@sjcrh/proteinpaint-types 2.98.2-1 → 2.99.1-0

package/dist/chunk-NBLSSFQV.js

@@ -0,0 +1,91 @@
+import {
+  __toESM,
+  require_lib
+} from "./chunk-Z6B6IQIY.js";
+
+// dist/img.ts
+var import_typia = __toESM(require_lib(), 1);
+
+// src/routes/img.ts
+var imgPayload = {
+  request: {
+    typeId: "imgRequest"
+  },
+  response: {
+    typeId: "imgResponse"
+  }
+};
+
+// dist/img.ts
+var validimgRequest = (input) => {
+  const errors = [];
+  const __is = (input2) => {
+    return "object" === typeof input2 && null !== input2 && "string" === typeof input2.file;
+  };
+  if (false === __is(input)) {
+    const $report = import_typia.createValidate.report(errors);
+    ((input2, _path, _exceptionable = true) => {
+      const $vo0 = (input3, _path2, _exceptionable2 = true) => ["string" === typeof input3.file || $report(_exceptionable2, {
+        path: _path2 + ".file",
+        expected: "string",
+        value: input3.file
+      })].every((flag) => flag);
+      return ("object" === typeof input2 && null !== input2 || $report(true, {
+        path: _path + "",
+        expected: "imgRequest",
+        value: input2
+      })) && $vo0(input2, _path + "", true) || $report(true, {
+        path: _path + "",
+        expected: "imgRequest",
+        value: input2
+      });
+    })(input, "$input", true);
+  }
+  const success = 0 === errors.length;
+  return {
+    success,
+    errors,
+    data: success ? input : void 0
+  };
+};
+var validimgResponse = (input) => {
+  const errors = [];
+  const __is = (input2) => {
+    return "object" === typeof input2 && null !== input2 && ("string" === typeof input2.src && "string" === typeof input2.size);
+  };
+  if (false === __is(input)) {
+    const $report = import_typia.createValidate.report(errors);
+    ((input2, _path, _exceptionable = true) => {
+      const $vo0 = (input3, _path2, _exceptionable2 = true) => ["string" === typeof input3.src || $report(_exceptionable2, {
+        path: _path2 + ".src",
+        expected: "string",
+        value: input3.src
+      }), "string" === typeof input3.size || $report(_exceptionable2, {
+        path: _path2 + ".size",
+        expected: "string",
+        value: input3.size
+      })].every((flag) => flag);
+      return ("object" === typeof input2 && null !== input2 || $report(true, {
+        path: _path + "",
+        expected: "imgResponse",
+        value: input2
+      })) && $vo0(input2, _path + "", true) || $report(true, {
+        path: _path + "",
+        expected: "imgResponse",
+        value: input2
+      });
+    })(input, "$input", true);
+  }
+  const success = 0 === errors.length;
+  return {
+    success,
+    errors,
+    data: success ? input : void 0
+  };
+};
+
+export {
+  imgPayload,
+  validimgRequest,
+  validimgResponse
+};

package/dist/img.js

@@ -0,0 +1,11 @@
+import {
+  imgPayload,
+  validimgRequest,
+  validimgResponse
+} from "./chunk-NBLSSFQV.js";
+import "./chunk-Z6B6IQIY.js";
+export {
+  imgPayload,
+  validimgRequest,
+  validimgResponse
+};

