/filters/axt_to_lav_code.py' 2026-08-04T20:56:55,318 adding 'galaxy/tools/bundled/filters/bed2gff.xml' 2026-08-04T20:56:55,320 adding 'galaxy/tools/bundled/filters/bed_to_bigbed.xml' 2026-08-04T20:56:55,321 adding 'galaxy/tools/bundled/filters/bed_to_gff_converter.py' 2026-08-04T20:56:55,322 adding 'galaxy/tools/bundled/filters/catWrapper.xml' 2026-08-04T20:56:55,324 adding 'galaxy/tools/bundled/filters/changeCase.pl' 2026-08-04T20:56:55,325 adding 'galaxy/tools/bundled/filters/changeCase.xml' 2026-08-04T20:56:55,326 adding 'galaxy/tools/bundled/filters/commWrapper.pl' 2026-08-04T20:56:55,327 adding 'galaxy/tools/bundled/filters/commWrapper.xml' 2026-08-04T20:56:55,329 adding 'galaxy/tools/bundled/filters/compare.xml' 2026-08-04T20:56:55,330 adding 'galaxy/tools/bundled/filters/condense_characters.pl' 2026-08-04T20:56:55,331 adding 'galaxy/tools/bundled/filters/condense_characters.xml' 2026-08-04T20:56:55,332 adding 'galaxy/tools/bundled/filters/convert_characters.py' 2026-08-04T20:56:55,334 adding 'galaxy/tools/bundled/filters/convert_characters.xml' 2026-08-04T20:56:55,335 adding 'galaxy/tools/bundled/filters/cutWrapper.pl' 2026-08-04T20:56:55,337 adding 'galaxy/tools/bundled/filters/cutWrapper.xml' 2026-08-04T20:56:55,338 adding 'galaxy/tools/bundled/filters/fileGrep.xml' 2026-08-04T20:56:55,339 adding 'galaxy/tools/bundled/filters/fixedValueColumn.pl' 2026-08-04T20:56:55,340 adding 'galaxy/tools/bundled/filters/fixedValueColumn.xml' 2026-08-04T20:56:55,342 adding 'galaxy/tools/bundled/filters/gff2bed.xml' 2026-08-04T20:56:55,343 adding 'galaxy/tools/bundled/filters/gff_to_bed_converter.py' 2026-08-04T20:56:55,345 adding 'galaxy/tools/bundled/filters/grep.xml' 2026-08-04T20:56:55,347 adding 'galaxy/tools/bundled/filters/grep_1.0.1.xml' 2026-08-04T20:56:55,348 adding 'galaxy/tools/bundled/filters/gtf2bedgraph.xml' 2026-08-04T20:56:55,349 adding 'galaxy/tools/bundled/filters/gtf_to_bedgraph_converter.py' 2026-08-04T20:56:55,351 adding 'galaxy/tools/bundled/filters/headWrapper.xml' 2026-08-04T20:56:55,353 adding 'galaxy/tools/bundled/filters/join.py' 2026-08-04T20:56:55,355 adding 'galaxy/tools/bundled/filters/joiner.xml' 2026-08-04T20:56:55,356 adding 'galaxy/tools/bundled/filters/joiner2.xml' 2026-08-04T20:56:55,357 adding 'galaxy/tools/bundled/filters/lav_to_bed.py' 2026-08-04T20:56:55,359 adding 'galaxy/tools/bundled/filters/lav_to_bed.xml' 2026-08-04T20:56:55,360 adding 'galaxy/tools/bundled/filters/lav_to_bed_code.py' 2026-08-04T20:56:55,361 adding 'galaxy/tools/bundled/filters/mergeCols.py' 2026-08-04T20:56:55,362 adding 'galaxy/tools/bundled/filters/mergeCols.xml' 2026-08-04T20:56:55,364 adding 'galaxy/tools/bundled/filters/pasteWrapper.xml' 2026-08-04T20:56:55,365 adding 'galaxy/tools/bundled/filters/random_lines_two_pass.py' 2026-08-04T20:56:55,366 adding 'galaxy/tools/bundled/filters/randomlines.py' 2026-08-04T20:56:55,368 adding 'galaxy/tools/bundled/filters/randomlines.xml' 2026-08-04T20:56:55,369 adding 