@jbrowse/plugin-gccontent 2.3.1 → 2.3.3

package/dist/GCContentAdapter/GCContentAdapter.js

@@ -1,7 +1,8 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
-const rxjs_1 = require("@jbrowse/core/util/rxjs");
+const rxjs_1 = require("rxjs");
+const rxjs_2 = require("@jbrowse/core/util/rxjs");
 const util_1 = require("@jbrowse/core/util");
 const operators_1 = require("rxjs/operators");
 class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
@@ -24,7 +25,7 @@ class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
         return adapter.getRefNames();
     }
     getFeatures(query, opts) {
-        return (0, rxjs_1.ObservableCreate)(async (observer) => {
+        return (0, rxjs_2.ObservableCreate)(async (observer) => {
             var _a;
             const sequenceAdapter = await this.configure();
             const hw = this.windowSize === 1 ? 1 : this.windowSize / 2; // Half the window size
@@ -41,7 +42,7 @@ class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
                 start: queryStart,
                 end: queryEnd,
             }, opts);
-            const feats = await ret.pipe((0, operators_1.toArray)()).toPromise();
+            const feats = await (0, rxjs_1.firstValueFrom)(ret.pipe((0, operators_1.toArray)()));
             const residues = ((_a = feats[0]) === null || _a === void 0 ? void 0 : _a.get('seq')) || '';
             for (let i = hw; i < residues.length - hw; i += this.windowDelta) {
                 const r = f ? residues[i] : residues.slice(i - hw, i + hw);

