@jbrowse/plugin-alignments 2.1.7 → 2.2.0

package/esm/LinearPileupDisplay/model.js.map

@@ -1 +1 @@
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package/esm/LinearSNPCoverageDisplay/models/configSchema.js

@@ -1,44 +1,73 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration';
 import { baseLinearDisplayConfigSchema } from '@jbrowse/plugin-linear-genome-view';
 import { types } from 'mobx-state-tree';
+/**
+ * #config LinearSNPCoverageDisplay
+ */
+function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
 export default function SNPCoverageConfigFactory(pluginManager) {
-    const SNPCoverageRendererConfigSchema = pluginManager.getRendererType('SNPCoverageRenderer').configSchema;
     return ConfigurationSchema('LinearSNPCoverageDisplay', {
+        /**
+         * #slot
+         */
         autoscale: {
             type: 'stringEnum',
             defaultValue: 'local',
             model: types.enumeration('Autoscale type', ['local']),
             description: 'performs local autoscaling (no other options for SNP Coverage available)',
         },
+        /**
+         * #slot
+         */
         minScore: {
             type: 'number',
             defaultValue: Number.MIN_VALUE,
             description: 'minimum value for the y-scale',
         },
+        /**
+         * #slot
+         */
         maxScore: {
             type: 'number',
             description: 'maximum value for the y-scale',
             defaultValue: Number.MAX_VALUE,
         },
+        /**
+         * #slot
+         */
         scaleType: {
             type: 'stringEnum',
             model: types.enumeration('Scale type', ['linear', 'log']),
             description: 'The type of scale to use',
             defaultValue: 'linear',
         },
-        inverted: {
+        /**
+         * #slot
+         */ inverted: {
             type: 'boolean',
             description: 'draw upside down',
             defaultValue: false,
         },
+        /**
+         * #slot
+         */
         multiTicks: {
             type: 'boolean',
             description: 'Display multiple values for the ticks',
             defaultValue: false,
         },
+        /**
+         * #slot
+         */
         renderers: ConfigurationSchema('RenderersConfiguration', {
-            SNPCoverageRenderer: SNPCoverageRendererConfigSchema,
+            SNPCoverageRenderer: pluginManager.getRendererType('SNPCoverageRenderer').configSchema,
         }),
-    }, { baseConfiguration: baseLinearDisplayConfigSchema, explicitlyTyped: true });
+    }, {
+        /**
+         * #baseConfiguration
+         */
+        baseConfiguration: baseLinearDisplayConfigSchema,
+        explicitlyTyped: true,
+    });
 }
 //# sourceMappingURL=configSchema.js.map

package/esm/LinearSNPCoverageDisplay/models/configSchema.js.map

@@ -1 +1 @@
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+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../../src/LinearSNPCoverageDisplay/models/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,OAAO,EAAE,6BAA6B,EAAE,MAAM,oCAAoC,CAAA;AAClF,OAAO,EAAE,KAAK,EAAE,MAAM,iBAAiB,CAAA;AAGvC;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,CAAC,OAAO,UAAU,wBAAwB,CAAC,aAA4B;IAC3E,OAAO,mBAAmB,CACxB,0BAA0B,EAC1B;QACE;;WAEG;QACH,SAAS,EAAE;YACT,IAAI,EAAE,YAAY;YAClB,YAAY,EAAE,OAAO;YACrB,KAAK,EAAE,KAAK,CAAC,WAAW,CAAC,gBAAgB,EAAE,CAAC,OAAO,CAAC,CAAC;YACrD,WAAW,EACT,0EAA0E;SAC7E;QACD;;WAEG;QACH,QAAQ,EAAE;YACR,IAAI,EAAE,QAAQ;YACd,YAAY,EAAE,MAAM,CAAC,SAAS;YAC9B,WAAW,EAAE,+BAA+B;SAC7C;QACD;;WAEG;QACH,QAAQ,EAAE;YACR,IAAI,EAAE,QAAQ;YACd,WAAW,EAAE,+BAA+B;YAC5C,YAAY,EAAE,MAAM,CAAC,SAAS;SAC/B;QACD;;WAEG;QACH,SAAS,EAAE;YACT,IAAI,EAAE,YAAY;YAClB,KAAK,EAAE,KAAK,CAAC,WAAW,CAAC,YAAY,EAAE,CAAC,QAAQ,EAAE,KAAK,CAAC,CAAC;YACzD,WAAW,EAAE,0BAA0B;YACvC,YAAY,EAAE,QAAQ;SACvB;QACD;;WAEG,CAAC,QAAQ,EAAE;YACZ,IAAI,EAAE,SAAS;YACf,WAAW,EAAE,kBAAkB;YAC/B,YAAY,EAAE,KAAK;SACpB;QACD;;WAEG;QACH,UAAU,EAAE;YACV,IAAI,EAAE,SAAS;YACf,WAAW,EAAE,uCAAuC;YACpD,YAAY,EAAE,KAAK;SACpB;QACD;;WAEG;QACH,SAAS,EAAE,mBAAmB,CAAC,wBAAwB,EAAE;YACvD,mBAAmB,EAAE,aAAa,CAAC,eAAe,CAChD,qBAAqB,CACtB,CAAC,YAAY;SACf,CAAC;KACH,EACD;QACE;;WAEG;QACH,iBAAiB,EAAE,6BAA6B;QAChD,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC"}

