@sjcrh/proteinpaint-types 2.166.0 → 2.167.0

package/dist/{chunk-JT4DSNJ3.js → chunk-E4Z7PJZQ.js}

@@ -73,7 +73,7 @@ var validBoxPlotRequest = (input) => {
   const errors = [];
   const __is = (input2) => {
     const $join = import_typia.createValidate.join;
-    const $io0 = (input3) => "object" === typeof input3.tw && null !== input3.tw && $iu6(input3.tw) && "string" === typeof input3.genome && "string" === typeof input3.dslabel && "boolean" === typeof input3.isLogScale && "boolean" === typeof input3.orderByMedian && (void 0 === input3.overlayTw || "object" === typeof input3.overlayTw && null !== input3.overlayTw && $iu6(input3.overlayTw)) && (void 0 === input3.divideTw || "object" === typeof input3.divideTw && null !== input3.divideTw && $iu6(input3.divideTw)) && (void 0 === input3.filter || "object" === typeof input3.filter && null !== input3.filter && $io6(input3.filter)) && true && true && (void 0 === input3.removeOutliers || "boolean" === typeof input3.removeOutliers);
+    const $io0 = (input3) => "object" === typeof input3.tw && null !== input3.tw && $iu6(input3.tw) && "string" === typeof input3.genome && "string" === typeof input3.dslabel && "boolean" === typeof input3.isLogScale && "boolean" === typeof input3.orderByMedian && (void 0 === input3.removeOutliers || "boolean" === typeof input3.removeOutliers) && (void 0 === input3.showAssocTests || "boolean" === typeof input3.showAssocTests) && (void 0 === input3.overlayTw || "object" === typeof input3.overlayTw && null !== input3.overlayTw && $iu6(input3.overlayTw)) && (void 0 === input3.divideTw || "object" === typeof input3.divideTw && null !== input3.divideTw && $iu6(input3.divideTw)) && (void 0 === input3.filter || "object" === typeof input3.filter && null !== input3.filter && $io6(input3.filter)) && true && true;
     const $io1 = (input3) => (void 0 === input3.id || "string" === typeof input3.id) && (void 0 === input3.$id || "string" === typeof input3.$id) && (void 0 === input3.isAtomic || true === input3.isAtomic) && true && (void 0 === input3.settings || "object" === typeof input3.settings && null !== input3.settings && false === Array.isArray(input3.settings) && $io2(input3.settings)) && true && (void 0 === input3.minNumSamples || "number" === typeof input3.minNumSamples) && true && ("object" === typeof input3.term && null !== input3.term && $iu7(input3.term)) && ("object" === typeof input3.q && null !== input3.q && $io43(input3.q)) && "QualTWValues" === input3.type;
     const $io2 = (input3) => Object.keys(input3).every((key) => {
       const value = input3[key];
@@ -340,6 +340,14 @@ var validBoxPlotRequest = (input) => {
         path: _path2 + ".orderByMedian",
         expected: "boolean",
         value: input3.orderByMedian
+      }), void 0 === input3.removeOutliers || "boolean" === typeof input3.removeOutliers || $report(_exceptionable2, {
+        path: _path2 + ".removeOutliers",
+        expected: "(boolean | undefined)",
+        value: input3.removeOutliers
+      }), void 0 === input3.showAssocTests || "boolean" === typeof input3.showAssocTests || $report(_exceptionable2, {
+        path: _path2 + ".showAssocTests",
+        expected: "(boolean | undefined)",
+        value: input3.showAssocTests
       }), void 0 === input3.overlayTw || ("object" === typeof input3.overlayTw && null !== input3.overlayTw || $report(_exceptionable2, {
         path: _path2 + ".overlayTw",
         expected: "(ConditionTW | GvCustomGsTW | GvPredefinedGsTW | GvValuesTW | NumTWBinary | NumTWCont | NumTWCustomBin | NumTWRegularBin | NumTWSpline | QualTWCustomGS | QualTWPredefinedGS | QualTWValues | SnpsTW | undefined)",
