From 47cde88674fc9c420f9dd8c6e83f4e0eb95b547c Mon Sep 17 00:00:00 2001 From: Gaurav Vaidya Date: Thu, 30 Sep 2021 11:24:57 -0400 Subject: [PATCH] Regenerated outputs. --- crdch_model/crdch_model.py | 160 ++-- crdch_model/owl/crdch_model.owl.ttl | 1048 +++++++++++++-------------- 2 files changed, 604 insertions(+), 604 deletions(-) diff --git a/crdch_model/crdch_model.py b/crdch_model/crdch_model.py index d0ad35ecf..87ce3e861 100644 --- a/crdch_model/crdch_model.py +++ b/crdch_model/crdch_model.py @@ -1,5 +1,5 @@ # Auto generated from crdch_model.yaml by pythongen.py version: 0.9.0 -# Generation date: 2021-09-23 12:01 +# Generation date: 2021-09-30 11:24 # Schema: CRDC-H # # id: https://example.org/crdch @@ -2283,7 +2283,7 @@ class EnumCRDCHAlcoholExposureObservationCategory(EnumDefinitionImpl): name="EnumCRDCHAlcoholExposureObservationCategory", description="Autogenerated Enumeration for CRDC-H AlcoholExposureObservation category", code_set=None, - code_set_version="2021-09-23T15:59:38.238570+00:00", + code_set_version="2021-09-30T15:21:39.362814+00:00", ) class EnumCRDCHAlcoholExposureObservationObservationType(EnumDefinitionImpl): @@ -2312,7 +2312,7 @@ class EnumCRDCHAlcoholExposureObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHAlcoholExposureObservationMethodType", description="Autogenerated Enumeration for CRDC-H AlcoholExposureObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:38.806206+00:00", + code_set_version="2021-09-30T15:21:39.868643+00:00", ) class EnumCRDCHAlcoholExposureObservationValueCodeableConcept(EnumDefinitionImpl): @@ -2323,7 +2323,7 @@ class EnumCRDCHAlcoholExposureObservationValueCodeableConcept(EnumDefinitionImpl name="EnumCRDCHAlcoholExposureObservationValueCodeableConcept", description="Autogenerated Enumeration for CRDC-H AlcoholExposureObservation value_codeable_concept", code_set=None, - code_set_version="2021-09-23T15:59:38.907495+00:00", + code_set_version="2021-09-30T15:21:40.086054+00:00", ) class EnumCRDCHBodySiteSite(EnumDefinitionImpl): @@ -2643,7 +2643,7 @@ class EnumCRDCHBodySiteSite(EnumDefinitionImpl): name="EnumCRDCHBodySiteSite", description="Autogenerated Enumeration for CRDC-H BodySite site", code_set=None, - code_set_version="2021-09-23T15:59:39.012070+00:00", + code_set_version="2021-09-30T15:21:40.317500+00:00", ) @classmethod @@ -3667,7 +3667,7 @@ class EnumCRDCHBodySiteQualifier(EnumDefinitionImpl): name="EnumCRDCHBodySiteQualifier", description="Autogenerated Enumeration for CRDC-H BodySite qualifier", code_set=None, - code_set_version="2021-09-23T15:59:39.996164+00:00", + code_set_version="2021-09-30T15:21:41.363684+00:00", ) @classmethod @@ -3683,7 +3683,7 @@ class EnumCRDCHBiologicProductProductType(EnumDefinitionImpl): name="EnumCRDCHBiologicProductProductType", description="Autogenerated Enumeration for CRDC-H BiologicProduct product_type", code_set=None, - code_set_version="2021-09-23T15:59:40.107219+00:00", + code_set_version="2021-09-30T15:21:41.610521+00:00", ) class EnumCRDCHCancerGradeObservationCategory(EnumDefinitionImpl): @@ -3694,7 +3694,7 @@ class EnumCRDCHCancerGradeObservationCategory(EnumDefinitionImpl): name="EnumCRDCHCancerGradeObservationCategory", description="Autogenerated Enumeration for CRDC-H CancerGradeObservation category", code_set=None, - code_set_version="2021-09-23T15:59:40.206080+00:00", + code_set_version="2021-09-30T15:21:41.844989+00:00", ) class EnumCRDCHCancerGradeObservationObservationType(EnumDefinitionImpl): @@ -3726,7 +3726,7 @@ class EnumCRDCHCancerGradeObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHCancerGradeObservationMethodType", description="Autogenerated Enumeration for CRDC-H CancerGradeObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:40.419324+00:00", + code_set_version="2021-09-30T15:21:42.295079+00:00", ) class EnumCRDCHCancerGradeObservationValueCodeableConcept(EnumDefinitionImpl): @@ -3737,7 +3737,7 @@ class EnumCRDCHCancerGradeObservationValueCodeableConcept(EnumDefinitionImpl): name="EnumCRDCHCancerGradeObservationValueCodeableConcept", description="Autogenerated Enumeration for CRDC-H CancerGradeObservation value_codeable_concept", code_set=None, - code_set_version="2021-09-23T15:59:40.520201+00:00", + code_set_version="2021-09-30T15:21:42.521100+00:00", ) class EnumCRDCHCancerGradeObservationSetCategory(EnumDefinitionImpl): @@ -3748,7 +3748,7 @@ class EnumCRDCHCancerGradeObservationSetCategory(EnumDefinitionImpl): name="EnumCRDCHCancerGradeObservationSetCategory", description="Autogenerated Enumeration for CRDC-H CancerGradeObservationSet category", code_set=None, - code_set_version="2021-09-23T15:59:40.622070+00:00", + code_set_version="2021-09-30T15:21:42.739080+00:00", ) class EnumCRDCHCancerGradeObservationSetMethodType(EnumDefinitionImpl): @@ -3780,7 +3780,7 @@ class EnumCRDCHCancerStageObservationCategory(EnumDefinitionImpl): name="EnumCRDCHCancerStageObservationCategory", description="Autogenerated Enumeration for CRDC-H CancerStageObservation category", code_set=None, - code_set_version="2021-09-23T15:59:40.826432+00:00", + code_set_version="2021-09-30T15:21:43.196459+00:00", ) class EnumCRDCHCancerStageObservationObservationType(EnumDefinitionImpl): @@ -3842,7 +3842,7 @@ class EnumCRDCHCancerStageObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHCancerStageObservationMethodType", description="Autogenerated Enumeration for CRDC-H CancerStageObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:41.029192+00:00", + code_set_version="2021-09-30T15:21:43.657731+00:00", ) class EnumCRDCHCancerStageObservationValueCodeableConcept(EnumDefinitionImpl): @@ -3853,7 +3853,7 @@ class EnumCRDCHCancerStageObservationValueCodeableConcept(EnumDefinitionImpl): name="EnumCRDCHCancerStageObservationValueCodeableConcept", description="Autogenerated Enumeration for CRDC-H CancerStageObservation value_codeable_concept", code_set=None, - code_set_version="2021-09-23T15:59:41.130366+00:00", + code_set_version="2021-09-30T15:21:43.885935+00:00", ) class EnumCRDCHCancerStageObservationSetCategory(EnumDefinitionImpl): @@ -3864,7 +3864,7 @@ class EnumCRDCHCancerStageObservationSetCategory(EnumDefinitionImpl): name="EnumCRDCHCancerStageObservationSetCategory", description="Autogenerated Enumeration for CRDC-H CancerStageObservationSet category", code_set=None, - code_set_version="2021-09-23T15:59:41.232289+00:00", + code_set_version="2021-09-30T15:21:44.106303+00:00", ) class EnumCRDCHCancerStageObservationSetMethodType(EnumDefinitionImpl): @@ -4126,7 +4126,7 @@ class EnumCRDCHDiagnosisCondition(EnumDefinitionImpl): name="EnumCRDCHDiagnosisCondition", description="Autogenerated Enumeration for CRDC-H Diagnosis condition", code_set=None, - code_set_version="2021-09-23T15:59:41.436651+00:00", + code_set_version="2021-09-30T15:21:44.535688+00:00", ) @classmethod @@ -9087,7 +9087,7 @@ class EnumCRDCHDiagnosisMorphology(EnumDefinitionImpl): name="EnumCRDCHDiagnosisMorphology", description="Autogenerated Enumeration for CRDC-H Diagnosis morphology", code_set=None, - code_set_version="2021-09-23T15:59:44.456566+00:00", + code_set_version="2021-09-30T15:21:47.628697+00:00", ) @classmethod @@ -11397,7 +11397,7 @@ class EnumCRDCHDiagnosisDiseaseStatus(EnumDefinitionImpl): name="EnumCRDCHDiagnosisDiseaseStatus", description="Autogenerated Enumeration for CRDC-H Diagnosis disease_status", code_set=None, - code_set_version="2021-09-23T15:59:45.824276+00:00", + code_set_version="2021-09-30T15:21:48.996692+00:00", ) @classmethod @@ -11446,7 +11446,7 @@ class EnumCRDCHDiagnosisMethodOfDiagnosis(EnumDefinitionImpl): name="EnumCRDCHDiagnosisMethodOfDiagnosis", description="Autogenerated Enumeration for CRDC-H Diagnosis method_of_diagnosis", code_set=None, - code_set_version="2021-09-23T15:59:45.936216+00:00", + code_set_version="2021-09-30T15:21:49.236270+00:00", ) @classmethod @@ -11504,7 +11504,7 @@ class EnumCRDCHDimensionalObservationCategory(EnumDefinitionImpl): name="EnumCRDCHDimensionalObservationCategory", description="Autogenerated Enumeration for CRDC-H DimensionalObservation category", code_set=None, - code_set_version="2021-09-23T15:59:46.070978+00:00", + code_set_version="2021-09-30T15:21:49.484436+00:00", ) class EnumCRDCHDimensionalObservationObservationType(EnumDefinitionImpl): @@ -11537,7 +11537,7 @@ class EnumCRDCHDimensionalObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHDimensionalObservationMethodType", description="Autogenerated Enumeration for CRDC-H DimensionalObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:46.274398+00:00", + code_set_version="2021-09-30T15:21:49.922390+00:00", ) class EnumCRDCHDimensionalObservationSetCategory(EnumDefinitionImpl): @@ -11548,7 +11548,7 @@ class EnumCRDCHDimensionalObservationSetCategory(EnumDefinitionImpl): name="EnumCRDCHDimensionalObservationSetCategory", description="Autogenerated Enumeration for CRDC-H DimensionalObservationSet category", code_set=None, - code_set_version="2021-09-23T15:59:46.378533+00:00", + code_set_version="2021-09-30T15:21:50.136343+00:00", ) class EnumCRDCHDimensionalObservationSetMethodType(EnumDefinitionImpl): @@ -11559,7 +11559,7 @@ class EnumCRDCHDimensionalObservationSetMethodType(EnumDefinitionImpl): name="EnumCRDCHDimensionalObservationSetMethodType", description="Autogenerated Enumeration for CRDC-H DimensionalObservationSet method_type", code_set=None, - code_set_version="2021-09-23T15:59:46.483558+00:00", + code_set_version="2021-09-30T15:21:50.361320+00:00", ) class EnumCRDCHDocumentDocumentType(EnumDefinitionImpl): @@ -11588,7 +11588,7 @@ class EnumCRDCHEnvironmentalExposureObservationCategory(EnumDefinitionImpl): name="EnumCRDCHEnvironmentalExposureObservationCategory", description="Autogenerated Enumeration for CRDC-H EnvironmentalExposureObservation category", code_set=None, - code_set_version="2021-09-23T15:59:46.687076+00:00", + code_set_version="2021-09-30T15:21:50.804313+00:00", ) class EnumCRDCHEnvironmentalExposureObservationObservationType(EnumDefinitionImpl): @@ -11619,7 +11619,7 @@ class EnumCRDCHEnvironmentalExposureObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHEnvironmentalExposureObservationMethodType", description="Autogenerated Enumeration for CRDC-H EnvironmentalExposureObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:46.885066+00:00", + code_set_version="2021-09-30T15:21:51.232441+00:00", ) class EnumCRDCHEnvironmentalExposureObservationValueCodeableConcept(EnumDefinitionImpl): @@ -11630,7 +11630,7 @@ class EnumCRDCHEnvironmentalExposureObservationValueCodeableConcept(EnumDefiniti name="EnumCRDCHEnvironmentalExposureObservationValueCodeableConcept", description="Autogenerated Enumeration for CRDC-H EnvironmentalExposureObservation value_codeable_concept", code_set=None, - code_set_version="2021-09-23T15:59:46.988804+00:00", + code_set_version="2021-09-30T15:21:51.455020+00:00", ) class EnumCRDCHExecutionConditionObservationCategory(EnumDefinitionImpl): @@ -11641,7 +11641,7 @@ class EnumCRDCHExecutionConditionObservationCategory(EnumDefinitionImpl): name="EnumCRDCHExecutionConditionObservationCategory", description="Autogenerated Enumeration for CRDC-H ExecutionConditionObservation category", code_set=None, - code_set_version="2021-09-23T15:59:47.091912+00:00", + code_set_version="2021-09-30T15:21:51.692492+00:00", ) class EnumCRDCHExecutionConditionObservationObservationType(EnumDefinitionImpl): @@ -11665,7 +11665,7 @@ class EnumCRDCHExecutionConditionObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHExecutionConditionObservationMethodType", description="Autogenerated Enumeration for CRDC-H ExecutionConditionObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:47.299037+00:00", + code_set_version="2021-09-30T15:21:52.147365+00:00", ) class EnumCRDCHExecutionConditionObservationValueCodeableConcept(EnumDefinitionImpl): @@ -11676,7 +11676,7 @@ class EnumCRDCHExecutionConditionObservationValueCodeableConcept(EnumDefinitionI name="EnumCRDCHExecutionConditionObservationValueCodeableConcept", description="Autogenerated Enumeration for CRDC-H ExecutionConditionObservation value_codeable_concept", code_set=None, - code_set_version="2021-09-23T15:59:47.405300+00:00", + code_set_version="2021-09-30T15:21:52.385528+00:00", ) class EnumCRDCHExecutionTimeObservationCategory(EnumDefinitionImpl): @@ -11687,7 +11687,7 @@ class EnumCRDCHExecutionTimeObservationCategory(EnumDefinitionImpl): name="EnumCRDCHExecutionTimeObservationCategory", description="Autogenerated Enumeration for CRDC-H ExecutionTimeObservation category", code_set=None, - code_set_version="2021-09-23T15:59:47.512425+00:00", + code_set_version="2021-09-30T15:21:52.617122+00:00", ) class EnumCRDCHExecutionTimeObservationObservationType(EnumDefinitionImpl): @@ -11714,7 +11714,7 @@ class EnumCRDCHExecutionTimeObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHExecutionTimeObservationMethodType", description="Autogenerated Enumeration for CRDC-H ExecutionTimeObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:47.715012+00:00", + code_set_version="2021-09-30T15:21:53.084450+00:00", ) class EnumCRDCHHistologicalCompositionObservationCategory(EnumDefinitionImpl): @@ -11725,7 +11725,7 @@ class EnumCRDCHHistologicalCompositionObservationCategory(EnumDefinitionImpl): name="EnumCRDCHHistologicalCompositionObservationCategory", description="Autogenerated Enumeration for CRDC-H HistologicalCompositionObservation category", code_set=None, - code_set_version="2021-09-23T15:59:47.818882+00:00", + code_set_version="2021-09-30T15:21:53.332446+00:00", ) class EnumCRDCHHistologicalCompositionObservationObservationType(EnumDefinitionImpl): @@ -11787,7 +11787,7 @@ class EnumCRDCHHistologicalCompositionObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHHistologicalCompositionObservationMethodType", description="Autogenerated Enumeration for CRDC-H HistologicalCompositionObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:48.018837+00:00", + code_set_version="2021-09-30T15:21:53.782473+00:00", ) class EnumCRDCHHistologicalCompositionObservationSetCategory(EnumDefinitionImpl): @@ -11798,7 +11798,7 @@ class EnumCRDCHHistologicalCompositionObservationSetCategory(EnumDefinitionImpl) name="EnumCRDCHHistologicalCompositionObservationSetCategory", description="Autogenerated Enumeration for CRDC-H HistologicalCompositionObservationSet category", code_set=None, - code_set_version="2021-09-23T15:59:48.117612+00:00", + code_set_version="2021-09-30T15:21:53.994085+00:00", ) class EnumCRDCHHistologicalCompositionObservationSetMethodType(EnumDefinitionImpl): @@ -11809,7 +11809,7 @@ class EnumCRDCHHistologicalCompositionObservationSetMethodType(EnumDefinitionImp name="EnumCRDCHHistologicalCompositionObservationSetMethodType", description="Autogenerated Enumeration for CRDC-H HistologicalCompositionObservationSet method_type", code_set=None, - code_set_version="2021-09-23T15:59:48.217863+00:00", + code_set_version="2021-09-30T15:21:54.207238+00:00", ) class EnumCRDCHIdentifierType(EnumDefinitionImpl): @@ -11820,7 +11820,7 @@ class EnumCRDCHIdentifierType(EnumDefinitionImpl): name="EnumCRDCHIdentifierType", description="Autogenerated Enumeration for CRDC-H Identifier type", code_set=None, - code_set_version="2021-09-23T15:59:48.323029+00:00", + code_set_version="2021-09-30T15:21:54.450393+00:00", ) class EnumCRDCHObservationCategory(EnumDefinitionImpl): @@ -11831,7 +11831,7 @@ class EnumCRDCHObservationCategory(EnumDefinitionImpl): name="EnumCRDCHObservationCategory", description="Autogenerated Enumeration for CRDC-H Observation category", code_set=None, - code_set_version="2021-09-23T15:59:48.423241+00:00", + code_set_version="2021-09-30T15:21:54.680251+00:00", ) class EnumCRDCHObservationObservationType(EnumDefinitionImpl): @@ -11842,7 +11842,7 @@ class EnumCRDCHObservationObservationType(EnumDefinitionImpl): name="EnumCRDCHObservationObservationType", description="Autogenerated Enumeration for CRDC-H Observation observation_type", code_set=None, - code_set_version="2021-09-23T15:59:48.524532+00:00", + code_set_version="2021-09-30T15:21:54.877447+00:00", ) class EnumCRDCHObservationMethodType(EnumDefinitionImpl): @@ -11853,7 +11853,7 @@ class EnumCRDCHObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHObservationMethodType", description="Autogenerated Enumeration for CRDC-H Observation method_type", code_set=None, - code_set_version="2021-09-23T15:59:48.627594+00:00", + code_set_version="2021-09-30T15:21:55.104038+00:00", ) class EnumCRDCHObservationValueCodeableConcept(EnumDefinitionImpl): @@ -11864,7 +11864,7 @@ class EnumCRDCHObservationValueCodeableConcept(EnumDefinitionImpl): name="EnumCRDCHObservationValueCodeableConcept", description="Autogenerated Enumeration for CRDC-H Observation value_codeable_concept", code_set=None, - code_set_version="2021-09-23T15:59:48.730624+00:00", + code_set_version="2021-09-30T15:21:55.327766+00:00", ) class EnumCRDCHObservationSetCategory(EnumDefinitionImpl): @@ -11875,7 +11875,7 @@ class EnumCRDCHObservationSetCategory(EnumDefinitionImpl): name="EnumCRDCHObservationSetCategory", description="Autogenerated Enumeration for CRDC-H ObservationSet category", code_set=None, - code_set_version="2021-09-23T15:59:48.833540+00:00", + code_set_version="2021-09-30T15:21:55.531320+00:00", ) class EnumCRDCHObservationSetMethodType(EnumDefinitionImpl): @@ -11886,7 +11886,7 @@ class EnumCRDCHObservationSetMethodType(EnumDefinitionImpl): name="EnumCRDCHObservationSetMethodType", description="Autogenerated Enumeration for CRDC-H ObservationSet method_type", code_set=None, - code_set_version="2021-09-23T15:59:48.942147+00:00", + code_set_version="2021-09-30T15:21:55.745124+00:00", ) class EnumCRDCHQuantityValueCodeableConcept(EnumDefinitionImpl): @@ -11897,7 +11897,7 @@ class EnumCRDCHQuantityValueCodeableConcept(EnumDefinitionImpl): name="EnumCRDCHQuantityValueCodeableConcept", description="Autogenerated Enumeration for CRDC-H Quantity value_codeable_concept", code_set=None, - code_set_version="2021-09-23T15:59:49.048081+00:00", + code_set_version="2021-09-30T15:21:55.960609+00:00", ) class EnumCRDCHQuantityUnit(EnumDefinitionImpl): @@ -11958,7 +11958,7 @@ class EnumCRDCHResearchSubjectPrimaryDiagnosisCondition(EnumDefinitionImpl): name="EnumCRDCHResearchSubjectPrimaryDiagnosisCondition", description="Autogenerated Enumeration for CRDC-H ResearchSubject primary_diagnosis_condition", code_set=None, - code_set_version="2021-09-23T15:59:49.370438+00:00", + code_set_version="2021-09-30T15:21:56.650674+00:00", ) @classmethod @@ -12231,7 +12231,7 @@ class EnumCRDCHResearchSubjectIndexTimepoint(EnumDefinitionImpl): name="EnumCRDCHResearchSubjectIndexTimepoint", description="Autogenerated Enumeration for CRDC-H ResearchSubject index_timepoint", code_set=None, - code_set_version="2021-09-23T15:59:49.582580+00:00", + code_set_version="2021-09-30T15:21:56.982501+00:00", ) @classmethod @@ -12308,7 +12308,7 @@ class EnumCRDCHSpecimenAnalyteType(EnumDefinitionImpl): name="EnumCRDCHSpecimenAnalyteType", description="Autogenerated Enumeration for CRDC-H Specimen analyte_type", code_set=None, - code_set_version="2021-09-23T15:59:49.794691+00:00", + code_set_version="2021-09-30T15:21:57.431365+00:00", ) @classmethod @@ -12359,7 +12359,7 @@ class EnumCRDCHSpecimenSourceMaterialType(EnumDefinitionImpl): name="EnumCRDCHSpecimenSourceMaterialType", description="Autogenerated Enumeration for CRDC-H Specimen source_material_type", code_set=None, - code_set_version="2021-09-23T15:59:49.998382+00:00", + code_set_version="2021-09-30T15:21:57.695534+00:00", ) @classmethod @@ -12545,7 +12545,7 @@ class EnumCRDCHSpecimenTumorStatusAtCollection(EnumDefinitionImpl): name="EnumCRDCHSpecimenTumorStatusAtCollection", description="Autogenerated Enumeration for CRDC-H Specimen tumor_status_at_collection", code_set=None, - code_set_version="2021-09-23T15:59:50.173359+00:00", + code_set_version="2021-09-30T15:21:57.969572+00:00", ) @classmethod @@ -12583,7 +12583,7 @@ class EnumCRDCHSpecimenCellularCompositionType(EnumDefinitionImpl): name="EnumCRDCHSpecimenCellularCompositionType", description="Autogenerated Enumeration for CRDC-H Specimen cellular_composition_type", code_set=None, - code_set_version="2021-09-23T15:59:50.297953+00:00", + code_set_version="2021-09-30T15:21:58.202978+00:00", ) @classmethod @@ -12663,7 +12663,7 @@ class EnumCRDCHSpecimenGeneralTissuePathology(EnumDefinitionImpl): name="EnumCRDCHSpecimenGeneralTissuePathology", description="Autogenerated