package/esm/LinearSNPCoverageDisplay/models/model.d.ts

@@ -1,7 +1,11 @@
 /// <reference types="react" />
 import { AnyConfigurationSchemaType, AnyConfigurationModel } from '@jbrowse/core/configuration';
 import PluginManager from '@jbrowse/core/PluginManager';
-declare const stateModelFactory: (pluginManager: PluginManager, configSchema: AnyConfigurationSchemaType) => import("mobx-state-tree").IModelType<{
+/**
+ * #stateModel LinearSNPCoverageDisplay
+ * extends `LinearWiggleDisplay`
+ */
+declare function stateModelFactory(pluginManager: PluginManager, configSchema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
     type: import("mobx-state-tree").ISimpleType<string>;
     rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
@@ -39,7 +43,9 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
     } & {
         doReload(): void;
         afterAttach(): void;
-        setStatus(message: string): void;
+        setStatus(message: string): void; /**
+         * #action
+         */
         setLoading(abortController: AbortController): void;
         setMessage(messageText: string): void;
         setRendered(props: {
@@ -62,7 +68,9 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
     resolution: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
     fill: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
     minSize: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
-    color: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+    color: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>; /**
+     * #getter
+     */
     posColor: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
     negColor: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
     summaryScoreMode: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
@@ -75,10 +83,25 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
         min: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
 } & {
+    /**
+     * #property
+     */
     type: import("mobx-state-tree").ISimpleType<"LinearSNPCoverageDisplay">;
+    /**
+     * #property
+     */
     drawInterbaseCounts: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
+    /**
+     * #property
+     */
     drawIndicators: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
+    /**
+     * #property
+     */
     drawArcs: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
+    /**
+     * #property
+     */
     filterBy: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
         flagInclude: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
         flagExclude: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
@@ -88,6 +111,9 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
             value: import("mobx-state-tree").ISimpleType<string>;
         }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
+    /**
+     * #property
+     */
     colorBy: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
         type: import("mobx-state-tree").ISimpleType<string>;
         tag: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
@@ -319,7 +345,13 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
 } & {
     modificationTagMap: import("mobx").ObservableMap<any, any>;
 } & {
+    /**
+     * #action
+     */
     setConfig(configuration: AnyConfigurationModel): void;
+    /**
+     * #action
+     */
     setFilterBy(filter: {
         flagInclude: number;
         flagExclude: number;
@@ -329,28 +361,64 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
             value: string;
         };
     }): void;
+    /**
+     * #action
+     */
     setColorBy(colorBy?: {
         type: string;
         tag?: string;
     }): void;
+    /**
+     * #action
+     */
     updateModificationColorMap(uniqueModifications: string[]): void;
 } & {
+    /**
+     * #getter
+     */
     readonly rendererConfig: {
         [x: string]: any;
     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
         setSubschema(slotName: string, data: unknown): any;
     } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
+    /**
+     * #getter
+     */
     readonly drawArcsSetting: any;
+    /**
+     * #getter
+     */
     readonly drawInterbaseCountsSetting: any;
+    /**
+     * #getter
+     */
     readonly drawIndicatorsSetting: any;
+    /**
+     * #getter
+     */
     readonly modificationsReady: boolean;
+    /**
+     * #method
+     */
     renderProps(): any;
 } & {
+    /**
+     * #action
+     */
     toggleDrawIndicators(): void;
+    /**
+     * #action
+     */
     toggleDrawInterbaseCounts(): void;
+    /**
+     * #action
+     */
     toggleDrawArcs(): void;
     afterAttach(): void;
 } & {
+    /**
+     * #getter
+     */
     readonly TooltipComponent: (props: {
         model: {
             featureUnderMouse: import("@jbrowse/core/util").Feature;
@@ -360,13 +428,28 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
         clientMouseCoord: [number, number];
         clientRect?: DOMRect | undefined;
     }) => JSX.Element | null;
+    /**
+     * #getter
+     */
     readonly adapterConfig: {
         type: string;
         subadapter: any;
     };
+    /**
+     * #getter
+     */
     readonly rendererTypeName: string | undefined;
+    /**
+     * #getter
+     */
     readonly needsScalebar: boolean;
+    /**
+     * #method
+     */
     contextMenuItems(): never[];
+    /**
+     * #method
+     */
     trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
         label: string;
         type: string;