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John ChiltonandClaude Opus 4.6 c7eed028fd Delete dead code: is_path_within_*, empty framework dir, stale refs. 
- Remove is_path_within_dependency_dir() and is_path_within_repo() (no callers)
- Remove unused os import from shed_util_common
- Delete empty tool_shed/webapp/framework/ package
- Remove stale mypy.ini and Sphinx doc references

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
2026-03-17 08:21:24 -04:00
..
galaxy_ext.container_monitor.rst
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galaxy_ext.expressions.rst
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galaxy_ext.metadata.rst
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galaxy_ext.rst
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galaxy_test.api.cwl.rst
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galaxy_test.api.rst
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galaxy_test.base.rst
Drop nose
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galaxy_test.driver.rst
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galaxy_test.performance.rst
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galaxy_test.rst
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galaxy_test.selenium.jupyter.rst
Exploratory Jupyter environment for `galaxy-selenium`.
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galaxy_test.selenium.rst
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galaxy.actions.rst
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galaxy.app_unittest_utils.rst
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galaxy.auth.providers.rst
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galaxy.auth.rst
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galaxy.authnz.rst
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galaxy.celery.rst
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galaxy.config.rst
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galaxy.datatypes.converters.rst
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galaxy.datatypes.dataproviders.rst
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galaxy.datatypes.display_applications.rst
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galaxy.datatypes.rst
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galaxy.datatypes.util.rst
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galaxy.dependencies.rst
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galaxy.exceptions.rst
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galaxy.files.rst
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galaxy.files.sources.rst
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galaxy.files.unittest_utils.rst
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galaxy.forms.rst
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galaxy.job_execution.actions.rst
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galaxy.job_execution.ports.rst
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galaxy.job_execution.rst
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galaxy.job_metrics.instrumenters.rst
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galaxy.job_metrics.rst
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galaxy.jobs.rst
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galaxy.jobs.rules.rst
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galaxy.jobs.runners.rst
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galaxy.jobs.runners.state_handlers.rst
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galaxy.jobs.runners.util.cli.job.rst
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galaxy.jobs.runners.util.cli.rst
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galaxy.jobs.runners.util.cli.shell.rst
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galaxy.jobs.runners.util.condor.rst
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galaxy.jobs.runners.util.job_script.rst
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galaxy.jobs.runners.util.rst
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galaxy.jobs.splitters.rst
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galaxy.managers.rst
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galaxy.metadata.rst
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galaxy.model.dataset_collections.rst
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galaxy.model.dataset_collections.types.rst
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galaxy.model.migrations.rst
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galaxy.model.orm.rst
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galaxy.model.rst
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galaxy.model.store.rst
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galaxy.model.tool_shed_install.rst
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galaxy.model.triggers.rst
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galaxy.model.unittest_utils.rst
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galaxy.model.view.rst
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galaxy.objectstore.rst
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galaxy.objectstore.unittest_utils.rst
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galaxy.quota.rst
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galaxy.rst
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galaxy.schema.rst
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galaxy.security.rst
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galaxy.selenium.rst
Exploratory Jupyter environment for `galaxy-selenium`.