Enumeration for CRDC-H Specimen general_tissue_pathology", code_set=None, - code_set_version="2021-09-23T15:59:50.438372+00:00", + code_set_version="2021-09-30T15:21:58.492988+00:00", ) class EnumCRDCHSpecimenSpecificTissuePathology(EnumDefinitionImpl): @@ -12674,7 +12674,7 @@ class EnumCRDCHSpecimenSpecificTissuePathology(EnumDefinitionImpl): name="EnumCRDCHSpecimenSpecificTissuePathology", description="Autogenerated Enumeration for CRDC-H Specimen specific_tissue_pathology", code_set=None, - code_set_version="2021-09-23T15:59:50.540261+00:00", + code_set_version="2021-09-30T15:21:58.716614+00:00", ) class EnumCRDCHSpecimenPreinvasiveTissueMorphology(EnumDefinitionImpl): @@ -12685,7 +12685,7 @@ class EnumCRDCHSpecimenPreinvasiveTissueMorphology(EnumDefinitionImpl): name="EnumCRDCHSpecimenPreinvasiveTissueMorphology", description="Autogenerated Enumeration for CRDC-H Specimen preinvasive_tissue_morphology", code_set=None, - code_set_version="2021-09-23T15:59:50.640876+00:00", + code_set_version="2021-09-30T15:21:58.932714+00:00", ) class EnumCRDCHSpecimenMorphologyAssessorRole(EnumDefinitionImpl): @@ -12696,7 +12696,7 @@ class EnumCRDCHSpecimenMorphologyAssessorRole(EnumDefinitionImpl): name="EnumCRDCHSpecimenMorphologyAssessorRole", description="Autogenerated Enumeration for CRDC-H Specimen morphology_assessor_role", code_set=None, - code_set_version="2021-09-23T15:59:50.744602+00:00", + code_set_version="2021-09-30T15:21:59.156741+00:00", ) class EnumCRDCHSpecimenMorphologyAssessmentMethod(EnumDefinitionImpl): @@ -12707,7 +12707,7 @@ class EnumCRDCHSpecimenMorphologyAssessmentMethod(EnumDefinitionImpl): name="EnumCRDCHSpecimenMorphologyAssessmentMethod", description="Autogenerated Enumeration for CRDC-H Specimen morphology_assessment_method", code_set=None, - code_set_version="2021-09-23T15:59:50.844091+00:00", + code_set_version="2021-09-30T15:21:59.364128+00:00", ) class EnumCRDCHSpecimenDegreeOfDysplasia(EnumDefinitionImpl): @@ -12718,7 +12718,7 @@ class EnumCRDCHSpecimenDegreeOfDysplasia(EnumDefinitionImpl): name="EnumCRDCHSpecimenDegreeOfDysplasia", description="Autogenerated Enumeration for CRDC-H Specimen degree_of_dysplasia", code_set=None, - code_set_version="2021-09-23T15:59:50.947642+00:00", + code_set_version="2021-09-30T15:21:59.590254+00:00", ) class EnumCRDCHSpecimenSectionLocation(EnumDefinitionImpl): @@ -12745,7 +12745,7 @@ class EnumCRDCHSpecimenContainerContainerType(EnumDefinitionImpl): name="EnumCRDCHSpecimenContainerContainerType", description="Autogenerated Enumeration for CRDC-H SpecimenContainer container_type", code_set=None, - code_set_version="2021-09-23T15:59:51.146541+00:00", + code_set_version="2021-09-30T15:22:00.025544+00:00", ) class EnumCRDCHSpecimenCreationActivityActivityType(EnumDefinitionImpl): @@ -12805,7 +12805,7 @@ class EnumCRDCHSpecimenCreationActivityCollectionMethodType(EnumDefinitionImpl): name="EnumCRDCHSpecimenCreationActivityCollectionMethodType", description="Autogenerated Enumeration for CRDC-H SpecimenCreationActivity collection_method_type", code_set=None, - code_set_version="2021-09-23T15:59:51.344660+00:00", + code_set_version="2021-09-30T15:22:00.465524+00:00", ) @classmethod @@ -12971,7 +12971,7 @@ class EnumCRDCHSpecimenCreationActivityDerivationMethodType(EnumDefinitionImpl): name="EnumCRDCHSpecimenCreationActivityDerivationMethodType", description="Autogenerated Enumeration for CRDC-H SpecimenCreationActivity derivation_method_type", code_set=None, - code_set_version="2021-09-23T15:59:51.535313+00:00", + code_set_version="2021-09-30T15:22:00.787153+00:00", ) class EnumCRDCHSpecimenQualityObservationCategory(EnumDefinitionImpl): @@ -12982,7 +12982,7 @@ class EnumCRDCHSpecimenQualityObservationCategory(EnumDefinitionImpl): name="EnumCRDCHSpecimenQualityObservationCategory", description="Autogenerated Enumeration for CRDC-H SpecimenQualityObservation category", code_set=None, - code_set_version="2021-09-23T15:59:51.634867+00:00", + code_set_version="2021-09-30T15:22:01.005452+00:00", ) class EnumCRDCHSpecimenQualityObservationObservationType(EnumDefinitionImpl): @@ -13029,7 +13029,7 @@ class EnumCRDCHSpecimenQuantityObservationCategory(EnumDefinitionImpl): name="EnumCRDCHSpecimenQuantityObservationCategory", description="Autogenerated Enumeration for CRDC-H SpecimenQuantityObservation category", code_set=None, - code_set_version="2021-09-23T15:59:51.957965+00:00", + code_set_version="2021-09-30T15:22:01.668916+00:00", ) class EnumCRDCHSpecimenQuantityObservationObservationType(EnumDefinitionImpl): @@ -13057,7 +13057,7 @@ class EnumCRDCHSpecimenQuantityObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHSpecimenQuantityObservationMethodType", description="Autogenerated Enumeration for CRDC-H SpecimenQuantityObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:52.158090+00:00", + code_set_version="2021-09-30T15:22:02.098816+00:00", ) class EnumCRDCHSpecimenProcessingActivityActivityType(EnumDefinitionImpl): @@ -13109,7 +13109,7 @@ class EnumCRDCHSpecimenStorageActivityMethodType(EnumDefinitionImpl): name="EnumCRDCHSpecimenStorageActivityMethodType", description="Autogenerated Enumeration for CRDC-H SpecimenStorageActivity method_type", code_set=None, - code_set_version="2021-09-23T15:59:52.474910+00:00", + code_set_version="2021-09-30T15:22:02.785725+00:00", ) class EnumCRDCHSubjectSpecies(EnumDefinitionImpl): @@ -13237,7 +13237,7 @@ class EnumCRDCHSubjectSex(EnumDefinitionImpl): name="EnumCRDCHSubjectSex", description="Autogenerated Enumeration for CRDC-H Subject sex", code_set=None, - code_set_version="2021-09-23T15:59:52.778588+00:00", + code_set_version="2021-09-30T15:22:03.493888+00:00", ) @classmethod @@ -13257,7 +13257,7 @@ class EnumCRDCHSubjectEthnicity(EnumDefinitionImpl): name="EnumCRDCHSubjectEthnicity", description="Autogenerated Enumeration for CRDC-H Subject ethnicity", code_set=None, - code_set_version="2021-09-23T15:59:52.881727+00:00", + code_set_version="2021-09-30T15:22:03.716771+00:00", ) @classmethod @@ -13286,7 +13286,7 @@ class EnumCRDCHSubjectRace(EnumDefinitionImpl): name="EnumCRDCHSubjectRace", description="Autogenerated Enumeration for CRDC-H Subject race", code_set=None, - code_set_version="2021-09-23T15:59:52.990221+00:00", + code_set_version="2021-09-30T15:22:03.951589+00:00", ) @classmethod @@ -13317,7 +13317,7 @@ class EnumCRDCHSubjectVitalStatus(EnumDefinitionImpl): name="EnumCRDCHSubjectVitalStatus", description="Autogenerated Enumeration for CRDC-H Subject vital_status", code_set=None, - code_set_version="2021-09-23T15:59:53.100413+00:00", + code_set_version="2021-09-30T15:22:04.186074+00:00", ) @classmethod @@ -13341,7 +13341,7 @@ class EnumCRDCHSubjectCauseOfDeath(EnumDefinitionImpl): name="EnumCRDCHSubjectCauseOfDeath", description="Autogenerated Enumeration for CRDC-H Subject cause_of_death", code_set=None, - code_set_version="2021-09-23T15:59:53.208179+00:00", + code_set_version="2021-09-30T15:22:04.405834+00:00", ) @classmethod @@ -14728,7 +14728,7 @@ class EnumCRDCHSubstanceSubstanceType(EnumDefinitionImpl): name="EnumCRDCHSubstanceSubstanceType", description="Autogenerated Enumeration for CRDC-H Substance substance_type", code_set=None, - code_set_version="2021-09-23T15:59:53.327354+00:00", + code_set_version="2021-09-30T15:22:04.660060+00:00", ) @classmethod @@ -20986,7 +20986,7 @@ class EnumCRDCHSubstanceRole(EnumDefinitionImpl): name="EnumCRDCHSubstanceRole", description="Autogenerated Enumeration for CRDC-H Substance role", code_set=None, - code_set_version="2021-09-23T15:59:57.477664+00:00", + code_set_version="2021-09-30T15:22:08.771123+00:00", ) class EnumCRDCHTimePointEventType(EnumDefinitionImpl): @@ -20997,7 +20997,7 @@ class EnumCRDCHTimePointEventType(EnumDefinitionImpl): name="EnumCRDCHTimePointEventType", description="Autogenerated Enumeration for CRDC-H TimePoint event_type", code_set=None, - code_set_version="2021-09-23T15:59:57.585851+00:00", + code_set_version="2021-09-30T15:22:08.993042+00:00", ) class EnumCRDCHTobaccoExposureObservationCategory(EnumDefinitionImpl): @@ -21008,7 +21008,7 @@ class EnumCRDCHTobaccoExposureObservationCategory(EnumDefinitionImpl): name="EnumCRDCHTobaccoExposureObservationCategory", description="Autogenerated Enumeration for CRDC-H TobaccoExposureObservation category", code_set=None, - code_set_version="2021-09-23T15:59:57.688878+00:00", + code_set_version="2021-09-30T15:22:09.200806+00:00", ) class EnumCRDCHTobaccoExposureObservationObservationType(EnumDefinitionImpl): @@ -21049,7 +21049,7 @@ class EnumCRDCHTobaccoExposureObservationMethodType(EnumDefinitionImpl): name="EnumCRDCHTobaccoExposureObservationMethodType", description="Autogenerated Enumeration for CRDC-H TobaccoExposureObservation method_type", code_set=None, - code_set_version="2021-09-23T15:59:57.897847+00:00", + code_set_version="2021-09-30T15:22:09.648432+00:00", ) class EnumCRDCHTobaccoExposureObservationValueCodeableConcept(EnumDefinitionImpl): @@ -21060,7 +21060,7 @@ class EnumCRDCHTobaccoExposureObservationValueCodeableConcept(EnumDefinitionImpl name="EnumCRDCHTobaccoExposureObservationValueCodeableConcept", description="Autogenerated Enumeration for CRDC-H TobaccoExposureObservation value_codeable_concept", code_set=None, - code_set_version="2021-09-23T15:59:57.996388+00:00", + code_set_version="2021-09-30T15:22:09.861440+00:00", ) class EnumCRDCHTreatmentTreatmentType(EnumDefinitionImpl): @@ -21086,7 +21086,7 @@ class EnumCRDCHTreatmentTreatmentType(EnumDefinitionImpl): name="EnumCRDCHTreatmentTreatmentType", description="Autogenerated Enumeration for CRDC-H Treatment treatment_type", code_set=None, - code_set_version="2021-09-23T15:59:58.098712+00:00", + code_set_version="2021-09-30T15:22:10.106394+00:00", ) @classmethod @@ -21214,7 +21214,7 @@ class EnumCRDCHTreatmentTreatmentEndReason(EnumDefinitionImpl): name="EnumCRDCHTreatmentTreatmentEndReason", description="Autogenerated Enumeration for CRDC-H Treatment treatment_end_reason", code_set=None, - code_set_version="2021-09-23T15:59:58.257548+00:00", + code_set_version="2021-09-30T15:22:10.385289+00:00", ) @classmethod @@ -21236,7 +21236,7 @@ class EnumCRDCHTreatmentRegimen(EnumDefinitionImpl): name="EnumCRDCHTreatmentRegimen", description="Autogenerated