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tool_shed package

Subpackages

• tool_shed.dependencies package
  • Subpackages
    • tool_shed.dependencies.repository package
      • Submodules
      • tool_shed.dependencies.repository.relation_builder module
    • tool_shed.dependencies.tool package
      • Submodules
      • tool_shed.dependencies.tool.tag_attribute_handler module
  • Submodules
  • tool_shed.dependencies.attribute_handlers module
• tool_shed.galaxy_install package
  • Subpackages
    • tool_shed.galaxy_install.grids package
      • Submodules
      • tool_shed.galaxy_install.grids.admin_toolshed_grids module
    • tool_shed.galaxy_install.utility_containers package
  • Submodules
  • tool_shed.galaxy_install.dependency_display module
• tool_shed.grids package
  • Submodules
  • tool_shed.grids.admin_grids module
  • tool_shed.grids.repository_grid_filter_manager module
  • tool_shed.grids.repository_grids module
  • tool_shed.grids.repository_review_grids module
  • tool_shed.grids.util module
• tool_shed.managers package
  • Submodules
  • tool_shed.managers.groups module
  • tool_shed.managers.repositories module
• tool_shed.metadata package
  • Submodules
  • tool_shed.metadata.metadata_generator module
  • tool_shed.metadata.repository_metadata_manager module
• tool_shed.repository_types package
  • Submodules
  • tool_shed.repository_types.metadata module
  • tool_shed.repository_types.registry module
  • tool_shed.repository_types.repository_suite_definition module
  • tool_shed.repository_types.tool_dependency_definition module
  • tool_shed.repository_types.unrestricted module
  • tool_shed.repository_types.util module
• tool_shed.test package
  • Subpackages
    • tool_shed.test.base package
      • Submodules
      • tool_shed.test.base.common module
      • tool_shed.test.base.test_db_util module
      • tool_shed.test.base.twilltestcase module
    • tool_shed.test.functional package
      • Submodules
      • tool_shed.test.functional.test_0000_basic_repository_features module
      • tool_shed.test.functional.test_0010_repository_with_tool_dependencies module
      • tool_shed.test.functional.test_0020_basic_repository_dependencies module
      • tool_shed.test.functional.test_0030_repository_dependency_revisions module
      • tool_shed.test.functional.test_0040_repository_circular_dependencies module
      • tool_shed.test.functional.test_0050_circular_dependencies_4_levels module
      • tool_shed.test.functional.test_0070_invalid_tool module
      • tool_shed.test.functional.test_0080_advanced_circular_dependencies module
      • tool_shed.test.functional.test_0090_tool_search module
      • tool_shed.test.functional.test_0100_complex_repository_dependencies module
      • tool_shed.test.functional.test_0110_invalid_simple_repository_dependencies module
      • tool_shed.test.functional.test_0120_simple_repository_dependency_multiple_owners module
      • tool_shed.test.functional.test_0130_datatype_converters module
      • tool_shed.test.functional.test_0140_tool_help_images module
      • tool_shed.test.functional.test_0150_prior_installation_required module
      • tool_shed.test.functional.test_0160_circular_prior_installation_required module
      • tool_shed.test.functional.test_0170_complex_prior_installation_required module
      • tool_shed.test.functional.test_0300_reset_all_metadata module
      • tool_shed.test.functional.test_0310_hg_api_features module
      • tool_shed.test.functional.test_0400_repository_component_reviews module
      • tool_shed.test.functional.test_0410_repository_component_review_access_control module
      • tool_shed.test.functional.test_0420_citable_urls_for_repositories module
      • tool_shed.test.functional.test_0430_browse_utilities module
      • tool_shed.test.functional.test_0440_deleting_dependency_definitions module
      • tool_shed.test.functional.test_0460_upload_to_repository module
      • tool_shed.test.functional.test_0470_tool_dependency_repository_type module
      • tool_shed.test.functional.test_0480_tool_dependency_xml_verification module
      • tool_shed.test.functional.test_0530_repository_admin_feature module
      • tool_shed.test.functional.test_0540_get_all_metadata_from_api module
      • tool_shed.test.functional.test_0550_metadata_updated_dependencies module
      • tool_shed.test.functional.test_1000_install_basic_repository module
      • tool_shed.test.functional.test_1010_install_repository_with_tool_dependencies module
