npm - jbrowse-plugin-mafviewer - Versions diffs - 1.2.3 → 1.3.0 - Mend

jbrowse-plugin-mafviewer 1.2.3 → 1.3.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (147) hide show

package/dist/LinearMafDisplay/components/{SvgWrapper.d.ts → Sidebar/SvgWrapper.d.ts} RENAMED Viewed

@@ -1,5 +1,5 @@
 import React from 'react';
-import { LinearMafDisplayModel } from '../stateModel';
+import type { LinearMafDisplayModel } from '../../stateModel';
 declare const SvgWrapper: ({ children, model, exportSVG, }: {
     model: LinearMafDisplayModel;
     children: React.ReactNode;

package/dist/LinearMafDisplay/components/{SvgWrapper.js → Sidebar/SvgWrapper.js} RENAMED Viewed

@@ -7,13 +7,15 @@ const SvgWrapper = observer(function ({ children, model, exportSVG, }) {
     }
     else {
         const { totalHeight } = model;
+        const { width } = getContainingView(model);
         return (React.createElement("svg", { style: {
                 position: 'absolute',
+                userSelect: 'none',
                 top: 0,
                 left: 0,
                 pointerEvents: 'none',
                 height: totalHeight,
-                width: getContainingView(model).width,
+                width,
             } }, children));
     }
 });

package/dist/LinearMafDisplay/components/Sidebar/SvgWrapper.js.map ADDED Viewed

@@ -0,0 +1 @@

+ {"version":3,"file":"SvgWrapper.js","sourceRoot":"","sources":["../../../../src/LinearMafDisplay/components/Sidebar/SvgWrapper.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAA;AACtD,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAKrC,MAAM,UAAU,GAAG,QAAQ,CAAC,UAAU,EACpC,QAAQ,EACR,KAAK,EACL,SAAS,GAKV;IACC,IAAI,SAAS,EAAE,CAAC;QACd,OAAO,0CAAG,QAAQ,CAAI,CAAA;IACxB,CAAC;SAAM,CAAC;QACN,MAAM,EAAE,WAAW,EAAE,GAAG,KAAK,CAAA;QAC7B,MAAM,EAAE,KAAK,EAAE,GAAG,iBAAiB,CAAC,KAAK,CAA0B,CAAA;QACnE,OAAO,CACL,6BACE,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,UAAU,EAAE,MAAM;gBAClB,GAAG,EAAE,CAAC;gBACN,IAAI,EAAE,CAAC;gBACP,aAAa,EAAE,MAAM;gBACrB,MAAM,EAAE,WAAW;gBACnB,KAAK;aACN,IAEA,QAAQ,CACL,CACP,CAAA;IACH,CAAC;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,UAAU,CAAA"}

package/dist/LinearMafDisplay/components/{Tree.d.ts → Sidebar/Tree.d.ts} RENAMED Viewed

@@ -1,5 +1,6 @@
 import React from 'react';
+import type { LinearMafDisplayModel } from '../../stateModel';
 declare const Tree: ({ model }: {
-    model: any;
+    model: LinearMafDisplayModel;
 }) => React.JSX.Element;
 export default Tree;

package/dist/LinearMafDisplay/components/{Tree.js → Sidebar/Tree.js} RENAMED Viewed

@@ -11,7 +11,9 @@ const Tree = observer(function ({ model }) {
             const { source, target } = link;
             const sy = source.x;
             const ty = target.x;
+            // @ts-expect-error
             const tx = showBranchLen ? target.len : target.y;
+            // @ts-expect-error
             const sx = showBranchLen ? source.len : source.y;
             // 1d line intersection to check if line crosses block at all, this is
             // an optimization that allows us to skip drawing most tree links