'galaxy/tools/bundled/filters/remove_beginning.xml' 2026-08-04T20:56:55,370 adding 'galaxy/tools/bundled/filters/secure_hash_message_digest.py' 2026-08-04T20:56:55,371 adding 'galaxy/tools/bundled/filters/secure_hash_message_digest.xml' 2026-08-04T20:56:55,377 adding 'galaxy/tools/bundled/filters/sff_extract.py' 2026-08-04T20:56:55,379 adding 'galaxy/tools/bundled/filters/sff_extractor.xml' 2026-08-04T20:56:55,381 adding 'galaxy/tools/bundled/filters/sorter.xml' 2026-08-04T20:56:55,382 adding 'galaxy/tools/bundled/filters/tailWrapper.xml' 2026-08-04T20:56:55,383 adding 'galaxy/tools/bundled/filters/trimmer.py' 2026-08-04T20:56:55,385 adding 'galaxy/tools/bundled/filters/trimmer.xml' 2026-08-04T20:56:55,386 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.py' 2026-08-04T20:56:55,388 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_exon_bed.xml' 2026-08-04T20:56:55,389 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.py' 2026-08-04T20:56:55,390 adding 'galaxy/tools/bundled/filters/ucsc_gene_bed_to_intron_bed.xml' 2026-08-04T20:56:55,392 adding 'galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.py' 2026-08-04T20:56:55,393 adding 'galaxy/tools/bundled/filters/ucsc_gene_table_to_intervals.xml' 2026-08-04T20:56:55,394 adding 'galaxy/tools/bundled/filters/uniq.py' 2026-08-04T20:56:55,395 adding 'galaxy/tools/bundled/filters/uniq.xml' 2026-08-04T20:56:55,397 adding 'galaxy/tools/bundled/filters/wc_gnu.xml' 2026-08-04T20:56:55,398 adding 'galaxy/tools/bundled/filters/wig_to_bigwig.xml' 2026-08-04T20:56:55,399 adding 'galaxy/tools/bundled/filters/wiggle_to_simple.py' 2026-08-04T20:56:55,401 adding 'galaxy/tools/bundled/filters/wiggle_to_simple.xml' 2026-08-04T20:56:55,402 adding 'galaxy/tools/bundled/filters/gff/__init__.py' 2026-08-04T20:56:55,404 adding 'galaxy/tools/bundled/filters/gff/extract_GFF_Features.py' 2026-08-04T20:56:55,405 adding 'galaxy/tools/bundled/filters/gff/extract_GFF_Features.xml' 2026-08-04T20:56:55,407 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.py' 2026-08-04T20:56:55,408 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_attribute.xml' 2026-08-04T20:56:55,410 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.py' 2026-08-04T20:56:55,411 adding 'galaxy/tools/bundled/filters/gff/gff_filter_by_feature_count.xml' 2026-08-04T20:56:55,412 adding 'galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.py' 2026-08-04T20:56:55,414 adding 'galaxy/tools/bundled/filters/gff/gtf_filter_by_attribute_values_list.xml' 2026-08-04T20:56:55,416 adding 'galaxy/tools/bundled/interactive/Rprofile.R' 2026-08-04T20:56:55,418 adding 'galaxy/tools/bundled/interactive/askomics.png' 2026-08-04T20:56:55,420 adding 'galaxy/tools/bundled/interactive/bam.iobio.png' 2026-08-04T20:56:55,422 adding 'galaxy/tools/bundled/interactive/bioconductor.png' 2026-08-04T20:56:55,423 adding 'galaxy/tools/bundled/interactive/blobtoolkit.png' 2026-08-04T20:56:55,426 adding 'galaxy/tools/bundled/interactive/cellxgene.png' 2026-08-04T20:56:55,427 adding 