Merge pull request #352 from gaiaresources/BDRSPS-1084

BDRSPS-1084 Swap all void:inDataset predicates to schema:isPartOf

abis_mapping/templates/incidental_occurrence_data_v3/validators/validator.ttl

@@ -10,7 +10,6 @@
 @prefix sosa: <http://www.w3.org/ns/sosa/> .
 @prefix tern: <https://w3id.org/tern/ontologies/tern/> .
 @prefix time: <http://www.w3.org/2006/time#> .
-@prefix void: <http://rdfs.org/ns/void#> .
 @prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
 
 bdrsh:DatatypeShape
@@ -137,7 +136,7 @@ bdrsh:GeneralCollectionShape
 	a sh:NodeShape ;
 	sh:class schema:Collection ;
 	sh:property [
-		sh:path void:inDataset ;
+		sh:path schema:isPartOf ;
 		sh:minCount 1 ;
 		sh:maxCount 1 ;
 		sh:nodeKind sh:IRI ;
@@ -163,7 +162,7 @@ bdrsh:SensitivityCategoryCollectionShape
 	a sh:NodeShape ;
 	sh:class schema:Collection ;
 	sh:property [
-		sh:path void:inDataset ;
+		sh:path schema:isPartOf ;
 		sh:minCount 1 ;
 		sh:maxCount 1 ;
 		sh:nodeKind sh:IRI ;
@@ -196,7 +195,7 @@ bdrsh:IncidentalOccurrenceShape
 	sh:class tern:FeatureOfInterest,
 		dwc:Occurrence ;
 	sh:property [
-		sh:path void:inDataset ;
+		sh:path schema:isPartOf ;
 		sh:minCount 1 ;
 		sh:maxCount 1 ;
 		sh:nodeKind sh:IRI ;
@@ -244,12 +243,8 @@ bdrsh:IncidentalOccurrenceShape
 		sh:maxCount 1 ;
 		sh:class prov:Agent ;
 	] ;
-	# The next three properties are defined to protect against
+	# The next two properties are defined to protect against
 	# potential copy paste issues with survey occurrence templates
-	sh:property [
-		sh:path schema:isPartOf ;
-		sh:maxCount 0 ;
-	] ;
 	sh:property [
 		sh:path tern:hasSite ;
 		sh:maxCount 0 ;

abis_mapping/templates/survey_metadata_v2/examples/minimal.ttl

@@ -8,30 +8,29 @@
 @prefix skos: <http://www.w3.org/2004/02/skos/core#> .
 @prefix tern: <https://w3id.org/tern/ontologies/tern/> .
 @prefix time: <http://www.w3.org/2006/time#> .
-@prefix void: <http://rdfs.org/ns/void#> .
 @prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
 
 <http://createme.org/SurveyCollection/surveyType/Wet-pitfall-trapping> a schema:Collection ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:identifier "Survey Collection - Survey Type - Wet pitfall trapping" ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:member <http://createme.org/survey/plan/COL1> ;
     tern:hasAttribute <http://createme.org/attribute/surveyType/Wet-pitfall-trapping> .
 
 <http://createme.org/SurveyCollection/targetHabitatScope/Woodland> a schema:Collection ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:identifier "Survey Collection - Target Habitat Scope - Woodland" ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:member <http://createme.org/survey/plan/COL1> ;
     tern:hasAttribute <http://createme.org/attribute/targetHabitatScope/Woodland> .
 
 <http://createme.org/SurveyCollection/targetTaxonomicScope/Coleoptera> a schema:Collection ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:identifier "Survey Collection - Target Taxonomic Scope - Coleoptera" ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:member <http://createme.org/survey/plan/COL1> ;
     tern:hasAttribute <http://createme.org/attribute/targetTaxonomicScope/Coleoptera> .
 