Enumeration for CRDC-H Treatment regimen", code_set=None, - code_set_version="2021-09-23T15:59:58.364553+00:00", + code_set_version="2021-09-30T15:22:10.622812+00:00", ) class EnumCRDCHTreatmentTreatmentFrequency(EnumDefinitionImpl): @@ -21249,7 +21249,7 @@ class EnumCRDCHTreatmentTreatmentFrequency(EnumDefinitionImpl): name="EnumCRDCHTreatmentTreatmentFrequency", description="Autogenerated Enumeration for CRDC-H Treatment treatment_frequency", code_set=None, - code_set_version="2021-09-23T15:59:58.463091+00:00", + code_set_version="2021-09-30T15:22:10.853450+00:00", ) @classmethod @@ -21295,7 +21295,7 @@ class EnumCRDCHTreatmentTreatmentIntent(EnumDefinitionImpl): name="EnumCRDCHTreatmentTreatmentIntent", description="Autogenerated Enumeration for CRDC-H Treatment treatment_intent", code_set=None, - code_set_version="2021-09-23T15:59:58.581051+00:00", + code_set_version="2021-09-30T15:22:11.085658+00:00", ) @classmethod @@ -21322,7 +21322,7 @@ class EnumCRDCHTreatmentTreatmentEffect(EnumDefinitionImpl): name="EnumCRDCHTreatmentTreatmentEffect", description="Autogenerated Enumeration for CRDC-H Treatment treatment_effect", code_set=None, - code_set_version="2021-09-23T15:59:58.693724+00:00", + code_set_version="2021-09-30T15:22:11.330565+00:00", ) @classmethod @@ -21350,7 +21350,7 @@ class EnumCRDCHTreatmentTreatmentOutcome(EnumDefinitionImpl): name="EnumCRDCHTreatmentTreatmentOutcome", description="Autogenerated Enumeration for CRDC-H Treatment treatment_outcome", code_set=None, - code_set_version="2021-09-23T15:59:58.808061+00:00", + code_set_version="2021-09-30T15:22:11.570912+00:00", ) @classmethod diff --git a/crdch_model/owl/crdch_model.owl.ttl b/crdch_model/owl/crdch_model.owl.ttl index 7d233de79..4f629d01d 100644 --- a/crdch_model/owl/crdch_model.owl.ttl +++ b/crdch_model/owl/crdch_model.owl.ttl @@ -9,13 +9,13 @@ a owl:Ontology ; rdfs:label "CRDC-H" ; dcterms:license "https://creativecommons.org/publicdomain/zero/1.0/" ; - pav:version "v1.1-3-g12c0ff14" ; + pav:version "v1.1-9-g13e43207-dirty" ; skos:editorialNote "Derived from [CDM_Dictionary_v1 (Active)](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4)" ; - linkml:generation_date "2021-09-23 12:01" ; + linkml:generation_date "2021-09-30 11:24" ; linkml:metamodel_version "1.7.0" ; linkml:source_file "crdch_model.yaml" ; - linkml:source_file_date "Thu Sep 23 12:00:01 2021" ; - linkml:source_file_size 1063928 . + linkml:source_file_date "Thu Sep 30 11:22:14 2021" ; + linkml:source_file_size 1063934 . a owl:Class, linkml:TypeDefinition ; @@ -3571,11 +3571,11 @@ linkml:Uriorcurie a owl:Class, rdfs:subClassOf [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:period_end_end ], + owl:onProperty linkml:period_start_start ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:period_start_start ], + owl:onProperty linkml:period_end_end ], ; skos:definition "A period of time between a start and end time point." ; skos:editorialNote "Derived from [TimePeriod in sheet TimePeriod](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1590126992)" . @@ -3614,11 +3614,11 @@ linkml:String a owl:Class, linkml:ClassDefinition ; rdfs:label "Exposure" ; rdfs:subClassOf [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:tobacco_exposure ], - [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:identifier ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:tobacco_exposure ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:id ; @@ -3626,13 +3626,13 @@ linkml:String a owl:Class, [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:environmental_exposure ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:alcohol_exposure ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:subject ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:alcohol_exposure ], ; skos:definition "Contact between an agent and a target. A state of contact or close proximity to a medicinal product, chemical, pathogen, radioisotope or other substance." ; skos:editorialNote "Derived from [Exposure in sheet Exposure](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1402410931)" . @@ -3641,30 +3641,30 @@ linkml:String a owl:Class, linkml:ClassDefinition ; rdfs:label "ObservationSet" ; rdfs:subClassOf [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], + owl:allValuesFrom ; + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:category ; owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:subject ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:observations ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:id ; owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], + owl:onClass ; + owl:onProperty linkml:performed_by ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:focus ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:observations ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:method_type ], ; skos:definition "A structured object to hold related data items about an entity, as generated through a point-in-time observation, measurement, or interpretation." ; skos:editorialNote "Derived from [ObservationSet in sheet ObservationSet](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1243450201)" ; @@ -3674,6 +3674,9 @@ linkml:String a owl:Class, linkml:ClassDefinition ; rdfs:label "BiologicProduct" ; rdfs:subClassOf [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:identifier ], + [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:description ], @@ -3681,8 +3684,8 @@ linkml:String a owl:Class, owl:allValuesFrom ; owl:onProperty linkml:passage_number ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:identifier ], + owl:allValuesFrom ; + owl:onProperty linkml:growth_rate ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -3691,9 +3694,6 @@ linkml:String a owl:Class, owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:id ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:growth_rate ], ; skos:definition "A living organism, or a metabolically active biological system such as a cell culture, tissue culture, or organoid that is maintained or propagated in vitro." ; skos:editorialNote "Derived from [BiologicProduct in sheet BiologicProduct](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1097989080)" . @@ -3702,12 +3702,15 @@ linkml:String a owl:Class, linkml:ClassDefinition ; rdfs:label "Document" ; rdfs:subClassOf [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:identifier ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:url ], + [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:focus ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:identifier ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -3716,9 +3719,6 @@ linkml:String a owl:Class, owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:document_type ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:url ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -3732,27 +3732,27 @@ linkml:String a owl:Class, rdfs:label "SpecimenStorageActivity" ; rdfs:subClassOf [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:date_ended ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], + owl:onClass ; + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:duration ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:container ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:date_started ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:method_type ], + owl:onClass ; + owl:onProperty linkml:date_ended ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:container ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:performed_by ], ; skos:definition """An activity in which a specimen is stored or maintained in a particular location, container, or state. Unlike 'processing' activities, storage does not alter the intrinsic physical nature of a specimen.""" ; @@ -3763,33 +3763,33 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "CancerGradeObservation" ; rdfs:subClassOf [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:method_type ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], - [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:id ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:focus ], + owl:onClass ; + owl:onProperty linkml:observation_type ; + owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:focus ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:value_codeable_concept ; owl:qualifiedCardinality 1 ], [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:observation_type ; - owl:qualifiedCardinality 1 ], + owl:onProperty linkml:method_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:subject ], ; skos:definition "A data structure with key (observation_type) and value (value_codeable_concept) attributes that represents a single cancer grade observation" ; skos:editorialNote "Derived from [CancerGradeObservation in sheet CancerGradeObservation](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1099484640)" . @@ -3798,16 +3798,23 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "CancerGradeObservationSet" ; rdfs:subClassOf [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:observations ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:subject ], + [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:category ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:performed_by ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:focus ], @@ -3815,13 +3822,6 @@ intrinsic physical nature of a specimen.""" ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:id ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:observations ], ; skos:definition "A structured object to hold related data items about the grade of cancer (e.g. overall, primary gleason, secondary gleason, etc.)