'galaxy/tools/bundled/interactive/default_notebook.ipynb' 2026-08-04T20:56:55,429 adding 'galaxy/tools/bundled/interactive/ethercalc.png' 2026-08-04T20:56:55,430 adding 'galaxy/tools/bundled/interactive/hic.png' 2026-08-04T20:56:55,432 adding 'galaxy/tools/bundled/interactive/higlass.png' 2026-08-04T20:56:55,433 adding 'galaxy/tools/bundled/interactive/interactivetool_askomics.xml' 2026-08-04T20:56:55,435 adding 'galaxy/tools/bundled/interactive/interactivetool_bam_iobio.xml' 2026-08-04T20:56:55,436 adding 'galaxy/tools/bundled/interactive/interactivetool_blobtoolkit.xml' 2026-08-04T20:56:55,438 adding 'galaxy/tools/bundled/interactive/interactivetool_cellxgene_0.16.2.xml' 2026-08-04T20:56:55,439 adding 'galaxy/tools/bundled/interactive/interactivetool_cellxgene_1.1.1.xml' 2026-08-04T20:56:55,441 adding 'galaxy/tools/bundled/interactive/interactivetool_climate_notebook.xml' 2026-08-04T20:56:55,442 adding 'galaxy/tools/bundled/interactive/interactivetool_ethercalc.xml' 2026-08-04T20:56:55,444 adding 'galaxy/tools/bundled/interactive/interactivetool_geoexplorer.xml' 2026-08-04T20:56:55,445 adding 'galaxy/tools/bundled/interactive/interactivetool_guacamole_desktop.xml' 2026-08-04T20:56:55,446 adding 'galaxy/tools/bundled/interactive/interactivetool_hicbrowser.xml' 2026-08-04T20:56:55,448 adding 'galaxy/tools/bundled/interactive/interactivetool_higlass.xml' 2026-08-04T20:56:55,450 adding 'galaxy/tools/bundled/interactive/interactivetool_ilastik.xml' 2026-08-04T20:56:55,451 adding 'galaxy/tools/bundled/interactive/interactivetool_isee.xml' 2026-08-04T20:56:55,453 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook.xml' 2026-08-04T20:56:55,455 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.0.xml' 2026-08-04T20:56:55,458 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.1.xml' 2026-08-04T20:56:55,460 adding 'galaxy/tools/bundled/interactive/interactivetool_jupyter_notebook_1.0.3.xml' 2026-08-04T20:56:55,461 adding 'galaxy/tools/bundled/interactive/interactivetool_metashark.xml' 2026-08-04T20:56:55,463 adding 'galaxy/tools/bundled/interactive/interactivetool_mgnify_notebook.xml' 2026-08-04T20:56:55,465 adding 'galaxy/tools/bundled/interactive/interactivetool_ml_jupyter_notebook.xml' 2026-08-04T20:56:55,466 adding 'galaxy/tools/bundled/interactive/interactivetool_neo4j.xml' 2026-08-04T20:56:55,467 adding 'galaxy/tools/bundled/interactive/interactivetool_openrefine.xml' 2026-08-04T20:56:55,469 adding 'galaxy/tools/bundled/interactive/interactivetool_pangeo_notebook.xml' 2026-08-04T20:56:55,470 adding 'galaxy/tools/bundled/interactive/interactivetool_panoply.xml' 2026-08-04T20:56:55,471 adding 'galaxy/tools/bundled/interactive/interactivetool_paraview.xml' 2026-08-04T20:56:55,473 adding 'galaxy/tools/bundled/interactive/interactivetool_pavian.xml' 2026-08-04T20:56:55,474 adding 'galaxy/tools/bundled/interactive/interactivetool_phinch.xml' 2026-08-04T20:56:55,475 adding 'galaxy/tools/bundled/interactive/interactivetool_pyiron.xml' 2026-08-04T20:56:55,478 