Testing to see if current linkml fails on 3.14

.github/workflows/main.yaml

@@ -19,7 +19,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: ["3.9", "3.10", "3.11", "3.12", "3.13"]
+        python-version: ["3.12", "3.13", "3.14"]
       fail-fast: false
 
     steps:
@@ -30,7 +30,7 @@ jobs:
         with:
           persist-credentials: false
           submodules: 'recursive' # grab submodules
-          
+
       # https://github.com/astral-sh/setup-uv
       - name: Install uv
         uses: astral-sh/setup-uv@v8.2.0

.linkml-linter.yaml

@@ -0,0 +1,3 @@
+rules:
+  permissible_values_format:
+    format: '^[a-zA-Z0-9_\-:]+$'

justfile

@@ -90,7 +90,7 @@ test: _test-schema _test-python _test-examples
 # Run linting
 [group('model development')]
 lint:
-  uv run linkml-lint {{source_schema_dir}}
+  uv run linkml-lint --config .linkml-linter.yaml  {{source_schema_dir}}
 
 # Generate md documentation for the schema
 [group('model development')]

src/include_access_model/schema/include_access_model.yaml

@@ -16,7 +16,7 @@ prefixes:
   ig2dac: https://nih-ncpi.github.io/ncpi-fhir-ig-2/CodeSystem/research-data-access-code/
   ig2dat: https://nih-ncpi.github.io/ncpi-fhir-ig-2/CodeSystem/research-data-access-type/
   ig2_biospecimen_availability: https://nih-ncpi.github.io/ncpi-fhir-ig-2/CodeSystem/biospecimen-availability/
-  snomed_ct: 	http://snomed.info/id/
+  snomed_ct: http://snomed.info/id/
   cam:
     prefix_prefix: cam
     prefix_reference: https://includedcc.org/common-access-model/

tests/data/valid/IncludeParticipant-000.yaml

@@ -1,6 +1,6 @@
 subject_id: subject000
-sex: male
-race: 
- - american_indian_or_alaska_native
-ethnicity: hispanic_or_latino
-down_syndrome_status: d21
+sex: snomedct:248153007
+race:
+ - CDCREC:1002-5
+ethnicity: CDCREC:2135-2
+down_syndrome_status: d21

tests/data/valid/Subject-000.yaml

@@ -1,2 +1,2 @@
 subject_id: subject000
-subject_type: participant
+subject_type: CAMO:0000024