package/dist/LinearMafDisplay/components/Sidebar/Tree.js.map ADDED Viewed

@@ -0,0 +1 @@

+ {"version":3,"file":"Tree.js","sourceRoot":"","sources":["../../../../src/LinearMafDisplay/components/Sidebar/Tree.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAIrC,MAAM,IAAI,GAAG,QAAQ,CAAC,UAAU,EAAE,KAAK,EAAoC;IACzE,MAAM;IACJ,2EAA2E;IAC3E,mBAAmB;IACnB,8DAA8D;IAC9D,SAAS,EAAE,UAAU,EAErB,SAAS,EACT,aAAa,GACd,GAAG,KAAK,CAAA;IAET,OAAO,CACL,0CACG,SAAS;QACR,CAAC,CAAC,CAAC,GAAG,SAAS,CAAC,KAAK,EAAE,CAAC,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE;YAChC,MAAM,EAAE,MAAM,EAAE,MAAM,EAAE,GAAG,IAAI,CAAA;YAC/B,MAAM,EAAE,GAAG,MAAM,CAAC,CAAE,CAAA;YACpB,MAAM,EAAE,GAAG,MAAM,CAAC,CAAE,CAAA;YACpB,mBAAmB;YACnB,MAAM,EAAE,GAAG,aAAa,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAA;YAChD,mBAAmB;YACnB,MAAM,EAAE,GAAG,aAAa,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAA;YAEhD,sEAAsE;YACtE,iEAAiE;YACjE,oBAAoB;YACpB,OAAO,CACL,oBAAC,KAAK,CAAC,QAAQ,IAAC,GAAG,EAAE,CAAC,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC;gBAC7C,8BAAM,MAAM,EAAC,OAAO,EAAC,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,GAAI;gBACvD,8BAAM,MAAM,EAAC,OAAO,EAAC,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,EAAE,GAAI,CACxC,CAClB,CAAA;QACH,CAAC,CAAC;QACJ,CAAC,CAAC,IAAI,CACP,CACJ,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,IAAI,CAAA"}

package/dist/LinearMafDisplay/components/{YScaleBars.d.ts → Sidebar/YScaleBars.d.ts} RENAMED Viewed

@@ -1,5 +1,5 @@
 import React from 'react';
-import { LinearMafDisplayModel } from '../stateModel';
+import type { LinearMafDisplayModel } from '../../stateModel';
 export declare const YScaleBars: (props: {
     model: LinearMafDisplayModel;
     orientation?: string;

package/dist/LinearMafDisplay/components/Sidebar/YScaleBars.js ADDED Viewed

@@ -0,0 +1,11 @@
+import React from 'react';
+import { observer } from 'mobx-react';
+import ColorLegend from './ColorLegend';
+import SvgWrapper from './SvgWrapper';
+export const YScaleBars = observer(function (props) {
+    const { model } = props;
+    return (React.createElement(SvgWrapper, { ...props },
+        React.createElement(ColorLegend, { model: model })));
+});
+export default YScaleBars;
+//# sourceMappingURL=YScaleBars.js.map

package/dist/LinearMafDisplay/components/Sidebar/YScaleBars.js.map ADDED Viewed

@@ -0,0 +1 @@

+ {"version":3,"file":"YScaleBars.js","sourceRoot":"","sources":["../../../../src/LinearMafDisplay/components/Sidebar/YScaleBars.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,OAAO,WAAW,MAAM,eAAe,CAAA;AACvC,OAAO,UAAU,MAAM,cAAc,CAAA;AAIrC,MAAM,CAAC,MAAM,UAAU,GAAG,QAAQ,CAAC,UAAU,KAI5C;IACC,MAAM,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;IACvB,OAAO,CACL,oBAAC,UAAU,OAAK,KAAK;QACnB,oBAAC,WAAW,IAAC,KAAK,EAAE,KAAK,GAAI,CAClB,CACd,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,UAAU,CAAA"}

package/dist/LinearMafDisplay/index.js CHANGED Viewed

@@ -1,5 +1,5 @@
 import { DisplayType } from '@jbrowse/core/pluggableElementTypes';
-import ReactComponent from './components/ReactComponent';
+import ReactComponent from './components/LinearMafDisplayComponent';
 import configSchemaF from './configSchema';
 import stateModelFactory from './stateModel';
 export default function LinearMafDisplayF(pluginManager) {