adding 'galaxy/tools/bundled/interactive/interactivetool_qiskit_jupyter_notebook.xml' 2026-08-04T20:56:55,479 adding 'galaxy/tools/bundled/interactive/interactivetool_radiant.xml' 2026-08-04T20:56:55,481 adding 'galaxy/tools/bundled/interactive/interactivetool_rstudio.xml' 2026-08-04T20:56:55,482 adding 'galaxy/tools/bundled/interactive/interactivetool_rstudio_bioc_3.20.xml' 2026-08-04T20:56:55,484 adding 'galaxy/tools/bundled/interactive/interactivetool_simtext_app.xml' 2026-08-04T20:56:55,485 adding 'galaxy/tools/bundled/interactive/interactivetool_vcf_iobio.xml' 2026-08-04T20:56:55,486 adding 'galaxy/tools/bundled/interactive/interactivetool_vrm_editor.xml' 2026-08-04T20:56:55,488 adding 'galaxy/tools/bundled/interactive/interactivetool_wallace.xml' 2026-08-04T20:56:55,489 adding 'galaxy/tools/bundled/interactive/interactivetool_wilson.xml' 2026-08-04T20:56:55,493 adding 'galaxy/tools/bundled/interactive/jupyter_logo.png' 2026-08-04T20:56:55,495 adding 'galaxy/tools/bundled/interactive/metashark.png' 2026-08-04T20:56:55,496 adding 'galaxy/tools/bundled/interactive/neo4j.png' 2026-08-04T20:56:55,498 adding 'galaxy/tools/bundled/interactive/openrefine.png' 2026-08-04T20:56:55,500 adding 'galaxy/tools/bundled/interactive/panoply.png' 2026-08-04T20:56:55,503 adding 'galaxy/tools/bundled/interactive/pavian.png' 2026-08-04T20:56:55,504 adding 'galaxy/tools/bundled/interactive/phinch.png' 2026-08-04T20:56:55,506 adding 'galaxy/tools/bundled/interactive/qiskit.png' 2026-08-04T20:56:55,509 adding 'galaxy/tools/bundled/interactive/simtext_app.R' 2026-08-04T20:56:55,511 adding 'galaxy/tools/bundled/interactive/ubuntu.png' 2026-08-04T20:56:55,513 adding 'galaxy/tools/bundled/interactive/wallace.png' 2026-08-04T20:56:55,515 adding 'galaxy/tools/bundled/maf/__init__.py' 2026-08-04T20:56:55,516 adding 'galaxy/tools/bundled/maf/genebed_maf_to_fasta.xml' 2026-08-04T20:56:55,518 adding 'galaxy/tools/bundled/maf/interval2maf.py' 2026-08-04T20:56:55,520 adding 'galaxy/tools/bundled/maf/interval2maf.xml' 2026-08-04T20:56:55,522 adding 'galaxy/tools/bundled/maf/interval2maf_pairwise.xml' 2026-08-04T20:56:55,523 adding 'galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.py' 2026-08-04T20:56:55,525 adding 'galaxy/tools/bundled/maf/interval_maf_to_merged_fasta.xml' 2026-08-04T20:56:55,526 adding 'galaxy/tools/bundled/maf/macros.xml' 2026-08-04T20:56:55,528 adding 'galaxy/tools/bundled/maf/maf_by_block_number.py' 2026-08-04T20:56:55,529 adding 'galaxy/tools/bundled/maf/maf_by_block_number.xml' 2026-08-04T20:56:55,530 adding 'galaxy/tools/bundled/maf/maf_filter.py' 2026-08-04T20:56:55,532 adding 'galaxy/tools/bundled/maf/maf_filter.xml' 2026-08-04T20:56:55,533 adding 'galaxy/tools/bundled/maf/maf_limit_size.py' 2026-08-04T20:56:55,534 adding 'galaxy/tools/bundled/maf/maf_limit_size.xml' 2026-08-04T20:56:55,535 adding 'galaxy/tools/bundled/maf/maf_limit_to_species.py' 2026-08-04T20:56:55,536 adding 'galaxy/tools/bundled/maf/maf_limit_to_species.xml' 