8039.091false122419220OmeroFS.test.integration.test_dbclient.TestDropBoxClient0.0120test1falsePASSED1OmeroPy.test.integration.clitest.test_admin.TestAdmin1.643omero.cli.NonZeroReturnCode: assert failedself = <test.integration.clitest.test_admin.TestAdmin object at 0x7fbfc3387a90> monkeypatch = <_pytest.monkeypatch.MonkeyPatch object at 0x7fbfb1cb2b10> def test_checkupgrade0(self, monkeypatch): monkeypatch.setattr(omero.plugins.prefs, "UpgradeCheck", createUpgradeCheckClass("999999999.0.0")) self.args.append("checkupgrade") > self.go() test/integration/clitest/test_admin.py:66: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ test/integration/clitest/test_admin.py:60: in go self.cli.invoke(self.args, strict=True) ../../../../.venv3/lib64/python3.11/site-packages/omero/cli.py:1211: in invoke self.assertRC() _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <omero.cli.CLI object at 0x7fbfc17f8350> def assertRC(self): if self.rv != 0: > raise NonZeroReturnCode(self.rv, "assert failed") E omero.cli.NonZeroReturnCode: assert failed ../../../../.venv3/lib64/python3.11/site-packages/omero/cli.py:1200: 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TestChgrp0.0750testChgrpMyData[ExperimenterGroup:-rw-----Project]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.080testChgrpMyData[ExperimenterGroup:-rw-----Plate]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0780testChgrpMyData[ExperimenterGroup:-rw-----Screen]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0870testChgrpMyData[ExperimenterGroup:-rwr----Image]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.080testChgrpMyData[ExperimenterGroup:-rwr----Dataset]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0770testChgrpMyData[ExperimenterGroup:-rwr----Project]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0790testChgrpMyData[ExperimenterGroup:-rwr----Plate]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0760testChgrpMyData[ExperimenterGroup:-rwr----Screen]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.080testChgrpMyData[ExperimenterGroup:-rwra---Image]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0820testChgrpMyData[ExperimenterGroup:-rwra---Dataset]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0740testChgrpMyData[ExperimenterGroup:-rwra---Project]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0740testChgrpMyData[ExperimenterGroup:-rwra---Plate]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0750testChgrpMyData[ExperimenterGroup:-rwra---Screen]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0790testChgrpMyData[ExperimenterGroup:-rwrw---Image]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0730testChgrpMyData[ExperimenterGroup:-rwrw---Dataset]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0750testChgrpMyData[ExperimenterGroup:-rwrw---Project]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0780testChgrpMyData[ExperimenterGroup:-rwrw---Plate]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0770testChgrpMyData[ExperimenterGroup:-rwrw---Screen]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0740testNonMemberfalsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0830testGroupNamefalsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp10.520testFilesetfalsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp5.6980testFilesetPartialFailingfalsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp6.4980testFilesetOneImagefalsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp5.90testFilesetAllImagesMoveImagesfalsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp6.0940testFilesetAllImagesMoveDatasetfalsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0410testNonExistingGroupId[]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.040testNonExistingGroupId[Group:]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0390testNonExistingGroupId[ExperimenterGroup:]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.040testNonExistingGroupNamefalsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.090testMultipleSimpleObjectsSameClass[True-1]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.1520testMultipleSimpleObjectsSameClass[True-2]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.1740testMultipleSimpleObjectsSameClass[True-3]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.0840testMultipleSimpleObjectsSameClass[False-1]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.1220testMultipleSimpleObjectsSameClass[False-2]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.1430testMultipleSimpleObjectsSameClass[False-3]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.1370testMultipleSimpleObjectsTwoClassesSeparated[True-1]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.2130testMultipleSimpleObjectsTwoClassesSeparated[True-2]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.2730testMultipleSimpleObjectsTwoClassesSeparated[True-3]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.1060testMultipleSimpleObjectsTwoClassesSeparated[False-1]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.180testMultipleSimpleObjectsTwoClassesSeparated[False-2]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.2110testMultipleSimpleObjectsTwoClassesSeparated[False-3]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.130testMultipleSimpleObjectsTwoClassesInterlaced[True-1]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.2090testMultipleSimpleObjectsTwoClassesInterlaced[True-2]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.2550testMultipleSimpleObjectsTwoClassesInterlaced[True-3]falsePASSED0OmeroPy.test.integration.clitest.test_chgrp.TestChgrp0.10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Nonegatewaywrapper = <omero.gateway.pytest_fixtures.GatewayWrapper object at 0x7fbfb3e62c90> def testSameOwner(gatewaywrapper): """ tests project.linkAnnotation(sameOwner=False) Tests sameOwner default is False (was True for 4.4.x but False in 5.0) """ gatewaywrapper.loginAsAdmin() gatewaywrapper.gateway.SERVICE_OPTS.setOmeroGroup("-1") p = gatewaywrapper.getTestProject2() p.getDetails().owner.id.val def sameOwner(obj, ann): assert obj.getDetails().owner.id.val == ann.getDetails().owner.id.val def differentOwner(obj, ann): assert obj.getDetails().owner.id.val != ann.getDetails().owner.id.val > _testAnnotation(p, omero.gateway.CommentAnnotationWrapper, TESTANN_NS, 'some value', sameOwner=True, testOwner=sameOwner) test/integration/gatewaytest/test_annotation.py:104: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ obj = <_ProjectWrapper id=487> annclass = <class 'omero.gateway.CommentAnnotationWrapper'> ns = 'omero.gateway.test_annotation', value = 'some value', sameOwner = True testOwner = <function testSameOwner.<locals>.sameOwner at 0x7fbf6de49a80> def _testAnnotation(obj, annclass, ns, value, sameOwner=False, testOwner=None): gateway = obj._conn # Make sure it doesn't yet exist obj.removeAnnotations(ns) assert obj.getAnnotation(ns) is None # Create new, link and check ann = annclass(gateway) ann.setNs(ns) ann.setValue(value) if sameOwner: obj.linkAnnotation(ann, sameOwner=True) else: # checks that default sameOwner=False obj.linkAnnotation(ann) ann = obj.getAnnotation(ns) # Make sure the group for the annotation is the same as the original # object. (#120) assert ann.getDetails().getGroup() == obj.getDetails().getGroup() tval = hasattr(value, 'val') and value.val or value assert ann.getValue() == value, '%s != %s' % (str(ann.getValue()), str(tval)) assert ann.getNs() == ns, '%s != %s' % (str(ann.getNs()), str(ns)) if testOwner is not None: testOwner(obj, ann) # test conn.countAnnotations() counts = gateway.countAnnotations(obj.OMERO_CLASS, [obj.id]) assert counts is not None # Timestamp and Boolean not included in counts if annclass.OMERO_CLASS not in ["TimestampAnnotation", "BooleanAnnotation", # LongAnnotation is only for 'rating' "LongAnnotation"]: > assert counts[annclass.OMERO_CLASS] >= 1. # e.g. TagAnnotation: 1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E KeyError: None test/integration/gatewaytest/test_annotation.py:59: KeyError71testSameOwnerfalseFAILED2OmeroPy.test.integration.gatewaytest.test_annotation1.696KeyError: Noneauthor_testimg_generated = <_ImageWrapper id=5671> def testCommentAnnotation(author_testimg_generated): > return _testAnnotation(author_testimg_generated, omero.gateway.CommentAnnotationWrapper, TESTANN_NS, 'some value') test/integration/gatewaytest/test_annotation.py:115: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ obj = <_ImageWrapper id=5671> annclass = <class 'omero.gateway.CommentAnnotationWrapper'> ns = 'omero.gateway.test_annotation', value = 'some value', sameOwner = False testOwner = None def _testAnnotation(obj, annclass, ns, value, sameOwner=False, testOwner=None): gateway = obj._conn # Make sure it doesn't yet exist obj.removeAnnotations(ns) assert obj.getAnnotation(ns) is None # Create new, link and check ann = annclass(gateway) ann.setNs(ns) ann.setValue(value) if sameOwner: obj.linkAnnotation(ann, sameOwner=True) else: # checks that default sameOwner=False obj.linkAnnotation(ann) ann = obj.getAnnotation(ns) # Make sure the group for the annotation is the same as the original # object. (#120) assert ann.getDetails().getGroup() == obj.getDetails().getGroup() tval = hasattr(value, 'val') and value.val or value assert ann.getValue() == value, '%s != %s' % (str(ann.getValue()), str(tval)) assert ann.getNs() == ns, '%s != %s' % (str(ann.getNs()), str(ns)) if testOwner is not None: testOwner(obj, ann) # test conn.countAnnotations() counts = gateway.countAnnotations(obj.OMERO_CLASS, [obj.id]) assert counts is not None # Timestamp and Boolean not included in counts if annclass.OMERO_CLASS not in ["TimestampAnnotation", "BooleanAnnotation", # LongAnnotation is only for 'rating' "LongAnnotation"]: > assert counts[annclass.OMERO_CLASS] >= 1. # e.g. TagAnnotation: 1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E KeyError: None test/integration/gatewaytest/test_annotation.py:59: KeyError71testCommentAnnotationfalseFAILED2OmeroPy.test.integration.gatewaytest.test_annotation1.479KeyError: Nonegatewaywrapper = <omero.gateway.pytest_fixtures.GatewayWrapper object at 0x7fbf6f77b250> def testNonDefGroupAnnotation(gatewaywrapper): p = gatewaywrapper.getTestProject2() > return _testAnnotation(p, omero.gateway.CommentAnnotationWrapper, TESTANN_NS, 'some value') test/integration/gatewaytest/test_annotation.py:122: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ obj = <_ProjectWrapper id=491> annclass = <class 'omero.gateway.CommentAnnotationWrapper'> ns = 'omero.gateway.test_annotation', value = 'some value', sameOwner = False testOwner = None def _testAnnotation(obj, annclass, ns, value, sameOwner=False, testOwner=None): gateway = obj._conn # Make sure it doesn't yet exist obj.removeAnnotations(ns) assert obj.getAnnotation(ns) is None # Create new, link and check ann = annclass(gateway) ann.setNs(ns) ann.setValue(value) if sameOwner: obj.linkAnnotation(ann, sameOwner=True) else: # checks that default sameOwner=False obj.linkAnnotation(ann) ann = obj.getAnnotation(ns) # Make sure the group for the annotation is the same as the original # object. (#120) assert ann.getDetails().getGroup() == obj.getDetails().getGroup() tval = hasattr(value, 'val') and value.val or value assert ann.getValue() == value, '%s != %s' % (str(ann.getValue()), str(tval)) assert ann.getNs() == ns, '%s != %s' % (str(ann.getNs()), str(ns)) if testOwner is not None: testOwner(obj, ann) # test conn.countAnnotations() counts = gateway.countAnnotations(obj.OMERO_CLASS, [obj.id]) assert counts is not None # Timestamp and Boolean not included in counts if annclass.OMERO_CLASS not in ["TimestampAnnotation", "BooleanAnnotation", # LongAnnotation is only for 'rating' "LongAnnotation"]: > assert counts[annclass.OMERO_CLASS] >= 1. # e.g. TagAnnotation: 1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E KeyError: None test/integration/gatewaytest/test_annotation.py:59: KeyError71testNonDefGroupAnnotationfalseFAILED2OmeroPy.test.integration.gatewaytest.test_annotation1.663KeyError: Noneauthor_testimg_generated = <_ImageWrapper id=5672> def testTimestampAnnotation(author_testimg_generated): now = time.time() t = datetime.datetime.fromtimestamp(int(now)) > _testAnnotation(author_testimg_generated, omero.gateway.TimestampAnnotationWrapper, TESTANN_NS, t) test/integration/gatewaytest/test_annotation.py:130: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ obj = <_ImageWrapper id=5672> annclass = <class 'omero.gateway.TimestampAnnotationWrapper'> ns = 'omero.gateway.test_annotation' value = datetime.datetime(2026, 8, 29, 14, 55, 52), sameOwner = False testOwner = None def _testAnnotation(obj, annclass, ns, value, sameOwner=False, testOwner=None): gateway = obj._conn # Make sure it doesn't yet exist obj.removeAnnotations(ns) assert obj.getAnnotation(ns) is None # Create new, link and check ann = annclass(gateway) ann.setNs(ns) ann.setValue(value) if sameOwner: obj.linkAnnotation(ann, sameOwner=True) else: # checks that default sameOwner=False obj.linkAnnotation(ann) ann = obj.getAnnotation(ns) # Make sure the group for the annotation is the same as the original # object. (#120) assert ann.getDetails().getGroup() == obj.getDetails().getGroup() tval = hasattr(value, 'val') and value.val or value assert ann.getValue() == value, '%s != %s' % (str(ann.getValue()), str(tval)) assert ann.getNs() == ns, '%s != %s' % (str(ann.getNs()), str(ns)) if testOwner is not None: testOwner(obj, ann) # test conn.countAnnotations() counts = gateway.countAnnotations(obj.OMERO_CLASS, [obj.id]) assert counts is not None # Timestamp