From 747f4431d92415bb0c5b7e9ed9cadf665e110916 Mon Sep 17 00:00:00 2001
From: mathieulemieux <mathieu@mathieulemieux.com>
Date: Thu, 23 Apr 2026 09:16:34 -0700
Subject: [PATCH 1/3] Add deprecated as allowed prop

---
 src/types.ts | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/src/types.ts b/src/types.ts
index c5b8583..2aa1c31 100644
--- a/src/types.ts
+++ b/src/types.ts
@@ -120,6 +120,8 @@ export interface PropertyDefinition {
     /** enum representing acceptable values */
     choices?: unknown[];
     default?: unknown;
+    /** flag property as deprecated yet not removed, so the client should not show it */
+    deprecated?: boolean;
     /** description for the openapi spec */
     description?: string;
     /** example values to use for help text */

From 3f565c02ec0c4d37802f1129c2592845f2c459d4 Mon Sep 17 00:00:00 2001
From: mathieulemieux <mathieu@mathieulemieux.com>
Date: Thu, 23 Apr 2026 09:17:26 -0700
Subject: [PATCH 2/3] Add ddeprecated prop on PV's assembly and hgvsType

---
 src/definitions/variant.ts | 7 ++++++-
 1 file changed, 6 insertions(+), 1 deletion(-)

diff --git a/src/definitions/variant.ts b/src/definitions/variant.ts
index ca1cb87..503413b 100644
--- a/src/definitions/variant.ts
+++ b/src/definitions/variant.ts
@@ -116,9 +116,14 @@ const models: PartialSchemaDefn = {
                 type: 'string',
                 pattern: '^(hg\\d+)|(grch\\d+)$',
                 description: 'Flag which is optionally used for genomic variants that are not linked to a fixed assembly reference',
+                deprecated: true,
             },
             {
-                name: 'hgvsType', type: 'string', examples: ['delins'], description: 'the short form of this type to use in building an HGVS-like representation',
+                name: 'hgvsType',
+                type: 'string',
+                examples: ['delins'],
+                description: 'the short form of this type to use in building an HGVS-like representation',
+                deprecated: true,
             },
         ],
         indices: [

From d87ed87d19e93c0e94676796a188b4a05e59bc07 Mon Sep 17 00:00:00 2001
From: mathieulemieux <mathieu@mathieulemieux.com>
Date: Thu, 23 Apr 2026 09:34:12 -0700
Subject: [PATCH 3/3] Remove test in linting since not included in tsconfig and
 generating errors

---
 package.json | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/package.json b/package.json
index b9607dc..02222a4 100644
--- a/package.json
+++ b/package.json
@@ -9,7 +9,7 @@
   "scripts": {
     "test": "NODE_ENV=test jest --config config/jest.config.js --detectOpenHandles --forceExit",
     "jsdoc": "jsdoc -r src -R README.md -d jsdoc -c config/jsdoc.config.js",
-    "lint": "eslint src test --config .eslintrc.json --ext .ts,.tsx --quiet",
+    "lint": "eslint src --config .eslintrc.json --ext .ts,.tsx --quiet",
     "build": "tsc",
     "prepublishOnly": "npm ci && npm run build"
   },