diff --git a/Makefile b/Makefile index bb4de45..4470dff 100644 --- a/Makefile +++ b/Makefile @@ -16,6 +16,7 @@ all: build/mkdocs-site build/linkml-docs: \ build/linkml-docs/s/properties/unreleased \ build/linkml-docs/s/thing/unreleased \ + build/linkml-docs/s/roles/unreleased \ build/linkml-docs/s/prov/unreleased \ build/linkml-docs/s/identifiers/unreleased \ build/linkml-docs/s/distribution/unreleased \ @@ -55,6 +56,7 @@ check: check-models check-validation check-models: \ checkmodel/properties/unreleased \ checkmodel/thing/unreleased \ + checkmodel/roles/unreleased \ checkmodel/prov/unreleased \ checkmodel/identifiers/unreleased \ checkmodel/distribution/unreleased \ @@ -89,6 +91,8 @@ checkmodel/%: src/%.yaml check-validation: \ convertexamples/thing/unreleased \ checkvalidation/thing/unreleased \ + convertexamples/roles/unreleased \ + checkvalidation/roles/unreleased \ convertexamples/prov/unreleased \ checkvalidation/prov/unreleased \ convertexamples/identifiers/unreleased \ @@ -114,6 +118,7 @@ checkinvalid/%: src/%/validation src/%.yaml convert-examples: \ convertexamples/thing/unreleased \ + convertexamples/roles/unreleased \ convertexamples/prov/unreleased \ convertexamples/identifiers/unreleased \ convertexamples/distribution/unreleased \ diff --git a/extra-docs/index.md b/extra-docs/index.md index dcaffbd..1ea5e50 100644 --- a/extra-docs/index.md +++ b/extra-docs/index.md @@ -3,6 +3,7 @@ ALL CONTENT HERE IS UNRELEASED AND MAY CHANGE ANY TIME - [Thing schema](s/thing/unreleased/index.md) - [Properties schema](s/properties/unreleased/index.md) - [Identifiers schema](s/identifiers/unreleased/index.md) +- [Roles schema](s/roles/unreleased/index.md) - [Provenance schema](s/prov/unreleased/index.md) - [Data distribution schema](s/distribution/unreleased/index.md) - [DataLad dataset schema](s/datalad-dataset/unreleased/index.md) diff --git a/mkdocs.yml b/mkdocs.yml index 224ec99..d3c0213 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -7,6 +7,7 @@ nav: - Thing (unreleased): s/thing/unreleased/index.md - Properties (unreleased): s/properties/unreleased/index.md - Identifiers (unreleased): s/identifiers/unreleased/index.md + - Roles (unreleased): s/roles/unreleased/index.md - Provenance (unreleased): s/prov/unreleased/index.md - Distribution (unreleased): s/distribution/unreleased/index.md - DataLad dataset (unreleased): s/datalad-dataset/unreleased/index.md @@ -19,6 +20,7 @@ plugins: 's/thing/index.md': 's/thing/unreleased/index.md' 's/properties/index.md': 's/properties/unreleased/index.md' 's/identifiers/index.md': 's/identifiers/unreleased/index.md' + 's/roles/index.md': 's/roles/unreleased/index.md' 's/prov/index.md': 's/prov/unreleased/index.md' 's/distribution/index.md': 's/distribution/unreleased/index.md' 's/datalad-dataset/index.md': 's/datalad-dataset/unreleased/index.md' diff --git a/src/datalad-dataset/unreleased/examples/Distribution-datasetcontentaccess.json b/src/datalad-dataset/unreleased/examples/Distribution-datasetcontentaccess.json index e3a1caa..2a39052 100644 --- a/src/datalad-dataset/unreleased/examples/Distribution-datasetcontentaccess.json +++ b/src/datalad-dataset/unreleased/examples/Distribution-datasetcontentaccess.json @@ -39,7 +39,7 @@ "qualified_part": [ { "name": "README.md", - "entity": "gitsha:f776e30f386b83e13196eab6445f30d3ab54c155" + "object": "gitsha:f776e30f386b83e13196eab6445f30d3ab54c155" } ], "@type": "Distribution" diff --git a/src/datalad-dataset/unreleased/examples/Distribution-datasetcontentaccess.yaml b/src/datalad-dataset/unreleased/examples/Distribution-datasetcontentaccess.yaml index 9aef0b8..7b0ced6 100644 --- a/src/datalad-dataset/unreleased/examples/Distribution-datasetcontentaccess.yaml +++ b/src/datalad-dataset/unreleased/examples/Distribution-datasetcontentaccess.yaml @@ -40,4 +40,4 @@ has_part: - https://github.com/datalad-datasets/machinelearning-books.git qualified_part: name: README.md - entity: gitsha:f776e30f386b83e13196eab6445f30d3ab54c155 + object: gitsha:f776e30f386b83e13196eab6445f30d3ab54c155 diff --git a/src/datalad-dataset/unreleased/examples/Distribution-gittree.json b/src/datalad-dataset/unreleased/examples/Distribution-gittree.json index 9aff30e..2e1542f 100644 --- a/src/datalad-dataset/unreleased/examples/Distribution-gittree.json +++ b/src/datalad-dataset/unreleased/examples/Distribution-gittree.json @@ -5,11 +5,11 @@ "qualified_part": [ { "name": "table.csv", - "entity": "annex-key:MD5E-s3214--ba1f2511fc30423bdbb183fe33f3dd0f.csv" + "object": "annex-key:MD5E-s3214--ba1f2511fc30423bdbb183fe33f3dd0f.csv" }, { "name": "index.html", - "entity": "gitsha:e12e9505cff5417f594d719b99720b4c39d86434" + "object": "gitsha:e12e9505cff5417f594d719b99720b4c39d86434" } ], "@type": "Distribution" diff --git a/src/datalad-dataset/unreleased/examples/Distribution-gittree.yaml b/src/datalad-dataset/unreleased/examples/Distribution-gittree.yaml index 98b5b1b..51c136b 100644 --- a/src/datalad-dataset/unreleased/examples/Distribution-gittree.yaml +++ b/src/datalad-dataset/unreleased/examples/Distribution-gittree.yaml @@ -3,9 +3,9 @@ id: gitsha:9a48c2bf7e97a081f2b1ab68eb909bbfc86267be # of metadata records on dataset aspects) there is no need to # reiterate any information here: just link content under a name qualified_part: - - entity: annex-key:MD5E-s3214--ba1f2511fc30423bdbb183fe33f3dd0f.csv + - object: annex-key:MD5E-s3214--ba1f2511fc30423bdbb183fe33f3dd0f.csv name: table.csv - - entity: gitsha:e12e9505cff5417f594d719b99720b4c39d86434 + - object: gitsha:e12e9505cff5417f594d719b99720b4c39d86434 name: index.html # this tree is the top-level tree of a particular commit is_distribution_of: gitsha:8d6f033bb2a6109b2c4d64d6f27b0feb181e4d0f diff --git a/src/distribution/unreleased.yaml b/src/distribution/unreleased.yaml index cf8f76e..26ab192 100644 --- a/src/distribution/unreleased.yaml +++ b/src/distribution/unreleased.yaml @@ -579,11 +579,13 @@ classes: - dcat:Relationship slots: - name - - entity + - object slot_usage: name: description: >- The name of the part within the containing entity. + object: + range: Entity comments: - This class is a key element of the data model. It enables referencing a particular resource (e.g., a file's content, or versioned directory diff --git a/src/distribution/unreleased/examples/Distribution-datatypes.json b/src/distribution/unreleased/examples/Distribution-datatypes.json index 19896ac..7aad4af 100644 --- a/src/distribution/unreleased/examples/Distribution-datatypes.json +++ b/src/distribution/unreleased/examples/Distribution-datatypes.json @@ -7,14 +7,12 @@ } ], "schema_type": "dldist:Distribution", - "qualified_relation": [ + "qualified_relations": [ { - "had_role": [ + "object": "obo:NCIT_C95650", + "had_roles": [ "obo:NCIT_C42645" ], - "entity": [ - "obo:NCIT_C95650" - ], "schema_type": "dlprov:EntityInfluence" } ], diff --git a/src/distribution/unreleased/examples/Distribution-datatypes.yaml b/src/distribution/unreleased/examples/Distribution-datatypes.yaml index c44c126..1045d3f 100644 --- a/src/distribution/unreleased/examples/Distribution-datatypes.yaml +++ b/src/distribution/unreleased/examples/Distribution-datatypes.yaml @@ -1,11 +1,10 @@ id: exthisdsver:./file.jpeg # two approaches: # first using the common qualified-relation pattern. -qualified_relation: - - entity: - # encapsulated image data - - obo:NCIT_C95650 - had_role: +qualified_relations: + # encapsulated image data + - object: obo:NCIT_C95650 + had_roles: # data type - obo:NCIT_C42645 # when standardized terms for identifying data types are not available, diff --git a/src/distribution/unreleased/examples/Distribution-gittree.json b/src/distribution/unreleased/examples/Distribution-gittree.json index 6ab5b1a..7c6772e 100644 --- a/src/distribution/unreleased/examples/Distribution-gittree.json +++ b/src/distribution/unreleased/examples/Distribution-gittree.json @@ -5,11 +5,11 @@ "qualified_part": [ { "name": "table.csv", - "entity": "https://concepts.datalad.org/ns/annex-key/MD5E-s3214--ba1f2511fc30423bdbb183fe33f3dd0f.csv" + "object": "https://concepts.datalad.org/ns/annex-key/MD5E-s3214--ba1f2511fc30423bdbb183fe33f3dd0f.csv" }, { "name": "index.html", - "entity": "https://concepts.datalad.org/ns/gitsha/e12e9505cff5417f594d719b99720b4c39d86434" + "object": "https://concepts.datalad.org/ns/gitsha/e12e9505cff5417f594d719b99720b4c39d86434" } ], "@type": "Distribution" diff --git a/src/distribution/unreleased/examples/Distribution-gittree.yaml b/src/distribution/unreleased/examples/Distribution-gittree.yaml index 84973d3..a1361cd 100644 --- a/src/distribution/unreleased/examples/Distribution-gittree.yaml +++ b/src/distribution/unreleased/examples/Distribution-gittree.yaml @@ -3,9 +3,9 @@ id: https://concepts.datalad.org/ns/gitsha/9a48c2bf7e97a081f2b1ab68eb909bbfc8626 # of metadata records on dataset aspects) there is no need to # reiterate any information here: just link content under a name qualified_part: - - entity: https://concepts.datalad.org/ns/annex-key/MD5E-s3214--ba1f2511fc30423bdbb183fe33f3dd0f.csv + - object: https://concepts.datalad.org/ns/annex-key/MD5E-s3214--ba1f2511fc30423bdbb183fe33f3dd0f.csv name: table.csv - - entity: https://concepts.datalad.org/ns/gitsha/e12e9505cff5417f594d719b99720b4c39d86434 + - object: https://concepts.datalad.org/ns/gitsha/e12e9505cff5417f594d719b99720b4c39d86434 name: index.html # this tree is the top-level tree of a particular commit is_distribution_of: https://concepts.datalad.org/ns/gitsha/8d6f033bb2a6109b2c4d64d6f27b0feb181e4d0f diff --git a/src/distribution/unreleased/examples/Distribution-parts.json b/src/distribution/unreleased/examples/Distribution-parts.json index 1d6d94f..decb512 100644 --- a/src/distribution/unreleased/examples/Distribution-parts.json +++ b/src/distribution/unreleased/examples/Distribution-parts.json @@ -28,7 +28,7 @@ "qualified_part": [ { "name": "file.txt", - "entity": "exthisdsver:./archive.zip/subdir/file.txt" + "object": "exthisdsver:./archive.zip/subdir/file.txt" } ] } @@ -36,7 +36,7 @@ "qualified_part": [ { "name": "subdir", - "entity": "exthisdsver:./archive.zip/subdir" + "object": "exthisdsver:./archive.zip/subdir" } ], "@type": "Distribution" diff --git a/src/distribution/unreleased/examples/Distribution-parts.yaml b/src/distribution/unreleased/examples/Distribution-parts.yaml index 6732af2..1c2bda8 100644 --- a/src/distribution/unreleased/examples/Distribution-parts.yaml +++ b/src/distribution/unreleased/examples/Distribution-parts.yaml @@ -19,7 +19,7 @@ has_part: value: "A file" qualified_part: - name: file.txt - entity: exthisdsver:./archive.zip/subdir/file.txt + object: exthisdsver:./archive.zip/subdir/file.txt qualified_part: - name: subdir - entity: exthisdsver:./archive.zip/subdir + object: exthisdsver:./archive.zip/subdir diff --git a/src/distribution/unreleased/examples/Resource-gitcommit.json b/src/distribution/unreleased/examples/Resource-gitcommit.json index 2596e07..f02ff02 100644 --- a/src/distribution/unreleased/examples/Resource-gitcommit.json +++ b/src/distribution/unreleased/examples/Resource-gitcommit.json @@ -7,10 +7,10 @@ "type": "obo:NCIT_C25625", "qualified_association": [ { - "had_role": [ + "object": "exthisds:#gituser_doe@example.com", + "had_roles": [ "marcrel:aut" - ], - "agent": "exthisds:#gituser_doe@example.com" + ] } ], "ended_at": "2001-02-28T18:27:04+02:00" @@ -21,10 +21,10 @@ "type": "obo:NCIT_C42882", "qualified_association": [ { - "had_role": [ + "object": "exthisds:#gituser_doe@example.com", + "had_roles": [ "marcrel:cre" - ], - "agent": "exthisds:#gituser_doe@example.com" + ] } ], "was_informed_by": [ @@ -67,12 +67,10 @@ "schema_type": "dldist:Resource", "qualified_derivation": [ { - "had_role": [ + "object": "https://concepts.datalad.org/ns/gitsha/a52963ce19a3e3628e9976555ffc8c422b29f054", + "had_roles": [ "owl:priorVersion" ], - "entity": [ - "https://concepts.datalad.org/ns/gitsha/a52963ce19a3e3628e9976555ffc8c422b29f054" - ], "schema_type": "dlprov:Derivation", "had_activity": "obo:NCIT_C25446" } diff --git a/src/distribution/unreleased/examples/Resource-gitcommit.yaml b/src/distribution/unreleased/examples/Resource-gitcommit.yaml index 68e780c..09a02f6 100644 --- a/src/distribution/unreleased/examples/Resource-gitcommit.yaml +++ b/src/distribution/unreleased/examples/Resource-gitcommit.yaml @@ -26,16 +26,14 @@ has_attributes: version: 8d6f033bb2a6109b2c4d64d6f27b0feb181e4d0f qualified_derivation: # parent commit(s) - - entity: - # in a derivation any number of entities can play a role - - https://concepts.datalad.org/ns/gitsha/a52963ce19a3e3628e9976555ffc8c422b29f054 + - object: https://concepts.datalad.org/ns/gitsha/a52963ce19a3e3628e9976555ffc8c422b29f054 # "change", ie. unknown what was done # there are plenty of terms to drill down on the nature # of the derivation # - obo:NCIT_C64266: merge # - obo:NCIT_C64911: add had_activity: obo:NCIT_C25446 - had_role: + had_roles: - owl:priorVersion relations: # author activity @@ -49,8 +47,8 @@ relations: ended_at: "2001-02-28T18:27:04+02:00" qualified_association: # author of the commit - - agent: exthisds:#gituser_doe@example.com - had_role: + - object: exthisds:#gituser_doe@example.com + had_roles: - marcrel:aut # commit activity - id: https://concepts.datalad.org/ns/gitsha/8d6f033bb2a6109b2c4d64d6f27b0feb181e4d0f#committing @@ -61,8 +59,8 @@ relations: ended_at: "2002-05-30T09:30:10+06:00" qualified_association: # creator of the commit - - agent: exthisds:#gituser_doe@example.com - had_role: + - object: exthisds:#gituser_doe@example.com + had_roles: - marcrel:cre was_informed_by: - https://concepts.datalad.org/ns/gitsha/8d6f033bb2a6109b2c4d64d6f27b0feb181e4d0f#authoring diff --git a/src/distribution/unreleased/examples/Resource-study.json b/src/distribution/unreleased/examples/Resource-study.json index d1711d4..fef7a52 100644 --- a/src/distribution/unreleased/examples/Resource-study.json +++ b/src/distribution/unreleased/examples/Resource-study.json @@ -82,18 +82,18 @@ "type": "obo:NCIT_C71104", "qualified_association": [ { - "had_role": [ + "object": "exthisds:#s001", + "had_roles": [ "obo:NCIT_C142710", "obo:NCIT_C94342" - ], - "agent": "exthisds:#s001" + ] }, { - "had_role": [ + "object": "exthisds:#s002", + "had_roles": [ "obo:NCIT_C142710", "obo:NCIT_C173188" - ], - "agent": "exthisds:#s002" + ] } ] } diff --git a/src/distribution/unreleased/examples/Resource-study.yaml b/src/distribution/unreleased/examples/Resource-study.yaml index 321491a..a4436f5 100644 --- a/src/distribution/unreleased/examples/Resource-study.yaml +++ b/src/distribution/unreleased/examples/Resource-study.yaml @@ -47,14 +47,14 @@ relations: # registered clinical trial type: obo:NCIT_C71104 qualified_association: - - agent: exthisds:#s001 - had_role: + - object: exthisds:#s001 + had_roles: # study participant - obo:NCIT_C142710 # healthy control - obo:NCIT_C94342 - - agent: exthisds:#s002 - had_role: + - object: exthisds:#s002 + had_roles: - obo:NCIT_C142710 # subject Assigned to Protocol Treatment Arm - obo:NCIT_C173188 