      • tool_shed.test.functional.test_1020_install_repository_with_repository_dependencies module
      • tool_shed.test.functional.test_1030_install_repository_with_dependency_revisions module
      • tool_shed.test.functional.test_1040_install_repository_basic_circular_dependencies module
      • tool_shed.test.functional.test_1050_circular_dependencies_4_levels module
      • tool_shed.test.functional.test_1070_invalid_tool module
      • tool_shed.test.functional.test_1080_advanced_circular_dependency_installation module
      • tool_shed.test.functional.test_1090_repository_dependency_handling module
      • tool_shed.test.functional.test_1100_install_updated_repository_dependencies module
      • tool_shed.test.functional.test_1120_install_repository_with_complex_dependencies module
      • tool_shed.test.functional.test_1130_install_repository_with_invalid_repository_dependency module
      • tool_shed.test.functional.test_1140_simple_repository_dependency_multiple_owners module
      • tool_shed.test.functional.test_1150_datatype_converters module
      • tool_shed.test.functional.test_1160_tool_help_images module
      • tool_shed.test.functional.test_1170_prior_installation_required module
      • tool_shed.test.functional.test_1180_circular_prior_installation_required module
      • tool_shed.test.functional.test_1190_complex_prior_installation_required module
      • tool_shed.test.functional.test_1200_uninstall_and_reinstall_basic_repository module
      • tool_shed.test.functional.test_1210_uninstall_reinstall_repository_with_tool_dependencies module
      • tool_shed.test.functional.test_1220_uninstall_reinstall_repository_with_repository_dependencies module
      • tool_shed.test.functional.test_1230_uninstall_reinstall_repository_with_dependency_revisions module
      • tool_shed.test.functional.test_1300_reset_all_metadata module
      • tool_shed.test.functional.test_1410_update_manager module
      • tool_shed.test.functional.test_1420_tool_dependency_environment_inheritance module
      • tool_shed.test.functional.test_1430_repair_installed_repository module
      • tool_shed.test.functional.test_1440_missing_env_sh_files module
      • tool_shed.test.functional.test_1450_installing_datatypes_sniffers module
      • tool_shed.test.functional.test_1460_data_managers module
      • tool_shed.test.functional.test_1470_updating_installed_repositories module
  • Submodules
  • tool_shed.test.functional_tests module
• tool_shed.tools package
  • Submodules
  • tool_shed.tools.data_table_manager module
  • tool_shed.tools.tool_validator module
  • tool_shed.tools.tool_version_manager module
• tool_shed.util package
  • Submodules
  • tool_shed.util.admin_util module
  • tool_shed.util.basic_util module
  • tool_shed.util.commit_util module
  • tool_shed.util.common_util module
  • tool_shed.util.container_util module
  • tool_shed.util.encoding_util module
  • tool_shed.util.hg_util module
  • tool_shed.util.hgweb_config module
  • tool_shed.util.metadata_util module
  • tool_shed.util.readme_util module
  • tool_shed.util.repository_content_util module
  • tool_shed.util.repository_util module
  • tool_shed.util.review_util module
  • tool_shed.util.search_util module
  • tool_shed.util.shed_index module
  • tool_shed.util.shed_util_common module
  • tool_shed.util.tool_dependency_util module
  • tool_shed.util.tool_util module
  • tool_shed.util.web_util module
  • tool_shed.util.xml_util module
• tool_shed.utility_containers package
  • Submodules
  • tool_shed.utility_containers.utility_container_manager module
• tool_shed.webapp package
  • Subpackages
    • tool_shed.webapp.api package
      • Submodules
      • tool_shed.webapp.api.authenticate module
      • tool_shed.webapp.api.categories module
      • tool_shed.webapp.api.configuration module
      • tool_shed.webapp.api.groups module
      • tool_shed.webapp.api.repositories module
      • tool_shed.webapp.api.repository_revisions module
      • tool_shed.webapp.api.tools module
      • tool_shed.webapp.api.users module
    • tool_shed.webapp.controllers package
      • Submodules
      • tool_shed.webapp.controllers.admin module
      • tool_shed.webapp.controllers.groups module
      • tool_shed.webapp.controllers.hg module
      • tool_shed.webapp.controllers.repository module
      • tool_shed.webapp.controllers.repository_review module
      • tool_shed.webapp.controllers.upload module
