@datagrok-libraries/bio 5.27.1 → 5.28.0

package/package.json

@@ -8,7 +8,7 @@
     "access": "public"
   },
   "friendlyName": "Datagrok bio library",
-  "version": "5.27.1",
+  "version": "5.28.0",
   "description": "",
   "dependencies": {
     "@datagrok-libraries/gridext": "^1.3.22",

package/src/viewers/molstar-viewer.d.ts

@@ -1,10 +1,79 @@
 import * as DG from 'datagrok-api/dg';
 import { IViewer } from './viewer';
 import { PdbResDataFrameType } from '../pdb/pdb-helper';
-export interface IMolstarViewer extends IViewer {
-    setData(df: PdbResDataFrameType | DG.DataFrame): void;
+export declare enum RepresentationType {
+    Cartoon = "cartoon",
+    Backbone = "backbone",
+    BallAndStick = "ball+stick",
+    Licorice = "licorice",
+    Hyperball = "hyperball",
+    Surface = "surface"
+}
+export declare enum RegionStateOptionsType {
+    FULL = "full",
+    COLLAPSED = "collapsed",
+    HIDDEN = "hidden"
+}
+export declare enum SimpleRegionStateOptionsType {
+    FULL = "full",
+    HIDDEN = "hidden"
+}
+export declare enum PluginLayoutControlsDisplayType {
+    OUTSIDE = "outside",
+    PORTRAIT = "portrait",
+    LANDSCAPE = "landscape",
+    REACTIVE = "reactive"
+}
+export declare const BiostructurePropsDefault: {
+    pdb: string | null;
+    pdbTag: string | null;
+    ligandColumnName: string | null;
+    pdbProvider: string;
+    emdbProvider: string;
+    representation: RepresentationType;
+    layoutIsExpanded: boolean;
+    layoutShowControls: boolean;
+    layoutRegionStateLeft: RegionStateOptionsType;
+    layoutRegionStateTop: SimpleRegionStateOptionsType;
+    layoutRegionStateRight: SimpleRegionStateOptionsType;
+    layoutRegionStateBottom: SimpleRegionStateOptionsType;
+    layoutControlsDisplay: PluginLayoutControlsDisplayType;
+    showImportControls: boolean;
+    showSessionControls: boolean;
+    showStructureSourceControls: boolean;
+    showSuperpositionControls: boolean;
+    showValidationReportControls: boolean;
+    showMembraneOrientationPreset: boolean;
+    /**
+     * Needed when running outside of sierra. If set to true, the strucmotif UI will use an absolute URL to sierra-prod.
+     * Otherwise, the link will be relative on the current host.
+     */
+    detachedFromSierra: boolean;
+    layoutShowRemoteState: boolean;
+    layoutShowSequence: boolean;
+    layoutShowLog: boolean;
+    layoutShowLeftPanel: boolean;
+    collapseLeftPanel: boolean;
+    collapseRightPanel: boolean;
+    viewportShowExpand: boolean;
+    viewportShowControls: boolean;
+    viewportShowSelectionMode: boolean;
+    volumeStreamingServer: string;
+    backgroundColor: number;
+    showWelcomeToast: boolean;
+    modelUrlProviders: string;
+    showExportControls: boolean;
+};
+export type BiostructureProps = Required<typeof BiostructurePropsDefault>;
+export interface IBiostructureViewer extends IViewer {
+    setOptions(options: Partial<BiostructureProps>): void;
 }
 export interface ISaguaroViewer extends IViewer {
     setData(df: PdbResDataFrameType | DG.DataFrame): void;
 }
+declare module 'datagrok-api/dg' {
+    interface DataFramePlotHelper {
+        fromType(viewerType: 'Biostructure', options: Partial<BiostructureProps>): Promise<DG.Viewer & IBiostructureViewer>;
+    }
+}
 //# sourceMappingURL=molstar-viewer.d.ts.map

