From d6d313728b39b457ec51e85d3dd8b02d56bce4c8 Mon Sep 17 00:00:00 2001
From: Gaofei Zhao <15748980+dippindots@users.noreply.github.com>
Date: Thu, 13 Jul 2023 16:58:27 -0400
Subject: [PATCH] Update api docs

---
 .../generated/CBioPortalAPIInternal-docs.json | 124 ++++++++++++++++++
 .../src/generated/CBioPortalAPIInternal.ts    | 113 ++++++++++++++++
 2 files changed, 237 insertions(+)

diff --git a/packages/cbioportal-ts-api-client/src/generated/CBioPortalAPIInternal-docs.json b/packages/cbioportal-ts-api-client/src/generated/CBioPortalAPIInternal-docs.json
index 8481eef52b7..c8b26a83a20 100644
--- a/packages/cbioportal-ts-api-client/src/generated/CBioPortalAPIInternal-docs.json
+++ b/packages/cbioportal-ts-api-client/src/generated/CBioPortalAPIInternal-docs.json
@@ -2450,6 +2450,43 @@
         }
       }
     },
+    "/structuralvariant-counts/fetch": {
+      "post": {
+        "tags": [
+          "Study View"
+        ],
+        "summary": "Fetch structural variant genes by study view filter",
+        "operationId": "fetchStructuralVariantCountsUsingPOST",
+        "consumes": [
+          "application/json"
+        ],
+        "produces": [
+          "application/json"
+        ],
+        "parameters": [
+          {
+            "in": "body",
+            "name": "studyViewFilter",
+            "description": "Study view filter",
+            "required": true,
+            "schema": {
+              "$ref": "#/definitions/StudyViewFilter"
+            }
+          }
+        ],
+        "responses": {
+          "200": {
+            "description": "OK",
+            "schema": {
+              "type": "array",
+              "items": {
+                "$ref": "#/definitions/AlterationCountByStructuralVariant"
+              }
+            }
+          }
+        }
+      }
+    },
     "/structuralvariant-genes/fetch": {
       "post": {
         "tags": [
@@ -3356,9 +3393,22 @@
           "type": "integer",
           "format": "int32"
         },
+        "entrezGeneIds": {
+          "type": "array",
+          "items": {
+            "type": "integer",
+            "format": "int32"
+          }
+        },
         "hugoGeneSymbol": {
           "type": "string"
         },
+        "hugoGeneSymbols": {
+          "type": "array",
+          "items": {
+            "type": "string"
+          }
+        },
         "matchingGenePanelIds": {
           "type": "array",
           "uniqueItems": true,
@@ -3380,10 +3430,68 @@
         "totalCount": {
           "type": "integer",
           "format": "int32"
+        },
+        "uniqueEventKey": {
+          "type": "string"
         }
       },
       "title": "AlterationCountByGene"
     },
+    "AlterationCountByStructuralVariant": {
+      "type": "object",
+      "properties": {
+        "entrezGeneIds": {
+          "type": "array",
+          "items": {
+            "type": "integer",
+            "format": "int32"
+          }
+        },
+        "gene1EntrezGeneId": {
+          "type": "integer",
+          "format": "int32"
+        },
+        "gene1HugoGeneSymbol": {
+          "type": "string"
+        },
+        "gene2EntrezGeneId": {
+          "type": "integer",
+          "format": "int32"
+        },
+        "gene2HugoGeneSymbol": {
+          "type": "string"
+        },
+        "hugoGeneSymbols": {
+          "type": "array",
+          "items": {
+            "type": "string"
+          }
+        },
+        "matchingGenePanelIds": {
+          "type": "array",
+          "uniqueItems": true,
+          "items": {
+            "type": "string"
+          }
+        },
+        "numberOfAlteredCases": {
+          "type": "integer",
+          "format": "int32"
+        },
+        "numberOfProfiledCases": {
+          "type": "integer",
+          "format": "int32"
+        },
+        "totalCount": {
+          "type": "integer",
+          "format": "int32"
+        },
+        "uniqueEventKey": {
+          "type": "string"
+        }
+      },
+      "title": "AlterationCountByStructuralVariant"
+    },
     "AlterationEnrichment": {
       "type": "object",
       "required": [
@@ -4044,9 +4152,22 @@
           "type": "integer",
           "format": "int32"
         },
+        "entrezGeneIds": {
+          "type": "array",
+          "items": {
+            "type": "integer",
+            "format": "int32"
+          }
+        },
         "hugoGeneSymbol": {
           "type": "string"
         },
+        "hugoGeneSymbols": {
+          "type": "array",
+          "items": {
+            "type": "string"
+          }
+        },
         "matchingGenePanelIds": {
           "type": "array",
           "uniqueItems": true,
@@ -4068,6 +4189,9 @@
         "totalCount": {
           "type": "integer",
           "format": "int32"
+        },
+        "uniqueEventKey": {
+          "type": "string"
         }
       },
       "title": "CopyNumberCountByGene"
diff --git a/packages/cbioportal-ts-api-client/src/generated/CBioPortalAPIInternal.ts b/packages/cbioportal-ts-api-client/src/generated/CBioPortalAPIInternal.ts
index 6a9ef5fed8b..1f5ed25ff62 100644
--- a/packages/cbioportal-ts-api-client/src/generated/CBioPortalAPIInternal.ts
+++ b/packages/cbioportal-ts-api-client/src/generated/CBioPortalAPIInternal.ts
@@ -4,8 +4,12 @@ type CallbackHandler = (err: any, res ? : request.Response) => void;
 export type AlterationCountByGene = {
     'entrezGeneId': number
 