and Boolean not included in counts if annclass.OMERO_CLASS not in ["TimestampAnnotation", "BooleanAnnotation", # LongAnnotation is only for 'rating' "LongAnnotation"]: > assert counts[annclass.OMERO_CLASS] >= 1. # e.g. TagAnnotation: 1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E KeyError: None test/integration/gatewaytest/test_annotation.py:59: KeyError71testTimestampAnnotationfalseFAILED2OmeroPy.test.integration.gatewaytest.test_annotation1.61KeyError: Noneauthor_testimg_generated = <_ImageWrapper id=5673> def testBooleanAnnotation(author_testimg_generated): > _testAnnotation(author_testimg_generated, omero.gateway.BooleanAnnotationWrapper, TESTANN_NS, True) test/integration/gatewaytest/test_annotation.py:161: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ obj = <_ImageWrapper id=5673> annclass = <class 'omero.gateway.BooleanAnnotationWrapper'> ns = 'omero.gateway.test_annotation', value = True, sameOwner = False testOwner = None def _testAnnotation(obj, annclass, ns, value, sameOwner=False, testOwner=None): gateway = obj._conn # Make sure it doesn't yet exist obj.removeAnnotations(ns) assert obj.getAnnotation(ns) is None # Create new, link and check ann = annclass(gateway) ann.setNs(ns) ann.setValue(value) if sameOwner: obj.linkAnnotation(ann, sameOwner=True) else: # checks that default sameOwner=False obj.linkAnnotation(ann) ann = obj.getAnnotation(ns) # Make sure the group for the annotation is the same as the original # object. (#120) assert ann.getDetails().getGroup() == obj.getDetails().getGroup() tval = hasattr(value, 'val') and value.val or value assert ann.getValue() == value, '%s != %s' % (str(ann.getValue()), str(tval)) assert ann.getNs() == ns, '%s != %s' % (str(ann.getNs()), str(ns)) if testOwner is not None: testOwner(obj, ann) # test conn.countAnnotations() counts = gateway.countAnnotations(obj.OMERO_CLASS, [obj.id]) assert counts is not None # Timestamp and Boolean not included in counts if annclass.OMERO_CLASS not in ["TimestampAnnotation", "BooleanAnnotation", # LongAnnotation is only for 'rating' "LongAnnotation"]: > assert counts[annclass.OMERO_CLASS] >= 1. # e.g. TagAnnotation: 1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E KeyError: None test/integration/gatewaytest/test_annotation.py:59: KeyError71testBooleanAnnotationfalseFAILED2OmeroPy.test.integration.gatewaytest.test_annotation1.606KeyError: Noneauthor_testimg_generated = <_ImageWrapper id=5674> def testLongAnnotation(author_testimg_generated): > _testAnnotation(author_testimg_generated, omero.gateway.LongAnnotationWrapper, TESTANN_NS, int(1000)) test/integration/gatewaytest/test_annotation.py:167: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ obj = <_ImageWrapper id=5674> annclass = <class 'omero.gateway.LongAnnotationWrapper'> ns = 'omero.gateway.test_annotation', value = 1000, sameOwner = False testOwner = None def _testAnnotation(obj, annclass, ns, value, sameOwner=False, testOwner=None): gateway = obj._conn # Make sure it doesn't yet exist obj.removeAnnotations(ns) assert obj.getAnnotation(ns) is None # Create new, link and check ann = annclass(gateway) ann.setNs(ns) ann.setValue(value) if sameOwner: obj.linkAnnotation(ann, sameOwner=True) else: # checks that default sameOwner=False obj.linkAnnotation(ann) ann = obj.getAnnotation(ns) # Make sure the group for the annotation is the same as the original # object. (#120) assert ann.getDetails().getGroup() == obj.getDetails().getGroup() tval = hasattr(value, 'val') and value.val or value assert ann.getValue() == value, '%s != %s' % (str(ann.getValue()), str(tval)) assert ann.getNs() == ns, '%s != %s' % (str(ann.getNs()), str(ns)) if testOwner is not None: testOwner(obj, ann) # test conn.countAnnotations() counts = gateway.countAnnotations(obj.OMERO_CLASS, [obj.id]) assert counts is not None # Timestamp and Boolean not included in counts if annclass.OMERO_CLASS not in ["TimestampAnnotation", "BooleanAnnotation", # LongAnnotation is only for 'rating' "LongAnnotation"]: > assert counts[annclass.OMERO_CLASS] >= 1. # e.g. TagAnnotation: 1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E KeyError: None test/integration/gatewaytest/test_annotation.py:59: KeyError71testLongAnnotationfalseFAILED2OmeroPy.test.integration.gatewaytest.test_annotation1.505KeyError: Noneauthor_testimg_generated = <_ImageWrapper id=5675> def testMapAnnotation(author_testimg_generated): data = [("foo", "bar"), ("test key", "test value")] > _testAnnotation(author_testimg_generated, omero.gateway.MapAnnotationWrapper, TESTANN_NS, data) test/integration/gatewaytest/test_annotation.py:175: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ obj = <_ImageWrapper id=5675> annclass = <class 'omero.gateway.MapAnnotationWrapper'> ns = 'omero.gateway.test_annotation' value = [('foo', 'bar'), ('test key', 'test value')], sameOwner = False testOwner = None def _testAnnotation(obj, annclass, ns, value, sameOwner=False, testOwner=None): gateway = obj._conn # Make sure it doesn't yet exist obj.removeAnnotations(ns) assert obj.getAnnotation(ns) is None # Create new, link and check ann = annclass(gateway) ann.setNs(ns) ann.setValue(value) if sameOwner: obj.linkAnnotation(ann, sameOwner=True) else: # checks that default sameOwner=False obj.linkAnnotation(ann) ann = obj.getAnnotation(ns) # Make sure the group for the annotation is the same as the original # object. (#120) assert ann.getDetails().getGroup() == obj.getDetails().getGroup() tval = hasattr(value, 'val') and value.val or value assert ann.getValue() == value, '%s != %s' % (str(ann.getValue()), str(tval)) assert ann.getNs() == ns, '%s != %s' % (str(ann.getNs()), str(ns)) if testOwner is not None: testOwner(obj, ann) # test conn.countAnnotations() counts = gateway.countAnnotations(obj.OMERO_CLASS, [obj.id]) assert counts is not None # Timestamp and Boolean not included in counts if annclass.OMERO_CLASS not in ["TimestampAnnotation", "BooleanAnnotation", # LongAnnotation is only for 'rating' "LongAnnotation"]: > assert counts[annclass.OMERO_CLASS] >= 1. # e.g. TagAnnotation: 1 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E KeyError: None test/integration/gatewaytest/test_annotation.py:59: KeyError71testMapAnnotationfalseFAILED0OmeroPy.test.integration.gatewaytest.test_annotation1.6520testDualLinkedAnnotationfalsePASSED0OmeroPy.test.integration.gatewaytest.test_annotation1.6350testListAnnotationsfalsePASSED0OmeroPy.test.integration.gatewaytest.test_annotation2.20testFileAnnotationfalsePASSED0OmeroPy.test.integration.gatewaytest.test_annotation1.6170testFileAnnotationNoNamefalsePASSED0OmeroPy.test.integration.gatewaytest.test_annotation3.6210testFileAnnotationSpeedfalsePASSED0OmeroPy.test.integration.gatewaytest.test_annotation1.9720testFileAnnNonDefaultGroupfalsePASSED0OmeroPy.test.integration.gatewaytest.test_annotation1.6990testUnlinkAnnotationfalsePASSED0OmeroPy.test.integration.gatewaytest.test_annotation1.860testAnnotationCountfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chgrp1.9130testImageChgrpfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chgrp1.9690testDatasetChgrpfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chgrp2.250testPDIChgrpfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chgrp2.0910testTwoDatasetsChgrpToProjectfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chgrp1.5710testMultiDatasetDoAllfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.TestChmodGroup3.7050testChmodfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.TestCustomUsers15.220testReadOnlyfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.TestCustomUsers2.4740testReadAnnotatefalsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.TestCustomUsers1.7980testGroupMinusOnefalsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.TestCustomUsers2.1450testReadWritefalsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.TestCustomUsers2.8530testDelete8723falsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.TestManualCreateEdit3.5940testReadOnlyfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.Test88001.9270testWithBlitzWrappersfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.Test88001.7510testWithoutWrappersfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chmod.TestDefaultSetup4.7830testAuthorCanEditfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chown.TestChown7.4410test_chown_projectfalsePASSED0OmeroPy.test.integration.gatewaytest.test_chown.TestChown4.9220test_chown_pdifalsePASSED0OmeroPy.test.integration.gatewaytest.test_config_service3.0520testInterpolateSetting[foo]falsePASSED0OmeroPy.test.integration.gatewaytest.test_config_service2.9060testInterpolateSetting[False]falsePASSED0OmeroPy.test.integration.gatewaytest.test_config_service2.8920testInterpolateSetting[false]falsePASSED0OmeroPy.test.integration.gatewaytest.test_config_service3.0490testInterpolateSetting[True]falsePASSED0OmeroPy.test.integration.gatewaytest.test_config_service3.0420testInterpolateSetting[true]falsePASSED0OmeroPy.test.integration.gatewaytest.test_config_service3.0630testInterpolateSetting[]falsePASSED0OmeroPy.test.integration.gatewaytest.test_config_service3.0490testInterpolateSetting[None]falsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods6.5910testMultiProcessSessionfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods11.8550testClosefalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods8.8710testTopLevelObjectsfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.0070testCloseSessionfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.0760testMiscellaneousfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.9110testConnectUsingClientfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.9230testConnectUsingClientNoSessionWithIdentityfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.940testConnectUsingClientSessionWithoutIdentityfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.870testSessionIdfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.9160testConnectWithSessionIdfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.0520testSecureWithSecureClientfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.0590testSecureWithUnsecureClientfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.0590testSecureWithUsername[None]falsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.0570testSecureWithUsername[False]falsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.0540testSecureWithUsername[True]falsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods0.0320testSecureMisMatchfalsePASSED0OmeroPy.test.integration.gatewaytest.test_connection.TestConnectionMethods2.7780testHostfalsePASSED0OmeroPy.test.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tObject5.5930testGetExperimentersByGroup[True]falsePASSED0OmeroPy.test.integration.gatewaytest.test_get_objects.TestGetObject5.1090testGetExperimentersByGroup[False]falsePASSED0OmeroPy.test.integration.gatewaytest.test_get_objects.TestGetObject1.7060testGetExperimenterfalsePASSED2OmeroPy.test.integration.gatewaytest.test_get_objects.TestGetObject9.526AttributeError: module 'omero.model' has no attribute 'NoneAnnotationLinkI'self = <test.integration.gatewaytest.test_get_objects.TestGetObject object at 0x7fbfc11cea10> gatewaywrapper = <omero.gateway.pytest_fixtures.GatewayWrapper object at 0x7fbf5ae2a590> author_testimg_tiny = <_ImageWrapper id=5746> def testGetAnnotations(self, gatewaywrapper, author_testimg_tiny): obj = author_testimg_tiny dataset = gatewaywrapper.getTestDataset() ns = "omero.gateway.test.get_objects.test_get_annotations_comment" ns_tag = "omero.gateway.test.get_objects.test_get_annotations_tag" # create Comment ann = omero.gateway.CommentAnnotationWrapper(gatewaywrapper.gateway) ann.setNs(ns) ann.setValue("Test Comment") ann = obj.linkAnnotation(ann) # create Tag tag = omero.gateway.TagAnnotationWrapper(gatewaywrapper.gateway) tag.setNs(ns_tag) tag.setValue("Test Tag") tag = obj.linkAnnotation(tag) dataset.linkAnnotation(tag) # also link the Tag to the Comment > ann.linkAnnotation(tag) test/integration/gatewaytest/test_get_objects.py:549: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1133: in linkAnnotation ann = self._linkAnnotation(ann) ^^^^^^^^^^^^^^^^^^^^^^^^^ ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1065: in _linkAnnotation return self._linkObject(ann, "%sAnnotationLinkI" % self.OMERO_CLASS) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <CommentAnnotationWrapper id=5283>, obj = <TagAnnotationWrapper id=5284> lnkobjtype = 'NoneAnnotationLinkI' def _linkObject(self, obj, lnkobjtype): """ Saves the object to DB if needed - setting the permissions manually. Creates the object link and saves it, setting permissions manually. TODO: Can't set permissions manually in 4.2 - Assumes world & group writable :param obj: The object to link :type obj: :class:`BlitzObjectWrapper` """ ctx = self._conn.SERVICE_OPTS.copy() ctx.setOmeroGroup(self.details.group.id.val) if not obj.getId(): # Not yet in db, save it obj = obj.