." ; skos:editorialNote "Derived from [CancerGradeObservationSet in sheet CancerGradeObservationSet](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1025765903)" . @@ -3834,15 +3834,19 @@ intrinsic physical nature of a specimen.""" ; owl:onClass ; owl:onProperty linkml:category ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:observations ], + owl:allValuesFrom ; + owl:onProperty linkml:focus ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:id ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:focus ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:subject ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:observations ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -3850,10 +3854,6 @@ intrinsic physical nature of a specimen.""" ; [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:method_type ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], ; skos:definition "A structured object to hold related data items about the staging of cancer (e.g. overall, T, N, and M components of a Cancer Staging observation)." ; skos:editorialNote "Derived from [CancerStageObservationSet in sheet CancerStageObservationSet](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1668576212)" . @@ -3862,23 +3862,23 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "Coding" ; rdfs:subClassOf [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:system_version ], - [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:tag ], [ a owl:Restriction ; owl:onClass ; - owl:onProperty linkml:system ; + owl:onProperty linkml:code ; owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:value_set_version ], + owl:onProperty linkml:label ], [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:code ; + owl:onProperty linkml:system_version ], + [ a owl:Restriction ; + owl:onClass ; + owl:onProperty linkml:system ; owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; @@ -3887,7 +3887,7 @@ intrinsic physical nature of a specimen.""" ; [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:label ], + owl:onProperty linkml:value_set_version ], ; skos:definition "A structured representation of a coded/enumerated data value, that includes additional metadata about the code and code system." ; skos:editorialNote "Derived from [Coding in sheet Coding](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1218588936)" . @@ -3896,30 +3896,30 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "HistologicalCompositionObservationSet" ; rdfs:subClassOf [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], - [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:focus ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:subject ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:category ; owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:performed_by ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:observations ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:id ; owl:qualifiedCardinality 1 ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:method_type ], ; skos:definition "A set of one or more discrete observations that quantify the relative or absolute composition of a specimen at cellular level - e.g. how many cells in the specimen are of a given type, or exhibit a particular cellular phenotype." ; skos:editorialNote "Derived from [HistologicalCompositionObservationSet in sheet HistologicalCompositionObservationSet](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=815777747)" ; @@ -3929,31 +3929,31 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "SpecimenTransportActivity" ; rdfs:subClassOf [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:execution_condition_observation ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:performed_by ], + [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:transport_origin ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:performed_by ], + owl:onProperty linkml:transport_destination ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:duration ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:execution_condition_observation ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:date_ended ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:transport_destination ], + owl:onProperty linkml:date_started ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:date_started ], + owl:onProperty linkml:date_ended ], ; skos:definition "An activity through which a specimen is transported between locations or organizations." ; skos:editorialNote "Derived from [SpecimenTransportActivity in sheet SpecimenTransportActivity](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=359352096)" ; @@ -3966,13 +3966,6 @@ intrinsic physical nature of a specimen.""" ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:subject ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:focus ], @@ -3980,6 +3973,10 @@ intrinsic physical nature of a specimen.""" ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:id ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:performed_by ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:observation_type ; @@ -3988,6 +3985,9 @@ intrinsic physical nature of a specimen.""" ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:category ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:value_quantity ; @@ -4001,37 +4001,37 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "EnvironmentalExposureObservation" ; rdfs:subClassOf [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:focus ], - [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:method_type ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], + owl:onClass ; + owl:onProperty linkml:observation_type ; + owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:category ], - [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:value_codeable_concept ; - owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:subject ], [ a owl:Restriction ; owl:onClass ; - owl:onProperty linkml:observation_type ; + owl:onProperty linkml:value_codeable_concept ; owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:id ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:performed_by ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:focus ], ; skos:definition "A structured object that describes a single data item about an individual's exposure to an environmental factor, as generated through a point-in-time observation, measurement, or interpretation." ; skos:editorialNote "Derived from [EnvironmentalExposureObservation in sheet EnvironmentalExposureObservation](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=274611680)" . @@ -4040,35 +4040,35 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "HistologicalCompositionObservation" ; rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:performed_by ], + [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:method_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:id ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:value_quantity ; owl:qualifiedCardinality 1 ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; + owl:allValuesFrom ; + owl:onProperty linkml:focus ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; owl:onProperty linkml:subject ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], + owl:onClass ; + owl:onProperty linkml:category ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:observation_type ; owl:qualifiedCardinality 1 ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:focus ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:category ], ; skos:definition "An observation about characteristics of a specimen at a microscopic level - typically related to its cellular or tissue composition. (e.g. how many cells in the specimen are of a given type, or exhibit a particular cellular phenotype)." ; skos:editorialNote "Derived from [HistologicalCompositionObservation in sheet HistologicalCompositionObservation](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1411171873)" . @@ -4077,15 +4077,9 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "SpecimenQualityObservation" ; rdfs:subClassOf [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:focus ], - [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:observation_type ; - owl:qualifiedCardinality 1 ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:method_type ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:subject ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4095,16 +4089,22 @@ intrinsic physical nature of a specimen.""" ; owl:onClass ; owl:onProperty linkml:category ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], + owl:allValuesFrom ; + owl:onProperty linkml:method_type ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:focus ], + [ a owl:Restriction ; + owl:onClass ; + owl:onProperty linkml:value_quantity ; + owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:id ], [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:value_quantity ; + owl:onClass ; + owl:onProperty linkml:observation_type ; owl:qualifiedCardinality 1 ], ; skos:definition "A structured object that describes a characteristic of a specimen indicative of its quality or suitability for use, as generated through a point-in-time observation or measurement." ; @@ -4114,35 +4114,35 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "SpecimenQuantityObservation" ; rdfs:subClassOf [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:method_type ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:focus ], + [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:value_quantity ; owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], + owl:onClass ; + owl:onProperty linkml:category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:id ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:observation_type ; owl:qualifiedCardinality 1 ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:focus ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:performed_by ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:category ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:method_type ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], + owl:onClass ; + owl:onProperty linkml:subject ], ; skos:definition "A structured object that describes a single data item about the quantity of an entity, as generated through a point-in-time observation or measurement." ; skos:editorialNote "Derived from [SpecimenQuantityObservation in sheet SpecimenQuantityObservation](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=9917708)" ; @@ -4152,25 +4152,17 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "AlcoholExposureObservation" ; rdfs:subClassOf [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], - [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:value_codeable_concept ], + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:value_integer ], + owl:onClass ; + owl:onProperty linkml:id ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:performed_by ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:focus ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4178,7 +4170,15 @@ intrinsic physical nature of a specimen.""" ; [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:method_type ], + owl:onProperty linkml:value_codeable_concept ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:focus ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:value_integer ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4195,41 +4195,41 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "CancerStageObservation" ; rdfs:subClassOf [ a owl:Restriction ; + owl:onClass ; + owl:onProperty linkml:value_codeable_concept ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], + owl:onClass ; + owl:onProperty linkml:subject ], + [ a owl:Restriction ; + owl:onClass ; + owl:onProperty linkml:observation_type ; + owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:category ], + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:focus ], + owl:onClass ; + owl:onProperty linkml:category ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:value_entity ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], + owl:onClass ; + owl:onProperty linkml:performed_by ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:method_type ], + owl:onClass ; + owl:onProperty linkml:id ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], - [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:observation_type ; - owl:qualifiedCardinality 1 ], - [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:value_codeable_concept ; - owl:qualifiedCardinality 1 ], + owl:onClass ; + owl:onProperty linkml:focus ], ; skos:definition "A data structure with key (observation_type) and value (value_codeable_concept) attributes that represents a single cancer staging observation, such as the Clinical Metastasis (M) component of a clinical TNM staging." ; skos:editorialNote "Derived from [CancerStageObservation in sheet CancerStageObservation](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1189722404)" . @@ -4241,27 +4241,27 @@ intrinsic physical nature of a specimen.""" ; owl:allValuesFrom ; owl:onProperty linkml:focus ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:method_type ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:id ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:subject ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:category ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:performed_by ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:observations ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:category ], ; skos:definition "A set of one or more discrete observations about the physical dimensions of an object (e.g. length, width, area)." ; skos:editorialNote "Derived from [DimensionalObservationSet in sheet DimensionalObservationSet](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1118507095)" . @@ -4270,37 +4270,37 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "SpecimenProcessingActivity" ; rdfs:subClassOf [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:execution_condition_observation ], + owl:allValuesFrom ; + owl:onProperty linkml:execution_time_observation ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:performed_by ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:duration ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:method_type ], + owl:onClass ; + owl:onProperty linkml:date_ended ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:additive ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:date_ended ], + owl:onProperty linkml:date_started ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:execution_condition_observation ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:activity_type ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:execution_time_observation ], + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:date_started ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:duration ], + owl:onClass ; + owl:onProperty linkml:activity_type ], ; skos:definition "An activity that modifies the physical structure, composition, or state of a specimen. Unlike SpecimenCreation, SpecimenProcessing activities do not result in the generation of new entities - they take a single specimen as input, and output that same specimen." ; skos:editorialNote "Derived from [SpecimenProcessingActivity in sheet SpecimenProcessingActivity](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1726416617)" ; @@ -4330,35 +4330,35 @@ intrinsic physical nature of a specimen.""" ; rdfs:subClassOf [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:method_type ], + owl:onProperty linkml:category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:performed_by ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:id ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:value_codeable_concept ], + owl:onProperty linkml:observation_type ; + owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:focus ], + owl:onClass ; + owl:onProperty linkml:value_integer ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:category ], - [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:observation_type ; - owl:qualifiedCardinality 1 ], + owl:onProperty linkml:value_codeable_concept ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], + owl:onClass ; + owl:onProperty linkml:focus ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:value_integer ], + owl:onClass ; + owl:onProperty linkml:method_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4371,13 +4371,21 @@ intrinsic physical nature of a specimen.""" ; linkml:ClassDefinition ; rdfs:label "ExecutionTimeObservation" ; rdfs:subClassOf [ a owl:Restriction ; + owl:onClass ; + owl:onProperty linkml:value_quantity ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:subject ], + [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:observation_type ; owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], + owl:onClass ; + owl:onProperty linkml:category ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4388,16 +4396,8 @@ intrinsic physical nature of a specimen.""" ; owl:onProperty linkml:focus ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], - [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:value_quantity ; - owl:qualifiedCardinality 1 ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:category ], + owl:onClass ; + owl:onProperty linkml:performed_by ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4412,21 +4412,23 @@ Information describing the environmental conditions in which an activity, or a s linkml:ClassDefinition ; rdfs:label "ResearchSubject" ; rdfs:subClassOf [ a owl:Restriction ; + owl:onClass ; + owl:onProperty linkml:associated_subject ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:primary_diagnosis ], + [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:primary_diagnosis_condition ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:primary_diagnosis_site ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:index_timepoint ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:originating_site ], + owl:allValuesFrom ; + owl:onProperty linkml:identifier ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4436,8 +4438,16 @@ Information describing the environmental conditions in which an activity, or a s owl:onClass ; owl:onProperty linkml:description ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:identifier ], + owl:allValuesFrom ; + owl:onProperty linkml:comorbid_diagnosis ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:originating_site ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:primary_diagnosis_site ], [ a owl:Restriction ; owl:onClass ; owl:onProperty linkml:id ; @@ -4446,16 +4456,6 @@ Information describing the environmental conditions in which an activity, or a s owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:member_of_research_project ], - [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:associated_subject ; - owl:qualifiedCardinality 1 ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:primary_diagnosis ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:comorbid_diagnosis ], ; skos:definition """A research subject is the entity of interest in a research study, typically a human being or an animal, but can also be a device, group of humans or animals, or a tissue sample. Human research subjects are usually not traceable to a particular person to protect the subject’s privacy.""" ; @@ -4469,23 +4469,23 @@ or a tissue sample. Human research subjects are usually not traceable to a parti owl:onProperty linkml:additive ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], + owl:onClass ; + owl:onProperty linkml:parent_container ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:identifier ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:container_number ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:container_type ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:parent_container ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:container_number ], + owl:onProperty linkml:id ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:identifier ], ; skos:definition "A vessel in which a specimen is held or to which it is attached - for storage or as a substrate for growth (e.g. a cell culture dish) or analysis (e.g. a microscope slide or 96-well plate)" ; skos:editorialNote "Derived from [SpecimenContainer in sheet SpecimenContainer](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=729222697)" . @@ -4515,33 +4515,33 @@ or a tissue sample. Human research subjects are usually not traceable to a parti linkml:ClassDefinition ; rdfs:label "ExecutionConditionObservation" ; rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:performed_by ], + [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:subject ], - [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:observation_type ; - owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:category ], [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:value_codeable_concept ; - owl:qualifiedCardinality 1 ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:focus ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:method_type ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:focus ], + owl:onClass ; + owl:onProperty linkml:value_codeable_concept ; + owl:qualifiedCardinality 1 ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], + owl:onClass ; + owl:onProperty linkml:observation_type ; + owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4560,46 +4560,46 @@ Information describing the environmental conditions in which an activity, or a s owl:onProperty linkml:execution_condition_observation ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:quantity_collected ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:date_started ], + owl:onClass ; + owl:onProperty linkml:activity_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:date_ended ], + owl:onClass ; + owl:onProperty linkml:performed_by ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:derivation_method_type ], + owl:onProperty linkml:collection_method_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:collection_site ], + owl:onClass ; + owl:onProperty linkml:date_started ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:execution_time_observation ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:additive ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:collection_method_type ], + owl:onProperty linkml:derivation_method_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:specimen_order ], + owl:onClass ; + owl:onProperty linkml:quantity_collected ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:execution_time_observation ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:date_ended ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:activity_type ], + owl:onClass ; + owl:onProperty linkml:specimen_order ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], + owl:onClass ; + owl:onProperty linkml:collection_site ], ; skos:definition "The process of creating a specimen. This may occur through observing and/or collecting material from an biological source or natural setting, or through derivation from an existing specimen (e.g. via portioning or aliquoting)." ; skos:editorialNote "Derived from [SpecimenCreationActivity in sheet SpecimenCreationActivity](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=693792130)" ; @@ -4612,59 +4612,59 @@ linkml:topValue a owl:DatatypeProperty ; linkml:ClassDefinition ; rdfs:label "Observation" ; rdfs:subClassOf [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:value_string ], - [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:value_boolean ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:value_codeable_concept ], + owl:onClass ; + owl:onProperty linkml:performed_by ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:value_quantity ], + owl:allValuesFrom ; + owl:onProperty linkml:method_type ], [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:observation_type ; - owl:qualifiedCardinality 1 ], + owl:allValuesFrom ; + owl:onProperty linkml:focus ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:performed_by ], + owl:onClass ; + owl:onProperty linkml:value_decimal ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:category ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:value_entity ], + owl:onClass ; + owl:onProperty linkml:value_quantity ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:method_type ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:value_codeable_concept ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:value_date_time ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:focus ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:value_string ], + [ a owl:Restriction ; + owl:onClass ; + owl:onProperty linkml:observation_type ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:id ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:subject ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:value_decimal ], + owl:onClass ; + owl:onProperty linkml:value_entity ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4679,68 +4679,68 @@ linkml:topValue a owl:DatatypeProperty ; rdfs:label "Treatment" ; rdfs:subClassOf [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:date_ended ], + owl:onClass ; + owl:onProperty linkml:treatment_frequency ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:regimen ], + owl:onClass ; + owl:onProperty linkml:treatment_anatomic_site ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:treatment_type ], + owl:onProperty linkml:regimen ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:treatment_intent ], + owl:onProperty linkml:treatment_outcome ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:concurrent_treatment ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:treatment_anatomic_site ], + owl:onClass ; + owl:onProperty linkml:id ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:number_of_cycles ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:treatment_outcome ], + owl:onClass ; + owl:onProperty linkml:date_ended ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:treatment_effect ], + owl:onClass ; + owl:onProperty linkml:therapeutic_agent ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:treatment_frequency ], + owl:onProperty linkml:treatment_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:subject ], + owl:onClass ; + owl:onProperty linkml:treatment_intent ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:date_started ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:treatment_end_reason ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:treatment_effect ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:identifier ], + owl:allValuesFrom ; + owl:onProperty linkml:treatment_for_diagnosis ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:therapeutic_agent ], + owl:onClass ; + owl:onProperty linkml:subject ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], + owl:allValuesFrom ; + owl:onProperty linkml:identifier ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:treatment_for_diagnosis ], + owl:allValuesFrom ; + owl:onProperty linkml:treatment_end_reason ], ; skos:definition "Represent medication administration or other treatment types." ; skos:editorialNote "Derived from [Treatment in sheet Treatment](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=2111784779)" ; @@ -4750,55 +4750,55 @@ linkml:topValue a owl:DatatypeProperty ; linkml:ClassDefinition ; rdfs:label "ResearchProject" ; rdfs:subClassOf [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:name_shortened ], - [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:research_project_type ; - owl:qualifiedCardinality 1 ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:primary_anatomic_site ], + owl:allValuesFrom ; + owl:onProperty linkml:identifier ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:sponsor ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:date_started ], + owl:onClass ; + owl:onProperty linkml:description_shortened ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:description ], + owl:onProperty linkml:name ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:associated_timepoint ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:date_ended ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:identifier ], + owl:onClass ; + owl:onProperty linkml:research_project_type ; + owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:id ], + owl:onProperty linkml:name_shortened ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:part_of ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:primary_anatomic_site ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:associated_timepoint ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:name ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:url ], + owl:onProperty linkml:id ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:description_shortened ], + owl:onProperty linkml:description ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:date_ended ], + owl:onProperty linkml:date_started ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:url ], ; skos:definition """A process where a researcher or organization plans and then executes a series of steps intended to increase the field of healthcare-related knowledge. This includes studies of safety, efficacy, comparative effectiveness and other information about medications, devices, therapies and other interventional @@ -4813,62 +4813,62 @@ linkml:TypeDefinition a owl:Class ; linkml:ClassDefinition ; rdfs:label "Diagnosis" ; rdfs:subClassOf [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:metastatic_site ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:related_specimen ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:primary_site ], + owl:allValuesFrom ; + owl:onProperty linkml:supporting_observation ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:condition ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:grade ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:stage ], + owl:onClass ; + owl:onProperty linkml:diagnosis_date ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:supporting_observation ], + owl:allValuesFrom ; + owl:onProperty linkml:identifier ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:method_of_diagnosis ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:age_at_diagnosis ], + owl:onClass ; + owl:onProperty linkml:prior_diagnosis ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:identifier ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:condition ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:diagnosis_date ], + owl:onClass ; + owl:onProperty linkml:primary_tumor_dimensional_measures ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:primary_site ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:morphology ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], + owl:allValuesFrom ; + owl:onProperty linkml:grade ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:primary_tumor_dimensional_measures ], + owl:onClass ; + owl:onProperty linkml:age_at_diagnosis ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:metastatic_site ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:stage ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:subject ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:related_specimen ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:prior_diagnosis ], + owl:onClass ; + owl:onProperty linkml:id ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4881,13 +4881,13 @@ linkml:TypeDefinition a owl:Class ; linkml:ClassDefinition ; rdfs:label "Identifier" ; rdfs:subClassOf [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:value ; - owl:qualifiedCardinality 1 ], - [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:type ], + [ a owl:Restriction ; + owl:onClass ; + owl:onProperty linkml:value ; + owl:qualifiedCardinality 1 ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; @@ -4904,14 +4904,14 @@ linkml:TypeDefinition a owl:Class ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:value_codeable_concept ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:value_decimal ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:unit ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:value_decimal ], ; skos:definition "A structured object to represent an amount of something (e.g., weight, mass, length, duration of time) - including a value and unit." ; skos:editorialNote "Derived from [Quantity in sheet Quantity](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1941950611)" ; @@ -4921,127 +4921,127 @@ linkml:TypeDefinition a owl:Class ; linkml:ClassDefinition ; rdfs:label "Specimen" ; rdfs:subClassOf [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:quality_measure ], - [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:contained_in ], + owl:allValuesFrom ; + owl:onProperty linkml:derived_product ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:morphology_assessor_role ], + owl:onProperty linkml:degree_of_dysplasia ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:associated_project ], + owl:onClass ; + owl:onProperty linkml:dimensional_measures ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:related_document ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:distance_from_paired_specimen ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:analyte_type ], + owl:onClass ; + owl:onProperty linkml:description ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:cellular_composition_type ], + owl:onClass ; + owl:onProperty linkml:id ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:quantity_measure ], + owl:allValuesFrom ; + owl:onProperty linkml:identifier ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:parent_specimen ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:quality_measure ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:transport_activity ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:creation_activity ], + owl:onClass ; + owl:onProperty linkml:specific_tissue_pathology ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:storage_activity ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:specimen_type ], + owl:onProperty linkml:preinvasive_tissue_morphology ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:processing_activity ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:associated_project ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:dysplasia_fraction ], + owl:onClass ; + owl:onProperty linkml:analyte_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:distance_from_paired_specimen ], + owl:onClass ; + owl:onProperty linkml:morphology_pathologically_confirmed ], [ a owl:Restriction ; owl:allValuesFrom ; owl:onProperty linkml:histological_composition_measures ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:id ], + owl:onClass ; + owl:onProperty linkml:morphology_assessor_role ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:source_material_type ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:identifier ], + owl:onProperty linkml:morphology_assessment_method ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:general_tissue_pathology ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:transport_activity ], + owl:onProperty linkml:cellular_composition_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:preinvasive_tissue_morphology ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:derived_product ], + owl:onProperty linkml:source_material_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:specific_tissue_pathology ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:parent_specimen ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:storage_activity ], + owl:onProperty linkml:section_location ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:tumor_status_at_collection ], + owl:onProperty linkml:general_tissue_pathology ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:description ], + owl:onClass ; + owl:onProperty linkml:specimen_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:morphology_pathologically_confirmed ], + owl:onClass ; + owl:onProperty linkml:source_subject ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:dimensional_measures ], + owl:onClass ; + owl:onProperty linkml:creation_activity ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:morphology_assessment_method ], + owl:allValuesFrom ; + owl:onProperty linkml:quantity_measure ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:related_document ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:processing_activity ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:degree_of_dysplasia ], + owl:onClass ; + owl:onProperty linkml:data_provider ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:source_subject ], + owl:onClass ; + owl:onProperty linkml:contained_in ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:section_location ], + owl:onProperty linkml:tumor_status_at_collection ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:data_provider ], + owl:onClass ; + owl:onProperty linkml:dysplasia_fraction ], ; skos:definition "Any material taken as a sample from a biological entity (living or dead), or from a physical object or the environment. Specimens are usually collected as an example of their kind, often for use in some investigation." ; skos:editorialNote "Derived from [Specimen in sheet Specimen](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1439310281)" ; @@ -5052,23 +5052,23 @@ linkml:TypeDefinition a owl:Class ; rdfs:label "TimePoint" ; rdfs:subClassOf [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:date_time ], + owl:onClass ; + owl:onProperty linkml:offset_from_index ], [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:event_type ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:index_time_point ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:id ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:offset_from_index ], + owl:allValuesFrom ; + owl:onProperty linkml:event_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:index_time_point ], + owl:onClass ; + owl:onProperty linkml:date_time ], ; skos:definition "A structured representation of a single point in time that allows direct/explicit declaration as a dateTime, specification in terms of offset from a defined index, or description of an event type as a proxy for the time point when it occurred." ; skos:editorialNote "Derived from [TimePoint in sheet TimePoint](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=300932847)" ; @@ -5091,15 +5091,15 @@ linkml:ClassDefinition a owl:Class ; [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:alias ], + owl:onProperty linkml:organization_type ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:name ], + owl:onProperty linkml:alias ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:organization_type ], + owl:onProperty linkml:name ], ; skos:definition "A grouping of people or organizations with a common purpose such as a data coordinating center, an university, or an institute within a university" ; skos:editorialNote "Derived from [Organization in sheet Organization](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1477577710)" . @@ -5108,51 +5108,51 @@ linkml:ClassDefinition a owl:Class ; linkml:ClassDefinition ; rdfs:label "Subject" ; rdfs:subClassOf [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:race ], + owl:maxQualifiedCardinality 1 ; + owl:onClass ; + owl:onProperty linkml:sex ], [ a owl:Restriction ; - owl:onClass ; - owl:onProperty linkml:id ; - owl:qualifiedCardinality 1 ], + owl:allValuesFrom ; + owl:onProperty linkml:identifier ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:year_of_death ], + owl:onClass ; + owl:onProperty linkml:species ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:age_at_death ], + owl:onClass ; + owl:onProperty linkml:vital_status ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:species ], + owl:onProperty linkml:ethnicity ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:year_of_birth ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:vital_status ], + owl:onClass ; + owl:onProperty linkml:year_of_death ], [ a owl:Restriction ; - owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:sex ], + owl:onClass ; + owl:onProperty linkml:id ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:allValuesFrom ; + owl:onProperty linkml:race ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; owl:onProperty linkml:cause_of_death ], - [ a owl:Restriction ; - owl:allValuesFrom ; - owl:onProperty linkml:identifier ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; owl:onClass ; - owl:onProperty linkml:ethnicity ], + owl:onProperty linkml:breed ], [ a owl:Restriction ; owl:maxQualifiedCardinality 1 ; - owl:onClass ; - owl:onProperty linkml:breed ], + owl:onClass ; + owl:onProperty linkml:age_at_death ], ; skos:definition "Demographics and other administrative information about an individual or animal receiving care or other health-related services." ; skos:editorialNote "Derived from [Subject in sheet Subject](https://docs.google.com/spreadsheets/d/1oWS7cao-fgz2MKWtyr8h2dEL9unX__0bJrWKv6mQmM4/edit#gid=1651956379)" .