package/dist/index.js

@@ -1,3 +1,8 @@
+import {
+  termsByIdsPayload,
+  validTermsByIdsRequest,
+  validTermsByIdsResponse
+} from "./chunk-QV7KKZV4.js";
 import {
   termdbTopTermsByTypePayload,
   validTermdbTopTermsByTypeRequest,
@@ -23,6 +28,11 @@ import {
   validWSImagesResponse,
   wsImagesPayload
 } from "./chunk-XLBSZOMF.js";
+import {
+  percentilePayload,
+  validPercentileRequest,
+  validPercentileResponse
+} from "./chunk-IORCECK2.js";
 import {
   rootTermPayload,
   validRootTermRequest,
@@ -59,10 +69,10 @@ import {
   validTermChildrenResponse
 } from "./chunk-5RZYB4M4.js";
 import {
-  termsByIdsPayload,
-  validTermsByIdsRequest,
-  validTermsByIdsResponse
-} from "./chunk-QV7KKZV4.js";
+  diffExpPayload,
+  validDERequest,
+  validDEResponse
+} from "./chunk-Z2WFGV6V.js";
 import {
   boxplotPayload,
   validBoxPlotRequest,
@@ -98,16 +108,16 @@ import {
   validNumericCategoriesRequest,
   validNumericCategoriesResponse
 } from "./chunk-JDJZ35H6.js";
-import {
-  percentilePayload,
-  validPercentileRequest,
-  validPercentileResponse
-} from "./chunk-IORCECK2.js";
 import {
   hicstatPayload,
   validHicstatRequest,
   validHicstatResponse
 } from "./chunk-QX7QLUKY.js";
+import {
+  imgPayload,
+  validimgRequest,
+  validimgResponse
+} from "./chunk-NBLSSFQV.js";
 import {
   isoformlstPayload,
   validIsoformLstRequest,
@@ -133,11 +143,6 @@ import {
   validSnpRequest,
   validSnpResponse
 } from "./chunk-XJCQEOPB.js";
-import {
-  diffExpPayload,
-  validDERequest,
-  validDEResponse
-} from "./chunk-Z2WFGV6V.js";
 import {
   GdcMafPayload,
   validGdcMafBuildRequest,
@@ -240,6 +245,7 @@ export {
   hicGenomePayload,
   hicdataPayload,
   hicstatPayload,
+  imgPayload,
   isoformlstPayload,
   ntseqPayload,
   numericCategoriesPayload,
@@ -350,6 +356,8 @@ export {
   validViolinResponse,
   validWSImagesRequest,
   validWSImagesResponse,
+  validimgRequest,
+  validimgResponse,
   violinPayload,
   wsImagesPayload
 };

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@sjcrh/proteinpaint-types",
-  "version": "2.98.2-1",
+  "version": "2.99.1-0",
   "type": "module",
   "description": "Shared type definitions between ProteinPaint server and client code",
   "main": "src/index.ts",

package/src/dataset.ts

@@ -567,10 +567,9 @@ export type GeneExpressionQuery = GeneExpressionQueryGdc | GeneExpressionQueryNa
 
 export type SingleCellGeneExpressionNative = {
 	src: 'native'
-	/** path to R rds or HDF5 files, each is a gene-by-cell matrix for a sample, with ".rdx" suffix. missing files are detected and handled */
+	/** path to HDF5 files. for now only hdf5 is supported.
+	each is a gene-by-cell matrix for a sample, with ".h5" suffix. missing files are detected and handled */
 	folder: string
-	/** HDF5 or RDS file, will deprecate RDS file later */
-	storage_type: 'HDF5' | 'RDS'
 	/** dynamically added getter */
 	get?: (q: any) => any
 	/** cached gene exp bins */
@@ -695,6 +694,17 @@ also, sampleView uses this to determine if to invoke the sc plot for a sample
 	geneExpression?: SingleCellGeneExpressionGdc | SingleCellGeneExpressionNative
 	/** Precomputed top differentialy expressed genes for a cell cluster, against rest of cells */
 	DEgenes?: SingleCellDEgeneGdc
+	/** supplies per-sample images. will create a new tab on the ui. one image per sample */
+	images?: SCImages
+}
+
+type SCImages = {
+	/** folder where the per-sample image files are stored, as "SCImages/<folder>/<sample>/<fileName>" */
+	folder: string
+	/** see above */
+	fileName: string
+	/**Used to name the image tab in the single cell plot */
+	label: string
 }
 
 type LdQuery = {
@@ -1012,6 +1022,8 @@ type MatrixSettings = {
 	 * tb.filter?.values[0]?.dt === 4).isOrdered */
 	sortByCNV?: boolean
 	cnvUnit?: 'log2ratio' | 'segmedian'
+	/** whether to show white cell border for SNVindel in oncoPrint mode */
+	oncoPrintSNVindelCellBorder?: boolean
 }
 
 type NumericDictTermClusterSettings = {

package/src/index.ts

@@ -41,6 +41,7 @@ export * from './routes/termdb.percentile.ts'
 export * from './routes/termdb.rootterm.ts'
 export * from './routes/termdb.termchildren.ts'
 export * from './routes/termdb.sampleImages.ts'
+export * from './routes/img.ts'
 export * from './routes/termdb.singlecellData.ts'
 export * from './routes/termdb.singlecellDEgenes.ts'
 export * from './routes/termdb.singlecellSamples.ts'

package/src/routes/img.ts

@@ -0,0 +1,23 @@
+import type { RoutePayload } from './routeApi.js'
+
+export type imgRequest = {
+	file: string
+}
+
+export type SrcImage = {
+	src: any
+}
+
+export type imgResponse = {
+	src: string
+	size: string
+}
+
+export const imgPayload: RoutePayload = {
+	request: {
+		typeId: 'imgRequest'
+	},
+	response: {
+		typeId: 'imgResponse'
+	}
+}