package/dist/LinearMafDisplay/index.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/LinearMafDisplay/index.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,WAAW,EAAE,MAAM,qCAAqC,CAAA;AAEjE,OAAO,cAAc,MAAM,~~6BAA6B~~,CAAA;~~AACxD~~,OAAO,aAAa,MAAM,gBAAgB,CAAA;AAC1C,OAAO,iBAAiB,MAAM,cAAc,CAAA;AAE5C,MAAM,CAAC,OAAO,UAAU,iBAAiB,CAAC,aAA4B;IACpE,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;QAChC,MAAM,YAAY,GAAG,aAAa,CAAC,aAAa,CAAC,CAAA;QACjD,MAAM,UAAU,GAAG,iBAAiB,CAAC,YAAY,EAAE,aAAa,CAAC,CAAA;QACjE,OAAO,IAAI,WAAW,CAAC;YACrB,IAAI,EAAE,kBAAkB;YACxB,YAAY;YACZ,UAAU;YACV,cAAc;YACd,QAAQ,EAAE,kBAAkB;YAC5B,SAAS,EAAE,UAAU;YACrB,WAAW,EAAE,aAAa;SAC3B,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC"}
1	+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/LinearMafDisplay/index.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,WAAW,EAAE,MAAM,qCAAqC,CAAA;AAEjE,OAAO,cAAc,MAAM,wCAAwC,CAAA;AACnE,OAAO,aAAa,MAAM,gBAAgB,CAAA;AAC1C,OAAO,iBAAiB,MAAM,cAAc,CAAA;AAE5C,MAAM,CAAC,OAAO,UAAU,iBAAiB,CAAC,aAA4B;IACpE,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;QAChC,MAAM,YAAY,GAAG,aAAa,CAAC,aAAa,CAAC,CAAA;QACjD,MAAM,UAAU,GAAG,iBAAiB,CAAC,YAAY,EAAE,aAAa,CAAC,CAAA;QACjE,OAAO,IAAI,WAAW,CAAC;YACrB,IAAI,EAAE,kBAAkB;YACxB,YAAY;YACZ,UAAU;YACV,cAAc;YACd,QAAQ,EAAE,kBAAkB;YAC5B,SAAS,EAAE,UAAU;YACrB,WAAW,EAAE,aAAa;SAC3B,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC"}

package/dist/LinearMafDisplay/renderSvg.js CHANGED Viewed

@@ -1,6 +1,6 @@
 import React from 'react';
 import { getContainingView } from '@jbrowse/core/util';
-import YScaleBars from './components/YScaleBars';
+import YScaleBars from './components/Sidebar/YScaleBars';
 export async function renderSvg(self, opts, superRenderSvg) {
     const { height, id } = self;
     const { offsetPx, width } = getContainingView(self);