package/src/viewers/molstar-viewer.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"molstar-viewer.d.ts","sourceRoot":"","sources":["molstar-viewer.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAItC,OAAO,EAAC,OAAO,EAAC,MAAM,UAAU,CAAC;AACjC,OAAO,EAAC,mBAAmB,EAAC,MAAM,mBAAmB,CAAC;AAEtD,MAAM,WAAW,cAAe,SAAQ,OAAO;IAC7C,OAAO,CAAC,EAAE,EAAE,mBAAmB,GAAG,EAAE,CAAC,SAAS,GAAG,IAAI,CAAC;CACvD;AAED,MAAM,WAAW,cAAe,SAAQ,OAAO;IAC7C,OAAO,CAAC,EAAE,EAAE,mBAAmB,GAAG,EAAE,CAAC,SAAS,GAAG,IAAI,CAAC;CACvD"}
+{"version":3,"file":"molstar-viewer.d.ts","sourceRoot":"","sources":["molstar-viewer.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAItC,OAAO,EAAC,OAAO,EAAC,MAAM,UAAU,CAAC;AACjC,OAAO,EAAC,mBAAmB,EAAC,MAAM,mBAAmB,CAAC;AAEtD,oBAAY,kBAAkB;IAC5B,OAAO,YAAY;IACnB,QAAQ,aAAa;IACrB,YAAY,eAAe;IAC3B,QAAQ,aAAa;IACrB,SAAS,cAAc;IACvB,OAAO,YAAY;CACpB;AAED,oBAAY,sBAAsB;IAChC,IAAI,SAAS;IACb,SAAS,cAAc;IACvB,MAAM,WAAW;CAClB;AAED,oBAAY,4BAA4B;IACtC,IAAI,SAAS;IACb,MAAM,WAAW;CAClB;AAED,oBAAY,+BAA+B;IACzC,OAAO,YAAY;IACnB,QAAQ,aAAa;IACrB,SAAS,cAAc;IACvB,QAAQ,aAAa;CACtB;AAED,eAAO,MAAM,wBAAwB;SAE9B,MAAM,GAAG,IAAI;YACV,MAAM,GAAG,IAAI;sBACH,MAAM,GAAG,IAAI;iBAClB,MAAM;kBACL,MAAM;oBAGJ,kBAAkB;sBAGhB,OAAO;wBACL,OAAO;2BACJ,sBAAsB;0BACvB,4BAA4B;4BAC1B,4BAA4B;6BAC3B,4BAA4B;2BAC9B,+BAA+B;wBAElC,OAAO;yBACN,OAAO;iCACC,OAAO;+BAGT,OAAO;kCAMJ,OAAO;mCAEN,OAAO;IAGtC;;;OAGG;wBACiB,OAAO;2BAEJ,OAAO;wBACV,OAAO;mBACZ,OAAO;yBACD,OAAO;uBAET,OAAO;wBACN,OAAO;wBACP,OAAO;0BACL,OAAO;+BAEF,OAAO;2BACX,MAAM;qBACZ,MAAM;sBACL,OAAO;uBAEN,MAAM;wBACL,OAAO;CAC1B,CAAC;AAEJ,MAAM,MAAM,iBAAiB,GAAG,QAAQ,CAAC,OAAO,wBAAwB,CAAC,CAAC;AAE1E,MAAM,WAAW,mBAAoB,SAAQ,OAAO;IAClD,UAAU,CAAC,OAAO,EAAE,OAAO,CAAC,iBAAiB,CAAC,GAAG,IAAI,CAAC;CACvD;AAGD,MAAM,WAAW,cAAe,SAAQ,OAAO;IAC7C,OAAO,CAAC,EAAE,EAAE,mBAAmB,GAAG,EAAE,CAAC,SAAS,GAAG,IAAI,CAAC;CACvD;AAED,OAAO,QAAQ,iBAAiB,CAAC;IAC/B,UAAU,mBAAmB;QAC3B,QAAQ,CAAC,UAAU,EAAE,cAAc,EAAE,OAAO,EAAE,OAAO,CAAC,iBAAiB,CAAC,GAAG,OAAO,CAAC,EAAE,CAAC,MAAM,GAAG,mBAAmB,CAAC,CAAC;KACrH;CACF"}

package/src/viewers/molstar-viewer.js

@@ -1,2 +1,80 @@
-export {};
+export var RepresentationType;
+(function (RepresentationType) {
+    RepresentationType["Cartoon"] = "cartoon";
+    RepresentationType["Backbone"] = "backbone";
+    RepresentationType["BallAndStick"] = "ball+stick";
+    RepresentationType["Licorice"] = "licorice";
+    RepresentationType["Hyperball"] = "hyperball";
+    RepresentationType["Surface"] = "surface";
+})(RepresentationType || (RepresentationType = {}));
+export var RegionStateOptionsType;
+(function (RegionStateOptionsType) {
+    RegionStateOptionsType["FULL"] = "full";
+    RegionStateOptionsType["COLLAPSED"] = "collapsed";
+    RegionStateOptionsType["HIDDEN"] = "hidden";
+})(RegionStateOptionsType || (RegionStateOptionsType = {}));
+export var SimpleRegionStateOptionsType;
+(function (SimpleRegionStateOptionsType) {
+    SimpleRegionStateOptionsType["FULL"] = "full";
+    SimpleRegionStateOptionsType["HIDDEN"] = "hidden";
+})(SimpleRegionStateOptionsType || (SimpleRegionStateOptionsType = {}));
+export var PluginLayoutControlsDisplayType;
+(function (PluginLayoutControlsDisplayType) {
+    PluginLayoutControlsDisplayType["OUTSIDE"] = "outside";
+    PluginLayoutControlsDisplayType["PORTRAIT"] = "portrait";
+    PluginLayoutControlsDisplayType["LANDSCAPE"] = "landscape";
+    PluginLayoutControlsDisplayType["REACTIVE"] = "reactive";
+})(PluginLayoutControlsDisplayType || (PluginLayoutControlsDisplayType = {}));
+export const BiostructurePropsDefault = new class {
+    constructor() {
+        // -- Data --
+        this.pdb = null;
+        this.pdbTag = null;
+        this.ligandColumnName = null;
+        this.pdbProvider = 'rcsb';
+        this.emdbProvider = 'rcsb';
+        // -- Style --
+        this.representation = RepresentationType.Cartoon;
+        // -- Layout --
+        this.layoutIsExpanded = false;
+        this.layoutShowControls = false;
+        this.layoutRegionStateLeft = RegionStateOptionsType.FULL;
+        this.layoutRegionStateTop = SimpleRegionStateOptionsType.FULL;
+        this.layoutRegionStateRight = SimpleRegionStateOptionsType.FULL;
+        this.layoutRegionStateBottom = SimpleRegionStateOptionsType.FULL;
+        this.layoutControlsDisplay = PluginLayoutControlsDisplayType.OUTSIDE;
+        this.showImportControls = false;
+        this.showSessionControls = false;
+        this.showStructureSourceControls = true;
+        // showMeasurementsControls: true,
+        // showStrucmotifSubmitControls: true,
+        this.showSuperpositionControls = true;
+        // showQuickStylesControls: false,
+        // showStructureComponentControls: true,
+        // showVolumeStreamingControls: true,
+        // showAssemblySymmetryControls: true,
+        this.showValidationReportControls = true;
+        this.showMembraneOrientationPreset = false;
+        // showNakbColorTheme: false,
+        /**
+         * Needed when running outside of sierra. If set to true, the strucmotif UI will use an absolute URL to sierra-prod.
+         * Otherwise, the link will be relative on the current host.
+         */
+        this.detachedFromSierra = false;
+        this.layoutShowRemoteState = false;
+        this.layoutShowSequence = false;
+        this.layoutShowLog = false;
+        this.layoutShowLeftPanel = false;
+        this.collapseLeftPanel = true;
+        this.collapseRightPanel = true;
+        this.viewportShowExpand = false;
+        this.viewportShowControls = false;
+        this.viewportShowSelectionMode = true;
+        this.volumeStreamingServer = 'https://maps.rcsb.org/';
+        this.backgroundColor = 0xffffff; // white
+        this.showWelcomeToast = false;
+        this.modelUrlProviders = '';
+        this.showExportControls = false;
+    }
+}();
 //# sourceMappingURL=molstar-viewer.js.map

