re-run make all

ga4gh · Oct 2, 2024 · 48e88f0 · 48e88f0
1 parent aed3a36
commit 48e88f0
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Showing 9 changed files with 24 additions and 16 deletions.
diff --git a/schema/cat-vrs/core/cat-vrs-core-source.yaml b/schema/cat-vrs/core/cat-vrs-core-source.yaml
@@ -67,7 +67,7 @@ $defs:
     type: object
     inherits: Constraint
     description: >-
-      The location or location-state, congruent with other reference sequences, 
+      The location or location-state, congruent with other reference sequences,
       about which categorical variation is being described.
     properties:
       type:
@@ -91,8 +91,8 @@ $defs:
         description: >-
           Defined relationships between members of the categorical variant and the defining context.
           ``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a
-          human genome (e.g. "GRCh37" and "GRCh38") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection`` 
-          refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation`` 
+          human genome (e.g. "GRCh37" and "GRCh38") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection``
+          refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation``
           refers to variants or locations that translate from the codon(s) represented by the defined concept.
     required:
       - definingContext
@@ -133,7 +133,7 @@ $defs:
         items:
           properties:
             code:
-              enum: 
+              enum:
                 - EFO:0030069
                 - EFO:0020073
                 - EFO:0030068

diff --git a/schema/cat-vrs/core/def/DefiningContextConstraint.rst b/schema/cat-vrs/core/def/DefiningContextConstraint.rst
@@ -1,6 +1,6 @@
 **Computational Definition**
 
-The location or location-state, congruent with other reference sequences,  about which categorical variation is being described.
+The location or location-state, congruent with other reference sequences, about which categorical variation is being described.
 
 **Information Model**
 
@@ -27,4 +27,4 @@ Some DefiningContextConstraint attributes are inherited from :ref:`Constraint`.
    *  - relations
       - _Not Specified_
       - 0..m
-      - Defined relationships between members of the categorical variant and the defining context. ``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a human genome (e.g. "GRCh37" and "GRCh38") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection``  refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation``  refers to variants or locations that translate from the codon(s) represented by the defined concept.
+      - Defined relationships between members of the categorical variant and the defining context. ``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a human genome (e.g. "GRCh37" and "GRCh38") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection`` refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation`` refers to variants or locations that translate from the codon(s) represented by the defined concept.
diff --git a/schema/cat-vrs/core/json/DefiningContextConstraint b/schema/cat-vrs/core/json/DefiningContextConstraint
@@ -4,7 +4,7 @@
    "title": "DefiningContextConstraint",
    "type": "object",
    "maturity": "draft",
-   "description": "The location or location-state, congruent with other reference sequences,  about which categorical variation is being described.",
+   "description": "The location or location-state, congruent with other reference sequences, about which categorical variation is being described.",
    "properties": {
       "type": {
          "type": "string",
@@ -35,7 +35,7 @@
                "codon_translation"
             ]
          },
-         "description": "Defined relationships between members of the categorical variant and the defining context. ``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a human genome (e.g. \"GRCh37\" and \"GRCh38\") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection``  refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation``  refers to variants or locations that translate from the codon(s) represented by the defined concept."
+         "description": "Defined relationships between members of the categorical variant and the defining context. ``sequence_liftover`` refers to variants or locations that represent a congruent concept on a differing assembly of a human genome (e.g. \"GRCh37\" and \"GRCh38\") or gene (e.g. Locus Reference Genomic) sequence. ``transcript_projection`` refers to variants or locations that occur on transcripts projected from the defined genomic concept. ``codon_translation`` refers to variants or locations that translate from the codon(s) represented by the defined concept."
       }
    },
    "required": [

diff --git a/schema/cat-vrs/profiles/def/CanonicalAlleleProperties.rst b/schema/cat-vrs/profiles/def/CanonicalAlleleProperties.rst
@@ -17,5 +17,5 @@ Cat-VRS Constraints found in Canonical Alleles.
       - Description
    *  - constraints
       - _Not Specified_
-      - 0..1
+      - 1..1
       - 
diff --git a/schema/cat-vrs/profiles/def/CategoricalCnvProperties.rst b/schema/cat-vrs/profiles/def/CategoricalCnvProperties.rst
@@ -17,5 +17,5 @@ Cat-VRS Constraints found in CategoricalCnvs.
       - Description
    *  - constraints
       - _Not Specified_
-      - 0..1
+      - 1..1
       - 
diff --git a/schema/cat-vrs/profiles/def/ProteinSequenceConsequenceProperties.rst b/schema/cat-vrs/profiles/def/ProteinSequenceConsequenceProperties.rst
@@ -17,5 +17,5 @@ Cat-VRS Constraints found in Protein Sequence Consequences.
       - Description
    *  - constraints
       - _Not Specified_
-      - 0..1
+      - 1..1
       - 
diff --git a/schema/cat-vrs/profiles/json/CanonicalAlleleProperties b/schema/cat-vrs/profiles/json/CanonicalAlleleProperties
@@ -27,13 +27,16 @@
                                  "const": "transcript_projection"
                               }
                            }
-                        ]
+                        ],
+                        "maxContains": 2
                      }
                   }
                }
             ]
          }
       }
    },
-   "required": []
+   "required": [
+      "constraints"
+   ]
 }
diff --git a/schema/cat-vrs/profiles/json/CategoricalCnvProperties b/schema/cat-vrs/profiles/json/CategoricalCnvProperties
@@ -42,5 +42,7 @@
          ]
       }
    },
-   "required": []
+   "required": [
+      "constraints"
+   ]
 }
diff --git a/schema/cat-vrs/profiles/json/ProteinSequenceConsequenceProperties b/schema/cat-vrs/profiles/json/ProteinSequenceConsequenceProperties
@@ -18,13 +18,16 @@
                      "relations": {
                         "contains": {
                            "const": "codon_translation"
-                        }
+                        },
+                        "maxContains": 1
                      }
                   }
                }
             ]
          }
       }
    },
-   "required": []
+   "required": [
+      "constraints"
+   ]
 }