0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata6.1430testPopulateMetadataNsAnnsFailfalsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata6.3120testPopulateMetadataNsAnnsUnavailableHeaderfalsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata7.1630testPopulateMetadataNsAnns[Plate2WellsNs2]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata12.1940testPopulateMetadataNsAnns[Plate2WellsNs]falsePASSED1OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata1.905assert 1 == 0 + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() + where get_all_map_annotations = <test_populate.Dataset101Images object at 0x7f616809ca90>.get_all_map_annotationsself = <test_populate.TestPopulateMetadata object at 0x7f6168073650> fixture = <test_populate.Dataset101Images object at 0x7f616809ca90> batch_size = 1 @mark.parametrize("fixture", METADATA_FIXTURES, ids=METADATA_IDS) @mark.parametrize("batch_size", (None, 1, 10)) def testPopulateMetadata(self, fixture, batch_size): """ We should really test each of the parsing contexts in separate tests but in practice each one uses data created by the others, so for now just run them all together """ fixture.init(self) t = self._test_parsing_context(fixture, batch_size) self._assert_parsing_context_values(t, fixture) > self._test_bulk_to_map_annotation_context(fixture, batch_size) test/integration/metadata/test_populate.py:1026: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <test_populate.TestPopulateMetadata object at 0x7f6168073650> fixture = <test_populate.Dataset101Images object at 0x7f616809ca90> batch_size = 1 def _test_bulk_to_map_annotation_context(self, fixture, batch_size): # self._testPopulateMetadataPlate() > assert len(fixture.get_all_map_annotations()) == 0 E assert 1 == 0 E + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) E + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() E + where get_all_map_annotations = <test_populate.Dataset101Images object at 0x7f616809ca90>.get_all_map_annotations test/integration/metadata/test_populate.py:938: AssertionError59testPopulateMetadata[1-Dataset101Images]falseFAILED1OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.497assert 1 == 0 + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() + where get_all_map_annotations = <test_populate.Dataset2Images1Missing object at 0x7f616809c950>.get_all_map_annotationsself = <test_populate.TestPopulateMetadata object at 0x7f616813f210> fixture = <test_populate.Dataset2Images1Missing object at 0x7f616809c950> batch_size = 1 @mark.parametrize("fixture", METADATA_FIXTURES, ids=METADATA_IDS) @mark.parametrize("batch_size", (None, 1, 10)) def testPopulateMetadata(self, fixture, batch_size): """ We should really test each of the parsing contexts in separate tests but in practice each one uses data created by the others, so for now just run them all together """ fixture.init(self) t = self._test_parsing_context(fixture, batch_size) self._assert_parsing_context_values(t, fixture) > self._test_bulk_to_map_annotation_context(fixture, batch_size) test/integration/metadata/test_populate.py:1026: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <test_populate.TestPopulateMetadata object at 0x7f616813f210> fixture = <test_populate.Dataset2Images1Missing object at 0x7f616809c950> batch_size = 1 def _test_bulk_to_map_annotation_context(self, fixture, batch_size): # self._testPopulateMetadataPlate() > assert len(fixture.get_all_map_annotations()) == 0 E assert 1 == 0 E + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) E + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() E + where get_all_map_annotations = <test_populate.Dataset2Images1Missing object at 0x7f616809c950>.get_all_map_annotations test/integration/metadata/test_populate.py:938: AssertionError59testPopulateMetadata[1-Dataset2Images1Missing]falseFAILED1OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata13.143omero.LockTimeout: exception ::omero::LockTimeout { serverStackTrace = None serverExceptionClass = None message = Command unfinished after 5.0 seconds backOff = 5000 seconds = 5 }self = <test_populate.TestPopulateMetadata object