package/dist/GCContentAdapter/GCContentAdapter.js.map

@@ -1 +1 @@
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+{"version":3,"file":"GCContentAdapter.js","sourceRoot":"","sources":["../../src/GCContentAdapter/GCContentAdapter.ts"],"names":[],"mappings":";;AAAA,yEAGgD;AAChD,+BAAqC;AACrC,kDAA0D;AAC1D,6CAAmE;AACnE,8CAAwC;AAExC,eAAqB,SAAQ,oCAAsB;IAAnD;;QACU,eAAU,GAAG,IAAI,CAAA;QAEjB,gBAAW,GAAG,IAAI,CAAA;QAElB,WAAM,GAAG,SAAS,CAAA;IAqF5B,CAAC;IAjFQ,KAAK,CAAC,SAAS;;QACpB,MAAM,OAAO,GAAG,MAAM,CAAA,MAAA,IAAI,CAAC,aAAa,qDAAG,IAAI,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAC,CAAA,CAAA;QAC3E,IAAI,CAAC,OAAO,EAAE;YACZ,MAAM,IAAI,KAAK,CAAC,0BAA0B,CAAC,CAAA;SAC5C;QACD,OAAO,OAAO,CAAC,WAAqC,CAAA;IACtD,CAAC;IAEM,KAAK,CAAC,WAAW;QACtB,MAAM,OAAO,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QACtC,OAAO,OAAO,CAAC,WAAW,EAAE,CAAA;IAC9B,CAAC;IAEM,WAAW,CAAC,KAAa,EAAE,IAAiB;QACjD,OAAO,IAAA,uBAAgB,EAAU,KAAK,EAAC,QAAQ,EAAC,EAAE;;YAChD,MAAM,eAAe,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;YAC9C,MAAM,EAAE,GAAG,IAAI,CAAC,UAAU,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,UAAU,GAAG,CAAC,CAAA,CAAC,uBAAuB;YAClF,MAAM,CAAC,GAAG,IAAI,CAAC,UAAU,KAAK,CAAC,CAAA;YAE/B,IAAI,EAAE,KAAK,EAAE,UAAU,EAAE,GAAG,EAAE,QAAQ,EAAE,GAAG,KAAK,CAAA;YAChD,UAAU,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,UAAU,GAAG,EAAE,CAAC,CAAA;YACzC,QAAQ,IAAI,EAAE,CAAA;YAEd,IAAI,QAAQ,GAAG,CAAC,IAAI,UAAU,GAAG,QAAQ,EAAE;gBACzC,QAAQ,CAAC,QAAQ,EAAE,CAAA;gBACnB,OAAM;aACP;YAED,MAAM,GAAG,GAAG,eAAe,CAAC,WAAW,CACrC;gBACE,GAAG,KAAK;gBACR,KAAK,EAAE,UAAU;gBACjB,GAAG,EAAE,QAAQ;aACd,EACD,IAAI,CACL,CAAA;YACD,MAAM,KAAK,GAAG,MAAM,IAAA,qBAAc,EAAC,GAAG,CAAC,IAAI,CAAC,IAAA,mBAAO,GAAE,CAAC,CAAC,CAAA;YACvD,MAAM,QAAQ,GAAG,CAAA,MAAA,KAAK,CAAC,CAAC,CAAC,0CAAE,GAAG,CAAC,KAAK,CAAC,KAAI,EAAE,CAAA;YAE3C,KAAK,IAAI,CAAC,GAAG,EAAE,EAAE,CAAC,GAAG,QAAQ,CAAC,MAAM,GAAG,EAAE,EAAE,CAAC,IAAI,IAAI,CAAC,WAAW,EAAE;gBAChE,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,GAAG,EAAE,EAAE,CAAC,GAAG,EAAE,CAAC,CAAA;gBAC1D,IAAI,EAAE,GAAG,CAAC,CAAA;gBACV,IAAI,EAAE,GAAG,CAAC,CAAA;gBACV,IAAI,GAAG,GAAG,CAAC,CAAA;gBACX,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;oBACjC,IAAI,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE;wBAChC,EAAE,EAAE,CAAA;qBACL;yBAAM,IAAI,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE;wBACvC,EAAE,EAAE,CAAA;qBACL;oBACD,IAAI,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,EAAE;wBAChB,GAAG,EAAE,CAAA;qBACN;iBACF;gBACD,MAAM,GAAG,GAAG,UAAU,CAAA;gBACtB,IAAI,KAAK,CAAA;gBACT,IAAI,IAAI,CAAC,MAAM,KAAK,SAAS,EAAE;oBAC7B,KAAK,GAAG,CAAC,EAAE,GAAG,EAAE,CAAC,GAAG,CAAC,GAAG,IAAI,CAAC,CAAC,CAAA;iBAC/B;qBAAM,IAAI,IAAI,CAAC,MAAM,KAAK,MAAM,EAAE;oBACjC,KAAK,GAAG,CAAC,EAAE,GAAG,EAAE,CAAC,GAAG,CAAC,EAAE,GAAG,EAAE,IAAI,CAAC,CAAC,CAAA;iBACnC;gBAED,QAAQ,CAAC,IAAI,CACX,IAAI,oBAAa,CAAC;oBAChB,QAAQ,EAAE,GAAG,IAAI,CAAC,EAAE,IAAI,GAAG,GAAG,CAAC,EAAE;oBACjC,KAAK,EAAE,GAAG,GAAG,CAAC;oBACd,GAAG,EAAE,GAAG,GAAG,CAAC,GAAG,IAAI,CAAC,WAAW;oBAC/B,KAAK;iBACN,CAAC,CACH,CAAA;aACF;YACD,QAAQ,CAAC,QAAQ,EAAE,CAAA;QACrB,CAAC,CAAC,CAAA;IACJ,CAAC;IAED;;;;OAIG;IACI,aAAa,EAAC,gBAAgB,IAAG,CAAC;;AAzF3C,4BA0FC;AAnFe,sBAAY,GAAG,CAAC,eAAe,CAAC,CAAA"}

package/dist/LinearGCContentDisplay/config.d.ts

@@ -1,2 +1,5 @@
 import PluginManager from '@jbrowse/core/PluginManager';
+/**
+ * #config LinearGCContentDisplay
+ */
 export default function WiggleConfigFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;

package/dist/LinearGCContentDisplay/config.js

@@ -4,10 +4,15 @@ const configuration_1 = require("@jbrowse/core/configuration");
 /**
  * #config LinearGCContentDisplay
  */
-function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
 function WiggleConfigFactory(pluginManager) {
-    const baseConfiguration = pluginManager.getDisplayType('LinearWiggleDisplay').configSchema;
-    return (0, configuration_1.ConfigurationSchema)('LinearGCContentDisplay', {}, { baseConfiguration, explicitlyTyped: true });
+    return (0, configuration_1.ConfigurationSchema)('LinearGCContentDisplay', {}, {
+        /**
+         * #baseConfiguration
+         */
+        baseConfiguration: pluginManager.getDisplayType('LinearWiggleDisplay')
+            .configSchema,
+        explicitlyTyped: true,
+    });
 }
 exports.default = WiggleConfigFactory;
 //# sourceMappingURL=config.js.map