package/src/viewers/molstar-viewer.js.map

@@ -1 +1 @@
-{"version":3,"file":"molstar-viewer.js","sourceRoot":"","sources":["molstar-viewer.ts"],"names":[],"mappings":""}
+{"version":3,"file":"molstar-viewer.js","sourceRoot":"","sources":["molstar-viewer.ts"],"names":[],"mappings":"AAOA,MAAM,CAAN,IAAY,kBAOX;AAPD,WAAY,kBAAkB;IAC5B,yCAAmB,CAAA;IACnB,2CAAqB,CAAA;IACrB,iDAA2B,CAAA;IAC3B,2CAAqB,CAAA;IACrB,6CAAuB,CAAA;IACvB,yCAAmB,CAAA;AACrB,CAAC,EAPW,kBAAkB,KAAlB,kBAAkB,QAO7B;AAED,MAAM,CAAN,IAAY,sBAIX;AAJD,WAAY,sBAAsB;IAChC,uCAAa,CAAA;IACb,iDAAuB,CAAA;IACvB,2CAAiB,CAAA;AACnB,CAAC,EAJW,sBAAsB,KAAtB,sBAAsB,QAIjC;AAED,MAAM,CAAN,IAAY,4BAGX;AAHD,WAAY,4BAA4B;IACtC,6CAAa,CAAA;IACb,iDAAiB,CAAA;AACnB,CAAC,EAHW,4BAA4B,KAA5B,4BAA4B,QAGvC;AAED,MAAM,CAAN,IAAY,+BAKX;AALD,WAAY,+BAA+B;IACzC,sDAAmB,CAAA;IACnB,wDAAqB,CAAA;IACrB,0DAAuB,CAAA;IACvB,wDAAqB,CAAA;AACvB,CAAC,EALW,+BAA+B,KAA/B,+BAA+B,QAK1C;AAED,MAAM,CAAC,MAAM,wBAAwB,GAAG,IAAI;IAAA;QAC1C,aAAa;QACb,QAAG,GAAkB,IAAI,CAAC;QAC1B,WAAM,GAAkB,IAAI,CAAC;QAC7B,qBAAgB,GAAkB,IAAI,CAAC;QACvC,gBAAW,GAAW,MAAM,CAAC;QAC7B,iBAAY,GAAW,MAAM,CAAC;QAE9B,cAAc;QACd,mBAAc,GAAuB,kBAAkB,CAAC,OAAO,CAAC;QAEhE,eAAe;QACf,qBAAgB,GAAY,KAAK,CAAC;QAClC,uBAAkB,GAAY,KAAK,CAAC;QACpC,0BAAqB,GAA2B,sBAAsB,CAAC,IAAI,CAAC;QAC5E,yBAAoB,GAAiC,4BAA4B,CAAC,IAAI,CAAC;QACvF,2BAAsB,GAAiC,4BAA4B,CAAC,IAAI,CAAC;QACzF,4BAAuB,GAAiC,4BAA4B,CAAC,IAAI,CAAC;QAC1F,0BAAqB,GAAoC,+BAA+B,CAAC,OAAO,CAAC;QAEjG,uBAAkB,GAAY,KAAK,CAAC;QACpC,wBAAmB,GAAY,KAAK,CAAC;QACrC,gCAA2B,GAAY,IAAI,CAAC;QAC5C,kCAAkC;QAClC,sCAAsC;QACtC,8BAAyB,GAAY,IAAI,CAAC;QAE1C,kCAAkC;QAClC,wCAAwC;QACxC,qCAAqC;QACrC,sCAAsC;QACtC,iCAA4B,GAAY,IAAI,CAAC;QAE7C,kCAA6B,GAAY,KAAK,CAAC;QAE/C,6BAA6B;QAC7B;;;WAGG;QACH,uBAAkB,GAAY,KAAK,CAAC;QAEpC,0BAAqB,GAAY,KAAK,CAAC;QACvC,uBAAkB,GAAY,KAAK,CAAC;QACpC,kBAAa,GAAY,KAAK,CAAC;QAC/B,wBAAmB,GAAY,KAAK,CAAC;QAErC,sBAAiB,GAAY,IAAI,CAAC;QAClC,uBAAkB,GAAY,IAAI,CAAC;QACnC,uBAAkB,GAAY,KAAK,CAAC;QACpC,yBAAoB,GAAY,KAAK,CAAC;QAEtC,8BAAyB,GAAY,IAAI,CAAC;QAC1C,0BAAqB,GAAW,wBAAwB,CAAC;QACzD,oBAAe,GAAW,QAAQ,CAAC,CAAC,QAAQ;QAC5C,qBAAgB,GAAY,KAAK,CAAC;QAElC,sBAAiB,GAAW,EAAE,CAAC;QAC/B,uBAAkB,GAAY,KAAK,CAAC;IACtC,CAAC;CAAA,EAAE,CAAC"}