      • tool_shed.webapp.controllers.user module
    • tool_shed.webapp.framework package
      • Subpackages
        • tool_shed.webapp.framework.middleware package
          • Submodules
          • tool_shed.webapp.framework.middleware.remoteuser module
    • tool_shed.webapp.model package
      • Subpackages
        • tool_shed.webapp.model.migrate package
          • Subpackages
            • tool_shed.webapp.model.migrate.versions package
              • Submodules
              • tool_shed.webapp.model.migrate.versions.0001_initial_tables module
              • tool_shed.webapp.model.migrate.versions.0002_add_tool_suite_column module
              • tool_shed.webapp.model.migrate.versions.0003_review_and_review_association_tables module
              • tool_shed.webapp.model.migrate.versions.0004_repository_tables module
              • tool_shed.webapp.model.migrate.versions.0005_drop_tool_related_tables module
              • tool_shed.webapp.model.migrate.versions.0006_add_email_alerts_column module
              • tool_shed.webapp.model.migrate.versions.0007_add_long_description_times_downloaded_columns module
              • tool_shed.webapp.model.migrate.versions.0008_add_repository_metadata_table module
              • tool_shed.webapp.model.migrate.versions.0009_add_malicious_column module
              • tool_shed.webapp.model.migrate.versions.0010_add_new_repo_alert_column module
              • tool_shed.webapp.model.migrate.versions.0011_add_tool_versions_column module
              • tool_shed.webapp.model.migrate.versions.0012_add_downloadable_column module
              • tool_shed.webapp.model.migrate.versions.0013_add_review_tables module
              • tool_shed.webapp.model.migrate.versions.0014_add_deprecated_column module
              • tool_shed.webapp.model.migrate.versions.0015_add_api_keys_table module
              • tool_shed.webapp.model.migrate.versions.0016_add_do_not_test_tools_functionally_correct_errors_columns module
              • tool_shed.webapp.model.migrate.versions.0017_add_galaxy_utility_columns_to_repository_metadata_table module
              • tool_shed.webapp.model.migrate.versions.0018_add_repository_metadata_flag_columns module
              • tool_shed.webapp.model.migrate.versions.0019_add_skip_tool_test_table_and_test_install_error_column module
              • tool_shed.webapp.model.migrate.versions.0020_add_repository_type_column module
              • tool_shed.webapp.model.migrate.versions.0021_change_repository_type_value module
              • tool_shed.webapp.model.migrate.versions.0022_add_repository_admin_roles module
              • tool_shed.webapp.model.migrate.versions.0023_add_repository_url_and_hompeage_url module
              • tool_shed.webapp.model.migrate.versions.0024_password_reset module
              • tool_shed.webapp.model.migrate.versions.0025_session_timeout module
              • tool_shed.webapp.model.migrate.versions.0026_add_numeric_revision_column module
          • Submodules
          • tool_shed.webapp.model.migrate.check module
      • Submodules
      • tool_shed.webapp.model.mapping module
    • tool_shed.webapp.search package
      • Submodules
      • tool_shed.webapp.search.repo_search module
      • tool_shed.webapp.search.tool_search module
    • tool_shed.webapp.security package
    • tool_shed.webapp.util package
      • Submodules
      • tool_shed.webapp.util.ratings_util module
      • tool_shed.webapp.util.shed_statistics module
  • Submodules
  • tool_shed.webapp.app module
  • tool_shed.webapp.buildapp module
  • tool_shed.webapp.config module

Submodules

tool_shed.repository_registry module

class tool_shed.repository_registry.Registry(app)

Bases: object

__init__(app)

add_category_entry(category)

add_entry(repository)

edit_category_entry(old_name, new_name)

get_certified_level_one_clause_list()

get_certified_level_one_tuple(repository)

Return True if the latest installable changeset_revision of the received repository is level one certified.

is_level_one_certified(repository_metadata)

is_valid(repository)

load_certified_level_one_repository_and_suite_tuple(repository)

load_repository_and_suite_tuple(repository)

load_repository_and_suite_tuples()

load_viewable_repositories_and_suites_by_category()

remove_category_entry(category)

remove_entry(repository)

sa_session

unload_certified_level_one_repository_and_suite_tuple(repository)

unload_repository_and_suite_tuple(repository)