at 0x7f616813fd10> fixture = <test_populate.Dataset2Images object at 0x7f616809fd50> batch_size = 1 @mark.parametrize("fixture", METADATA_FIXTURES, ids=METADATA_IDS) @mark.parametrize("batch_size", (None, 1, 10)) def testPopulateMetadata(self, fixture, batch_size): """ We should really test each of the parsing contexts in separate tests but in practice each one uses data created by the others, so for now just run them all together """ fixture.init(self) t = self._test_parsing_context(fixture, batch_size) self._assert_parsing_context_values(t, fixture) self._test_bulk_to_map_annotation_context(fixture, batch_size) > self._test_delete_map_annotation_context(fixture, batch_size) test/integration/metadata/test_populate.py:1027: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ test/integration/metadata/test_populate.py:973: in _test_delete_map_annotation_context ctx.write_to_omero(batch_size=batch_size) ../../../../.venv3/lib64/python3.11/site-packages/omero/util/populate_metadata.py:1659: in write_to_omero self._write_to_omero_batch( ../../../../.venv3/lib64/python3.11/site-packages/omero/util/populate_metadata.py:1668: in _write_to_omero_batch callback = self.client.submit( ../../../../.venv3/lib64/python3.11/site-packages/omero/clients.py:966: in submit return self.waitOnCmd( ../../../../.venv3/lib64/python3.11/site-packages/omero/clients.py:989: in waitOnCmd callback.loop(loops, ms) # Throw LockTimeout ^^^^^^^^^^^^^^^^^^^^^^^^ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = object #0 (::omero::cmd::CmdCallback) { }, loops = 10, ms = 500 def loop(self, loops, ms): """ Calls block(long) "loops" number of times with the "ms" argument. This means the total wait time for the delete to occur is: loops X ms. Sensible values might be 10 loops for 500 ms, or 5 seconds. @param loops Number of times to call block(long) @param ms Number of milliseconds to pass to block(long @throws omero.LockTimeout if block(long) does not return a non-null value after loops calls. """ count = 0 found = False while count < loops: count += 1 found = self.block(ms) if found: break if found: return self.getResponse() else: waited = (ms / 1000.0) * loops > raise omero.LockTimeout( None, None, "Command unfinished after %s seconds" % waited, 5000, int(waited)) E omero.LockTimeout: exception ::omero::LockTimeout E { E serverStackTrace = None E serverExceptionClass = None E message = Command unfinished after 5.0 seconds E backOff = 5000 E seconds = 5 E } ../../../../.venv3/lib64/python3.11/site-packages/omero/callbacks.py:258: LockTimeout59testPopulateMetadata[1-Dataset2Images]falseFAILED1OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.473assert 1 == 0 + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() + where get_all_map_annotations = <test_populate.GZIP object at 0x7f616809c910>.get_all_map_annotationsself = <test_populate.TestPopulateMetadata object at 0x7f6168073f90> fixture = <test_populate.GZIP object at 0x7f616809c910>, batch_size = 1 @mark.parametrize("fixture", METADATA_FIXTURES, ids=METADATA_IDS) @mark.parametrize("batch_size", (None, 1, 10)) def testPopulateMetadata(self, fixture, batch_size): """ We should really test each of the parsing contexts in separate tests but in practice each one uses data created by the others, so for now just run them all together """ fixture.init(self) t = self._test_parsing_context(fixture, batch_size) self._assert_parsing_context_values(t, fixture) > self._test_bulk_to_map_annotation_context(fixture, batch_size) test/integration/metadata/test_populate.py:1026: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <test_populate.TestPopulateMetadata object at 0x7f6168073f90> fixture = <test_populate.GZIP object at 0x7f616809c910>, batch_size = 1 def _test_bulk_to_map_annotation_context(self, fixture, batch_size): # self._testPopulateMetadataPlate() > assert len(fixture.get_all_map_annotations()) == 0 E assert 1 == 0 E + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) E + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() E + where get_all_map_annotations = <test_populate.GZIP object at 0x7f616809c910>.get_all_map_annotations