package/src/viewers/vd-regions.d.ts

@@ -23,17 +23,22 @@ export interface VdRegion {
     /** Region end position (inclusive) */
     readonly positionEndName: string;
 }
-export declare class VdRegionsPropsDefault {
+export declare const VdRegionsPropsDefault: {
     regionTypes: VdRegionType[];
     chains: string[];
     skipEmptyPositions: boolean;
     positionWidth: number;
     positionHeight: PositionHeight;
-}
-export type VdRegionsProps = Required<VdRegionsPropsDefault>;
+};
+export type VdRegionsProps = Required<typeof VdRegionsPropsDefault>;
 /** Interface for VdRegionsViewer from @datagrok/bio to unbind dependency to Bio package */
 export interface IVdRegionsViewer extends VdRegionsProps, IViewer {
     init(): Promise<void>;
     setData(mlbDf: DG.DataFrame, regions: VdRegion[]): void;
 }
+declare module 'datagrok-api/dg' {
+    interface DataFramePlotHelper {
+        fromType(viewerType: 'VdRegions', options: Partial<VdRegionsProps>): Promise<DG.Viewer & IVdRegionsViewer>;
+    }
+}
 //# sourceMappingURL=vd-regions.d.ts.map

package/src/viewers/vd-regions.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"vd-regions.d.ts","sourceRoot":"","sources":["vd-regions.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,OAAO,EAAC,MAAM,UAAU,CAAC;AACjC,OAAO,EAAC,cAAc,EAAC,MAAM,YAAY,CAAC;AAI1C,oBAAY,YAAY;IACtB,OAAO,YAAY;IACnB,EAAE,cAAc;IAChB,GAAG,QAAQ;CACZ;AAED;;;;GAIG;AACH,MAAM,WAAW,QAAQ;IACvB,QAAQ,CAAC,IAAI,EAAE,YAAY,CAAC;IAC5B,QAAQ,CAAC,IAAI,EAAE,MAAM,CAAC;IACtB,QAAQ,CAAC,KAAK,EAAE,MAAM,CAAC;IAEvB,QAAQ,CAAC,KAAK,EAAE,MAAM,CAAC;IAEvB,6CAA6C;IAC7C,QAAQ,CAAC,kBAAkB,EAAE,MAAM,CAAC;IAEpC,wCAAwC;IACxC,QAAQ,CAAC,iBAAiB,EAAE,MAAM,CAAC;IAEnC,sCAAsC;IACtC,QAAQ,CAAC,eAAe,EAAE,MAAM,CAAC;CAClC;AAED,qBAAa,qBAAqB;IAChC,WAAW,EAAE,YAAY,EAAE,CAAsB;IACjD,MAAM,EAAE,MAAM,EAAE,CAAsB;IAGtC,kBAAkB,EAAE,OAAO,CAAS;IACpC,aAAa,EAAE,MAAM,CAAM;IAC3B,cAAc,EAAE,cAAc,CAA0B;CACzD;AAED,MAAM,MAAM,cAAc,GAAG,QAAQ,CAAC,qBAAqB,CAAC,CAAC;AAE7D,2FAA2F;AAC3F,MAAM,WAAW,gBAAiB,SAAQ,cAAc,EAAE,OAAO;IAC/D,IAAI,IAAI,OAAO,CAAC,IAAI,CAAC,CAAC;IAEtB,OAAO,CAAC,KAAK,EAAE,EAAE,CAAC,SAAS,EAAE,OAAO,EAAE,QAAQ,EAAE,GAAG,IAAI,CAAC;CACzD"}
+{"version":3,"file":"vd-regions.d.ts","sourceRoot":"","sources":["vd-regions.