2026-08-04T20:56:55,538 adding 'galaxy/tools/bundled/maf/maf_reverse_complement.py' 2026-08-04T20:56:55,539 adding 'galaxy/tools/bundled/maf/maf_reverse_complement.xml' 2026-08-04T20:56:55,540 adding 'galaxy/tools/bundled/maf/maf_split_by_species.py' 2026-08-04T20:56:55,542 adding 'galaxy/tools/bundled/maf/maf_split_by_species.xml' 2026-08-04T20:56:55,543 adding 'galaxy/tools/bundled/maf/maf_stats.py' 2026-08-04T20:56:55,545 adding 'galaxy/tools/bundled/maf/maf_stats.xml' 2026-08-04T20:56:55,546 adding 'galaxy/tools/bundled/maf/maf_thread_for_species.py' 2026-08-04T20:56:55,547 adding 'galaxy/tools/bundled/maf/maf_thread_for_species.xml' 2026-08-04T20:56:55,549 adding 'galaxy/tools/bundled/maf/maf_to_bed.py' 2026-08-04T20:56:55,550 adding 'galaxy/tools/bundled/maf/maf_to_bed.xml' 2026-08-04T20:56:55,551 adding 'galaxy/tools/bundled/maf/maf_to_bed_code.py' 2026-08-04T20:56:55,553 adding 'galaxy/tools/bundled/maf/maf_to_fasta.xml' 2026-08-04T20:56:55,554 adding 'galaxy/tools/bundled/maf/maf_to_fasta_concat.py' 2026-08-04T20:56:55,556 adding 'galaxy/tools/bundled/maf/maf_to_fasta_multiple_sets.py' 2026-08-04T20:56:55,557 adding 'galaxy/tools/bundled/maf/maf_to_interval.py' 2026-08-04T20:56:55,559 adding 'galaxy/tools/bundled/maf/maf_to_interval.xml' 2026-08-04T20:56:55,560 adding 'galaxy/tools/bundled/maf/vcf_to_maf_customtrack.py' 2026-08-04T20:56:55,562 adding 'galaxy/tools/bundled/maf/vcf_to_maf_customtrack.xml' 2026-08-04T20:56:55,565 adding 'galaxy/tools/bundled/meme/meme.xml' 2026-08-04T20:56:55,566 adding 'galaxy/tools/bundled/metag_tools/__init__.py' 2026-08-04T20:56:55,568 adding 'galaxy/tools/bundled/metag_tools/blat_wrapper.py' 2026-08-04T20:56:55,569 adding 'galaxy/tools/bundled/metag_tools/blat_wrapper.xml' 2026-08-04T20:56:55,571 adding 'galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.py' 2026-08-04T20:56:55,572 adding 'galaxy/tools/bundled/metag_tools/shrimp_color_wrapper.xml' 2026-08-04T20:56:55,575 adding 'galaxy/tools/bundled/metag_tools/shrimp_wrapper.py' 2026-08-04T20:56:55,578 adding 'galaxy/tools/bundled/metag_tools/shrimp_wrapper.xml' 2026-08-04T20:56:55,580 adding 'galaxy/tools/bundled/next_gen_conversion/bwa_solid2fastq_modified.pl' 2026-08-04T20:56:55,581 adding 'galaxy/tools/bundled/next_gen_conversion/fastq_conversions.py' 2026-08-04T20:56:55,583 adding 'galaxy/tools/bundled/next_gen_conversion/fastq_conversions.xml' 2026-08-04T20:56:55,584 adding 'galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.py' 2026-08-04T20:56:55,586 adding 'galaxy/tools/bundled/next_gen_conversion/fastq_gen_conv.xml' 2026-08-04T20:56:55,588 adding 'galaxy/tools/bundled/next_gen_conversion/solid2fastq.py' 2026-08-04T20:56:55,589 adding 'galaxy/tools/bundled/next_gen_conversion/solid2fastq.xml' 2026-08-04T20:56:55,591 adding 'galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.py' 2026-08-04T20:56:55,592 adding 'galaxy/tools/bundled/next_gen_conversion/solid_to_fastq.xml' 2026-08-04T20:56:55,594 adding 