@@ -364,11 +372,7 @@ var validBoxPlotRequest = (input) => {
         path: _path2 + ".filter",
         expected: "(Filter | undefined)",
         value: input3.filter
-      }), true, true, void 0 === input3.removeOutliers || "boolean" === typeof input3.removeOutliers || $report(_exceptionable2, {
-        path: _path2 + ".removeOutliers",
-        expected: "(boolean | undefined)",
-        value: input3.removeOutliers
-      })].every((flag) => flag);
+      }), true, true].every((flag) => flag);
       const $vo1 = (input3, _path2, _exceptionable2 = true) => [void 0 === input3.id || "string" === typeof input3.id || $report(_exceptionable2, {
         path: _path2 + ".id",
         expected: "(string | undefined)",
@@ -4251,7 +4255,7 @@ var validBoxPlotResponse = (input) => {
         return "object" === typeof value && null !== value && $io2(value);
       return true;
     });
-    const $io2 = (input3) => "string" === typeof input3.chartId && (Array.isArray(input3.plots) && input3.plots.every((elem) => "object" === typeof elem && null !== elem && $io3(elem))) && true && (void 0 === input3.absMin || "number" === typeof input3.absMin) && (void 0 === input3.absMax || "number" === typeof input3.absMax) && (null === input3.uncomputableValues || void 0 === input3.uncomputableValues || Array.isArray(input3.uncomputableValues) && input3.uncomputableValues.every((elem) => "object" === typeof elem && null !== elem && $io8(elem)));
+    const $io2 = (input3) => "string" === typeof input3.chartId && (Array.isArray(input3.plots) && input3.plots.every((elem) => "object" === typeof elem && null !== elem && $io3(elem))) && true && (void 0 === input3.absMin || "number" === typeof input3.absMin) && (void 0 === input3.absMax || "number" === typeof input3.absMax) && (null === input3.uncomputableValues || void 0 === input3.uncomputableValues || Array.isArray(input3.uncomputableValues) && input3.uncomputableValues.every((elem) => "object" === typeof elem && null !== elem && $io8(elem))) && true;
     const $io3 = (input3) => "object" === typeof input3.boxplot && null !== input3.boxplot && $io4(input3.boxplot) && (void 0 === input3.color || "string" === typeof input3.color) && ("object" === typeof input3.descrStats && null !== input3.descrStats && false === Array.isArray(input3.descrStats) && $io6(input3.descrStats)) && (void 0 === input3.isHidden || "boolean" === typeof input3.isHidden) && "string" === typeof input3.key && true && (void 0 === input3.seriesId || "string" === typeof input3.seriesId);
     const $io4 = (input3) => (void 0 === input3.w1 || "number" === typeof input3.w1) && (void 0 === input3.w2 || "number" === typeof input3.w2) && "number" === typeof input3.p05 && "number" === typeof input3.p25 && "number" === typeof input3.p50 && "number" === typeof input3.p75 && "number" === typeof input3.p95 && "number" === typeof input3.iqr && (Array.isArray(input3.out) && input3.out.every((elem) => "object" === typeof elem && null !== elem && $io5(elem))) && "string" === typeof input3.label;
     const $io5 = (input3) => "number" === typeof input3.value;
@@ -4372,7 +4376,7 @@ var validBoxPlotResponse = (input) => {
         path: _path2 + ".uncomputableValues",
         expected: "(Array<__type>.o1 | null | undefined)",
         value: input3.uncomputableValues
-      })].every((flag) => flag);
+      }), true].every((flag) => flag);
       const $vo3 = (input3, _path2, _exceptionable2 = true) => [("object" === typeof input3.boxplot && null !== input3.boxplot || $report(_exceptionable2, {
         path: _path2 + ".boxplot",
         expected: "BoxPlotData & { label: string; }",