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,OAAO,EAAC,MAAM,UAAU,CAAC;AACjC,OAAO,EAAC,cAAc,EAAC,MAAM,YAAY,CAAC;AAI1C,oBAAY,YAAY;IACtB,OAAO,YAAY;IACnB,EAAE,cAAc;IAChB,GAAG,QAAQ;CACZ;AAED;;;;GAIG;AACH,MAAM,WAAW,QAAQ;IACvB,QAAQ,CAAC,IAAI,EAAE,YAAY,CAAC;IAC5B,QAAQ,CAAC,IAAI,EAAE,MAAM,CAAC;IACtB,QAAQ,CAAC,KAAK,EAAE,MAAM,CAAC;IAEvB,QAAQ,CAAC,KAAK,EAAE,MAAM,CAAC;IAEvB,6CAA6C;IAC7C,QAAQ,CAAC,kBAAkB,EAAE,MAAM,CAAC;IAEpC,wCAAwC;IACxC,QAAQ,CAAC,iBAAiB,EAAE,MAAM,CAAC;IAEnC,sCAAsC;IACtC,QAAQ,CAAC,eAAe,EAAE,MAAM,CAAC;CAClC;AAED,eAAO,MAAM,qBAAqB;iBACnB,YAAY,EAAE;YACnB,MAAM,EAAE;wBAGI,OAAO;mBACZ,MAAM;oBACL,cAAc;CAC7B,CAAC;AAEJ,MAAM,MAAM,cAAc,GAAG,QAAQ,CAAC,OAAO,qBAAqB,CAAC,CAAC;AAEpE,2FAA2F;AAC3F,MAAM,WAAW,gBAAiB,SAAQ,cAAc,EAAE,OAAO;IAC/D,IAAI,IAAI,OAAO,CAAC,IAAI,CAAC,CAAC;IAEtB,OAAO,CAAC,KAAK,EAAE,EAAE,CAAC,SAAS,EAAE,OAAO,EAAE,QAAQ,EAAE,GAAG,IAAI,CAAC;CACzD;AAED,OAAO,QAAQ,iBAAiB,CAAC;IAC/B,UAAiB,mBAAmB;QAClC,QAAQ,CAAC,UAAU,EAAE,WAAW,EAAE,OAAO,EAAE,OAAO,CAAC,cAAc,CAAC,GAAG,OAAO,CAAC,EAAE,CAAC,MAAM,GAAG,gBAAgB,CAAC,CAAC;KAC5G;CACF"}

package/src/viewers/vd-regions.js

@@ -6,7 +6,7 @@ export var VdRegionType;
     VdRegionType["FR"] = "framework";
     VdRegionType["CDR"] = "cdr";
 })(VdRegionType || (VdRegionType = {}));
-export class VdRegionsPropsDefault {
+export const VdRegionsPropsDefault = new class {
     constructor() {
         this.regionTypes = [VdRegionType.CDR];
         this.chains = ['Heavy', 'Light'];
@@ -15,5 +15,5 @@ export class VdRegionsPropsDefault {
         this.positionWidth = 16;
         this.positionHeight = PositionHeight.Entropy;
     }
-}
+}();
 //# sourceMappingURL=vd-regions.js.map

package/src/viewers/vd-regions.js.map

@@ -1 +1 @@
-{"version":3,"file":"vd-regions.js","sourceRoot":"","sources":["vd-regions.ts"],"names":[],"mappings":"AAGA,OAAO,EAAC,cAAc,EAAC,MAAM,YAAY,CAAC;AAE1C,qDAAqD;AAErD,MAAM,CAAN,IAAY,YAIX;AAJD,WAAY,YAAY;IACtB,mCAAmB,CAAA;IACnB,gCAAgB,CAAA;IAChB,2BAAW,CAAA;AACb,CAAC,EAJW,YAAY,KAAZ,YAAY,QAIvB;AAwBD,MAAM,OAAO,qBAAqB;IAAlC;QACE,gBAAW,GAAmB,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC;QACjD,WAAM,GAAa,CAAC,OAAO,EAAE,OAAO,CAAC,CAAC;QACtC,uDAAuD;QAEvD,uBAAkB,GAAY,KAAK,CAAC;QACpC,kBAAa,GAAW,EAAE,CAAC;QAC3B,mBAAc,GAAmB,cAAc,CAAC,OAAO,CAAC;IAC1D,CAAC;CAAA"}
+{"version":3,"file":"vd-regions.js","sourceRoot":"","sources":["vd-regions.ts"],"names":[],"mappings":"AAGA,OAAO,EAAC,cAAc,EAAC,MAAM,YAAY,CAAC;AAE1C,qDAAqD;AAErD,MAAM,CAAN,IAAY,YAIX;AAJD,WAAY,YAAY;IACtB,mCAAmB,CAAA;IACnB,gCAAgB,CAAA;IAChB,2BAAW,CAAA;AACb,CAAC,EAJW,YAAY,KAAZ,YAAY,QAIvB;AAwBD,MAAM,CAAC,MAAM,qBAAqB,GAAG,IAAI;IAAA;QACvC,gBAAW,GAAmB,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC;QACjD,WAAM,GAAa,CAAC,OAAO,EAAE,OAAO,CAAC,CAAC;QACtC,uDAAuD;QAEvD,uBAAkB,GAAY,KAAK,CAAC;QACpC,kBAAa,GAAW,EAAE,CAAC;QAC3B,mBAAc,GAAmB,cAAc,CAAC,OAAO,CAAC;IAC1D,CAAC;CAAA,EAAE,CAAC"}