'galaxy/tools/bundled/ngs_simulation/__init__.py' 2026-08-04T20:56:55,596 adding 'galaxy/tools/bundled/ngs_simulation/ngs_simulation.py' 2026-08-04T20:56:55,598 adding 'galaxy/tools/bundled/ngs_simulation/ngs_simulation.xml' 2026-08-04T20:56:55,600 adding 'galaxy/tools/bundled/phenotype_association/BEAM2_wrapper.sh' 2026-08-04T20:56:55,601 adding 'galaxy/tools/bundled/phenotype_association/__init__.py' 2026-08-04T20:56:55,603 adding 'galaxy/tools/bundled/phenotype_association/beam.xml' 2026-08-04T20:56:55,604 adding 'galaxy/tools/bundled/phenotype_association/gpass.pl' 2026-08-04T20:56:55,606 adding 'galaxy/tools/bundled/phenotype_association/gpass.xml' 2026-08-04T20:56:55,607 adding 'galaxy/tools/bundled/phenotype_association/ldtools.xml' 2026-08-04T20:56:55,609 adding 'galaxy/tools/bundled/phenotype_association/ldtools_wrapper.sh' 2026-08-04T20:56:55,610 adding 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'galaxy/workflow/schedulers/core.py' 2026-08-04T20:56:55,925 adding 'galaxy_app-26.1.1.dist-info/licenses/LICENSE' 2026-08-04T20:56:55,926 adding 'galaxy_ext/__init__.py' 2026-08-04T20:56:55,927 adding 'galaxy_ext/py.typed' 2026-08-04T20:56:55,929 adding 'galaxy_ext/container_monitor/__init__.py' 2026-08-04T20:56:55,930 adding 'galaxy_ext/container_monitor/monitor.py' 2026-08-04T20:56:55,932 adding 'galaxy_ext/expressions/__init__.py' 2026-08-04T20:56:55,933 adding 'galaxy_ext/expressions/handle_job.py' 2026-08-04T20:56:55,934 adding 'galaxy_ext/metadata/__init__.py' 2026-08-04T20:56:55,935 adding 'galaxy_ext/metadata/set_metadata.py' 2026-08-04T20:56:55,937 adding 'tool_shed_client/__init__.py' 2026-08-04T20:56:55,939 adding 'tool_shed_client/py.typed' 2026-08-04T20:56:55,940 adding 'tool_shed_client/trs_util.py' 2026-08-04T20:56:55,943 adding 'tool_shed_client/schema/__init__.py' 2026-08-04T20:56:55,944 adding 'tool_shed_client/schema/gen.sh' 2026-08-04T20:56:55,946 adding 'tool_shed_client/schema/trs.py' 2026-08-04T20:56:55,948 adding 'tool_shed_client/schema/trs_service_info.py' 2026-08-04T20:56:55,966 adding 'galaxy_app-26.1.1.dist-info/METADATA' 2026-08-04T20:56:55,969 adding 'galaxy_app-26.1.1.dist-info/WHEEL' 2026-08-04T20:56:55,970 adding 'galaxy_app-26.1.1.dist-info/entry_points.txt' 2026-08-04T20:56:55,970 adding 'galaxy_app-26.1.1.dist-info/top_level.txt' 2026-08-04T20:56:55,983 adding 'galaxy_app-26.1.1.dist-info/RECORD' 2026-08-04T20:56:56,028 removing build/bdist.linux-armv7l/wheel 2026-08-04T20:56:56,302 Building wheel for galaxy-app (pyproject.toml): finished with status 'done' 2026-08-04T20:56:56,369 Created wheel for galaxy-app: filename=galaxy_app-26.1.1-py3-none-any.whl size=2070195 sha256=79e73c72d3833870786f1961ccc4dc7239a1a8dd0e8f7958f5da3b1e3ecaaaf9 2026-08-04T20:56:56,370 Stored in directory: /tmp/pip-ephem-wheel-cache-8i8p1hhm/wheels/6f/2b/7c/bc3992e59ea436a3678b9bcf2f7d964ea3920c7ab8dbd4ba03 2026-08-04T20:56:56,450 Successfully built galaxy-app 2026-08-04T20:56:56,508 Removed build tracker: '/tmp/pip-build-tracker-475fpptk'