package/dist/LinearMafDisplay/renderSvg.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"renderSvg.js","sourceRoot":"","sources":["../../src/LinearMafDisplay/renderSvg.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAA;AAEtD,OAAO,UAAU,MAAM,~~yBAAyB~~,CAAA;~~AAQhD~~,MAAM,CAAC,KAAK,UAAU,SAAS,CAC7B,IAA2B,EAC3B,IAA6B,EAC7B,cAA2E;IAE3E,MAAM,EAAE,MAAM,EAAE,EAAE,EAAE,GAAG,IAAI,CAAA;IAC3B,MAAM,EAAE,QAAQ,EAAE,KAAK,EAAE,GAAG,iBAAiB,CAAC,IAAI,CAA0B,CAAA;IAC5E,MAAM,MAAM,GAAG,WAAW,EAAE,EAAE,CAAA;IAC9B,OAAO,CACL;QACE;YACE,kCAAU,EAAE,EAAE,MAAM;gBAClB,8BAAM,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,KAAK,EAAE,KAAK,EAAE,MAAM,EAAE,MAAM,GAAI,CACzC,CACN;QACP,2BAAG,QAAQ,EAAE,QAAQ,MAAM,GAAG;YAC5B,2BAAG,EAAE,EAAC,QAAQ,IAAE,MAAM,cAAc,CAAC,IAAI,CAAC,CAAK;YAC/C,2BAAG,SAAS,EAAE,aAAa,IAAI,CAAC,GAAG,CAAC,CAAC,QAAQ,EAAE,CAAC,CAAC,GAAG;gBAClD,oBAAC,UAAU,IAAC,KAAK,EAAE,IAAI,EAAE,WAAW,EAAC,MAAM,EAAC,SAAS,SAAG,CACtD,CACF,CACH,CACJ,CAAA;AACH,CAAC"}
1	+ {"version":3,"file":"renderSvg.js","sourceRoot":"","sources":["../../src/LinearMafDisplay/renderSvg.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;AAEzB,OAAO,EAAE,iBAAiB,EAAE,MAAM,oBAAoB,CAAA;AAEtD,OAAO,UAAU,MAAM,iCAAiC,CAAA;AAQxD,MAAM,CAAC,KAAK,UAAU,SAAS,CAC7B,IAA2B,EAC3B,IAA6B,EAC7B,cAA2E;IAE3E,MAAM,EAAE,MAAM,EAAE,EAAE,EAAE,GAAG,IAAI,CAAA;IAC3B,MAAM,EAAE,QAAQ,EAAE,KAAK,EAAE,GAAG,iBAAiB,CAAC,IAAI,CAA0B,CAAA;IAC5E,MAAM,MAAM,GAAG,WAAW,EAAE,EAAE,CAAA;IAC9B,OAAO,CACL;QACE;YACE,kCAAU,EAAE,EAAE,MAAM;gBAClB,8BAAM,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,KAAK,EAAE,KAAK,EAAE,MAAM,EAAE,MAAM,GAAI,CACzC,CACN;QACP,2BAAG,QAAQ,EAAE,QAAQ,MAAM,GAAG;YAC5B,2BAAG,EAAE,EAAC,QAAQ,IAAE,MAAM,cAAc,CAAC,IAAI,CAAC,CAAK;YAC/C,2BAAG,SAAS,EAAE,aAAa,IAAI,CAAC,GAAG,CAAC,CAAC,QAAQ,EAAE,CAAC,CAAC,GAAG;gBAClD,oBAAC,UAAU,IAAC,KAAK,EAAE,IAAI,EAAE,WAAW,EAAC,MAAM,EAAC,SAAS,SAAG,CACtD,CACF,CACH,CACJ,CAAA;AACH,CAAC"}

package/dist/LinearMafDisplay/stateModel.d.ts CHANGED Viewed

@@ -1,14 +1,9 @@
-import type { NodeWithIdsAndLength } from './types';
+import type { NodeWithIdsAndLength, Sample } from './types';
 import type PluginManager from '@jbrowse/core/PluginManager';
 import type { AnyConfigurationModel, AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 import type { ExportSvgDisplayOptions } from '@jbrowse/plugin-linear-genome-view';
 import type { HierarchyNode } from 'd3-hierarchy';
 import type { Instance } from 'mobx-state-tree';
-interface Sample {
-    id: string;
-    label: string;
-    color?: string;
-}
 /**
  * #stateModel LinearMafDisplay
  * extends LinearBasicDisplay
@@ -98,6 +93,7 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     mismatchRendering: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
     showBranchLen: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
     treeAreaWidth: import("mobx-state-tree").IType<number | undefined, number, number>;
+    showAsUpperCase: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
 }, {
     rendererTypeName: string;
     error: unknown;
@@ -112,15 +108,9 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
             rendererTypeName: string;
             error: unknown;
             message: string | undefined;
-        } & import(
-        /**
-         * #getter
-         */
-        "mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
             id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-            type: import("mobx-state-tree" /**
-             * #getter
-             */).ISimpleType<string>;
+            type: import("mobx-state-tree").ISimpleType<string>;
             rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         }, {
             rendererTypeName: string;
@@ -207,6 +197,7 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     readonly renderDelay: number;
     readonly TooltipComponent: import("@jbrowse/core/util").AnyReactComponentType;
     readonly selectedFeatureId: string | undefined;
+    copyInfoToClipboard(feature: import("@jbrowse/core/util").Feature): void;
 } & {
     readonly features: import("@jbrowse/core/util/compositeMap").default<string, import("@jbrowse/core/util").Feature>;
     readonly featureUnderMouse: import("@jbrowse/core/util").Feature | undefined;
@@ -267,6 +258,10 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         samples: Sample[];
         tree: unknown;
     }): void;
+    /**
+     * #action
+     */
+    setShowAsUpperCase(arg: boolean): void;
 } & {
     /**
      * #getter
@@ -290,11 +285,7 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     /**
      * #getter
      */
-    readonly samples: {
-        id: string;
-        label: string;
-        color?: string;
-    }[] | undefined;
+    readonly samples: Sample[] | undefined;
     /**
      * #getter
      */
@@ -335,6 +326,19 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         onClick: () => void;
         subMenu?: undefined;
     })[];
+} & {
+    /**
+     * #getter
+     */
+    readonly svgFontSize: number;
+    /**
+     * #getter
+     */
+    readonly canDisplayLabel: boolean;
+    /**
+     * #getter
+     */
+    readonly labelWidth: number;
 } & {
     afterCreate(): void;
 } & {
@@ -431,4 +435,3 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
 } & import("mobx-state-tree")._NotCustomized>;
 export type LinearMafDisplayStateModel = ReturnType<typeof stateModelFactory>;
 export type LinearMafDisplayModel = Instance<LinearMafDisplayStateModel>;
-export {};