package/src/viewers/web-logo.d.ts

@@ -1,17 +1,52 @@
+import * as DG from 'datagrok-api/dg';
 import { IViewer } from './viewer';
 export declare enum PositionHeight {
     Entropy = "Entropy",
     full = "100%"
 }
-export declare class WebLogoPropsDefault {
+export declare enum VerticalAlignments {
+    TOP = "top",
+    MIDDLE = "middle",
+    BOTTOM = "bottom"
+}
+export declare enum HorizontalAlignments {
+    LEFT = "left",
+    CENTER = "center",
+    RIGHT = "right"
+}
+export declare enum PositionMarginStates {
+    AUTO = "auto",
+    ON = "on",
+    OFF = "off"
+}
+/** The source for filtering sequences considered to plot WebLogo  */
+export declare enum FilterSources {
+    /** Sequences of filtered rows are considered, default. */
+    Filtered = "Filtered",
+    /** Sequences in selection are considered to plot WebLogo for faster exploration. */
+    Selected = "Selected"
+}
+export declare const WebLogoPropsDefault: {
     sequenceColumnName: string | null;
     startPositionName: string | null;
     endPositionName: string | null;
     skipEmptySequences: boolean;
     skipEmptyPositions: boolean;
     shrinkEmptyTail: boolean;
-}
-export type WebLogoProps = Required<WebLogoPropsDefault>;
+    backgroundColor: number;
+    positionHeight: string;
+    positionWidth: number;
+    verticalAlignment: VerticalAlignments;
+    horizontalAlignment: HorizontalAlignments;
+    fixWidth: boolean;
+    fitArea: boolean;
+    minHeight: number;
+    maxHeight: number;
+    positionMarginState: PositionMarginStates;
+    positionMargin: number;
+    filterSource: FilterSources;
+};
+export type WebLogoProps = Required<typeof WebLogoPropsDefault>;
 export interface IWebLogoViewer extends WebLogoProps, IViewer {
 }
 export declare const positionSeparator: string;
@@ -19,4 +54,9 @@ export declare const positionRe: RegExp;
 export declare enum TAGS {
     positionNames = ".positionNames"
 }
+declare module 'datagrok-api/dg' {
+    interface DataFramePlotHelper {
+        fromType(viewerType: 'WebLogo', options: Partial<WebLogoProps>): Promise<DG.Viewer & IWebLogoViewer>;
+    }
+}
 //# sourceMappingURL=web-logo.d.ts.map

