@platforma-open/milaboratories.vj-usage.model 2.0.0

package/dist/index.cjs

@@ -0,0 +1,73 @@
+'use strict';
+
+var model$1 = require('@platforma-sdk/model');
+
+// src/index.ts
+var model = model$1.BlockModel.create().withArgs({}).withUiState({
+  blockTitle: "V/J Usage",
+  weightedFlag: true,
+  vUsagePlotState: {
+    title: "V Usage",
+    template: "heatmap",
+    currentTab: "settings"
+  },
+  jUsagePlotState: {
+    title: "V Usage",
+    template: "heatmap",
+    currentTab: null
+  },
+  vjUsagePlotState: {
+    title: "V/J Usage",
+    template: "heatmap",
+    currentTab: null
+  }
+}).argsValid(
+  (ctx) => ctx.args.vGeneRef !== void 0 && ctx.args.jGeneRef !== void 0 && ctx.args.abundanceRef !== void 0
+).output("vGeneOptions", (ctx) => ctx.resultPool.getOptions(
+  (c) => model$1.isPColumnSpec(c) && c.valueType === "String" && (c.name === "pl7.app/vdj/geneHit" || c.name === "pl7.app/vdj/geneHitWithAllele") && c.domain?.["pl7.app/vdj/reference"] === "VGene"
+)).output("jGeneOptions", (ctx) => {
+  const inputRef = ctx.args.vGeneRef;
+  if (inputRef === void 0) return void 0;
+  const vGeneSpec = ctx.resultPool.getPColumnSpecByRef(inputRef);
+  if (vGeneSpec === void 0) return void 0;
+  return ctx.resultPool.getCanonicalOptions({ main: inputRef }, [
+    {
+      axes: [{ anchor: "main", idx: 0 }],
+      name: vGeneSpec.name,
+      domain: {
+        "pl7.app/vdj/reference": "JGene",
+        "pl7.app/vdj/scClonotypeChain": { anchor: "main" },
+        "pl7.app/vdj/scClonotypeChain/index": { anchor: "main" }
+      }
+    }
+  ], { ignoreMissingDomains: true });
+}).output("abundanceOptions", (ctx) => {
+  const inputRef = ctx.args.vGeneRef;
+  if (inputRef === void 0) return void 0;
+  return ctx.resultPool.getCanonicalOptions(
+    { main: inputRef },
+    {
+      axes: [{
+        /* sampleId */
+      }, { anchor: "main", idx: 0 }],
+      annotations: {
+        "pl7.app/isAbundance": "true",
+        "pl7.app/abundance/normalized": "false"
+      }
+    }
+  );
+}).output("pf", (ctx) => {
+  const pCols = ctx.outputs?.resolve("pf")?.getPColumns();
+  if (pCols === void 0) {
+    return void 0;
+  }
+  return model$1.createPFrameForGraphs(ctx, pCols);
+}).output("isRunning", (ctx) => ctx.outputs?.getIsReadyOrError() === false).title((ctx) => ctx.uiState?.blockTitle ?? "V/J Usage").sections((_) => [
+  { type: "link", href: "/", label: "V Gene Usage" },
+  { type: "link", href: "/jUsage", label: "J Gene Usage" },
+  { type: "link", href: "/vjUsage", label: "V/J Gene Usage" }
+]).done();
+
+exports.model = model;
+//# sourceMappingURL=index.cjs.map
+//# sourceMappingURL=index.cjs.map