package/dist/LinearMafDisplay/stateModel.js CHANGED Viewed

@@ -1,14 +1,15 @@
+import { lazy } from 'react';
 import { ConfigurationReference, getConf } from '@jbrowse/core/configuration';
-import { getEnv, getSession } from '@jbrowse/core/util';
+import { getEnv, getSession, max, measureText } from '@jbrowse/core/util';
 import { getRpcSessionId } from '@jbrowse/core/util/tracks';
 import { ascending } from 'd3-array';
 import { cluster, hierarchy } from 'd3-hierarchy';
 import deepEqual from 'fast-deep-equal';
 import { autorun } from 'mobx';
 import { addDisposer, isAlive, types } from 'mobx-state-tree';
-import SetRowHeightDialog from './components/SetRowHeight';
-import { maxLength, setBrLength } from './types';
+import { maxLength, setBrLength } from './util';
 import { normalize } from '../util';
+const SetRowHeightDialog = lazy(() => import('./components/SetRowHeightDialog/SetRowHeightDialog'));
 /**
  * #stateModel LinearMafDisplay
  * extends LinearBasicDisplay
@@ -50,6 +51,10 @@ export default function stateModelFactory(configSchema, pluginManager) {
          * #property
          */
         treeAreaWidth: 80,
+        /**
+         * #property
+         */
+        showAsUpperCase: true,
     }))
         .volatile(() => ({
         /**
@@ -101,6 +106,12 @@ export default function stateModelFactory(configSchema, pluginManager) {
                 self.volatileTree = tree;
             }
         },
+        /**
+         * #action
+         */
+        setShowAsUpperCase(arg) {
+            self.showAsUpperCase = arg;
+        },
     }))
         .views(self => ({
         /**
@@ -158,7 +169,19 @@ export default function stateModelFactory(configSchema, pluginManager) {
          * #getter
          */
         get samples() {
-            return this.rowNames ? normalize(this.rowNames) : self.volatileSamples;
+            if (this.rowNames) {
+                const volatileSamplesMap = self.volatileSamples
+                    ? Object.fromEntries(self.volatileSamples.map(e => [e.id, e]))
+                    : undefined;
+                return normalize(this.rowNames).map(r => ({
+                    ...r,
+                    label: volatileSamplesMap?.[r.id]?.label || r.label,
+                    color: volatileSamplesMap?.[r.id]?.color || r.color,
+                }));
+            }
+            else {
+                return self.volatileSamples;
+            }
         },
         /**
          * #getter
@@ -196,7 +219,7 @@ export default function stateModelFactory(configSchema, pluginManager) {
              * #method
              */
             renderProps() {
-                const { showAllLetters, rendererConfig, samples, rowHeight, rowProportion, mismatchRendering, } = self;
+                const { showAllLetters, rendererConfig, samples, rowHeight, rowProportion, mismatchRendering, showAsUpperCase, } = self;
                 const s = superRenderProps();
                 return {
                     ...s,
@@ -207,6 +230,7 @@ export default function stateModelFactory(configSchema, pluginManager) {
                     rowProportion,
                     showAllLetters,
                     mismatchRendering,
+                    showAsUpperCase,
                 };
             },
             /**
@@ -247,6 +271,14 @@ export default function stateModelFactory(configSchema, pluginManager) {
                             },
                         ],
                     },
+                    {
+                        label: 'Use upper-case',
+                        type: 'checkbox',
+                        checked: self.showAsUpperCase,
+                        onClick: () => {
+                            self.setShowAsUpperCase(!self.showAsUpperCase);
+                        },
+                    },
                     {
                         label: 'Show all letters',
                         type: 'checkbox',
@@ -267,13 +299,36 @@ export default function stateModelFactory(configSchema, pluginManager) {
             },
         };
     })
+        .views(self => ({
+        /**
+         * #getter
+         */
+        get svgFontSize() {
+            return Math.min(Math.max(self.rowHeight, 8), 14);
+        },
+        /**
+         * #getter
+         */
+        get canDisplayLabel() {
+            return self.rowHeight >= 7;
+        },
+        /**
+         * #getter
+         */
+        get labelWidth() {
+            const minWidth = 20;
+            return max(self.samples
+                ?.map(s => measureText(s.label, this.svgFontSize))
+                .map(width => (this.canDisplayLabel ? width : minWidth)) || [], 0);
+        },
+    }))
         .actions(self => ({
         afterCreate() {
             addDisposer(self, autorun(async () => {
                 try {
                     const { rpcManager } = getSession(self);
                     const sessionId = getRpcSessionId(self);
-                    const results = (await rpcManager.call(sessionId, 'MafGetSamples', {
+                    self.setSamples((await rpcManager.call(sessionId, 'MafGetSamples', {
                         sessionId,
                         adapterConfig: self.adapterConfig,
                         statusCallback: (message) => {
@@ -281,8 +336,7 @@ export default function stateModelFactory(configSchema, pluginManager) {
                                 self.setMessage(message);
                             }
                         },
-                    }));
-                    self.setSamples(results);
+                    })));
                 }
                 catch (e) {
                     console.error(e);