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galaxy.selenium.scripts.rst
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galaxy.selenium.toolbox.rst
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galaxy.tool_shed.galaxy_install.datatypes.rst
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galaxy.tool_shed.galaxy_install.metadata.rst
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galaxy.tool_shed.galaxy_install.repository_dependencies.rst
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galaxy.tool_shed.galaxy_install.rst
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galaxy.tool_shed.galaxy_install.tools.rst
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galaxy.tool_shed.metadata.rst
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galaxy.tool_shed.rst
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galaxy.tool_shed.tools.rst
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galaxy.tool_shed.util.rst
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galaxy.tool_util.biotools.rst
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galaxy.tool_util.client.rst
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galaxy.tool_util.cwl.rst
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galaxy.tool_util.deps.container_resolvers.rst
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galaxy.tool_util.deps.mulled.rst
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galaxy.tool_util.deps.resolvers.rst
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galaxy.tool_util.deps.rst
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galaxy.tool_util.linters.rst
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galaxy.tool_util.locations.rst
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galaxy.tool_util.ontologies.rst
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galaxy.tool_util.parser.rst
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galaxy.tool_util.rst
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galaxy.tool_util.toolbox.filters.rst
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galaxy.tool_util.toolbox.lineages.rst
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galaxy.tool_util.toolbox.rst
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galaxy.tool_util.toolbox.views.rst
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galaxy.tool_util.unittest_utils.rst
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galaxy.tool_util.verify.asserts.rst
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galaxy.tool_util.verify.rst
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galaxy.tools.actions.rst
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galaxy.tools.data_manager.rst
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galaxy.tools.data.rst
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galaxy.tools.error_reports.plugins.rst
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galaxy.tools.error_reports.rst
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galaxy.tools.expressions.rst
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galaxy.tools.filters.rst
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galaxy.tools.imp_exp.rst
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galaxy.tools.parameters.rst
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galaxy.tools.rst
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galaxy.tools.search.rst
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galaxy.tools.util.galaxyops.rst
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galaxy.tools.util.rst
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galaxy.tours.rst
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galaxy.util.custom_logging.rst
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galaxy.util.path.rst
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galaxy.util.rst
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galaxy.util.tool_shed.rst
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galaxy.visualization.data_providers.phyloviz.rst
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galaxy.visualization.data_providers.rst
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galaxy.visualization.plugins.rst
Remove unused resource parser and utilities
2026-01-21 00:01:57 +03:00
galaxy.visualization.rst
Remove unused visualizations/genome subfolder
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galaxy.web_stack.rst
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galaxy.web.framework.helpers.rst
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galaxy.web.framework.middleware.rst
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galaxy.web.framework.rst
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galaxy.web.legacy_framework.rst
Re-do API documentation to avoid duplicate labels.
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galaxy.web.proxy.rst
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galaxy.web.rst
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galaxy.web.short_term_storage.rst
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galaxy.webapps.base.rst
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galaxy.webapps.galaxy.api.rst
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galaxy.webapps.galaxy.controllers.rst
Drop userskeys (admin only) controller. This is unused.
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galaxy.webapps.galaxy.rst
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galaxy.webapps.galaxy.services.rst
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galaxy.webapps.openapi.rst
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galaxy.webapps.reports.api.rst
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galaxy.webapps.reports.controllers.rst
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galaxy.webapps.reports.rst
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galaxy.webapps.rst
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galaxy.webhooks.rst
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galaxy.work.rst
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galaxy.workflow.refactor.rst
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galaxy.workflow.reports.generators.rst
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galaxy.workflow.reports.rst
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galaxy.workflow.resources.rst
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galaxy.workflow.rst
Rebuild rst lib structure.
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galaxy.workflow.schedulers.rst
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modules.rst
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tool_shed.dependencies.repository.rst
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tool_shed.dependencies.rst
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tool_shed.dependencies.tool.rst
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tool_shed.galaxy_install.grids.rst
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tool_shed.galaxy_install.rst
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tool_shed.galaxy_install.utility_containers.rst
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tool_shed.grids.rst
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tool_shed.managers.rst
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tool_shed.metadata.rst
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tool_shed.repository_types.rst
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tool_shed.rst
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tool_shed.test.base.rst
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tool_shed.test.functional.rst
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tool_shed.test.rst
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tool_shed.tools.rst
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tool_shed.util.rst
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tool_shed.utility_containers.rst
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tool_shed.webapp.api.rst
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tool_shed.webapp.controllers.rst
Migrate image endpoint to FastAPI, delete WSGI repository controller.
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tool_shed.webapp.model.migrate.rst
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tool_shed.webapp.model.migrate.versions.rst
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tool_shed.webapp.model.rst
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tool_shed.webapp.rst
Delete dead code: is_path_within_*, empty framework dir, stale refs.
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tool_shed.webapp.search.rst
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tool_shed.webapp.security.rst
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tool_shed.webapp.util.rst
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