package/dist/index.cjs.map

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type { GraphMakerState } from '@milaboratories/graph-maker';\nimport type { InferOutputsType, PlRef, SUniversalPColumnId } from '@platforma-sdk/model';\nimport { BlockModel, createPFrameForGraphs, isPColumnSpec } from '@platforma-sdk/model';\n\nexport type BlockArgs = {\n  vGeneRef?: PlRef;\n  jGeneRef?: SUniversalPColumnId;\n  abundanceRef?: SUniversalPColumnId;\n};\n\nexport type UiState = {\n  blockTitle: string;\n  weightedFlag: boolean;\n  vUsagePlotState: GraphMakerState;\n  jUsagePlotState: GraphMakerState;\n  vjUsagePlotState: GraphMakerState;\n};\n\nexport const model = BlockModel.create()\n\n  .withArgs<BlockArgs>({})\n\n  .withUiState<UiState>({\n    blockTitle: 'V/J Usage',\n    weightedFlag: true,\n    vUsagePlotState: {\n      title: 'V Usage',\n      template: 'heatmap',\n      currentTab: 'settings',\n    },\n    jUsagePlotState: {\n      title: 'V Usage',\n      template: 'heatmap',\n      currentTab: null,\n    },\n    vjUsagePlotState: {\n      title: 'V/J Usage',\n      template: 'heatmap',\n      currentTab: null,\n    },\n  })\n\n  .argsValid((ctx) =>\n    ctx.args.vGeneRef !== undefined\n    && ctx.args.jGeneRef !== undefined\n    && ctx.args.abundanceRef !== undefined,\n  )\n\n  .output('vGeneOptions', (ctx) =>\n    ctx.resultPool.getOptions((c) =>\n      isPColumnSpec(c) && c.valueType === 'String'\n      && (c.name === 'pl7.app/vdj/geneHit' || c.name === 'pl7.app/vdj/geneHitWithAllele')\n      && c.domain?.['pl7.app/vdj/reference'] === 'VGene',\n    ))\n\n  .output('jGeneOptions', (ctx) => {\n    const inputRef = ctx.args.vGeneRef;\n    if (inputRef === undefined) return undefined;\n    const vGeneSpec = ctx.resultPool.getPColumnSpecByRef(inputRef);\n    if (vGeneSpec === undefined) return undefined;\n    return ctx.resultPool.getCanonicalOptions({ main: inputRef }, [\n      {\n        axes: [{ anchor: 'main', idx: 0 }],\n        name: vGeneSpec.name,\n        domain: {\n          'pl7.app/vdj/reference': 'JGene',\n          'pl7.app/vdj/scClonotypeChain': { anchor: 'main' },\n          'pl7.app/vdj/scClonotypeChain/index': { anchor: 'main' },\n        },\n      },\n    ], { ignoreMissingDomains: true });\n  })\n\n  .output('abundanceOptions', (ctx) => {\n    const inputRef = ctx.args.vGeneRef;\n    if (inputRef === undefined) return undefined;\n    return ctx.resultPool.getCanonicalOptions({ main: inputRef },\n      {\n        axes: [{/* sampleId */}, { anchor: 'main', idx: 0 }],\n        annotations: {\n          'pl7.app/isAbundance': 'true',\n          'pl7.app/abundance/normalized': 'false',\n        },\n      },\n    );\n  })\n\n  .output('pf', (ctx) => {\n    const pCols = ctx.outputs?.resolve('pf')?.getPColumns();\n    if (pCols === undefined) {\n      return undefined;\n    }\n\n    return createPFrameForGraphs(ctx, pCols);\n  })\n\n  .output('isRunning', (ctx) => ctx.outputs?.getIsReadyOrError() === false)\n\n  .title((ctx) => ctx.uiState?.blockTitle ?? 'V/J Usage')\n\n  .sections((_) => [\n    { type: 'link', href: '/', label: 'V Gene Usage' },\n    { type: 'link', href: '/jUsage', label: 'J Gene Usage' },\n    { type: 'link', href: '/vjUsage', label: 'V/J Gene Usage' },\n  ])\n\n  .done();\n\nexport type BlockOutputs = InferOutputsType<typeof model>;\n"]}

package/dist/index.d.cts

@@ -0,0 +1,39 @@
+import * as _platforma_sdk_model from '@platforma-sdk/model';
+import { PlRef, SUniversalPColumnId, InferOutputsType } from '@platforma-sdk/model';
+import { GraphMakerState } from '@milaboratories/graph-maker';
+
+type BlockArgs = {
+    vGeneRef?: PlRef;
+    jGeneRef?: SUniversalPColumnId;
+    abundanceRef?: SUniversalPColumnId;
+};
+type UiState = {
+    blockTitle: string;
+    weightedFlag: boolean;
+    vUsagePlotState: GraphMakerState;
+    jUsagePlotState: GraphMakerState;
+    vjUsagePlotState: GraphMakerState;
+};
+declare const model: _platforma_sdk_model.Platforma<BlockArgs, {
+    vGeneOptions: _platforma_sdk_model.ValueOrErrors<{
+        readonly ref: {
+            readonly __isRef: true;
+            readonly blockId: string;
+            readonly name: string;
+        };
+        readonly label: string;
+    }[]>;
+    jGeneOptions: _platforma_sdk_model.ValueOrErrors<{
+        label: string;
+        value: SUniversalPColumnId;
+    }[] | undefined>;
+    abundanceOptions: _platforma_sdk_model.ValueOrErrors<{
+        label: string;
+        value: SUniversalPColumnId;
+    }[] | undefined>;
+    pf: _platforma_sdk_model.ValueOrErrors<_platforma_sdk_model.PFrameHandle | undefined>;
+    isRunning: _platforma_sdk_model.ValueOrErrors<boolean>;
+}, UiState, "/" | "/jUsage" | "/vjUsage">;
+type BlockOutputs = InferOutputsType<typeof model>;
+
+export { type BlockArgs, type BlockOutputs, type UiState, model };