 <http://createme.org/SurveyCollection/targetTaxonomicScope/Insecta> a schema:Collection ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:identifier "Survey Collection - Target Taxonomic Scope - Insecta" ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:member <http://createme.org/survey/plan/COL1> ;
     tern:hasAttribute <http://createme.org/attribute/targetTaxonomicScope/Insecta> .
 
@@ -41,9 +40,9 @@
     prov:wasAttributedTo <http://createme.org/provider/Gaia-Resources> .
 
 <http://createme.org/project/SSD-Survey-Project/1> a abis:Project ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:hasPart <http://createme.org/Survey/COL1> ;
     schema:identifier "COL1" ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:name "Disentangling the effects of farmland use, habitat edges, and vegetation structure on ground beetle morphological traits - Summer" .
 
 <https://linked.data.gov.au/dataset/bdr/datatypes/surveyID/CSIRO> a rdfs:Datatype ;
@@ -59,25 +58,25 @@
             prov:hadRole <https://linked.data.gov.au/def/data-roles/principalInvestigator> ] .
 
 <http://createme.org/attribute/surveyType/Wet-pitfall-trapping> a tern:Attribute ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     tern:attribute <http://example.com/concept/surveyType> ;
     tern:hasSimpleValue "Wet pitfall trapping" ;
     tern:hasValue <http://createme.org/value/surveyType/Wet-pitfall-trapping> .
 
 <http://createme.org/attribute/targetHabitatScope/Woodland> a tern:Attribute ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     tern:attribute <https://linked.data.gov.au/def/nrm/ae2c88be-63d5-44d3-95ac-54b14c4a4b28> ;
     tern:hasSimpleValue "Woodland" ;
     tern:hasValue <http://createme.org/value/targetHabitatScope/Woodland> .
 
 <http://createme.org/attribute/targetTaxonomicScope/Coleoptera> a tern:Attribute ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     tern:attribute <https://linked.data.gov.au/def/nrm/7ea12fed-6b87-4c20-9ab4-600b32ce15ec> ;
     tern:hasSimpleValue "Coleoptera" ;
     tern:hasValue <http://createme.org/value/targetTaxonomicScope/Coleoptera> .
 
 <http://createme.org/attribute/targetTaxonomicScope/Insecta> a tern:Attribute ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     tern:attribute <https://linked.data.gov.au/def/nrm/7ea12fed-6b87-4c20-9ab4-600b32ce15ec> ;
     tern:hasSimpleValue "Insecta" ;
     tern:hasValue <http://createme.org/value/targetTaxonomicScope/Insecta> .
@@ -146,9 +145,9 @@
     schema:name "Disentangling the effects of farmland use, habitat edges, and vegetation structure on ground beetle morphological traits - Summer" .
 
 <http://createme.org/survey/plan/COL1> a prov:Plan ;
-    void:inDataset <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:citation "Ng, K., Barton, P.S., Blanchard, W. et al. Disentangling the effects of farmland use, habitat edges, and vegetation structure on ground beetle morphological traits. Oecologia 188, 645–657 (2018). https://doi.org/10.1007/s00442-018-4180-9\"" ;
     schema:description "Our experimental design consisted of four 400 m transects running from inside each woodland patch out into four adjoining farmland uses (crop, rested, woody debris application, revegetation plantings). To quantify potential edge efects on beetle species traits, we sampled beetles at five locations along each transect: 200 and 20 m inside woodlands, 200 and 20 m inside farmlands, and at the woodland–farmland edge (0 m). Each sampling location comprised a pair of wet invertebrate pitfall traps.  separated by a drift fence (60 cm long x 10 cm high) to help direct arthropods into traps. We opened a total of 220 pairs of traps for 14 days during spring (Oct–Nov 2014), and repeated sampling during summer (January–February 2015). Beetle samples from each pitfall trap pair, and across the two time periods, were pooled to provide one sample per sampling location." ;
+    schema:isPartOf <http://createme.org/dataset/Example-Systematic-Survey-Metadata-Dataset> ;
     schema:url "https://biocollect.ala.org.au/document/download/2022-01/202201%20CBR%20Flora%20and%20Vegetation%20report_draftv1.pdf"^^xsd:anyURI,
         "https://doi.org/10.1002/9781118945568.ch11"^^xsd:anyURI .
 

