O&M Specimen model – alignments with PROV, BCO

Simon Cox | Research Scientist | Environmental Information Infrastructures3 September 2015

LAND AND WATER

IGSN Metadata workshop - 2015-09-03

Sampling features & specimens

«FeatureType»OM_Observation

«FeatureType»SF_SamplingFeature

+ l ineage: LI_Lineage [0..1]+ parameter: NamedValue [0..*]

constraints{sampledFeature->forAll(not (oclIsKindOf(SF_SamplingFeature) or oclIsKindOf(OM_Observation)))}

SamplingFeatureComplex

+ role: GenericName

«FeatureType»GFI_Feature

«FeatureType»SF_SamplingFeatureCollection

Intention

+sampledFeature

1..*

0..*

+relatedSamplingFeature0..*

Collection

+member 1..*Design

+relatedObservation 0..*

SF_Specimen

+ currentLocation: Location [0..1]+ materialClass: GenericName+ samplingLocation: GM_Object [0..1]+ samplingMethod: SF_Process [0..1]+ samplingTime: TM_Object+ size: Measure [0..1]+ specimenType: GenericName [0..1]

SF_SamplingFeature

+ lineage: LI_Lineage [0..1]+ parameter: NamedValue [0..*]

Location

+ geometryLocation: GM_Object+ nameLocation: EX_GeographicDescription

GFI_Feature

SamplingFeatureComplex

+ role: GenericName

PreparationStep

+ processOperator: CI_ResponsibleParty [0..1]+ time: TM_Object

SF_Process

+processingDetails

0..*

Intention

+sampledFeature 1..*

0..*

+relatedSamplingFeature0..*

Cox, OGC Abstract Specification – Topic 20: Observations and Measurements 2.0 ISO 19156:2011 Geographic Information – Observations and measurements

IGSN Metadata workshop - 2015-09-03

sam-lite ontology

Cox, SJD, Ontology for observations and sampling features, with alignments to existing models, Semantic Web Journal (in review) http://www.semantic-web-journal.net/content/ontology-observations-and-sampling-features-alignments-existing-models

IGSN Metadata workshop - 2015-09-03

Core PROV model

samfl:Specimen rdfs:subClassOf prov:Entity .samfl:Process rdfs:subClassOf prov:Agent .

IGSN Metadata workshop - 2015-09-03

Specimen preparation and observation traceLifecycle events modelled as prov:Activity instances

• Analysis• Sieving• Grinding• Splitting• Specimen retrieval

Cox, SJD, Car, NJ, PROV and Real Things, MODSIM 2015

IGSN Metadata workshop - 2015-09-03

Other alignments and extensions

prov:Entity ← :PhysicalEntity ← :Specimen prov:Entity ← prov:Plan ← :SamplingProtocol

prov:Agent ← :SampleProcessingSystem ← :GrindingSystem, :PolishingSystem, :DissolvingSystem, :FusingSystemprov:Agent ← :SampleRetrievalSystem ← :FieldSamplingSystemprov:Agent ← :SubSamplingSystem ← :BiasedSplittingSystem ← :SizeSeparationSystem , :DensitySeparationSystem, :MagneticSeparationSystemprov:Agent ← Instrument , Sensorprov:wasAssociatedWith ← :wasControlledBy, :wasSponsoredBy, :wasRequestedByprov:wasDerivedFrom ← :unbiasedSplitFrom, :biasedSplitFromprov:wasDerivedFrom ← prov:hadPrimarySource ← :fieldSpecimen

IGSN Metadata workshop - 2015-09-03

Biological Collections Ontology

IGSN Metadata workshop - 2015-09-03

Biological Collections Ontology

BFO:IndependentContinuant ↔ prov:Entity ← BFO:MaterialEntity ↔ :PhysicalEntity ← BCO:MaterialSample ↔ :Specimen

BFO:Process ← prov:Activity observing, sampling, extraction processes

IGSN Metadata workshop - 2015-09-03

O&M, OBOE, BCO, BFO alignment

• Walls, Jones, Cox, Guralnick, Schildhauer, Buttigieg – coming soon!

LAND AND WATER

Thank youCSIRO Land and WaterSimon CoxResearch Scientistt +61 3 9252 6342e simon.cox@csiro.auw www.csiro.au/people/simon.cox