pre-release versioning

ga4gh · Sep 18, 2024 · b277adb · b277adb
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Showing 24 changed files with 98 additions and 98 deletions.
diff --git a/schema/vrs/json/Adjacency b/schema/vrs/json/Adjacency
@@ -1,6 +1,6 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/Adjacency",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Adjacency",
    "title": "Adjacency",
    "type": "object",
    "maturity": "draft",
@@ -39,7 +39,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/Extension"
+            "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/Extension"
          },
          "description": "A list of extensions to the Entity, that allow for capture of information not directly supported by elements defined in the model.",
          "$comment": "Extension objects have a key-value data structure that allows definition of custom fields in the data itself. Extensions are not expected to be natively understood, but may be used for pre-negotiated exchange of message attributes between systems."
@@ -53,7 +53,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/vrs/2.x/json/Expression"
+            "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Expression"
          }
       },
       "type": {
@@ -69,10 +69,10 @@
          "items": {
             "oneOf": [
                {
-                  "$ref": "/ga4gh/schema/vrs/2.x/json/SequenceLocation"
+                  "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/SequenceLocation"
                },
                {
-                  "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/IRI"
+                  "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/IRI"
                }
             ]
          },
@@ -84,13 +84,13 @@
          "description": "The sequence found between adjoined sequences.",
          "oneOf": [
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/LengthExpression"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/LengthExpression"
             },
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/LiteralSequenceExpression"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/LiteralSequenceExpression"
             },
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/ReferenceLengthExpression"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/ReferenceLengthExpression"
             }
          ]
       },

diff --git a/schema/vrs/json/Allele b/schema/vrs/json/Allele
@@ -1,6 +1,6 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/Allele",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Allele",
    "title": "Allele",
    "type": "object",
    "maturity": "draft",
@@ -39,7 +39,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/Extension"
+            "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/Extension"
          },
          "description": "A list of extensions to the Entity, that allow for capture of information not directly supported by elements defined in the model.",
          "$comment": "Extension objects have a key-value data structure that allows definition of custom fields in the data itself. Extensions are not expected to be natively understood, but may be used for pre-negotiated exchange of message attributes between systems."
@@ -53,7 +53,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/vrs/2.x/json/Expression"
+            "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Expression"
          }
       },
       "type": {
@@ -65,10 +65,10 @@
       "location": {
          "oneOf": [
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/SequenceLocation"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/SequenceLocation"
             },
             {
-               "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/IRI"
+               "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/IRI"
             }
          ],
          "description": "The location of the Allele"
@@ -77,13 +77,13 @@
          "description": "An expression of the sequence state",
          "oneOf": [
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/LengthExpression"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/LengthExpression"
             },
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/LiteralSequenceExpression"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/LiteralSequenceExpression"
             },
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/ReferenceLengthExpression"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/ReferenceLengthExpression"
             }
          ]
       }

diff --git a/schema/vrs/json/CisPhasedBlock b/schema/vrs/json/CisPhasedBlock
@@ -1,6 +1,6 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/CisPhasedBlock",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/CisPhasedBlock",
    "title": "CisPhasedBlock",
    "type": "object",
    "maturity": "draft",
@@ -38,7 +38,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/Extension"
+            "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/Extension"
          },
          "description": "A list of extensions to the Entity, that allow for capture of information not directly supported by elements defined in the model.",
          "$comment": "Extension objects have a key-value data structure that allows definition of custom fields in the data itself. Extensions are not expected to be natively understood, but may be used for pre-negotiated exchange of message attributes between systems."
@@ -52,7 +52,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/vrs/2.x/json/Expression"
+            "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Expression"
          }
       },
       "type": {
@@ -69,17 +69,17 @@
          "items": {
             "oneOf": [
                {
-                  "$ref": "/ga4gh/schema/vrs/2.x/json/Allele"
+                  "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Allele"
                },
                {
-                  "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/IRI"
+                  "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/IRI"
                }
             ]
          },
          "description": "A list of Alleles that are found in-cis on a shared molecule."
       },
       "sequenceReference": {
-         "$ref": "/ga4gh/schema/vrs/2.x/json/SequenceReference",
+         "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/SequenceReference",
          "description": "An optional Sequence Reference on which all of the in-cis Alleles are found. When defined, this may be used to implicitly define the `sequenceReference` attribute for each of the CisPhasedBlock member Alleles."
       }
    },