package/dist/LinearMafDisplay/stateModel.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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1	+ 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package/dist/LinearMafDisplay/types.d.ts CHANGED Viewed

@@ -1,4 +1,3 @@
-import type { HierarchyNode } from 'd3-hierarchy';
 export interface NodeWithIds {
     id: string;
     name: string;
@@ -13,5 +12,8 @@ export interface NodeWithIdsAndLength {
     noTree?: boolean;
     length: number;
 }
-export declare function maxLength(d: HierarchyNode<NodeWithIds>): number;
-export declare function setBrLength(d: HierarchyNode<NodeWithIds>, y0: number, k: number): void;
+export interface Sample {
+    id: string;
+    label?: string;
+    color?: string;
+}

package/dist/LinearMafDisplay/types.js CHANGED Viewed

@@ -1,16 +1,2 @@
-import { max } from 'd3-array';
-// basically same as maxLength from https://observablehq.com/@d3/tree-of-life
-export function maxLength(d) {
-    return ((d.data.length || 0) + (d.children ? max(d.children, maxLength) || 0 : 0));
-}
-// basically same as setRadius from https://observablehq.com/@d3/tree-of-life
-export function setBrLength(d, y0, k) {
-    // @ts-expect-error
-    d.len = (y0 += Math.max(d.data.length || 0, 0)) * k;
-    if (d.children) {
-        d.children.forEach(d => {
-            setBrLength(d, y0, k);
-        });
-    }
-}
+export {};
 //# sourceMappingURL=types.js.map

package/dist/LinearMafDisplay/types.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/LinearMafDisplay/util.d.ts ADDED Viewed