package/dist/LinearGCContentDisplay/config.js.map

@@ -1 +1 @@
-{"version":3,"file":"config.js","sourceRoot":"","sources":["../../src/LinearGCContentDisplay/config.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AAGjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,SAAwB,mBAAmB,CAAC,aAA4B;IACtE,MAAM,iBAAiB,GAAG,aAAa,CAAC,cAAc,CACpD,qBAAqB,CACtB,CAAC,YAAY,CAAA;IAEd,OAAO,IAAA,mCAAmB,EACxB,wBAAwB,EACxB,EAAE,EACF,EAAE,iBAAiB,EAAE,eAAe,EAAE,IAAI,EAAE,CAC7C,CAAA;AACH,CAAC;AAVD,sCAUC"}
+{"version":3,"file":"config.js","sourceRoot":"","sources":["../../src/LinearGCContentDisplay/config.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AAGjE;;GAEG;AACH,SAAwB,mBAAmB,CAAC,aAA4B;IACtE,OAAO,IAAA,mCAAmB,EACxB,wBAAwB,EACxB,EAAE,EACF;QACE;;WAEG;QACH,iBAAiB,EAAE,aAAa,CAAC,cAAc,CAAC,qBAAqB,CAAC;aACnE,YAAY;QACf,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC;AAbD,sCAaC"}

package/dist/LinearGCContentDisplay/stateModel.d.ts

@@ -1,6 +1,10 @@
 /// <reference types="react" />
 import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 import PluginManager from '@jbrowse/core/PluginManager';
+/**
+ * #stateModel LinearGCContentDisplay
+ * base model BaseWiggleDisplayModel
+ */
 export default 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>;
@@ -75,6 +79,9 @@ export default function stateModelFactory(pluginManager: PluginManager, configSc
         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<"LinearGCContentDisplay">;
 }, {
     rendererTypeName: string;
@@ -300,5 +307,10 @@ export default function stateModelFactory(pluginManager: PluginManager, configSc
         overrideHeight: number;
     }): Promise<JSX.Element>;
 } & {
+    /**
+     * #method
+     * retrieves the sequence adapter from parent track, and puts it as a
+     * subadapter on a GCContentAdapter
+     */
     renderProps(): any;
 }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;

package/dist/LinearGCContentDisplay/stateModel.js

@@ -3,14 +3,26 @@ Object.defineProperty(exports, "__esModule", { value: true });
 const configuration_1 = require("@jbrowse/core/configuration");
 const plugin_wiggle_1 = require("@jbrowse/plugin-wiggle");
 const mobx_state_tree_1 = require("mobx-state-tree");
+/**
+ * #stateModel LinearGCContentDisplay
+ * base model BaseWiggleDisplayModel
+ */
 function stateModelFactory(pluginManager, configSchema) {
     return mobx_state_tree_1.types
         .compose('LinearGCContentDisplay', (0, plugin_wiggle_1.linearWiggleDisplayModelFactory)(pluginManager, configSchema), mobx_state_tree_1.types.model({
+        /**
+         * #property
+         */
         type: mobx_state_tree_1.types.literal('LinearGCContentDisplay'),
     }))
         .views(self => {
         const { renderProps: superRenderProps } = self;
         return {
+            /**
+             * #method
+             * retrieves the sequence adapter from parent track, and puts it as a
+             * subadapter on a GCContentAdapter
+             */
             renderProps() {
                 const sequenceAdapter = (0, configuration_1.getConf)(self.parentTrack, 'adapter');
                 return {