__class__( self._conn, self._conn.getUpdateService().saveAndReturnObject( obj._obj, ctx)) > lnk = getattr(omero.model, lnkobjtype)() ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E AttributeError: module 'omero.model' has no attribute 'NoneAnnotationLinkI' ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1049: AttributeError71testGetAnnotationsfalseFAILED2OmeroPy.test.integration.gatewaytest.test_get_objects.TestGetObject3.213AttributeError: 'NoneType' object has no attribute 'id'self = <test.integration.gatewaytest.test_get_objects.TestGetObject object at 0x7fbfc11cf990> def testGetObjectsAnnotation(self): # create new group and user - don't rely on existing test user/group group = self.new_group(perms='rwra--') client, user = self.new_client_and_user(group=group) conn = BlitzGateway(client_obj=client) ann_types = ["CommentAnnotation", "TagAnnotation", "LongAnnotation", "XmlAnnotation", "DoubleAnnotation", "BooleanAnnotation", "TimestampAnnotation", "TermAnnotation"] ns = "test_get_objects_namespace" ns_map = "test_get_objects_map_namespace" ns_file = "test_get_objects_annotation_file" def create_dataset_with_annotations(name, dtype="Dataset"): if dtype == "Dataset": obj = DatasetI() wrapper = omero.gateway.DatasetWrapper(conn, obj) elif dtype == "Project": obj = ProjectI() wrapper = omero.gateway.ProjectWrapper(conn, obj) wrapper.setName(name) wrapper.save() # Create total of 10 annotations on the object... # create Comment, Tag, Xml, etc for ann_type in ann_types: ann = getattr(omero.gateway, ann_type + "Wrapper")(conn) ann.setNs(ns) if ann_type in ("LongAnnotation", "DoubleAnnotation", "TimestampAnnotation"): ann.setValue(100.0) elif ann_type == "BooleanAnnotation": ann.setValue(True) else: ann.setValue("Test %s: %s" % (ann_type, name)) wrapper.linkAnnotation(ann) # create MapAnnotation mapAnn = omero.gateway.MapAnnotationWrapper(conn) mapAnn.setNs(ns) mapAnn.setValue([("key1", "value1"), ("key2", "value2")]) mapAnn.setNs(ns_map) mapAnn.save() wrapper.linkAnnotation(mapAnn) # create FileAnnotation fileAnn = omero.gateway.FileAnnotationWrapper(conn) fileObj = omero.model.OriginalFileI() fileObj = omero.gateway.OriginalFileWrapper(conn, fileObj) fileObj.setName(omero.rtypes.rstring('fileName')) fileObj.setPath(omero.rtypes.rstring('path/to/file')) fileObj.setHash(omero.rtypes.rstring('a')) fileObj.setSize(omero.rtypes.rlong(0)) fileObj.save() fileAnn.setFile(fileObj) fileAnn.setNs(ns_file) fileAnn.save() wrapper.linkAnnotation(fileAnn) return wrapper dataset1 = create_dataset_with_annotations("Dataset 1") dataset2 = create_dataset_with_annotations("Dataset 2") create_dataset_with_annotations("Project 1", dtype="Project") # Add Tag to Group tag = omero.gateway.TagAnnotationWrapper(conn) tag.setNs("test_get_objects_group_tag") tag.setValue("Test Tag on Group") group = conn.getGroupFromContext() > group.linkAnnotation(tag) test/integration/gatewaytest/test_get_objects.py:725: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1133: in linkAnnotation ann = self._linkAnnotation(ann) ^^^^^^^^^^^^^^^^^^^^^^^^^ ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1065: in _linkAnnotation return self._linkObject(ann, "%sAnnotationLinkI" % self.OMERO_CLASS) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <_ExperimenterGroupWrapper id=2745> obj = <omero.gateway.TagAnnotationWrapper object at 0x7fbfa1270f90> lnkobjtype = 'ExperimenterGroupAnnotationLinkI' def _linkObject(self, obj, lnkobjtype): """ Saves the object to DB if needed - setting the permissions manually. Creates the object link and saves it, setting permissions manually. TODO: Can't set permissions manually in 4.2 - Assumes world & group writable :param obj: The object to link :type obj: :class:`BlitzObjectWrapper` """ ctx = self._conn.SERVICE_OPTS.copy() > ctx.setOmeroGroup(self.details.group.id.val) ^^^^^^^^^^^^^^^^^^^^^ E AttributeError: 'NoneType' object has no attribute 'id' ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1042: AttributeError71testGetObjectsAnnotationfalseFAILED2OmeroPy.test.integration.gatewaytest.test_get_objects.TestGetObject2.159AttributeError: module 'omero.model' has no attribute 'NoneAnnotationLinkI'self = <test.integration.gatewaytest.test_get_objects.TestGetObject object at 0x7fbfc11cf110> def testAnnotationAnnotationLinks(self): """ Test various annotations methods when parent is an Annotation or Group """ group = self.new_group(perms='rwra--') client, user = self.new_client_and_user(group=group) conn = BlitzGateway(client_obj=client) parent = omero.gateway.TagAnnotationWrapper(conn) parent.setNs("test.annotation.parent") parent.setValue("parent Tag") parent.save() COMMENT_TEXT = "test annotation child Comment" child = omero.gateway.CommentAnnotationWrapper(conn) child.setNs("test.annotation.child") child.setValue(COMMENT_TEXT) child.save() child2 = omero.gateway.LongAnnotationWrapper(conn) child2.setNs("test.annotation.child") child2.setValue(123) child2.save() # link child to parent > parent.linkAnnotation(child) test/integration/gatewaytest/test_get_objects.py:817: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1133: in linkAnnotation ann = self._linkAnnotation(ann) ^^^^^^^^^^^^^^^^^^^^^^^^^ ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1065: in _linkAnnotation return self._linkObject(ann, "%sAnnotationLinkI" % self.OMERO_CLASS) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <TagAnnotationWrapper id=5387>, obj = <CommentAnnotationWrapper id=5388> lnkobjtype = 'NoneAnnotationLinkI' def _linkObject(self, obj, lnkobjtype): """ Saves the object to DB if needed - setting the permissions manually. Creates the object link and saves it, setting permissions manually. TODO: Can't set permissions manually in 4.2 - Assumes world & group writable :param obj: The object to link :type obj: :class:`BlitzObjectWrapper` """ ctx = self._conn.SERVICE_OPTS.copy() ctx.setOmeroGroup(self.details.group.id.val) if not obj.getId(): # Not yet in db, save it obj = obj.__class__( self._conn, self._conn.getUpdateService().saveAndReturnObject( obj._obj, ctx)) > lnk = getattr(omero.model, lnkobjtype)() ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ E AttributeError: module 'omero.model' has no attribute 'NoneAnnotationLinkI' ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1049: 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on setup with "AttributeError: 'NoneType' object has no attribute 'id'"self = <test_api_annotations.TestAnnotations object at 0x7f81026fc290> user1 = (<omero.clients.BaseClient object at 0x7f810171fa50>, object #0 (::omero::model::Experimenter) { _id = object #1 (...nnotationLinksSeq = { } _annotationLinksLoaded = False _annotationLinksCountPerOwner = { } }) @pytest.fixture() def dataset_anns(self, user1): """Create a bunch of Annotations.""" conn = BlitzGateway(client_obj=user1[0]) update = conn.getUpdateService() def create_dataset_with_annotations(name, dtype="Dataset"): if dtype == "Dataset": obj = DatasetI() obj.name = wrap(name) obj = update.saveAndReturnObject(obj) wrapper = DatasetWrapper(conn, obj) elif dtype == "Project": obj = ProjectI() obj.name = wrap(name) obj = update.saveAndReturnObject(obj) wrapper = ProjectWrapper(conn, obj) # Create total of 10 annotations on the object... # create Comment, Tag, Xml, etc for ann_type in self.ann_types: ann = getattr(omero.gateway, ann_type + "Wrapper")(conn) ann.setNs(self.ns) if ann_type in ("LongAnnotation", "DoubleAnnotation", "TimestampAnnotation"): ann.setValue(100.0) elif ann_type == "BooleanAnnotation": ann.setValue(True) else: ann.setValue("Test %s: %s" % (ann_type, name)) wrapper.linkAnnotation(ann) # create MapAnnotation mapAnn = omero.gateway.MapAnnotationWrapper(conn) mapAnn.setValue([("key1", "value1"), ("key2", "value2")]) mapAnn.setNs(self.ns_map) mapAnn.save() wrapper.linkAnnotation(mapAnn) # create FileAnnotation fileAnn = FileAnnotationWrapper(conn) fileObj = OriginalFileI() fileObj = OriginalFileWrapper(conn, fileObj) fileObj.setName(wrap("fileName")) fileObj.setPath(wrap("path/to/file")) fileObj.setHash(wrap("a")) fileObj.setSize(omero.rtypes.rlong(0)) fileObj.save() fileAnn.setFile(fileObj) fileAnn.setNs(self.ns_file) fileAnn.save() wrapper.linkAnnotation(fileAnn) return wrapper dataset1 = create_dataset_with_annotations("Dataset 1") dataset2 = create_dataset_with_annotations("Dataset 2") project1 = create_dataset_with_annotations("Project 1", dtype="Project") # Also add Tag to the Group tag = TagAnnotationWrapper(conn) tag.setNs("test_get_objects_group_tag") tag.setValue("Test Tag on Group") group = conn.getGroupFromContext() > group.linkAnnotation(tag) test/integration/test_api_annotations.py:127: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1133: in linkAnnotation ann = self._linkAnnotation(ann) ^^^^^^^^^^^^^^^^^^^^^^^^^ ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1065: in _linkAnnotation return self._linkObject(ann, "%sAnnotationLinkI" % self.OMERO_CLASS) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <ExperimenterGroupWrapper id=3277> obj = <omero.gateway.TagAnnotationWrapper object at 0x7f80feab6510> lnkobjtype = 'ExperimenterGroupAnnotationLinkI' def _linkObject(self, obj, lnkobjtype): """ Saves the object to DB if needed - setting the permissions manually. Creates the object link and saves it, setting permissions manually. TODO: Can't set permissions manually in 4.2 - Assumes world & group writable :param obj: The object to link :type obj: :class:`BlitzObjectWrapper` """ ctx = self._conn.SERVICE_OPTS.copy() > ctx.setOmeroGroup(self.details.group.id.val) ^^^^^^^^^^^^^^^^^^^^^ E AttributeError: 'NoneType' object has no attribute 'id' ../../../../.venv3/lib64/python3.11/site-packages/omero/gateway/__init__.py:1042: 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