package/src/viewers/web-logo.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"web-logo.d.ts","sourceRoot":"","sources":["web-logo.ts"],"names":[],"mappings":"AAGA,OAAO,EAAC,OAAO,EAAC,MAAM,UAAU,CAAC;AAEjC,oBAAY,cAAc;IACxB,OAAO,YAAY;IACnB,IAAI,SAAS;CACd;AAED,qBAAa,mBAAmB;IAE9B,kBAAkB,EAAE,MAAM,GAAG,IAAI,CAAQ;IACzC,iBAAiB,EAAE,MAAM,GAAG,IAAI,CAAQ;IACxC,eAAe,EAAE,MAAM,GAAG,IAAI,CAAQ;IACtC,kBAAkB,EAAE,OAAO,CAAQ;IACnC,kBAAkB,EAAE,OAAO,CAAS;IACpC,eAAe,EAAE,OAAO,CAAQ;CACjC;AAED,MAAM,MAAM,YAAY,GAAG,QAAQ,CAAC,mBAAmB,CAAC,CAAC;AAEzD,MAAM,WAAW,cAAe,SAAQ,YAAY,EAAE,OAAO;CAE5D;AAED,eAAO,MAAM,iBAAiB,EAAE,MAAa,CAAC;AAC9C,eAAO,MAAM,UAAU,EAAE,MAAwB,CAAC;AAElD,oBAAY,IAAI;IACd,aAAa,mBAAmB;CACjC"}
+{"version":3,"file":"web-logo.d.ts","sourceRoot":"","sources":["web-logo.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EAAE,MAAM,iBAAiB,CAAC;AAEtC,OAAO,EAAC,OAAO,EAAC,MAAM,UAAU,CAAC;AAEjC,oBAAY,cAAc;IACxB,OAAO,YAAY;IACnB,IAAI,SAAS;CACd;AAED,oBAAY,kBAAkB;IAC5B,GAAG,QAAQ;IACX,MAAM,WAAW;IACjB,MAAM,WAAW;CAClB;AAED,oBAAY,oBAAoB;IAC9B,IAAI,SAAS;IACb,MAAM,WAAW;IACjB,KAAK,UAAU;CAChB;AAED,oBAAY,oBAAoB;IAC9B,IAAI,SAAS;IACb,EAAE,OAAO;IACT,GAAG,QAAQ;CACZ;AAED,qEAAqE;AACrE,oBAAY,aAAa;IACvB,0DAA0D;IAC1D,QAAQ,aAAa;IACrB,oFAAoF;IACpF,QAAQ,aAAa;CACtB;AAED,eAAO,MAAM,mBAAmB;wBAEV,MAAM,GAAG,IAAI;uBACd,MAAM,GAAG,IAAI;qBACf,MAAM,GAAG,IAAI;wBACV,OAAO;wBACP,OAAO;qBACV,OAAO;qBAGP,MAAM;oBACP,MAAM;mBACP,MAAM;uBAGF,kBAAkB;yBAChB,oBAAoB;cAC/B,OAAO;aACR,OAAO;eACL,MAAM;eACN,MAAM;yBACI,oBAAoB;oBACzB,MAAM;kBAGR,aAAa;CAC1B,CAAC;AAEJ,MAAM,MAAM,YAAY,GAAG,QAAQ,CAAC,OAAO,mBAAmB,CAAC,CAAC;AAEhE,MAAM,WAAW,cAAe,SAAQ,YAAY,EAAE,OAAO;CAE5D;AAED,eAAO,MAAM,iBAAiB,EAAE,MAAa,CAAC;AAC9C,eAAO,MAAM,UAAU,EAAE,MAAwB,CAAC;AAElD,oBAAY,IAAI;IACd,aAAa,mBAAmB;CACjC;AAED,OAAO,QAAQ,iBAAiB,CAAC;IAC/B,UAAiB,mBAAmB;QAClC,QAAQ,CAAC,UAAU,EAAE,SAAS,EAAE,OAAO,EAAE,OAAO,CAAC,YAAY,CAAC,GAAG,OAAO,CAAC,EAAE,CAAC,MAAM,GAAG,cAAc,CAAC,CAAC;KACtG;CACF"}

package/src/viewers/web-logo.js

@@ -3,7 +3,33 @@ export var PositionHeight;
     PositionHeight["Entropy"] = "Entropy";
     PositionHeight["full"] = "100%";
 })(PositionHeight || (PositionHeight = {}));
-export class WebLogoPropsDefault {
+export var VerticalAlignments;
+(function (VerticalAlignments) {
+    VerticalAlignments["TOP"] = "top";
+    VerticalAlignments["MIDDLE"] = "middle";
+    VerticalAlignments["BOTTOM"] = "bottom";
+})(VerticalAlignments || (VerticalAlignments = {}));
+export var HorizontalAlignments;
+(function (HorizontalAlignments) {
+    HorizontalAlignments["LEFT"] = "left";
+    HorizontalAlignments["CENTER"] = "center";
+    HorizontalAlignments["RIGHT"] = "right";
+})(HorizontalAlignments || (HorizontalAlignments = {}));
+export var PositionMarginStates;
+(function (PositionMarginStates) {
+    PositionMarginStates["AUTO"] = "auto";
+    PositionMarginStates["ON"] = "on";
+    PositionMarginStates["OFF"] = "off";
+})(PositionMarginStates || (PositionMarginStates = {}));
+/** The source for filtering sequences considered to plot WebLogo  */
+export var FilterSources;
+(function (FilterSources) {
+    /** Sequences of filtered rows are considered, default. */
+    FilterSources["Filtered"] = "Filtered";
+    /** Sequences in selection are considered to plot WebLogo for faster exploration. */
+    FilterSources["Selected"] = "Selected";
+})(FilterSources || (FilterSources = {}));
+export const WebLogoPropsDefault = new class {
     constructor() {
         // -- Data --
         this.sequenceColumnName = null;
@@ -12,8 +38,23 @@ export class WebLogoPropsDefault {
         this.skipEmptySequences = true;
         this.skipEmptyPositions = false;
         this.shrinkEmptyTail = true;
+        // -- Style --
+        this.backgroundColor = 0xFFFFFFFF;
+        this.positionHeight = PositionHeight.full;
+        this.positionWidth = 16;
+        // -- Layout --
+        this.verticalAlignment = VerticalAlignments.MIDDLE;
+        this.horizontalAlignment = HorizontalAlignments.CENTER;
+        this.fixWidth = false;
+        this.fitArea = true;
+        this.minHeight = 50;
+        this.maxHeight = 100;
+        this.positionMarginState = PositionMarginStates.AUTO;
+        this.positionMargin = 0;
+        // -- Behavior --
+        this.filterSource = FilterSources.Filtered;
     }
-}
+}();
 export const positionSeparator = ', ';
 export const positionRe = /(\d+)([A-Z]?)/;
 export var TAGS;