test/integration/metadata/test_populate.py:938: AssertionError59testPopulateMetadata[1-GZIP]falseFAILED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.8230testPopulateMetadata[1-Plate2Wells]falsePASSED1OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.489assert 1 == 0 + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() + where get_all_map_annotations = <test_populate.Project2Datasets object at 0x7f616809c710>.get_all_map_annotationsself = <test_populate.TestPopulateMetadata object at 0x7f6168073450> fixture = <test_populate.Project2Datasets object at 0x7f616809c710> batch_size = 1 @mark.parametrize("fixture", METADATA_FIXTURES, ids=METADATA_IDS) @mark.parametrize("batch_size", (None, 1, 10)) def testPopulateMetadata(self, fixture, batch_size): """ We should really test each of the parsing contexts in separate tests but in practice each one uses data created by the others, so for now just run them all together """ fixture.init(self) t = self._test_parsing_context(fixture, batch_size) self._assert_parsing_context_values(t, fixture) > self._test_bulk_to_map_annotation_context(fixture, batch_size) test/integration/metadata/test_populate.py:1026: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <test_populate.TestPopulateMetadata object at 0x7f6168073450> fixture = <test_populate.Project2Datasets object at 0x7f616809c710> batch_size = 1 def _test_bulk_to_map_annotation_context(self, fixture, batch_size): # self._testPopulateMetadataPlate() > assert len(fixture.get_all_map_annotations()) == 0 E assert 1 == 0 E + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) E + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() E + where get_all_map_annotations = <test_populate.Project2Datasets object at 0x7f616809c710>.get_all_map_annotations test/integration/metadata/test_populate.py:938: AssertionError59testPopulateMetadata[1-Project2Datasets]falseFAILED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata1.1020testPopulateMetadata[1-Screen2Plates]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata2.7880testPopulateMetadata[10-Dataset101Images]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.6750testPopulateMetadata[10-Dataset2Images1Missing]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.7230testPopulateMetadata[10-Dataset2Images]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.7930testPopulateMetadata[10-GZIP]falsePASSED1OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.52assert 1 == 0 + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() + where get_all_map_annotations = <test_populate.Plate2Wells object at 0x7f616809c150>.get_all_map_annotationsself = <test_populate.TestPopulateMetadata object at 0x7f6168070c10> fixture = <test_populate.Plate2Wells object at 0x7f616809c150>, batch_size = 10 @mark.parametrize("fixture", METADATA_FIXTURES, ids=METADATA_IDS) @mark.parametrize("batch_size", (None, 1, 10)) def testPopulateMetadata(self, fixture, batch_size): """ We should really test each of the parsing contexts in separate tests but in practice each one uses data created by the others, so for now just run them all together """ fixture.init(self) t = self._test_parsing_context(fixture, batch_size) self._assert_parsing_context_values(t, fixture) > self._test_bulk_to_map_annotation_context(fixture, batch_size) test/integration/metadata/test_populate.py:1026: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <test_populate.TestPopulateMetadata object at 0x7f6168070c10> fixture = <test_populate.Plate2Wells object at 0x7f616809c150>, batch_size = 10 def _test_bulk_to_map_annotation_context(self, fixture, batch_size): # self._testPopulateMetadataPlate() > assert len(fixture.get_all_map_annotations()) == 0 E assert 1 == 0 E + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) E + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() E + where get_all_map_annotations = <test_populate.Plate2Wells object at 0x7f616809c150>.get_all_map_annotations test/integration/metadata/test_populate.py:938: AssertionError59testPopulateMetadata[10-Plate2Wells]falseFAILED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.7210testPopulateMetadata[10-Project2Datasets]falsePASSED1OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata0.515assert 1 == 0 + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() + where get_all_map_annotations = <test_populate.Screen2Plates object at 0x7f616809d050>.get_all_map_annotationsself = <test_populate.TestPopulateMetadata object at 0x7f6168073810> fixture = <test_populate.Screen2Plates object at 0x7f616809d050> batch_size = 10 @mark.parametrize("fixture", METADATA_FIXTURES, ids=METADATA_IDS) @mark.parametrize("batch_size", (None, 1, 10)) def testPopulateMetadata(self, fixture, batch_size): """ We should really test each of the parsing contexts in separate tests but in practice each one uses data created by the others, so for now just run them all together """ fixture.init(self) t = self._test_parsing_context(fixture, batch_size) self._assert_parsing_context_values(t, fixture) > self._test_bulk_to_map_annotation_context(fixture, batch_size) test/integration/metadata/test_populate.py:1026: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <test_populate.TestPopulateMetadata object at 0x7f6168073810> fixture = <test_populate.Screen2Plates object at 0x7f616809d050> batch_size = 10 def _test_bulk_to_map_annotation_context(self, fixture, batch_size): # self._testPopulateMetadataPlate() > assert len(fixture.get_all_map_annotations()) == 0 E assert 1 == 0 E + where 1 = len([object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}]) E + where [object #0 (::omero::model::MapAnnotation)\n{\n _id = object #1 (::omero::RLong)\n {\n _val = 7432\n }\n _details = object #2 (::omero::model::Details)\n {\n _owner = object #3 (::omero::model::Experimenter)\n {\n _id = object #4 (::omero::RLong)\n {\n _val = 3811\n }\n _details = <nil>\n _loaded = False\n _version = <nil>\n _groupExperimenterMapSeq = \n {\n }\n _groupExperimenterMapLoaded = False\n _omeName = <nil>\n _firstName = <nil>\n _middleName = <nil>\n _lastName = <nil>\n _institution = <nil>\n _ldap = <nil>\n _email = <nil>\n _config = \n {\n }\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n }\n _group = object #5 (::omero::model::ExperimenterGroup)\n {\n _id = object #6 (::omero::RLong)\n {\n _val = 2789\n }\n _details = object #7 (... leaderOfGroups = \n {\n }\n groupPermissions = object #18 (::omero::model::Permissions)\n {\n _restrictions = \n {\n }\n _extendedRestrictions = \n {\n }\n _perm1 = -120\n }\n }\n }\n _loaded = True\n _version = <nil>\n _ns = object #19 (::omero::RString)\n {\n _val = openmicroscopy.org/omero/bulk_annotations\n }\n _name = <nil>\n _description = <nil>\n _annotationLinksSeq = \n {\n }\n _annotationLinksLoaded = False\n _annotationLinksCountPerOwner = \n {\n }\n _mapValue = \n {\n [0] = object #20 (::omero::model::NamedValue)\n {\n name = Image Name\n value = A2\n }\n [1] = object #21 (::omero::model::NamedValue)\n {\n name = Type\n value = Treatment\n }\n [2] = object #22 (::omero::model::NamedValue)\n {\n name = Concentration\n value = 10\n }\n [3] = object #23 (::omero::model::NamedValue)\n {\n name = image\n value = 5843\n }\n }\n}] = get_all_map_annotations() E + where get_all_map_annotations = <test_populate.Screen2Plates object at 0x7f616809d050>.get_all_map_annotations test/integration/metadata/test_populate.py:938: AssertionError59testPopulateMetadata[10-Screen2Plates]falseFAILED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata12.7210testPopulateMetadata[None-Dataset101Images]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata5.650testPopulateMetadata[None-Dataset2Images1Missing]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata5.9080testPopulateMetadata[None-Dataset2Images]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata7.7150testPopulateMetadata[None-GZIP]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata6.3220testPopulateMetadata[None-Plate2Wells]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata11.5890testPopulateMetadata[None-Project2Datasets]falsePASSED0OmeroPy.test.integration.metadata.test_populate.TestPopulateMetadata14.3740testPopulateMetadata[None-Screen2Plates]falsePASSED7TestPopulateMetadata180