@datagrok-libraries/bio 5.7.0 → 5.9.0

package/src/utils/tree-helper.d.ts

@@ -0,0 +1,16 @@
+import * as DG from 'datagrok-api/dg';
+import { NodeType } from '../types';
+export interface ITreeHelper {
+    toNewick(node: NodeType | null): string;
+    getLeafList(node: NodeType): NodeType[];
+    getNodeList(node: NodeType): NodeType[];
+    treeFilterByLeaves(node: NodeType, leaves: {
+        [name: string]: any;
+    }): NodeType | null;
+    treeCutAsLeaves(node: NodeType, cutHeight: number, currentHeight?: number): NodeType[];
+    treeCutAsTree(node: NodeType, cutHeight: number, currentHeight?: number): NodeType | null;
+    setGridOrder(node: NodeType, grid: DG.Grid, leafColName: string): [NodeType, string[]];
+    cutTreeToGrid(node: NodeType, cutHeight: number, dataDf: DG.DataFrame, leafColName: string, clusterColName: string): void;
+}
+export declare function getTreeHelper(): Promise<ITreeHelper>;
+//# sourceMappingURL=tree-helper.d.ts.map

package/src/utils/tree-helper.d.ts.map

@@ -0,0 +1 @@
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package/src/utils/tree-helper.js

@@ -0,0 +1,20 @@
+var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
+    function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
+    return new (P || (P = Promise))(function (resolve, reject) {
+        function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
+        function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
+        function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
+        step((generator = generator.apply(thisArg, _arguments || [])).next());
+    });
+};
+import * as DG from 'datagrok-api/dg';
+export function getTreeHelper() {
+    return __awaiter(this, void 0, void 0, function* () {
+        const funcList = DG.Func.find({ package: 'PhyloTreeViewer', name: 'getTreeHelper' });
+        if (funcList.length === 0)
+            throw new Error('Package "PhyloTreeViewer"" must be installed for TreeHelper.');
+        const res = (yield funcList[0].prepare().call()).getOutputParamValue();
+        return res;
+    });
+}
+//# sourceMappingURL=data:application/json;base64,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

package/src/viewers/phylocanvas-gl-viewer.d.ts

@@ -1,16 +1,62 @@
 import * as DG from 'datagrok-api/dg';
 import { IViewer } from './viewer';
+import { Observable } from 'rxjs';
+import { MjolnirPointerEvent } from 'mjolnir.js';
+import { PickingInfo } from '@deck.gl/core/typed';
 export declare type NodeStyleType = {
     [propName: string]: any;
 };
 export declare type StylesType = {
     [nodeName: string]: NodeStyleType;
 };
+export declare enum TreeTypesNames {
+    Radial = "Radial",
+    /** Rectangular edges, leaves listed __vertically__ */
+    Rectangular = "Rectangular",
+    Polar = "Polar",
+    Diagonal = "Diagonal",
+    /** Rectangular edges, leaves listed __horizontally__ */
+    Orthogonal = "Orthogonal"
+}
 export interface IPhylocanvasGlViewer extends IViewer {
     get nwkDf(): DG.DataFrame;
     set nwkDf(value: DG.DataFrame);
     setProps(updater: {
         [propName: string]: any;
     }): void;
+    get onAfterRender(): Observable<{
+        gl: WebGLRenderingContext;
+    }>;
+    get onHover(): Observable<{
+        info: PickingInfo;
+        event: MjolnirPointerEvent;
+    }>;
+}
+export declare type PhylocanvasGlTask = {
+    name: string;
+    backColor: number;
+    props: {
+        [propName: string]: any;
+    };
+    onAfterRender: CanvasCallback;
+};
+export declare type CanvasCallback = (canvas: HTMLCanvasElement) => void;
+export declare abstract class PhylocanvasGlServiceBase {
+    static noneSource: {
+        type: string;
+        data: any;
+    };
+    /** Queues PhylocanvasGL render task
+     * @param key  Specify to skip previously queued tasks with the same key
+     */
+    abstract render(args: PhylocanvasGlTask, key?: keyof any): void;
+    /** Default implementation of rendering tree on grid cell
+     * @param gCtx    Context to draw on grid
+     * @param bd      Bound rect to clip drawing on task moment
+     * @param gCell   Grid cell to draw
+     * @param canvas  Image of the tree rendered
+     */
+    abstract renderOnGridCell(gCtx: CanvasRenderingContext2D, bd: DG.Rect, gCell: DG.GridCell, canvas: CanvasImageSource): void;
 }
+export declare function getPhylocanvasGlService(): Promise<PhylocanvasGlServiceBase>;
 //# sourceMappingURL=phylocanvas-gl-viewer.d.ts.map