package/dist/index.d.ts

@@ -0,0 +1,39 @@
+import * as _platforma_sdk_model from '@platforma-sdk/model';
+import { PlRef, SUniversalPColumnId, InferOutputsType } from '@platforma-sdk/model';
+import { GraphMakerState } from '@milaboratories/graph-maker';
+
+type BlockArgs = {
+    vGeneRef?: PlRef;
+    jGeneRef?: SUniversalPColumnId;
+    abundanceRef?: SUniversalPColumnId;
+};
+type UiState = {
+    blockTitle: string;
+    weightedFlag: boolean;
+    vUsagePlotState: GraphMakerState;
+    jUsagePlotState: GraphMakerState;
+    vjUsagePlotState: GraphMakerState;
+};
+declare const model: _platforma_sdk_model.Platforma<BlockArgs, {
+    vGeneOptions: _platforma_sdk_model.ValueOrErrors<{
+        readonly ref: {
+            readonly __isRef: true;
+            readonly blockId: string;
+            readonly name: string;
+        };
+        readonly label: string;
+    }[]>;
+    jGeneOptions: _platforma_sdk_model.ValueOrErrors<{
+        label: string;
+        value: SUniversalPColumnId;
+    }[] | undefined>;
+    abundanceOptions: _platforma_sdk_model.ValueOrErrors<{
+        label: string;
+        value: SUniversalPColumnId;
+    }[] | undefined>;
+    pf: _platforma_sdk_model.ValueOrErrors<_platforma_sdk_model.PFrameHandle | undefined>;
+    isRunning: _platforma_sdk_model.ValueOrErrors<boolean>;
+}, UiState, "/" | "/jUsage" | "/vjUsage">;
+type BlockOutputs = InferOutputsType<typeof model>;
+
+export { type BlockArgs, type BlockOutputs, type UiState, model };

package/dist/index.js

@@ -0,0 +1,71 @@
+import { BlockModel, isPColumnSpec, createPFrameForGraphs } from '@platforma-sdk/model';
+
+// src/index.ts
+var model = BlockModel.create().withArgs({}).withUiState({
+  blockTitle: "V/J Usage",
+  weightedFlag: true,
+  vUsagePlotState: {
+    title: "V Usage",
+    template: "heatmap",
+    currentTab: "settings"
+  },
+  jUsagePlotState: {
+    title: "V Usage",
+    template: "heatmap",
+    currentTab: null
+  },
+  vjUsagePlotState: {
+    title: "V/J Usage",
+    template: "heatmap",
+    currentTab: null
+  }
+}).argsValid(
+  (ctx) => ctx.args.vGeneRef !== void 0 && ctx.args.jGeneRef !== void 0 && ctx.args.abundanceRef !== void 0
+).output("vGeneOptions", (ctx) => ctx.resultPool.getOptions(
+  (c) => isPColumnSpec(c) && c.valueType === "String" && (c.name === "pl7.app/vdj/geneHit" || c.name === "pl7.app/vdj/geneHitWithAllele") && c.domain?.["pl7.app/vdj/reference"] === "VGene"
+)).output("jGeneOptions", (ctx) => {
+  const inputRef = ctx.args.vGeneRef;
+  if (inputRef === void 0) return void 0;
+  const vGeneSpec = ctx.resultPool.getPColumnSpecByRef(inputRef);
+  if (vGeneSpec === void 0) return void 0;
+  return ctx.resultPool.getCanonicalOptions({ main: inputRef }, [
+    {
+      axes: [{ anchor: "main", idx: 0 }],
+      name: vGeneSpec.name,
+      domain: {
+        "pl7.app/vdj/reference": "JGene",
+        "pl7.app/vdj/scClonotypeChain": { anchor: "main" },
+        "pl7.app/vdj/scClonotypeChain/index": { anchor: "main" }
+      }
+    }
+  ], { ignoreMissingDomains: true });
+}).output("abundanceOptions", (ctx) => {
+  const inputRef = ctx.args.vGeneRef;
+  if (inputRef === void 0) return void 0;
+  return ctx.resultPool.getCanonicalOptions(
+    { main: inputRef },
+    {
+      axes: [{
+        /* sampleId */
+      }, { anchor: "main", idx: 0 }],
+      annotations: {
+        "pl7.app/isAbundance": "true",
+        "pl7.app/abundance/normalized": "false"
+      }
+    }
+  );
+}).output("pf", (ctx) => {
+  const pCols = ctx.outputs?.resolve("pf")?.getPColumns();
+  if (pCols === void 0) {
+    return void 0;
+  }
+  return createPFrameForGraphs(ctx, pCols);
+}).output("isRunning", (ctx) => ctx.outputs?.getIsReadyOrError() === false).title((ctx) => ctx.uiState?.blockTitle ?? "V/J Usage").sections((_) => [
+  { type: "link", href: "/", label: "V Gene Usage" },
+  { type: "link", href: "/jUsage", label: "J Gene Usage" },
+  { type: "link", href: "/vjUsage", label: "V/J Gene Usage" }
+]).done();
+
+export { model };
+//# sourceMappingURL=index.js.map
+//# sourceMappingURL=index.js.map