package/dist/{chunk-TR2MSSP3.js → chunk-GIPUG4HD.js}

@@ -22,7 +22,7 @@ var validChatRequest = (input) => {
   const errors = [];
   const __is = (input2) => {
     const $join = import_typia.createValidate.join;
-    const $io0 = (input3) => "string" === typeof input3.genome && "string" === typeof input3.dslabel && (void 0 === input3.filter || "object" === typeof input3.filter && null !== input3.filter && $io1(input3.filter)) && true && "string" === typeof input3.prompt && true;
+    const $io0 = (input3) => "string" === typeof input3.genome && "string" === typeof input3.dslabel && (void 0 === input3.filter || "object" === typeof input3.filter && null !== input3.filter && $io1(input3.filter)) && "string" === typeof input3.prompt && true;
     const $io1 = (input3) => "tvslst" === input3.type && "boolean" === typeof input3["in"] && "string" === typeof input3.join && (void 0 === input3.tag || "string" === typeof input3.tag) && (Array.isArray(input3.lst) && input3.lst.every((elem) => "object" === typeof elem && null !== elem && $iu0(elem)));
     const $io2 = (input3) => "tvs" === input3.type && ("object" === typeof input3.tvs && null !== input3.tvs && $iu4(input3.tvs));
     const $io3 = (input3) => (void 0 === input3.join || "string" === typeof input3.join) && (void 0 === input3.isnot || "boolean" === typeof input3.isnot) && ("object" === typeof input3.term && null !== input3.term && $io4(input3.term)) && (void 0 === input3.groupset_label || "string" === typeof input3.groupset_label) && (Array.isArray(input3.values) && input3.values.every((elem) => "object" === typeof elem && null !== elem && false === Array.isArray(elem) && $io6(elem)));
@@ -185,7 +185,7 @@ var validChatRequest = (input) => {
         path: _path2 + ".filter",
         expected: "(Filter | undefined)",
         value: input3.filter
-      }), true, "string" === typeof input3.prompt || $report(_exceptionable2, {
+      }), "string" === typeof input3.prompt || $report(_exceptionable2, {
         path: _path2 + ".prompt",
         expected: "string",
         value: input3.prompt
@@ -2207,28 +2207,61 @@ var validChatRequest = (input) => {
 var validChatResponse = (input) => {
   const errors = [];
   const __is = (input2) => {
-    const $io0 = (input3) => ("html" === input3.type || "plot" === input3.type || "json" === input3.type) && (void 0 === input3.html || "string" === typeof input3.html) && true;
-    return "object" === typeof input2 && null !== input2 && $io0(input2);
+    const $io0 = (input3) => "html" === input3.type && "string" === typeof input3.html;
+    const $io1 = (input3) => "plot" === input3.type && ("object" === typeof input3.plot && null !== input3.plot && true);
+    const $iu0 = (input3) => (() => {
+      if ("html" === input3.type)
+        return $io0(input3);
+      if ("plot" === input3.type)
+        return $io1(input3);
+      return false;
+    })();
+    return "object" === typeof input2 && null !== input2 && $iu0(input2);
   };
   if (false === __is(input)) {
     const $report = import_typia.createValidate.report(errors);
     ((input2, _path, _exceptionable = true) => {
-      const $vo0 = (input3, _path2, _exceptionable2 = true) => ["html" === input3.type || "plot" === input3.type || "json" === input3.type || $report(_exceptionable2, {
+      const $vo0 = (input3, _path2, _exceptionable2 = true) => ["html" === input3.type || $report(_exceptionable2, {
         path: _path2 + ".type",
-        expected: '("html" | "json" | "plot")',
+        expected: '"html"',
         value: input3.type
-      }), void 0 === input3.html || "string" === typeof input3.html || $report(_exceptionable2, {
+      }), "string" === typeof input3.html || $report(_exceptionable2, {
         path: _path2 + ".html",
-        expected: "(string | undefined)",
+        expected: "string",
         value: input3.html
-      }), true].every((flag) => flag);
+      })].every((flag) => flag);
+      const $vo1 = (input3, _path2, _exceptionable2 = true) => ["plot" === input3.type || $report(_exceptionable2, {
+        path: _path2 + ".type",
+        expected: '"plot"',
+        value: input3.type
+      }), ("object" === typeof input3.plot && null !== input3.plot && false === Array.isArray(input3.plot) || $report(_exceptionable2, {
+        path: _path2 + ".plot",
+        expected: "object",
+        value: input3.plot
+      })) && $vo2(input3.plot, _path2 + ".plot", _exceptionable2) || $report(_exceptionable2, {
+        path: _path2 + ".plot",
+        expected: "object",
+        value: input3.plot
+      })].every((flag) => flag);
+      const $vo2 = (input3, _path2, _exceptionable2 = true) => true;
+      const $vu0 = (input3, _path2, _exceptionable2 = true) => (() => {
+        if ("html" === input3.type)
+          return $vo0(input3, _path2, _exceptionable2);
+        if ("plot" === input3.type)
+          return $vo1(input3, _path2, _exceptionable2);
+        return $report(_exceptionable2, {
+          path: _path2,
+          expected: "(HtmlResponse | PlotResponse)",
+          value: input3
+        });
+      })();
       return ("object" === typeof input2 && null !== input2 || $report(true, {
         path: _path + "",
-        expected: "ChatResponse",
+        expected: "(HtmlResponse | PlotResponse)",
         value: input2
-      })) && $vo0(input2, _path + "", true) || $report(true, {
+      })) && $vu0(input2, _path + "", true) || $report(true, {
         path: _path + "",
-        expected: "ChatResponse",
+        expected: "(HtmlResponse | PlotResponse)",
         value: input2
       });
     })(input, "$input", true);