package/src/viewers/phylocanvas-gl-viewer.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"phylocanvas-gl-viewer.d.ts","sourceRoot":"","sources":["phylocanvas-gl-viewer.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,OAAO,EAAC,MAAM,UAAU,CAAC;AACjC,OAAO,EAAC,UAAU,EAAC,MAAM,MAAM,CAAC;AAChC,OAAO,EAAC,mBAAmB,EAAC,MAAM,YAAY,CAAC;AAC/C,OAAO,EAAC,WAAW,EAAC,MAAM,qBAAqB,CAAC;AAGhD,oBAAY,aAAa,GAAG;IAAE,CAAC,QAAQ,EAAE,MAAM,GAAG,GAAG,CAAA;CAAE,CAAC;AACxD,oBAAY,UAAU,GAAG;IAAE,CAAC,QAAQ,EAAE,MAAM,GAAG,aAAa,CAAA;CAAE,CAAC;AAE/D,oBAAY,cAAc;IACxB,MAAM,WAAW;IACjB,sDAAsD;IACtD,WAAW,gBAAgB;IAC3B,KAAK,UAAU;IACf,QAAQ,aAAa;IACrB,wDAAwD;IACxD,UAAU,eAAe;CAC1B;AAED,MAAM,WAAW,oBAAqB,SAAQ,OAAO;IACnD,IAAI,KAAK,IAAI,EAAE,CAAC,SAAS,CAAC;IAE1B,IAAI,KAAK,CAAC,KAAK,EAAE,EAAE,CAAC,SAAS,EAAE;IAE/B,QAAQ,CAAC,OAAO,EAAE;QAAE,CAAC,QAAQ,EAAE,MAAM,GAAG,GAAG,CAAA;KAAE,GAAG,IAAI,CAAC;IAErD,IAAI,aAAa,IAAI,UAAU,CAAC;QAAE,EAAE,EAAE,qBAAqB,CAAA;KAAE,CAAC,CAAC;IAE/D,IAAI,OAAO,IAAI,UAAU,CAAC;QAAE,IAAI,EAAE,WAAW,CAAC;QAAC,KAAK,EAAE,mBAAmB,CAAA;KAAE,CAAC,CAAC;CAC9E;AAMD,oBAAY,iBAAiB,GAAG;IAAE,IAAI,EAAE,MAAM,CAAC;IAAC,SAAS,EAAE,MAAM,CAAC;IAAC,KAAK,EAAE;QAAE,CAAC,QAAQ,EAAE,MAAM,GAAG,GAAG,CAAA;KAAE,CAAC;IAAC,aAAa,EAAE,cAAc,CAAA;CAAE,CAAC;AAEvI,oBAAY,cAAc,GAAG,CAAC,MAAM,EAAE,iBAAiB,KAAK,IAAI,CAAC;AAEjE,8BAAsB,wBAAwB;IAC5C,OAAc,UAAU,EAAE;QAAE,IAAI,EAAE,MAAM,CAAC;QAAC,IAAI,EAAE,GAAG,CAAA;KAAE,CAGnD;IAEF;;OAEG;IACH,QAAQ,CAAC,MAAM,CAAC,IAAI,EAAE,iBAAiB,EAAE,GAAG,CAAC,EAAE,MAAM,GAAG,GAAG,IAAI;IAE/D;;;;;OAKG;IACH,QAAQ,CAAC,gBAAgB,CACvB,IAAI,EAAE,wBAAwB,EAAE,EAAE,EAAE,EAAE,CAAC,IAAI,EAAE,KAAK,EAAE,EAAE,CAAC,QAAQ,EAAE,MAAM,EAAE,iBAAiB,GAAG,IAAI;CACpG;AAGD,wBAAsB,uBAAuB,IAAI,OAAO,CAAC,wBAAwB,CAAC,CAOjF"}

package/src/viewers/phylocanvas-gl-viewer.js

@@ -1,2 +1,36 @@
-export {};
-//# sourceMappingURL=data:application/json;base64,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
+var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
+    function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
+    return new (P || (P = Promise))(function (resolve, reject) {
+        function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
+        function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
+        function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
+        step((generator = generator.apply(thisArg, _arguments || [])).next());
+    });
+};
+import * as DG from 'datagrok-api/dg';
+export var TreeTypesNames;
+(function (TreeTypesNames) {
+    TreeTypesNames["Radial"] = "Radial";
+    /** Rectangular edges, leaves listed __vertically__ */
+    TreeTypesNames["Rectangular"] = "Rectangular";
+    TreeTypesNames["Polar"] = "Polar";
+    TreeTypesNames["Diagonal"] = "Diagonal";
+    /** Rectangular edges, leaves listed __horizontally__ */
+    TreeTypesNames["Orthogonal"] = "Orthogonal";
+})(TreeTypesNames || (TreeTypesNames = {}));
+export class PhylocanvasGlServiceBase {
+}
+PhylocanvasGlServiceBase.noneSource = {
+    type: 'biojs',
+    data: { name: 'none', branch_length: 1, children: [] }
+};
+export function getPhylocanvasGlService() {
+    return __awaiter(this, void 0, void 0, function* () {
+        const funcList = DG.Func.find({ package: 'PhyloTreeViewer', name: 'getPhylocanvasGlService' });
+        if (funcList.length === 0)
+            throw new Error('Package "PhyloTreeViewer"" must be installed for PhylocanvasGL services.');
+        const svc = (yield funcList[0].prepare().call()).getOutputParamValue();
+        return svc;
+    });
+}
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