abis_mapping/templates/survey_metadata_v2/mapping.py

@@ -439,7 +439,7 @@ def add_project(
 
         # Add type and attach to dataset
         graph.add((uri, a, utils.namespaces.ABIS.Project))
-        graph.add((uri, rdflib.VOID.inDataset, dataset))
+        graph.add((uri, rdflib.SDO.isPartOf, dataset))
 
         # Add (required) project name, id (not required) and purpose (not required).
         graph.add((uri, rdflib.SDO.name, rdflib.Literal(project_name)))
@@ -642,7 +642,7 @@ def add_plan(
         graph.add((uri, a, rdflib.PROV.Plan))
 
         # add link to dataset
-        graph.add((uri, rdflib.VOID.inDataset, dataset))
+        graph.add((uri, rdflib.SDO.isPartOf, dataset))
 
         # Add citation(s)
         if citations := row["surveyMethodCitation"]:
@@ -683,7 +683,7 @@ def add_survey_type_attribute(
         graph.add((uri, a, utils.namespaces.TERN.Attribute))
 
         # Add dataset
-        graph.add((uri, rdflib.VOID.inDataset, dataset))
+        graph.add((uri, rdflib.SDO.isPartOf, dataset))
 
         # Add attribute
         graph.add((uri, utils.namespaces.TERN.attribute, CONCEPT_SURVEY_TYPE))
@@ -766,7 +766,7 @@ def add_survey_type_collection(
                 )
             )
         # Add link to dataset
-        graph.add((uri, rdflib.VOID.inDataset, dataset))
+        graph.add((uri, rdflib.SDO.isPartOf, dataset))
         # Add link to attribute
         if survey_type_attribute:
             graph.add((uri, utils.namespaces.TERN.hasAttribute, survey_type_attribute))
@@ -794,7 +794,7 @@ def add_target_habitat_attribute(
         graph.add((uri, a, utils.namespaces.TERN.Attribute))
 
         # Add dataset
-        graph.add((uri, rdflib.VOID.inDataset, dataset))
+        graph.add((uri, rdflib.SDO.isPartOf, dataset))
 
         # Add attribute concept
         graph.add((uri, utils.namespaces.TERN.attribute, CONCEPT_TARGET_HABITAT_SCOPE))
@@ -865,7 +865,7 @@ def add_target_habitat_collection(
             )
         )
         # Add link to dataset
-        graph.add((uri, rdflib.VOID.inDataset, dataset))
+        graph.add((uri, rdflib.SDO.isPartOf, dataset))
         # Add link to attribute
         graph.add((uri, utils.namespaces.TERN.hasAttribute, target_habitat_attribute))
         # add link to the Survey Plan node
@@ -893,7 +893,7 @@ def add_target_taxonomic_attribute(
         graph.add((uri, a, utils.namespaces.TERN.Attribute))
 
         # Add dataset
-        graph.add((uri, rdflib.VOID.inDataset, dataset))
+        graph.add((uri, rdflib.SDO.isPartOf, dataset))
 
         # Add attribute concept
         graph.add((uri, utils.namespaces.TERN.attribute, CONCEPT_TARGET_TAXONOMIC_SCOPE))
@@ -964,7 +964,7 @@ def add_target_taxonomic_scope_collection(
             )
         )
         # Add link to dataset
-        graph.add((uri, rdflib.VOID.inDataset, dataset))
+        graph.add((uri, rdflib.SDO.isPartOf, dataset))
         # Add link to attribute
         graph.add((uri, utils.namespaces.TERN.hasAttribute, target_taxon_attribute))
         # add link to the Survey Plan node