package/src/viewers/web-logo.js.map

@@ -1 +1 @@
-{"version":3,"file":"web-logo.js","sourceRoot":"","sources":["web-logo.ts"],"names":[],"mappings":"AAKA,MAAM,CAAN,IAAY,cAGX;AAHD,WAAY,cAAc;IACxB,qCAAmB,CAAA;IACnB,+BAAa,CAAA;AACf,CAAC,EAHW,cAAc,KAAd,cAAc,QAGzB;AAED,MAAM,OAAO,mBAAmB;IAAhC;QACE,aAAa;QACb,uBAAkB,GAAkB,IAAI,CAAC;QACzC,sBAAiB,GAAkB,IAAI,CAAC;QACxC,oBAAe,GAAkB,IAAI,CAAC;QACtC,uBAAkB,GAAY,IAAI,CAAC;QACnC,uBAAkB,GAAY,KAAK,CAAC;QACpC,oBAAe,GAAY,IAAI,CAAC;IAClC,CAAC;CAAA;AAQD,MAAM,CAAC,MAAM,iBAAiB,GAAW,IAAI,CAAC;AAC9C,MAAM,CAAC,MAAM,UAAU,GAAW,eAAe,CAAC;AAElD,MAAM,CAAN,IAAY,IAEX;AAFD,WAAY,IAAI;IACd,wCAAgC,CAAA;AAClC,CAAC,EAFW,IAAI,KAAJ,IAAI,QAEf"}
+{"version":3,"file":"web-logo.js","sourceRoot":"","sources":["web-logo.ts"],"names":[],"mappings":"AAMA,MAAM,CAAN,IAAY,cAGX;AAHD,WAAY,cAAc;IACxB,qCAAmB,CAAA;IACnB,+BAAa,CAAA;AACf,CAAC,EAHW,cAAc,KAAd,cAAc,QAGzB;AAED,MAAM,CAAN,IAAY,kBAIX;AAJD,WAAY,kBAAkB;IAC5B,iCAAW,CAAA;IACX,uCAAiB,CAAA;IACjB,uCAAiB,CAAA;AACnB,CAAC,EAJW,kBAAkB,KAAlB,kBAAkB,QAI7B;AAED,MAAM,CAAN,IAAY,oBAIX;AAJD,WAAY,oBAAoB;IAC9B,qCAAa,CAAA;IACb,yCAAiB,CAAA;IACjB,uCAAe,CAAA;AACjB,CAAC,EAJW,oBAAoB,KAApB,oBAAoB,QAI/B;AAED,MAAM,CAAN,IAAY,oBAIX;AAJD,WAAY,oBAAoB;IAC9B,qCAAa,CAAA;IACb,iCAAS,CAAA;IACT,mCAAW,CAAA;AACb,CAAC,EAJW,oBAAoB,KAApB,oBAAoB,QAI/B;AAED,qEAAqE;AACrE,MAAM,CAAN,IAAY,aAKX;AALD,WAAY,aAAa;IACvB,0DAA0D;IAC1D,sCAAqB,CAAA;IACrB,oFAAoF;IACpF,sCAAqB,CAAA;AACvB,CAAC,EALW,aAAa,KAAb,aAAa,QAKxB;AAED,MAAM,CAAC,MAAM,mBAAmB,GAAG,IAAI;IAAA;QACrC,aAAa;QACb,uBAAkB,GAAkB,IAAI,CAAC;QACzC,sBAAiB,GAAkB,IAAI,CAAC;QACxC,oBAAe,GAAkB,IAAI,CAAC;QACtC,uBAAkB,GAAY,IAAI,CAAC;QACnC,uBAAkB,GAAY,KAAK,CAAC;QACpC,oBAAe,GAAY,IAAI,CAAC;QAEhC,cAAc;QACd,oBAAe,GAAW,UAAU,CAAC;QACrC,mBAAc,GAAW,cAAc,CAAC,IAAI,CAAC;QAC7C,kBAAa,GAAW,EAAE,CAAC;QAE3B,eAAe;QACf,sBAAiB,GAAuB,kBAAkB,CAAC,MAAM,CAAC;QAClE,wBAAmB,GAAyB,oBAAoB,CAAC,MAAM,CAAC;QACxE,aAAQ,GAAY,KAAK,CAAC;QAC1B,YAAO,GAAY,IAAI,CAAC;QACxB,cAAS,GAAW,EAAE,CAAC;QACvB,cAAS,GAAW,GAAG,CAAC;QACxB,wBAAmB,GAAyB,oBAAoB,CAAC,IAAI,CAAC;QACtE,mBAAc,GAAW,CAAC,CAAC;QAE3B,iBAAiB;QACjB,iBAAY,GAAkB,aAAa,CAAC,QAAQ,CAAC;IACvD,CAAC;CAAA,EAAE,CAAC;AAQJ,MAAM,CAAC,MAAM,iBAAiB,GAAW,IAAI,CAAC;AAC9C,MAAM,CAAC,MAAM,UAAU,GAAW,eAAe,CAAC;AAElD,MAAM,CAAN,IAAY,IAEX;AAFD,WAAY,IAAI;IACd,wCAAgC,CAAA;AAClC,CAAC,EAFW,IAAI,KAAJ,IAAI,QAEf"}