@sjcrh/proteinpaint-types 2.126.0 → 2.126.1

package/dist/{chunk-A3XJW6BZ.js → chunk-XZAH6P4D.js}

@@ -21,7 +21,7 @@ var genesetEnrichmentPayload = {
 var validGenesetEnrichmentRequest = (input) => {
   const errors = [];
   const __is = (input2) => {
-    const $io0 = (input3) => Array.isArray(input3.genes) && input3.genes.every((elem) => "string" === typeof elem) && (Array.isArray(input3.fold_change) && input3.fold_change.every((elem) => "number" === typeof elem)) && "boolean" === typeof input3.filter_non_coding_genes && "string" === typeof input3.genome && "string" === typeof input3.geneSetGroup && (void 0 === input3.geneset_name || "string" === typeof input3.geneset_name) && (void 0 === input3.pickle_file || "string" === typeof input3.pickle_file) && "number" === typeof input3.num_permutations && ("blitzgsea" === input3.method || "cerno" === input3.method);
+    const $io0 = (input3) => Array.isArray(input3.genes) && input3.genes.every((elem) => "string" === typeof elem) && (Array.isArray(input3.fold_change) && input3.fold_change.every((elem) => "number" === typeof elem)) && "boolean" === typeof input3.filter_non_coding_genes && "string" === typeof input3.genome && "string" === typeof input3.geneSetGroup && (void 0 === input3.geneset_name || "string" === typeof input3.geneset_name) && (void 0 === input3.pickle_file || "string" === typeof input3.pickle_file) && "number" === typeof input3.num_permutations;
     return "object" === typeof input2 && null !== input2 && $io0(input2);
   };
   if (false === __is(input)) {
@@ -75,10 +75,6 @@ var validGenesetEnrichmentRequest = (input) => {
         path: _path2 + ".num_permutations",
         expected: "number",
         value: input3.num_permutations
-      }), "blitzgsea" === input3.method || "cerno" === input3.method || $report(_exceptionable2, {
-        path: _path2 + ".method",
-        expected: '("blitzgsea" | "cerno")',
-        value: input3.method
       })].every((flag) => flag);
       return ("object" === typeof input2 && null !== input2 || $report(true, {
         path: _path + "",

package/dist/genesetEnrichment.js

@@ -2,7 +2,7 @@ import {
   genesetEnrichmentPayload,
   validGenesetEnrichmentRequest,
   validGenesetEnrichmentResponse
-} from "./chunk-A3XJW6BZ.js";
+} from "./chunk-XZAH6P4D.js";
 import "./chunk-CNSSF43V.js";
 export {
   genesetEnrichmentPayload,

package/dist/index.js

@@ -195,7 +195,7 @@ import {
   genesetEnrichmentPayload,
   validGenesetEnrichmentRequest,
   validGenesetEnrichmentResponse
-} from "./chunk-A3XJW6BZ.js";
+} from "./chunk-XZAH6P4D.js";
 import {
   genesetOverrepresentationPayload,
   validGenesetOverrepresentationRequest,

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@sjcrh/proteinpaint-types",
-  "version": "2.126.0",
+  "version": "2.126.1",
   "type": "module",
   "description": "Shared type definitions between ProteinPaint server and client code",
   "main": "src/index.ts",

package/src/dataset.ts

@@ -1929,12 +1929,6 @@ export type PreInit = {
 	retryDelay?: number
 	/** maximum number of times to call preInit.getStatus() before giving up */
 	retryMax?: number
-	/**
-	 * optional callback to send notifications of pre-init errors
-	 * for St. Jude, this may reuse code that post to Slack channel;
-	 * in dev and other portals, this may use custom callbacks
-	 * */
-	errorCallback?: (response: PreInitStatus) => void
 	/**
 	 * dev only, used to test preInit handling by simulating different
 	 * responses in a known sequence of steps that may edit the preInit
@@ -1971,8 +1965,19 @@ export type Mds3 = BaseMds & {
 		retryDelay?: number
 		/** maximum number of times to call preInit.getStatus() before giving up */
 		retryMax?: number
+		/** server-computed cumulative count of the attempted init retries */
+		currentRetry?: number
+		/**
+		 * optional callback to send notifications of pre-init errors
+		 * for St. Jude, this may reuse code that post to Slack channel;
+		 * in dev and other portals, this may use custom callbacks
+		 * */
+		errorCallback?: (response: PreInitStatus) => void
 	}
-	initErrorCallback?: (a: any) => void
+	/** optional callback to invoke non-blocking code after dataset query validation in mds3.init.js;
+	 * for GDC, this callback is created after buildDictionary in initGdc.js
+	 **/
+	initNonblocking?: (a: any) => void
 	viewModes?: ViewMode[]
 	dsinfo?: KeyVal[]
 	queries?: Mds3Queries

package/src/routes/genesetEnrichment.ts

@@ -17,8 +17,6 @@ export type GenesetEnrichmentRequest = {
 	pickle_file?: string
 	/** Number of permutations to be carried out for GSEA analysis */
 	num_permutations: number
-	/** Method used for GSEA blitzgsea/cerno */
-	method: 'blitzgsea' | 'cerno'
 }
 
 type pathway_attributes = {