diff --git a/schema/vrs/json/CopyNumberChange b/schema/vrs/json/CopyNumberChange
@@ -1,6 +1,6 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/CopyNumberChange",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/CopyNumberChange",
    "title": "CopyNumberChange",
    "type": "object",
    "maturity": "draft",
@@ -39,7 +39,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/Extension"
+            "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/Extension"
          },
          "description": "A list of extensions to the Entity, that allow for capture of information not directly supported by elements defined in the model.",
          "$comment": "Extension objects have a key-value data structure that allows definition of custom fields in the data itself. Extensions are not expected to be natively understood, but may be used for pre-negotiated exchange of message attributes between systems."
@@ -53,16 +53,16 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/vrs/2.x/json/Expression"
+            "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Expression"
          }
       },
       "location": {
          "oneOf": [
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/SequenceLocation"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/SequenceLocation"
             },
             {
-               "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/IRI"
+               "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/IRI"
             }
          ],
          "description": "A location for which the number of systemic copies is described."
@@ -75,7 +75,7 @@
       },
       "copyChange": {
          "description": "MUST be a Coding representing one of \"EFO:0030069\" (complete genomic loss), \"EFO:0020073\" (high-level loss), \"EFO:0030068\" (low-level loss), \"EFO:0030067\" (loss), \"EFO:0030064\" (regional base ploidy), \"EFO:0030070\" (gain), \"EFO:0030071\" (low-level gain), \"EFO:0030072\" (high-level gain).",
-         "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/Coding"
+         "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/Coding"
       }
    },
    "required": [

diff --git a/schema/vrs/json/CopyNumberCount b/schema/vrs/json/CopyNumberCount
@@ -1,6 +1,6 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/CopyNumberCount",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/CopyNumberCount",
    "title": "CopyNumberCount",
    "type": "object",
    "maturity": "draft",
@@ -39,7 +39,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/Extension"
+            "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/Extension"
          },
          "description": "A list of extensions to the Entity, that allow for capture of information not directly supported by elements defined in the model.",
          "$comment": "Extension objects have a key-value data structure that allows definition of custom fields in the data itself. Extensions are not expected to be natively understood, but may be used for pre-negotiated exchange of message attributes between systems."
@@ -53,16 +53,16 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/vrs/2.x/json/Expression"
+            "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Expression"
          }
       },
       "location": {
          "oneOf": [
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/SequenceLocation"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/SequenceLocation"
             },
             {
-               "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/IRI"
+               "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/IRI"
             }
          ],
          "description": "A location for which the number of systemic copies is described."
@@ -76,7 +76,7 @@
       "copies": {
          "oneOf": [
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/Range"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Range"
             },
             {
                "type": "integer"

diff --git a/schema/vrs/json/DerivativeMolecule b/schema/vrs/json/DerivativeMolecule
@@ -1,6 +1,6 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/DerivativeMolecule",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/DerivativeMolecule",
    "title": "DerivativeMolecule",
    "type": "object",
    "maturity": "draft",
@@ -38,7 +38,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/Extension"
+            "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/Extension"
          },
          "description": "A list of extensions to the Entity, that allow for capture of information not directly supported by elements defined in the model.",
          "$comment": "Extension objects have a key-value data structure that allows definition of custom fields in the data itself. Extensions are not expected to be natively understood, but may be used for pre-negotiated exchange of message attributes between systems."
@@ -52,7 +52,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/vrs/2.x/json/Expression"
+            "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Expression"
          }
       },
       "type": {
@@ -68,10 +68,10 @@
          "items": {
             "oneOf": [
                {
-                  "$ref": "/ga4gh/schema/vrs/2.x/json/TraversalBlock"
+                  "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/TraversalBlock"
                },
                {
-                  "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/IRI"
+                  "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/IRI"
                }
             ]
          },