+        'entrezGeneIds': Array < number >
+
         'hugoGeneSymbol': string
 
+        'hugoGeneSymbols': Array < string >
+
         'matchingGenePanelIds': Array < string >
 
         'numberOfAlteredCases': number
@@ -16,6 +20,32 @@ export type AlterationCountByGene = {
 
         'totalCount': number
 
+        'uniqueEventKey': string
+
+};
+export type AlterationCountByStructuralVariant = {
+    'entrezGeneIds': Array < number >
+
+        'gene1EntrezGeneId': number
+
+        'gene1HugoGeneSymbol': string
+
+        'gene2EntrezGeneId': number
+
+        'gene2HugoGeneSymbol': string
+
+        'hugoGeneSymbols': Array < string >
+
+        'matchingGenePanelIds': Array < string >
+
+        'numberOfAlteredCases': number
+
+        'numberOfProfiledCases': number
+
+        'totalCount': number
+
+        'uniqueEventKey': string
+
 };
 export type AlterationEnrichment = {
     'counts': Array < CountSummary >
@@ -306,8 +336,12 @@ export type CopyNumberCountByGene = {
 
         'entrezGeneId': number
 
+        'entrezGeneIds': Array < number >
+
         'hugoGeneSymbol': string
 
+        'hugoGeneSymbols': Array < string >
+
         'matchingGenePanelIds': Array < string >
 
         'numberOfAlteredCases': number
@@ -318,6 +352,8 @@ export type CopyNumberCountByGene = {
 
         'totalCount': number
 
+        'uniqueEventKey': string
+
 };
 export type CopyNumberCountIdentifier = {
     'alteration': number
@@ -5805,6 +5841,83 @@ export default class CBioPortalAPIInternal {
                 return response.body;
             });
         };
+    fetchStructuralVariantCountsUsingPOSTURL(parameters: {
+        'studyViewFilter': StudyViewFilter,
+        $queryParameters ? : any
+    }): string {
+        let queryParameters: any = {};
+        let path = '/structuralvariant-counts/fetch';
+
+        if (parameters.$queryParameters) {
+            Object.keys(parameters.$queryParameters).forEach(function(parameterName) {
+                var parameter = parameters.$queryParameters[parameterName];
+                queryParameters[parameterName] = parameter;
+            });
+        }
+        let keys = Object.keys(queryParameters);
+        return this.domain + path + (keys.length > 0 ? '?' + (keys.map(key => key + '=' + encodeURIComponent(queryParameters[key])).join('&')) : '');
+    };
+
+    /**
+     * Fetch structural variant genes by study view filter
+     * @method
+     * @name CBioPortalAPIInternal#fetchStructuralVariantCountsUsingPOST
+     * @param {} studyViewFilter - Study view filter
+     */
+    fetchStructuralVariantCountsUsingPOSTWithHttpInfo(parameters: {
+        'studyViewFilter': StudyViewFilter,
+        $queryParameters ? : any,
+        $domain ? : string
+    }): Promise < request.Response > {
+        const domain = parameters.$domain ? parameters.$domain : this.domain;
+        const errorHandlers = this.errorHandlers;
+        const request = this.request;
+        let path = '/structuralvariant-counts/fetch';
+        let body: any;
+        let queryParameters: any = {};
+        let headers: any = {};
+        let form: any = {};
+        return new Promise(function(resolve, reject) {
+            headers['Accept'] = 'application/json';
+            headers['Content-Type'] = 'application/json';
+
+            if (parameters['studyViewFilter'] !== undefined) {
+                body = parameters['studyViewFilter'];
+            }
+
+            if (parameters['studyViewFilter'] === undefined) {
+                reject(new Error('Missing required  parameter: studyViewFilter'));
+                return;
+            }
+
+            if (parameters.$queryParameters) {
+                Object.keys(parameters.$queryParameters).forEach(function(parameterName) {
+                    var parameter = parameters.$queryParameters[parameterName];
+                    queryParameters[parameterName] = parameter;
+                });
+            }
+
+            request('POST', domain + path, body, headers, queryParameters, form, reject, resolve, errorHandlers);
+
+        });
+    };
+
+    /**
+     * Fetch structural variant genes by study view filter
+     * @method
+     * @name CBioPortalAPIInternal#fetchStructuralVariantCountsUsingPOST
+     * @param {} studyViewFilter - Study view filter
+     */
+    fetchStructuralVariantCountsUsingPOST(parameters: {
+            'studyViewFilter': StudyViewFilter,
+            $queryParameters ? : any,
+            $domain ? : string
+        }): Promise < Array < AlterationCountByStructuralVariant >
+        > {
+            return this.fetchStructuralVariantCountsUsingPOSTWithHttpInfo(parameters).then(function(response: request.Response) {
+                return response.body;
+            });
+        };
     fetchStructuralVariantGenesUsingPOSTURL(parameters: {
         'studyViewFilter': StudyViewFilter,
         $queryParameters ? : any