@@ -0,0 +1,4 @@
+import type { NodeWithIds } from './types';
+import type { HierarchyNode } from 'd3-hierarchy';
+export declare function maxLength(d: HierarchyNode<NodeWithIds>): number;
+export declare function setBrLength(d: HierarchyNode<NodeWithIds>, y0: number, k: number): void;

package/dist/LinearMafDisplay/util.js ADDED Viewed

@@ -0,0 +1,16 @@
+import { max } from 'd3-array';
+// basically same as maxLength from https://observablehq.com/@d3/tree-of-life
+export function maxLength(d) {
+    return ((d.data.length || 0) + (d.children ? max(d.children, maxLength) || 0 : 0));
+}
+// basically same as setRadius from https://observablehq.com/@d3/tree-of-life
+export function setBrLength(d, y0, k) {
+    // @ts-expect-error
+    d.len = (y0 += Math.max(d.data.length || 0, 0)) * k;
+    if (d.children) {
+        d.children.forEach(d => {
+            setBrLength(d, y0, k);
+        });
+    }
+}
+//# sourceMappingURL=util.js.map

package/dist/LinearMafDisplay/util.js.map ADDED Viewed

@@ -0,0 +1 @@

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package/dist/LinearMafRenderer/LinearMafRenderer.d.ts CHANGED Viewed

@@ -12,6 +12,7 @@ interface RenderArgs extends RenderArgsDeserialized {
     showAllLetters: boolean;
     mismatchRendering: boolean;
     statusCallback?: (arg: string) => void;
+    showAsUpperCase: boolean;
 }
 export default class LinearMafRenderer extends FeatureRendererType {
     getExpandedRegion(region: Region): {
@@ -26,7 +27,7 @@ export default class LinearMafRenderer extends FeatureRendererType {
         width: number;
         height: number;
         containsNoTransferables: boolean;
-        canvasRecordedData: any;
+        canvasRecordedData: Record<string, unknown>;
         reactElement?: React.ReactElement;
         html?: string;
     } | {
@@ -34,15 +35,15 @@ export default class LinearMafRenderer extends FeatureRendererType {
         width: number;
         height: number;
         containsNoTransferables: boolean;
-        reactElement: import("react/jsx-runtime").JSX.Element;
+        imageData: any;
+        reactElement?: React.ReactElement;
         html?: string;
     } | {
         features: Map<any, any>;
         width: number;
         height: number;
         containsNoTransferables: boolean;
-        imageData: any;
-        reactElement?: React.ReactElement;
+        reactElement: React.ReactElement;
         html?: string;
     }>;
 }

package/dist/LinearMafRenderer/LinearMafRenderer.js CHANGED Viewed

@@ -18,18 +18,16 @@ export default class LinearMafRenderer extends FeatureRendererType {
         const height = samples.length * rowHeight + 100;
         const width = (region.end - region.start) / bpPerPx;
         const features = await this.getFeatures(renderProps);
-        const res = await renderToAbstractCanvas(width, height, renderProps, async (ctx) => {
-            await updateStatus('Rendering alignment', statusCallback, () => {
-                makeImageData({
-                    ctx,
-                    renderArgs: {
-                        ...renderProps,
-                        features,
-                    },
-                });
+        const res = await updateStatus('Rendering alignment', statusCallback, () => renderToAbstractCanvas(width, height, renderProps, ctx => {
+            makeImageData({
+                ctx,
+                renderArgs: {
+                    ...renderProps,
+                    features,
+                },
             });
             return undefined;
-        });
+        }));
         const results = await super.render({
             ...renderProps,
             ...res,

package/dist/LinearMafRenderer/LinearMafRenderer.js.map CHANGED Viewed

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package/dist/LinearMafRenderer/makeImageData.d.ts CHANGED Viewed

@@ -12,6 +12,7 @@ interface RenderArgs extends RenderArgsDeserialized {
     mismatchRendering: boolean;
     features: Map<string, Feature>;
     statusCallback?: (arg: string) => void;
+    showAsUpperCase: boolean;
 }
 export declare function makeImageData({ ctx, renderArgs, }: {
     ctx: CanvasRenderingContext2D;