package/dist/index.js

@@ -132,7 +132,7 @@ import {
   boxplotPayload,
   validBoxPlotRequest,
   validBoxPlotResponse
-} from "./chunk-JT4DSNJ3.js";
+} from "./chunk-E4Z7PJZQ.js";
 import {
   termdbCategoriesPayload,
   validCategoriesRequest,
@@ -142,7 +142,7 @@ import {
   ChatPayload,
   validChatRequest,
   validChatResponse
-} from "./chunk-TR2MSSP3.js";
+} from "./chunk-GIPUG4HD.js";
 import {
   termdbClusterPayload,
   validTermdbClusterRequest,

package/dist/termdb.boxplot.js

@@ -2,7 +2,7 @@ import {
   boxplotPayload,
   validBoxPlotRequest,
   validBoxPlotResponse
-} from "./chunk-JT4DSNJ3.js";
+} from "./chunk-E4Z7PJZQ.js";
 import "./chunk-YNHC5SXO.js";
 export {
   boxplotPayload,

package/dist/termdb.chat.js

@@ -2,7 +2,7 @@ import {
   ChatPayload,
   validChatRequest,
   validChatResponse
-} from "./chunk-TR2MSSP3.js";
+} from "./chunk-GIPUG4HD.js";
 import "./chunk-YNHC5SXO.js";
 export {
   ChatPayload,

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@sjcrh/proteinpaint-types",
-  "version": "2.166.0",
+  "version": "2.167.0",
   "type": "module",
   "description": "Shared type definitions between ProteinPaint server and client code",
   "main": "src/index.ts",

package/src/dataset.ts

@@ -1172,6 +1172,12 @@ type CorrelationVolcano = {
 	}
 }
 
+/** Configurations for box plots */
+type BoxPlots = {
+	/** If true, allows user to 'remove outliers' from burger menu */
+	removeOutliers: boolean
+}
+
 type UiLabels = {
 	[propName: string]: string | { label: string; [otherAttr: string]: string }
 }
@@ -1739,6 +1745,7 @@ export type Cohort = {
 	scatterplots?: Scatterplots
 	termdb: Termdb
 	hiddenTermIds?: string[]
+	boxplots?: BoxPlots
 }
 
 /** Customizations specific to the mass nav component */

package/src/routes/termdb.boxplot.ts

@@ -14,6 +14,9 @@ export type BoxPlotRequest = {
 	isLogScale: boolean
 	/** sort plots by median value */
 	orderByMedian: boolean
+	removeOutliers?: boolean
+	/** If true, show association tests table */
+	showAssocTests?: boolean
 	/** term2 */
 	overlayTw?: TermWrapper
 	/** term0 */
@@ -21,7 +24,6 @@ export type BoxPlotRequest = {
 	filter?: Filter
 	filter0?: any
 	__protected__: any
-	removeOutliers?: boolean
 }
 
 export type BoxPlotResponse = {
@@ -52,6 +54,7 @@ export type BoxPlotChartEntry = {
 	absMin?: number
 	absMax?: number
 	uncomputableValues?: { label: string; value: number }[] | null
+	wilcoxon: any
 }
 
 // individual boxplot

package/src/routes/termdb.chat.ts

@@ -6,46 +6,24 @@ export type ChatRequest = {
 	genome: string
 	dslabel: string
 	filter?: Filter
-	filter0?: any // gdc
 	/** user prompt */
 	prompt: string
-	__protected__: any
+	__protected__?: any
 }
 
-export type numeric_filter = {
-	lower: number
-	upper: number
+type HtmlResponse = {
+	type: 'html'
+	/** for display only */
+	html: string
 }
-
-export type categorical_filter = {
-	name: string
-}
-
-export type filter_variable = {
-	name: string
-	variable_type: 'float' | 'categories'
-	cutoff: numeric_filter | categorical_filter
-}
-
-export type summary = {
-	group_categories: string
-	overlay?: string
-	divide_by?: string
-	filter?: filter_variable
-}
-
-export type plot = {
-	/** Different chart types currently supported by the AI chatbot, will add types for the other charts when they will be implemented */
-	chartType: summary | 'survival' | 'hierarchial' | 'snv_indel' | 'cnv' | 'variant_calling' | 'none' | 'dge'
+export type PlotResponse = {
+	type: 'plot'
+	/** plot state. Currently only supports summary chart, will add other chart types later */
+	plot: object
+	/** Specifies what action to take e.g. Summary plot or no action. Will add more chart types later */
 }
 
-export type ChatResponse = {
-	type: 'html' | 'plot' | 'json'
-	/** when type=html, this value is set meaning server returns a chat response */
-	html?: string
-	/** when type=plot. value is json */
-	plot?: any
-}
+export type ChatResponse = HtmlResponse | PlotResponse
 
 export const ChatPayload: RoutePayload = {
 	request: {