def test_archive(self):
mock_manifest = self._mock_manifest(self.base_manifest)
archiver = IngestArchiver(ontology_api=self.ontology_api,
ingest_api=self.ingest_api,
dsp_api=self.dsp_api,
exclude_types=['sequencingRun'])
archiver.get_manifest = MagicMock(return_value=mock_manifest)
entity_map = archiver.convert(['bundle_uuid'])
archive_submission = archiver.archive(entity_map)
self.assertTrue(archive_submission.is_completed)
for entity in archive_submission.entity_map.get_entities():
self.assertTrue(archive_submission.accession_map.get(entity.id),
f"{entity.id} has no accession.")
def test_archive_skip_metadata_with_accessions(self):
with open(config.JSON_DIR + 'hca/biomaterial_with_accessions.json',
encoding=config.ENCODING) as data_file:
biomaterials = json.loads(data_file.read())
biomaterial_manifest = {'biomaterials': biomaterials}
mock_manifest = self._mock_manifest(biomaterial_manifest)
archiver = IngestArchiver(ontology_api=self.ontology_api,
ingest_api=self.ingest_api,
dsp_api=self.dsp_api,
exclude_types=['sequencingRun'])
archiver.get_manifest = MagicMock(return_value=mock_manifest)
entity_map = archiver.convert('')
archive_submission = archiver.archive(entity_map)
self.assertTrue(archive_submission.is_completed)
self.assertTrue(archive_submission.errors)
self.assertFalse(archive_submission.processing_result)
