seismicrna.tests package
Submodules
- class seismicrna.tests.main_test.TestStartupImports(methodName='runTest')
Bases:
TestCase- test_no_heavy_deps_at_startup()
Importing seismicrna.main must not load any heavy dependencies.
- class seismicrna.tests.wf_test.TestWorkflow(*args, **kwargs)
Bases:
TestCase- property out_dir
- setUp()
Hook method for setting up the test fixture before exercising it.
- property sim_dir
- tearDown()
Hook method for deconstructing the test fixture after testing it.
- test_wf_sim_2samples_2refs_20000reads_2clusts()
- test_wf_sim_2samples_2refs_20000reads_2clusts_cli()
- class seismicrna.tests.wf_test.TestWorkflowTwoOutDirs(*args, **kwargs)
Bases:
TestCase- CJOINED = 'cjoined_region'
- MJOINED = 'mjoined_region'
- NUMBERS = [1, 2]
- POOLED = 'pooled_sample'
- REF = 'test_ref'
- REFS = 'test_refs'
- SAMPLE = 'test_sample'
- check_no_identical(files: Iterable[str | Path], binary: bool)
Confirm no two files have identical contents.
- property out_dir
- property out_dirs
- setUp()
Hook method for setting up the test fixture before exercising it.
- property sim_dir
- property sim_dirs
- tearDown()
Hook method for deconstructing the test fixture after testing it.
- test_self_contained_filter_and_cluster()
Filter and cluster batches written with self_contained=True carry full mutation data and load correctly from the self-contained path.
- test_wf_two_out_dirs()
- seismicrna.tests.wf_test.action_branch_steps(action: str)
Steps whose branches apply to the table underlying a graph action.
- seismicrna.tests.wf_test.cmp_cmd_dir(step: str, steps1, steps2)
Name of a comparison command directory, mirroring the branch logic of TwoTableGraph.branches for two operands branched by steps1/steps2.
- seismicrna.tests.wf_test.fold_branch_steps(profile_or_action: str)
Steps whose branches apply to a folded profile / ROC graph, given the profile (“average”/”cluster-…”) or action (“filtered”/”clustered-…”).