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type { GraphMakerState } from '@milaboratories/graph-maker';\nimport type { InferOutputsType, PlRef, SUniversalPColumnId } from '@platforma-sdk/model';\nimport { BlockModel, createPFrameForGraphs, isPColumnSpec } from '@platforma-sdk/model';\n\nexport type BlockArgs = {\n  vGeneRef?: PlRef;\n  jGeneRef?: SUniversalPColumnId;\n  abundanceRef?: SUniversalPColumnId;\n};\n\nexport type UiState = {\n  blockTitle: string;\n  weightedFlag: boolean;\n  vUsagePlotState: GraphMakerState;\n  jUsagePlotState: GraphMakerState;\n  vjUsagePlotState: GraphMakerState;\n};\n\nexport const model = BlockModel.create()\n\n  .withArgs<BlockArgs>({})\n\n  .withUiState<UiState>({\n    blockTitle: 'V/J Usage',\n    weightedFlag: true,\n    vUsagePlotState: {\n      title: 'V Usage',\n      template: 'heatmap',\n      currentTab: 'settings',\n    },\n    jUsagePlotState: {\n      title: 'V Usage',\n      template: 'heatmap',\n      currentTab: null,\n    },\n    vjUsagePlotState: {\n      title: 'V/J Usage',\n      template: 'heatmap',\n      currentTab: null,\n    },\n  })\n\n  .argsValid((ctx) =>\n    ctx.args.vGeneRef !== undefined\n    && ctx.args.jGeneRef !== undefined\n    && ctx.args.abundanceRef !== undefined,\n  )\n\n  .output('vGeneOptions', (ctx) =>\n    ctx.resultPool.getOptions((c) =>\n      isPColumnSpec(c) && c.valueType === 'String'\n      && (c.name === 'pl7.app/vdj/geneHit' || c.name === 'pl7.app/vdj/geneHitWithAllele')\n      && c.domain?.['pl7.app/vdj/reference'] === 'VGene',\n    ))\n\n  .output('jGeneOptions', (ctx) => {\n    const inputRef = ctx.args.vGeneRef;\n    if (inputRef === undefined) return undefined;\n    const vGeneSpec = ctx.resultPool.getPColumnSpecByRef(inputRef);\n    if (vGeneSpec === undefined) return undefined;\n    return ctx.resultPool.getCanonicalOptions({ main: inputRef }, [\n      {\n        axes: [{ anchor: 'main', idx: 0 }],\n        name: vGeneSpec.name,\n        domain: {\n          'pl7.app/vdj/reference': 'JGene',\n          'pl7.app/vdj/scClonotypeChain': { anchor: 'main' },\n          'pl7.app/vdj/scClonotypeChain/index': { anchor: 'main' },\n        },\n      },\n    ], { ignoreMissingDomains: true });\n  })\n\n  .output('abundanceOptions', (ctx) => {\n    const inputRef = ctx.args.vGeneRef;\n    if (inputRef === undefined) return undefined;\n    return ctx.resultPool.getCanonicalOptions({ main: inputRef },\n      {\n        axes: [{/* sampleId */}, { anchor: 'main', idx: 0 }],\n        annotations: {\n          'pl7.app/isAbundance': 'true',\n          'pl7.app/abundance/normalized': 'false',\n        },\n      },\n    );\n  })\n\n  .output('pf', (ctx) => {\n    const pCols = ctx.outputs?.resolve('pf')?.getPColumns();\n    if (pCols === undefined) {\n      return undefined;\n    }\n\n    return createPFrameForGraphs(ctx, pCols);\n  })\n\n  .output('isRunning', (ctx) => ctx.outputs?.getIsReadyOrError() === false)\n\n  .title((ctx) => ctx.uiState?.blockTitle ?? 'V/J Usage')\n\n  .sections((_) => [\n    { type: 'link', href: '/', label: 'V Gene Usage' },\n    { type: 'link', href: '/jUsage', label: 'J Gene Usage' },\n    { type: 'link', href: '/vjUsage', label: 'V/J Gene Usage' },\n  ])\n\n  .done();\n\nexport type BlockOutputs = InferOutputsType<typeof model>;\n"]}