Add a simple set of unit tests

ChangeLog

@@ -1,6 +1,13 @@
 CHANGES
 =======
 
+* Regenerate w/ latest linkml part 2
+
+v0.1.0.dev3
+-----------
+
+* Regenerate w/ latest linkml part 2
+
 v0.1.0.dev2
 -----------
 

Pipfile

@@ -7,7 +7,7 @@ name = "pypi"
 requests = "*"
 rdflib = "~=5.0"
 jsonasobj2 = "~=1.0, >=1.0.3"
-linkml-runtime = "~=1.0, >=1.0.2"
+linkml-runtime = "~=1.0, >=1.0.3"
 pyldmod = "*"
 
 [dev-packages]

tests/input/README.md

@@ -0,0 +1,6 @@
+# Test input files
+This directory contains a set of sample input files that are tested using the supplied model.
+
+In the case of LinkML model, this set includes the model itself and, periodically, one may want to update the model
+to include these files.
+

tests/input/annotations.yaml

@@ -0,0 +1,43 @@
+id: https://w3id.org/linkml/annotations
+name: annotations
+description: Annotations mixin
+license: https://creativecommons.org/publicdomain/zero/1.0/
+version: 2.0.0
+
+prefixes:
+  linkml: https://w3id.org/linkml/
+
+default_prefix: linkml
+default_range: string
+
+emit_prefixes:
+  - linkml
+
+imports:
+  - linkml:types
+  - linkml:extensions
+
+slots:
+  annotations:
+    is_a: extensions
+    domain: annotatable
+    range: annotation
+    description: a collection of tag/text tuples with the semantics of OWL Annotation
+    multivalued: true
+
+
+classes:
+  annotatable:
+    description: mixin for classes that support annotations
+    mixin: true
+    slots:
+      - annotations
+
+  annotation:
+    description: a tag/value pair with the semantics of OWL Annotation
+    is_a: extension
+    mixins:
+      - annotatable
+    slots:
+      - annotations
+

tests/input/extensions.yaml

@@ -0,0 +1,53 @@
+id: https://w3id.org/linkml/extensions
+name: extensions
+description: Extension mixin
+license: https://creativecommons.org/publicdomain/zero/1.0/
+version: 2.0.0
+
+prefixes:
+  linkml: https://w3id.org/linkml/
+
+default_prefix: linkml
+default_range: string
+
+emit_prefixes:
+  - linkml
+
+imports:
+  - linkml:types
+
+slots:
+  extensions:
+    domain: extensible
+    range: extension
+    description: a tag/text tuple attached to an arbitrary element
+    multivalued: true
+    inlined: true
+
+  extension_tag:
+    description: a tag associated with an extension
+    domain: extension
+    range: uriorcurie
+    alias: tag
+    required: true
+
+  extension_value:
+    description: the actual annotation
+    domain: extension
+    alias: value
+    required: true
+
+
+classes:
+  extension:
+    description: a tag/value pair used to add non-model information to an entry
+    slots:
+      - extension_tag
+      - extension_value
+      - extensions
+
+  extensible:
+    description: mixin for classes that support extension
+    mixin: true
+    slots:
+      - extensions

tests/input/mappings.yaml

@@ -0,0 +1,100 @@
+id: https://w3id.org/linkml/mappings
+title: LinkML Schema Mappings
+name: mappings
+description: LinkML model for mappings
+license: https://creativecommons.org/publicdomain/zero/1.0/
+version: 2.0.0
+
+prefixes:
+  linkml: https://w3id.org/linkml/
+  skos: http://www.w3.org/2004/02/skos/core#
+  OIO: http://www.geneontology.org/formats/oboInOwl#
+  IAO: http://purl.obolibrary.org/obo/IAO_
+
+default_curi_maps:
+    - semweb_context
+
+default_prefix: linkml
+default_range: string
+
+
+emit_prefixes:
+  - linkml
+  - rdf
+  - rdfs
+  - xsd
+  - skos
+  - OIO
+  - IAO
+
+imports:
+  - linkml:types
+
+slots:
+  mappings:
+    range: uriorcurie
+    multivalued: true
+    description: >-
+      A list of terms from different schemas or terminology systems that have comparable meaning.
+      These may include terms that are precisely equivalent, broader or narrower in meaning, or otherwise semantically
+      related but not equivalent from a strict ontological perspective.
+    slot_uri: skos:mappingRelation
+
+  exact mappings:
+    is_a: mappings
+    range: uriorcurie
+    multivalued: true
+    inherited: false
+    description: >-
+      A list of terms from different schemas or terminology systems that have identical meaning.
+    slot_uri: skos:exactMatch
+
+  close mappings:
+    is_a: mappings
+    range: uriorcurie
+    multivalued: true
+    inherited: false
+    description: >-
+      A list of terms from different schemas or terminology systems that have close meaning.
+    slot_uri: skos:closeMatch
+
+  related mappings:
+    is_a: mappings
+    range: uriorcurie
+    multivalued: true
+    inherited: false
+    description: >-
+      A list of terms from different schemas or terminology systems that have related meaning.
+    slot_uri: skos:relatedMatch
+
+  narrow mappings:
+    is_a: mappings
+    range: uriorcurie
+    multivalued: true
+    inherited: false
+    description: >-
+      A list of terms from different schemas or terminology systems that have narrower meaning.
+    slot_uri: skos:narrowMatch
+
+  broad mappings:
+    is_a: mappings
+    range: uriorcurie
+    multivalued: true
+    inherited: false
+    description: >-
+      A list of terms from different schemas or terminology systems that have broader meaning.
+    slot_uri: skos:broadMatch
+
+  deprecated element has exact replacement:
+    range: uriorcurie
+    description: >-
+      When an element is deprecated, it can be automatically replaced by this uri or curie
+    mappings:
+      - IAO:0100001
+
+  deprecated element has possible replacement:
+    range: uriorcurie
+    description: >-
+      When an element is deprecated, it can be potentially replaced by this uri or curie
+    mappings:
+      - OIO:consider