Warning

This document is for an in-development version of Galaxy. You can alternatively view this page in the latest release if it exists or view the top of the latest release's documentation.

galaxy.model.unittest_utils package¶

Interface provided by galaxy-data modules for unittest utilities for reuse by other modules.

class galaxy.model.unittest_utils.GalaxyDataTestApp(config: Optional[GalaxyDataTestConfig] = None, **kwd)[source]¶

Bases: object

Minimal Galaxy mock app object that exposes and uses only what is needed for the galaxy-data package.

file_sources: ConfiguredFileSources = <galaxy.files.NullConfiguredFileSources object>¶

__init__(config: Optional[GalaxyDataTestConfig] = None, **kwd)[source]¶

security: IdEncodingHelper¶

model: GalaxyModelMapping¶

security_agent: GalaxyRBACAgent¶

init_datatypes()[source]¶

class galaxy.model.unittest_utils.GalaxyDataTestConfig(root=None, **kwd)[source]¶

Bases: Bunch

Minimal Galaxy mock config object that exposes and uses only what is needed for the galaxy-data package.

__init__(root=None, **kwd)[source]¶

root: str¶

data_dir: str¶

security: IdEncodingHelper¶

database_connection: str¶

Submodules¶

galaxy.model.unittest_utils.data_app module¶

Mock GalaxyApp exposing config + functionality required for galaxy-data package.

There is a more expansive MockApp in test/unit/unittest_utils - but it isn’t packaged and it has dependencies from across the app. This mock application and config is more appropriate for testing galaxy-data functionality and will be included with galaxy-data.

class galaxy.model.unittest_utils.data_app.GalaxyDataTestConfig(root=None, **kwd)[source]¶

Bases: Bunch

Minimal Galaxy mock config object that exposes and uses only what is needed for the galaxy-data package.

__init__(root=None, **kwd)[source]¶

root: str¶

data_dir: str¶

security: IdEncodingHelper¶

database_connection: str¶

class galaxy.model.unittest_utils.data_app.GalaxyDataTestApp(config: Optional[GalaxyDataTestConfig] = None, **kwd)[source]¶

Bases: object

Minimal Galaxy mock app object that exposes and uses only what is needed for the galaxy-data package.

file_sources: ConfiguredFileSources = <galaxy.files.NullConfiguredFileSources object>¶

__init__(config: Optional[GalaxyDataTestConfig] = None, **kwd)[source]¶

security: IdEncodingHelper¶

model: GalaxyModelMapping¶

security_agent: GalaxyRBACAgent¶

init_datatypes()[source]¶

class galaxy.model.unittest_utils.data_app.MockSetExternalTool[source]¶

Bases: object

regenerate_imported_metadata_if_needed(*args, **kwds)[source]¶

galaxy.model.unittest_utils.store_fixtures module¶

Fixtures for populating model stores.

galaxy.model.unittest_utils.store_fixtures.now()¶: Return a new datetime representing UTC day and time.

galaxy.model.unittest_utils.store_fixtures.one_ld_library_model_store_dict()[source]¶

galaxy.model.unittest_utils.store_fixtures.one_ld_library_deferred_model_store_dict()[source]¶

galaxy.model.unittest_utils.store_fixtures.one_hda_model_store_dict(include_source=True)[source]¶

galaxy.model.unittest_utils.store_fixtures.history_model_store_dict()[source]¶

galaxy.model.unittest_utils.store_fixtures.deferred_hda_model_store_dict(source_uri='https://raw.githubusercontent.com/galaxyproject/galaxy/dev/test-data/2.bed', metadata_deferred=False)[source]¶

galaxy.model.unittest_utils.store_fixtures.deferred_hda_model_store_dict_bam(source_uri='https://raw.githubusercontent.com/galaxyproject/galaxy/dev/test-data/1.bam', metadata_deferred=False)[source]¶