diff --git a/schema/vrs/json/Expression b/schema/vrs/json/Expression
@@ -1,6 +1,6 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/Expression",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Expression",
    "title": "Expression",
    "type": "object",
    "maturity": "draft",

diff --git a/schema/vrs/json/LengthExpression b/schema/vrs/json/LengthExpression
@@ -1,6 +1,6 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/LengthExpression",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/LengthExpression",
    "title": "LengthExpression",
    "type": "object",
    "maturity": "draft",
@@ -37,7 +37,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/Extension"
+            "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/Extension"
          },
          "description": "A list of extensions to the Entity, that allow for capture of information not directly supported by elements defined in the model.",
          "$comment": "Extension objects have a key-value data structure that allows definition of custom fields in the data itself. Extensions are not expected to be natively understood, but may be used for pre-negotiated exchange of message attributes between systems."
@@ -53,7 +53,7 @@
          "description": "The length of the sequence.",
          "oneOf": [
             {
-               "$ref": "/ga4gh/schema/vrs/2.x/json/Range"
+               "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Range"
             },
             {
                "type": "integer"

diff --git a/schema/vrs/json/LiteralSequenceExpression b/schema/vrs/json/LiteralSequenceExpression
@@ -1,6 +1,6 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/LiteralSequenceExpression",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/LiteralSequenceExpression",
    "title": "LiteralSequenceExpression",
    "type": "object",
    "maturity": "draft",
@@ -37,7 +37,7 @@
          "type": "array",
          "ordered": false,
          "items": {
-            "$ref": "/ga4gh/schema/gks-common/1.x/data-types/json/Extension"
+            "$ref": "/ga4gh/schema/gks-common/1.0.0-connect.2024-09.1/data-types/json/Extension"
          },
          "description": "A list of extensions to the Entity, that allow for capture of information not directly supported by elements defined in the model.",
          "$comment": "Extension objects have a key-value data structure that allows definition of custom fields in the data itself. Extensions are not expected to be natively understood, but may be used for pre-negotiated exchange of message attributes between systems."
@@ -50,7 +50,7 @@
          "default": "LiteralSequenceExpression"
       },
       "sequence": {
-         "$ref": "/ga4gh/schema/vrs/2.x/json/SequenceString",
+         "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/SequenceString",
          "description": "the literal sequence"
       }
    },

diff --git a/schema/vrs/json/Location b/schema/vrs/json/Location
@@ -1,10 +1,10 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/Location",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Location",
    "title": "Location",
    "type": "object",
    "description": "A contiguous segment of a biological sequence.",
-   "$ref": "/ga4gh/schema/vrs/2.x/json/SequenceLocation",
+   "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/SequenceLocation",
    "discriminator": {
       "propertyName": "type"
    }

diff --git a/schema/vrs/json/MolecularVariation b/schema/vrs/json/MolecularVariation
@@ -1,24 +1,24 @@
 {
    "$schema": "https://json-schema.org/draft/2020-12/schema",
-   "$id": "https://w3id.org/ga4gh/schema/vrs/2.x/json/MolecularVariation",
+   "$id": "https://w3id.org/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/MolecularVariation",
    "title": "MolecularVariation",
    "type": "object",
    "description": "A variation on a contiguous molecule.",
    "oneOf": [
       {
-         "$ref": "/ga4gh/schema/vrs/2.x/json/Adjacency"
+         "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Adjacency"
       },
       {
-         "$ref": "/ga4gh/schema/vrs/2.x/json/Allele"
+         "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Allele"
       },
       {
-         "$ref": "/ga4gh/schema/vrs/2.x/json/CisPhasedBlock"
+         "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/CisPhasedBlock"
       },
       {
-         "$ref": "/ga4gh/schema/vrs/2.x/json/DerivativeMolecule"
+         "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/DerivativeMolecule"
       },
       {
-         "$ref": "/ga4gh/schema/vrs/2.x/json/Terminus"
+         "$ref": "/ga4gh/schema/vrs/2.0.0-connect.2024-09.1/json/Terminus"
       }
    ],
    "discriminator": {