diff --git a/src/prov/unreleased.yaml b/src/prov/unreleased.yaml index 0d3a487..ab3184f 100644 --- a/src/prov/unreleased.yaml +++ b/src/prov/unreleased.yaml @@ -10,7 +10,7 @@ description: | Central paradigm of the schema is the [qualified relation pattern](https://patterns.dataincubator.org/book/qualified-relation.html). The three `Thing` derived key concepts `Agent`, `Activity`, and `Entity` build on the `Thing` slot `relation` (symmetric property) for **inline declaration** of related things, and extend the basic means of qualifying a relationship via `is_characterized_by` with provenance specific slots and corresponding association classes. For example: - - `qualified_relation`: for an `EntityInfluence` on an `Entity` + - `qualified_relations`: for an `EntityInfluence` on an `Entity` - `qualified_association`: for an `AgentInfluence` on an `Activity` - `qualified_attribution`: for an `AgentInfluence` on an `Entity` @@ -79,6 +79,7 @@ emit_prefixes: imports: - ../thing/unreleased + - ../roles/unreleased types: W3CISO8601: @@ -100,18 +101,6 @@ types: slots: - agent: - slot_uri: dlprov:agent - is_a: influencer - description: >- - References an agent which influenced an entity. - range: Agent - domain: AgentInfluence - exact_mappings: - - prov:agent - broad_mappings: - - prov:influencer - ended_at: slot_uri: dlprov:ended_at description: >- @@ -124,19 +113,6 @@ slots: exact_mappings: - prov:endedAtTime - entity: - slot_uri: dlprov:entity - - is_a: influencer - description: >- - References an entity which influenced an entity. - range: Entity - #domain: EntityInfluence - exact_mappings: - - prov:entity - broad_mappings: - - prov:influencer - had_activity: slot_uri: dlprov:had_activity description: >- @@ -146,33 +122,6 @@ slots: exact_mappings: - prov:hadActivity - had_role: - slot_uri: dlprov:had_role - description: >- - The function of an entity or agent with respect to another entity or - resource. - range: Role - exact_mappings: - - prov:hadRole - - dcat:had_role - comments: - - May be used in a qualified-attribution to specify the role of an Agent with respect to an Entity. - - May be used in a qualified-relation to specify the role of an Entity with respect to another Entity. - - influencer: - slot_uri: dlprov:influencer - description: >- - Reference the resource (Entity, Agent, or Activity) whose influence is - being qualified in a qualified influence pattern. - any_of: - - range: Activity - - range: Agent - - range: Entity - exact_mappings: - - prov:influencer - broad_mappings: - - dcterms:relation - qualified_association: slot_uri: dlprov:qualified_association description: >- @@ -200,15 +149,6 @@ slots: - prov:qualifiedDerivation range: Derivation - qualified_relation: - slot_uri: dlprov:qualified_relation - description: >- - Characterizes the relationship or role of an entity with respect to the subject entity. - exact_mappings: - - dcat:qualifiedRelation - range: EntityInfluence - multivalued: true - was_influenced_by: slot_uri: dlprov:was_influenced_by description: >- @@ -340,7 +280,7 @@ classes: slots: - qualified_attribution - qualified_derivation - - qualified_relation + - qualified_relations - was_attributed_to - was_derived_from - was_generated_by @@ -355,7 +295,7 @@ classes: multivalued: true inlined: true inlined_as_list: true - qualified_relation: + qualified_relations: range: EntityInfluence multivalued: true inlined: true @@ -378,40 +318,15 @@ classes: # # basic relations # - Influence: - class_uri: dlprov:Influence - description: >- - Capacity of an entity, activity, or agent to have an effect on the - character, development, or behavior of another. - slots: - - influencer - - had_role - slot_usage: - had_role: - multivalued: true - required: true - influencer: - # we cannot make it required. The equals_expression of, - # e.g. `AgentInfluence` does not kick in for value inference - # before validation errors out - #required: true - exact_mappings: - - prov:Influence - AgentInfluence: class_uri: dlprov:AgentInfluence - is_a: Influence + is_a: Relationship description: >- Capacity of an agent to have an effect on the character, development, or behavior of another Entity, Agent, or Activity - slots: - - agent slot_usage: - agent: - required: true - equals_expression: "{influencer}" - todos: - - Ideally this would be a structured_alias to `influencer`. However, this does not seem to work at all in the way that it is described. + object: + range: Agent exact_mappings: - prov:AgentInfluence @@ -428,18 +343,16 @@ classes: EntityInfluence: class_uri: dlprov:EntityInfluence - is_a: Influence + is_a: Relationship description: >- Capacity of an entity to have an effect on the character, development, or behavior of another. slots: - - entity + # TODO why do we need that? I doubt this makes sense - schema_type slot_usage: - entity: - multivalued: true + object: range: Entity - required: true exact_mappings: - prov:EntityInfluence broad_mappings: @@ -456,14 +369,3 @@ classes: - had_activity exact_mappings: - prov:Derivation - - Role: - class_uri: dlprov:Role - is_a: Thing - description: >- - A role is the function of a resource or agent with respect to - another resource, in the context of resource attribution or - resource relationships. - exact_mappings: - - prov:Role - - dcat:Role diff --git a/src/prov/unreleased/examples/AgentInfluence-std.json b/src/prov/unreleased/examples/AgentInfluence-std.json index f49e157..f85685f 100644 --- a/src/prov/unreleased/examples/AgentInfluence-std.json +++ b/src/prov/unreleased/examples/AgentInfluence-std.json @@ -1,7 +1,7 @@ { - "had_role": [ + "object": "https://orcid.org/0000-0001-6398-6370", + "had_roles": [ "marcrel:aut" ], - "agent": "https://orcid.org/0000-0001-6398-6370", "@type": "AgentInfluence" } diff --git a/src/prov/unreleased/examples/AgentInfluence-std.yaml b/src/prov/unreleased/examples/AgentInfluence-std.yaml index 05c44e0..a7cb81b 100644 --- a/src/prov/unreleased/examples/AgentInfluence-std.yaml +++ b/src/prov/unreleased/examples/AgentInfluence-std.yaml @@ -1,4 +1,4 @@ # Declare a person identified by an ORCID to have had the role of an author -agent: https://orcid.org/0000-0001-6398-6370 -had_role: +object: https://orcid.org/0000-0001-6398-6370 +had_roles: - marcrel:aut diff --git a/src/prov/unreleased/examples/EntityInfluence-std.json b/src/prov/unreleased/examples/EntityInfluence-std.json deleted file mode 100644 index 40a7176..0000000 --- a/src/prov/unreleased/examples/EntityInfluence-std.json +++ /dev/null @@ -1,10 +0,0 @@ -{ - "had_role": [ - "dlprov:is_about" - ], - "entity": [ - "https://en.wikipedia.org/wiki/Vulcan_(Star_Trek)#Mind_melds" - ], - "schema_type": "dlprov:EntityInfluence", - "@type": "EntityInfluence" -} diff --git a/src/prov/unreleased/examples/EntityInfluence-std.yaml b/src/prov/unreleased/examples/EntityInfluence-std.yaml deleted file mode 100644 index 2553fa0..0000000 --- a/src/prov/unreleased/examples/EntityInfluence-std.yaml +++ /dev/null @@ -1,5 +0,0 @@ -# Declare (any number of) topics for any number of entities -entity: - - https://en.wikipedia.org/wiki/Vulcan_(Star_Trek)#Mind_melds -had_role: - - dlprov:is_about diff --git a/src/roles/unreleased.yaml b/src/roles/unreleased.yaml new file mode 100644 index 0000000..59406f4 --- /dev/null +++ b/src/roles/unreleased.yaml @@ -0,0 +1,112 @@ +id: https://concepts.datalad.org/s/roles/unreleased +name: roles-schema +version: UNRELEASED +status: bibo:status/draft +title: Schema for characterizing relationships with roles +description: | + This schema provides the most basic classes and slots to qualify + relationships between two things. The connection to the + [thing-schema](../../thing) is the [`qualified_relations`](qualified_relations) + slot, which can be used to qualify relations between things via any number + of [`Relationship`](Relationship) declarations. + + Each `Relationship` links one object (`Thing`) to a subject (`Thing`) and + associates one or more roles ([`Role`](Role)) with this relationship via the + [`had_roles`](had_roles) slot. + + A `Role` is itself a `Thing`, and can be annotated with (inline) + attributes as needed. However, typically it should be sufficient + to reference a role by a URI. + + The schema definition is available as + + - [JSON-LD context](../unreleased.jsonld) + - [LinkML YAML](../unreleased.yaml) + - [OWL TTL](../unreleased.owl.ttl) + +comments: + - ALL CONTENT HERE IS UNRELEASED AND MAY CHANGE ANY TIME + +license: MIT + +prefixes: + bibo: http://purl.org/ontology/bibo/ + dcat: http://www.w3.org/ns/dcat# + dcterms: http://purl.org/dc/terms/ + dlroles: https://concepts.datalad.org/s/roles/unreleased/ + dlthing: https://concepts.datalad.org/s/thing/unreleased/ + linkml: https://w3id.org/linkml/ + prov: http://www.w3.org/ns/prov# + marcrel: http://id.loc.gov/vocabulary/relators/ + +default_prefix: dlroles + +emit_prefixes: + # emit this one as a rich resource for predefined roles + - marcrel + - prov + +imports: + - ../thing/unreleased + + +slots: + had_roles: + slot_uri: dlroles:had_role + description: >- + The function of an entity or agent with respect to another entity or + resource. + range: Role + multivalued: true + inlined: false + exact_mappings: + - prov:hadRole + - dcat:had_role + comments: + - May be used in a qualified-attribution to specify the role of an Agent with respect to an Entity. + - May be used in a qualified-relation to specify the role of an Entity with respect to another Entity. + + qualified_relations: + slot_uri: dlroles:qualified_relation + description: >- + Characterizes the relationship or role of an entity with respect to the subject entity. + domain: Thing + range: Relationship + inlined: true + inlined_as_list: true + multivalued: true + exact_mappings: + - dcat:qualifiedRelation + + +classes: + Role: + class_uri: dlroles:Role + is_a: Thing + description: >- + A role is the function of a resource or agent with respect to + another resource, in the context of resource attribution or + resource relationships. + exact_mappings: + - prov:Role + - dcat:Role + + Relationship: + class_uri: dlroles:Relationship + description: >- + An association class for characterizing the relation between two things with + the role(s) the object had with respect to the subject. A relationship is + always between two things only, but can be annotated with multiple roles + (for example, a person having both an author role with respect to a dataset, + and also being the person who is legally responsible contact for it). + slots: + - object + - had_roles + slot_usage: + had_roles: + required: true + object: + required: true + close_mappings: + - prov:Influence + - dcat:Relationship diff --git a/src/roles/unreleased/examples/Relationship-01-topic.json b/src/roles/unreleased/examples/Relationship-01-topic.json new file mode 100644 index 0000000..d4f5551 --- /dev/null +++ b/src/roles/unreleased/examples/Relationship-01-topic.json @@ -0,0 +1,7 @@ +{ + "object": "https://en.wikipedia.org/wiki/Vulcan_(Star_Trek)#Mind_melds", + "had_roles": [ + "http://purl.obolibrary.org/obo/topic_0003" + ], + "@type": "Relationship" +} diff --git a/src/roles/unreleased/examples/Relationship-01-topic.yaml b/src/roles/unreleased/examples/Relationship-01-topic.yaml new file mode 100644 index 0000000..1fb304c --- /dev/null +++ b/src/roles/unreleased/examples/Relationship-01-topic.yaml @@ -0,0 +1,4 @@ +# Declare something as the topic of the subject +object: https://en.wikipedia.org/wiki/Vulcan_(Star_Trek)#Mind_melds +had_roles: + - http://purl.obolibrary.org/obo/topic_0003 diff --git a/src/roles/unreleased/examples/Relationship-02-author.json b/src/roles/unreleased/examples/Relationship-02-author.json new file mode 100644 index 0000000..50b8e67 --- /dev/null +++ b/src/roles/unreleased/examples/Relationship-02-author.json @@ -0,0 +1,8 @@ +{ + "object": "https://orcid.org/0000-0001-6398-6370", + "had_roles": [ + "marcrel:aut", + "marcrel:sad" + ], + "@type": "Relationship" +} diff --git a/src/roles/unreleased/examples/Relationship-02-author.yaml b/src/roles/unreleased/examples/Relationship-02-author.yaml new file mode 100644 index 0000000..acb32da --- /dev/null +++ b/src/roles/unreleased/examples/Relationship-02-author.yaml @@ -0,0 +1,7 @@ +# Declare a person identified by an ORCID to have had the +# roles of an author and of a scientific advisor regarding +# the subject +object: https://orcid.org/0000-0001-6398-6370 +had_roles: + - marcrel:aut + - marcrel:sad diff --git a/src/roles/unreleased/examples/Role-01-minimal.json b/src/roles/unreleased/examples/Role-01-minimal.json new file mode 100644 index 0000000..96c0769 --- /dev/null +++ b/src/roles/unreleased/examples/Role-01-minimal.json @@ -0,0 +1,5 @@ +{ + "id": "marcrel:this", + "schema_type": "dlroles:Role", + "@type": "Role" +} diff --git a/src/roles/unreleased/examples/Role-01-minimal.yaml b/src/roles/unreleased/examples/Role-01-minimal.yaml new file mode 100644 index 0000000..e9dd5b5 --- /dev/null +++ b/src/roles/unreleased/examples/Role-01-minimal.yaml @@ -0,0 +1,2 @@ +# A role is minimally defined by an identifier +id: marcrel:this diff --git a/src/roles/unreleased/extra-docs/about.md b/src/roles/unreleased/extra-docs/about.md new file mode 100644 index 0000000..e69de29 diff --git a/src/roles/unreleased/validation/Relationship.valid.cfg.yaml b/src/roles/unreleased/validation/Relationship.valid.cfg.yaml new file mode 100644 index 0000000..0323ab3 --- /dev/null +++ b/src/roles/unreleased/validation/Relationship.valid.cfg.yaml @@ -0,0 +1,10 @@ +schema: src/roles/unreleased.yaml +target_class: Relationship +data_sources: + - src/roles/unreleased/examples/Relationship-01-topic.yaml + - src/roles/unreleased/examples/Relationship-02-author.yaml +plugins: + JsonschemaValidationPlugin: + closed: true + include_range_class_descendants: false + RecommendedSlotsPlugin: diff --git a/src/prov/unreleased/validation/EntityInfluence.valid.cfg.yaml b/src/roles/unreleased/validation/Role.valid.cfg.yaml similarity index 53% rename from src/prov/unreleased/validation/EntityInfluence.valid.cfg.yaml rename to src/roles/unreleased/validation/Role.valid.cfg.yaml index 6ef840f..fb80f7e 100644 --- a/src/prov/unreleased/validation/EntityInfluence.valid.cfg.yaml +++ b/src/roles/unreleased/validation/Role.valid.cfg.yaml @@ -1,7 +1,7 @@ -schema: src/prov/unreleased.yaml -target_class: EntityInfluence +schema: src/roles/unreleased.yaml +target_class: Role data_sources: - - src/prov/unreleased/examples/EntityInfluence-std.yaml + - src/roles/unreleased/examples/Role-01-minimal.yaml plugins: JsonschemaValidationPlugin: closed: true diff --git a/src/sdd/unreleased/examples/Distribution-penguins.yaml b/src/sdd/unreleased/examples/Distribution-penguins.yaml index 70d841f..602038a 100644 --- a/src/sdd/unreleased/examples/Distribution-penguins.yaml +++ b/src/sdd/unreleased/examples/Distribution-penguins.yaml @@ -33,11 +33,11 @@ has_part: media_type: text/csv qualified_part: - name: adelie.csv - entity: exthisdsver:./adelie.csv + object: exthisdsver:./adelie.csv - name: gentoo.csv - entity: exthisdsver:./gentoo.csv + object: exthisdsver:./gentoo.csv - name: chinstrap.csv - entity: exthisdsver:./chinstrap.csv + object: exthisdsver:./chinstrap.csv # # relation to contextual entities is_distribution_of: exthisdsver:# @@ -88,17 +88,17 @@ relation: - agent: https://ror.org/01j7nq853 had_role: - marcrel:sht - qualified_relation: + qualified_relations: - had_role: - schema:funding - entity: + object: - exthisds:#nsf0217282 - exthisds:#nsf0823101 - exthisds:#nsf0741351 - had_role: - CiTO:citesAsAuthority - CiTO:isCitedAsDataSourceBy - entity: + object: - exthisds:#gormanetal same_as: - https://doi.org/10.5281/zenodo.3960218 diff --git a/src/sdd/unreleased/examples/Publication-std.yaml b/src/sdd/unreleased/examples/Publication-std.yaml index 3b88087..0d51c5e 100644 --- a/src/sdd/unreleased/examples/Publication-std.yaml +++ b/src/sdd/unreleased/examples/Publication-std.yaml @@ -255,14 +255,14 @@ was_attributed_to: - https://ror.org/03dsk4d59 # entity roles -qualified_relation: +qualified_relations: # publication place: journal scientific data - - entity: + - object: - https://portal.issn.org/resource/issn/2052-4463 had_role: - http://id.loc.gov/vocabulary/relators/prp # grants that funded the work - - entity: + - object: - exthisds:#grant_bmbf01GQ1905 - exthisds:#grant_bmbf01GQ1411 - exthisds:#grant_nsc diff --git a/src/sdd/unreleased/examples/Resource-funding.yaml b/src/sdd/unreleased/examples/Resource-funding.yaml index fd346a6..376bb81 100644 --- a/src/sdd/unreleased/examples/Resource-funding.yaml +++ b/src/sdd/unreleased/examples/Resource-funding.yaml @@ -7,9 +7,8 @@ relation: - id: https://ror.org/018mejw64 schema_type: dldist:Organization name: Deutsche Forschungsgemeinschaft -qualified_relation: - - entity: - - https://gepris.dfg.de/gepris/projekt/431549029 +qualified_relations: + - object: https://gepris.dfg.de/gepris/projekt/431549029 had_role: - schema:funding was_attributed_to: diff --git a/src/sdd/unreleased/validation/Distribution-dataverse-rtmefmri.yaml b/src/sdd/unreleased/validation/Distribution-dataverse-rtmefmri.yaml index 359e595..a0e712b 100644 --- a/src/sdd/unreleased/validation/Distribution-dataverse-rtmefmri.yaml +++ b/src/sdd/unreleased/validation/Distribution-dataverse-rtmefmri.yaml @@ -42,15 +42,15 @@ relation: - agent: exthisds:#EindhovenUniversityofTechnology had_role: - marcrel:sht - qualified_relation: + qualified_relations: - had_role: - CiTO:isDocumentedBy - CiTO:citesAsAuthority - entity: + object: - exthisds:#data_paper - had_role: - CiTO:isCitedAsDataSourceBy - entity: + object: - exthisds:#methods_paper - id: exthisds:#StephanHeunis schema_type: dldist:Person @@ -152,77 +152,77 @@ relation: to access\n these data.\n
  • This agreement is governed by Dutch law.
    • \n" qualified_part: - - entity: exthisdsver:./dataset_description.json + - object: exthisdsver:./dataset_description.json name: dataset_description.json - - entity: exthisdsver:./derivatives/ + - object: exthisdsver:./derivatives/ name: derivatives - - entity: exthisdsver:./participants.tsv + - object: exthisdsver:./participants.tsv name: participants.tsv - - entity: exthisdsver:./README.md + - object: exthisdsver:./README.md name: README.md - - entity: exthisdsver:./sub-001/ + - object: exthisdsver:./sub-001/ name: sub-001 - - entity: exthisdsver:./sub-002/ + - object: exthisdsver:./sub-002/ name: sub-002 - - entity: exthisdsver:./sub-003/ + - object: exthisdsver:./sub-003/ name: sub-003 - - entity: exthisdsver:./sub-004/ + - object: exthisdsver:./sub-004/ name: sub-004 - - entity: exthisdsver:./sub-005/ + - object: exthisdsver:./sub-005/ name: sub-005 - - entity: exthisdsver:./sub-006/ + - object: exthisdsver:./sub-006/ name: sub-006 - - entity: exthisdsver:./sub-007/ + - object: exthisdsver:./sub-007/ name: sub-007 - - entity: exthisdsver:./sub-010/ + - object: exthisdsver:./sub-010/ name: sub-010 - - entity: exthisdsver:./sub-011/ + - object: exthisdsver:./sub-011/ name: sub-011 - - entity: exthisdsver:./sub-012/ + - object: exthisdsver:./sub-012/ name: sub-012 - - entity: exthisdsver:./sub-013/ + - object: exthisdsver:./sub-013/ name: sub-013 - - entity: exthisdsver:./sub-015/ + - object: exthisdsver:./sub-015/ name: sub-015 - - entity: exthisdsver:./sub-016/ + - object: exthisdsver:./sub-016/ name: sub-016 - - entity: exthisdsver:./sub-017/ + - object: exthisdsver:./sub-017/ name: sub-017 - - entity: exthisdsver:./sub-018/ + - object: exthisdsver:./sub-018/ name: sub-018 - - entity: exthisdsver:./sub-019/ + - object: exthisdsver:./sub-019/ name: sub-019 - - entity: exthisdsver:./sub-020/ + - object: exthisdsver:./sub-020/ name: sub-020 - - entity: exthisdsver:./sub-021/ + - object: exthisdsver:./sub-021/ name: sub-021 - - entity: exthisdsver:./sub-022/ + - object: exthisdsver:./sub-022/ name: sub-022 - - entity: exthisdsver:./sub-023/ + - object: exthisdsver:./sub-023/ name: sub-023 - - entity: exthisdsver:./sub-024/ + - object: exthisdsver:./sub-024/ name: sub-024 - - entity: exthisdsver:./sub-025/ + - object: exthisdsver:./sub-025/ name: sub-025 - - entity: exthisdsver:./sub-026/ + - object: exthisdsver:./sub-026/ name: sub-026 - - entity: exthisdsver:./sub-027/ + - object: exthisdsver:./sub-027/ name: sub-027 - - entity: exthisdsver:./sub-029/ + - object: exthisdsver:./sub-029/ name: sub-029 - - entity: exthisdsver:./sub-030/ + - object: exthisdsver:./sub-030/ name: sub-030 - - entity: exthisdsver:./sub-031/ + - object: exthisdsver:./sub-031/ name: sub-031 - - entity: exthisdsver:./sub-032/ + - object: exthisdsver:./sub-032/ name: sub-032 - - entity: exthisdsver:./task-emotionProcessing_events.json + - object: exthisdsver:./task-emotionProcessing_events.json name: task-emotionProcessing_events.json - - entity: exthisdsver:./task-emotionProcessingImagined_events.json + - object: exthisdsver:./task-emotionProcessingImagined_events.json name: task-emotionProcessingImagined_events.json - - entity: exthisdsver:./task-fingerTapping_events.json + - object: exthisdsver:./task-fingerTapping_events.json name: task-fingerTapping_events.json - - entity: exthisdsver:./task-fingerTappingImagined_events.json + - object: exthisdsver:./task-fingerTappingImagined_events.json name: task-fingerTappingImagined_events.json has_part: - id: exthisdsver:./dataset_description.json @@ -243,13 +243,13 @@ has_part: media_type: text/plain - id: exthisdsver:./derivatives/ qualified_part: - - entity: exthisdsver:./derivatives/fmrwhy-dash/ + - object: exthisdsver:./derivatives/fmrwhy-dash/ name: fmrwhy-dash - - entity: exthisdsver:./derivatives/fmrwhy-qc/ + - object: exthisdsver:./derivatives/fmrwhy-qc/ name: fmrwhy-qc - id: exthisdsver:./derivatives/fmrwhy-dash/ qualified_part: - - entity: exthisdsver:./derivatives/fmrwhy-dash/fmrwhy-dash.txt + - object: exthisdsver:./derivatives/fmrwhy-dash/fmrwhy-dash.txt name: fmrwhy-dash.txt - id: exthisdsver:./derivatives/fmrwhy-qc/fmrwhy-qc.txt byte_size: 37 @@ -261,7 +261,7 @@ has_part: media_type: text/plain - id: exthisdsver:./derivatives/fmrwhy-qc/ qualified_part: - - entity: exthisdsver:./derivatives/fmrwhy-qc/fmrwhy-qc.txt + - object: exthisdsver:./derivatives/fmrwhy-qc/fmrwhy-qc.txt name: fmrwhy-qc.txt - id: exthisdsver:./participants.tsv byte_size: 238 @@ -289,13 +289,13 @@ has_part: media_type: image/nii - id: exthisdsver:./sub-001/ qualified_part: - - entity: exthisdsver:./sub-001/anat/ + - object: exthisdsver:./sub-001/anat/ name: anat - - entity: exthisdsver:./sub-001/func/ + - object: exthisdsver:./sub-001/func/ name: func - id: exthisdsver:./sub-001/anat/ qualified_part: - - entity: exthisdsver:./sub-001/anat/sub-001_T1w.nii + - object: exthisdsver:./sub-001/anat/sub-001_T1w.nii name: sub-001_T1w.nii - id: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-1_bold.json byte_size: 1041 @@ -307,115 +307,115 @@ has_part: media_type: application/json - id: exthisdsver:./sub-001/func/ qualified_part: - - entity: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-1_bold.json + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-1_bold.json name: sub-001_task-emotionProcessing_echo-1_bold.json - - entity: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-1_bold.nii + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-1_bold.nii name: sub-001_task-emotionProcessing_echo-1_bold.nii - - entity: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-2_bold.json + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-2_bold.json name: sub-001_task-emotionProcessing_echo-2_bold.json - - entity: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-2_bold.nii + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-2_bold.nii name: sub-001_task-emotionProcessing_echo-2_bold.nii - - entity: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-3_bold.json + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-3_bold.json name: sub-001_task-emotionProcessing_echo-3_bold.json - - entity: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-3_bold.nii + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_echo-3_bold.nii name: sub-001_task-emotionProcessing_echo-3_bold.nii - - entity: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_events.tsv.gz + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessing_events.tsv.gz name: sub-001_task-emotionProcessing_events.tsv.gz - - entity: + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessingImagined_echo-1_bold.json name: sub-001_task-emotionProcessingImagined_echo-1_bold.json - - entity: + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessingImagined_echo-1_bold.nii name: sub-001_task-emotionProcessingImagined_echo-1_bold.nii - - entity: + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessingImagined_echo-2_bold.json name: sub-001_task-emotionProcessingImagined_echo-2_bold.json - - entity: + - object: exthisdsver:./sub-001/func/sub-001_task-emotionProcessingImagined_echo-2_bold.nii name: sub-001_task-emotionProcessingImagined_echo-2_bold.nii - 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