Merge pull request #37 from isamplesorg/develop

Develop

Author: smrgeoinfo

.github/workflows/process_vocab.yml

@@ -34,17 +34,17 @@ jobs:
     steps:
       - uses: actions/checkout@master
       - name: Vocabulary action
-        uses: isamplesorg/vocabularies@develop
+        uses: isamplesorg/vocabularies@main
         # input variables 'action', 'path', 'inputttl' and 'inputvocaburi' are defined in action.yml, and assigned values here
         # GitHub creates an environment variable for the input with the name INPUT_<VARIABLE_NAME>
         with:
           action: docs
           path: ${{ github.workspace }}
           # provide ttl file names without extensions; the base file name will be 
           #    used for output files with the appropriate extension.
-          inputttl: material_sample_object_type|material_sample_type(superseded)|material_type|sampled_feature_type
+          inputttl: material_sample_object_type|material_type|sampled_feature_type
           # these are the URIs for the ConceptScheme; there must be a conceptScheme defined in each vocabulary.
-          inputvocaburi: msot:conceptscheme|spec:specimentypevocabulary|mat:materialsvocabulary|sf:sampledfeaturevocabulary
+          inputvocaburi: msot:conceptscheme|mat:materialsvocabulary|sf:sampledfeaturevocabulary
 
       - name: Deploy docs
         uses: JamesIves/github-pages-deploy-action@v4

docs/readme.md

@@ -13,12 +13,16 @@ HTML representations of vocabularies for categorizing material sample type chara
 
 ## Concept scheme: iSamples Material Sample Object Type Vocabulary
 
+[HTML web page version](https://isamplesorg.github.io/vocabularies/material_sample_object_type.html) 
+
 [ARDC Research Vocabularies Australia (RVA) vocabulary service landing page](https://vocabs.ardc.edu.au/viewById/683)
 
 [RDF source file](https://raw.githubusercontent.com/isamplesorg/vocabularies/main/vocabulary/material_sample_object_type.ttl). This is the authoritative representation. 
 
 ## Concept scheme: iSamples Sampled Feature Type Vocabulary
 
+[HTML web page version](https://isamplesorg.github.io/vocabularies/sampled_feature_type.html) 
+
 [ARDC Research Vocabularies Australia (RVA) vocabulary service landing page](https://vocabs.ardc.edu.au/viewById/665)
 
 [RDF source file](https://raw.githubusercontent.com/isamplesorg/vocabularies/main/vocabulary/sampled_feature_type.ttl). This is the authoritative representation. 

vocabulary/material_sample_object_type.ttl

@@ -113,16 +113,15 @@ msot:conceptscheme
   rdfs:label "iSamples Material Sample Object Type Vocabulary"@en ;
   owl:imports <http://www.w3.org/2004/02/skos/core> ;
   skos:altLabel "iSamples Material Sample Object Type Vocabulary"@en ;
-
   skos:definition "Broad categories to specify the kind of physical thing identified as the ‘sample’."@en ;
-
   skos:editorNote "There has been considerable discussion of use of 'specimen' vs. 'sample'; the two terms are considered essentially synonyms in the iSamples context. 'Specimen' was used originally, but after discussion with reviewers, we decided to switch to 'material sample', consistent with Darwin Core TDWG wg decision (https://dwc.tdwg.org/list/#dwc_MaterialSample) and current OGC O&M/ISO19156 (http://www.opengis.net/doc/as/om/3.0). Some original URIs (0.9 version) had 'specimen' in the identifier tokens, these have been revised to materialsample for v1.0 release."@en ;
   skos:historyNote "2022-01-07 SMR Change base URI to https://w3id.org/isample/vocabulary/, setting up resolution using w3id. Make the conceptScheme and ontology. Add Dublin core imports."@en ;
   skos:historyNote "2022-03-11 SMR change definitions from rdfs:comment to skos:definition. Minor fixes in definitions. Add skos matches to URIs from other vocabularies."@en ;
   skos:historyNote "2022-09-30 SMR per https://github.com/isamplesorg/metadata/issues/109, change specimen to sample in vocabulary names and labels. Add 'Slurry biome aggregation' and 'Bundle biome aggregation' (github issue 110). Rename 'liquid or gas' sample type to 'fluid in container' (github issue 108)."@en ;
   skos:historyNote "2023-07-27 SMR modify base specimen type vocabulary, add 'Non biologic solid object'  change broader relations in this vocab to use that as parent class where appropriate.  Intention is a specimen category for solid objects that are not biologic; this subsumes 'Fossil' and 'Artifact', but excludes living organism, their parts and products. Obviously there is some overlap with Research specimens."@en ;
   skos:historyNote "2023-11-06 SMR add missing inScheme on Non-biologic solid object and solid materal specimen. Update version number in URI to 1.0"@en ;
   skos:historyNote "2024-04-19 SMR update language to always use 'material sample' instead of specimen or physical specimen, including in text, labels, and in the URI tokens.  Edit defintions to improve clarity."@en ;
+  skos:historyNote "2024-09-13 remove version numbers from URI"@en ;
   skos:note "The material sample object type is intended to be orthogonal to material type and sampled feature, but there are dependencies between some categories.  The material sample object type is mostly determined by the nature of the sample object (solid, fluid, aggregate...), what kind of containment is necessary, and by the genetic origin of the material or object. There is overlap between some of the classes-- Research products might be solid objects or aggregations. Whole organisms, Fossils and Artifacts are typically solid objects. Multiple categories can be assigned to a sample, or one aspect can be chosen as pre-eminent."@en ;
   skos:prefLabel "iSamples Material Sample Object Type Vocabulary"@en ;
 .

vocabulary/material_type.ttl

@@ -161,6 +161,7 @@ mat:materialsvocabulary
   skos:historyNote "2022-01-05 SMR version 0.9, change base uri to https://w3id.org/isample/vocabulary/material/0.9/ for testing with ESIP COR and w3id uri resolution"@en ;
   skos:historyNote "2022-03-11 SMR change definitions from rdfs:comment to skos:definition. Minor fixes to some definitions.  Add skos matches to URIs from other vocabularies; 2023-11-05 version 1.0, in preparation for release. "@en ;
   skos:historyNote "2024-08-14 SMR, various updates since 2023-12:  change seeAlso to closeMatch for Rock mapping to http://resource.geosciml.org/classifier/cgi/lithology/rock; minor edits to align with manuscript about the metadata schema; update vocabularies to use 'material sample' instead of 'specimen'; update schema.org namespace to http://; add provider and codeRepository in conceptScheme metadata; minor typo fixes and definition edits."@en ;
+  skos:historyNote "2024-09-13 remove version numbers from URI"@en ;
   skos:prefLabel "iSamples Materials Vocabulary "@en ;
 .
 mat:mineral

vocabulary/p3k14c-2022-06-C14geochronology.xlsx

@@ -239,6 +239,7 @@ sf:sampledfeaturevocabulary
   skos:historyNote "2022-09-30 add biological entity as sampled feature, per issue https://github.com/isamplesorg/metadata/issues/107. This update was lost at some point and added back in 2022-12-09."@en ;
   skos:historyNote "2023-11-05 SMR update version to 1.0, prep for release"@en ;
   skos:historyNote "2024-04-19 SMR update definitions to remove use of 'specimen'. Edit some definitions for better clarity"@en ;
+  skos:historyNote "2024-09-13 remove version numbers from URI"@en ;
   skos:prefLabel "Sampled Feature Type vocabulary"@en ;
 .
 sf:subaerialsurfaceenvironment