package/dist/LinearGCContentDisplay/stateModel.js.map

@@ -1 +1 @@
-{"version":3,"file":"stateModel.js","sourceRoot":"","sources":["../../src/LinearGCContentDisplay/stateModel.ts"],"names":[],"mappings":";;AAAA,+DAGoC;AAEpC,0DAAwE;AACxE,qDAAuC;AAEvC,SAAwB,iBAAiB,CACvC,aAA4B,EAC5B,YAAwC;IAExC,OAAO,uBAAK;SACT,OAAO,CACN,wBAAwB,EACxB,IAAA,+CAA+B,EAAC,aAAa,EAAE,YAAY,CAAC,EAC5D,uBAAK,CAAC,KAAK,CAAC;QACV,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,wBAAwB,CAAC;KAC9C,CAAC,CACH;SACA,KAAK,CAAC,IAAI,CAAC,EAAE;QACZ,MAAM,EAAE,WAAW,EAAE,gBAAgB,EAAE,GAAG,IAAI,CAAA;QAC9C,OAAO;YACL,WAAW;gBACT,MAAM,eAAe,GAAG,IAAA,uBAAO,EAAC,IAAI,CAAC,WAAW,EAAE,SAAS,CAAC,CAAA;gBAC5D,OAAO;oBACL,GAAG,gBAAgB,EAAE;oBACrB,aAAa,EAAE;wBACb,IAAI,EAAE,kBAAkB;wBACxB,eAAe;qBAChB;iBACF,CAAA;YACH,CAAC;SACF,CAAA;IACH,CAAC,CAAC,CAAA;AACN,CAAC;AA3BD,oCA2BC"}
+{"version":3,"file":"stateModel.js","sourceRoot":"","sources":["../../src/LinearGCContentDisplay/stateModel.ts"],"names":[],"mappings":";;AAAA,+DAGoC;AAEpC,0DAAwE;AACxE,qDAAuC;AAEvC;;;GAGG;AACH,SAAwB,iBAAiB,CACvC,aAA4B,EAC5B,YAAwC;IAExC,OAAO,uBAAK;SACT,OAAO,CACN,wBAAwB,EACxB,IAAA,+CAA+B,EAAC,aAAa,EAAE,YAAY,CAAC,EAC5D,uBAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,wBAAwB,CAAC;KAC9C,CAAC,CACH;SACA,KAAK,CAAC,IAAI,CAAC,EAAE;QACZ,MAAM,EAAE,WAAW,EAAE,gBAAgB,EAAE,GAAG,IAAI,CAAA;QAC9C,OAAO;YACL;;;;eAIG;YACH,WAAW;gBACT,MAAM,eAAe,GAAG,IAAA,uBAAO,EAAC,IAAI,CAAC,WAAW,EAAE,SAAS,CAAC,CAAA;gBAC5D,OAAO;oBACL,GAAG,gBAAgB,EAAE;oBACrB,aAAa,EAAE;wBACb,IAAI,EAAE,kBAAkB;wBACxB,eAAe;qBAChB;iBACF,CAAA;YACH,CAAC;SACF,CAAA;IACH,CAAC,CAAC,CAAA;AACN,CAAC;AAnCD,oCAmCC"}

package/esm/GCContentAdapter/GCContentAdapter.js

@@ -1,4 +1,5 @@
 import { BaseFeatureDataAdapter, } from '@jbrowse/core/data_adapters/BaseAdapter';
+import { firstValueFrom } from 'rxjs';
 import { ObservableCreate } from '@jbrowse/core/util/rxjs';
 import { SimpleFeature } from '@jbrowse/core/util';
 import { toArray } from 'rxjs/operators';
@@ -39,7 +40,7 @@ export default class default_1 extends BaseFeatureDataAdapter {
                 start: queryStart,
                 end: queryEnd,
             }, opts);
-            const feats = await ret.pipe(toArray()).toPromise();
+            const feats = await firstValueFrom(ret.pipe(toArray()));
             const residues = ((_a = feats[0]) === null || _a === void 0 ? void 0 : _a.get('seq')) || '';
             for (let i = hw; i < residues.length - hw; i += this.windowDelta) {
                 const r = f ? residues[i] : residues.slice(i - hw, i + hw);

package/esm/GCContentAdapter/GCContentAdapter.js.map

@@ -1 +1 @@
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package/esm/LinearGCContentDisplay/config.d.ts

@@ -1,2 +1,5 @@
 import PluginManager from '@jbrowse/core/PluginManager';
+/**
+ * #config LinearGCContentDisplay
+ */
 export default function WiggleConfigFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;

package/esm/LinearGCContentDisplay/config.js

@@ -2,9 +2,14 @@ import { ConfigurationSchema } from '@jbrowse/core/configuration';
 /**
  * #config LinearGCContentDisplay
  */
-function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
 export default function WiggleConfigFactory(pluginManager) {
-    const baseConfiguration = pluginManager.getDisplayType('LinearWiggleDisplay').configSchema;
-    return ConfigurationSchema('LinearGCContentDisplay', {}, { baseConfiguration, explicitlyTyped: true });
+    return ConfigurationSchema('LinearGCContentDisplay', {}, {
+        /**
+         * #baseConfiguration
+         */
+        baseConfiguration: pluginManager.getDisplayType('LinearWiggleDisplay')
+            .configSchema,
+        explicitlyTyped: true,
+    });
 }
 //# sourceMappingURL=config.js.map

package/esm/LinearGCContentDisplay/config.js.map

@@ -1 +1 @@
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+{"version":3,"file":"config.js","sourceRoot":"","sources":["../../src/LinearGCContentDisplay/config.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAGjE;;GAEG;AACH,MAAM,CAAC,OAAO,UAAU,mBAAmB,CAAC,aAA4B;IACtE,OAAO,mBAAmB,CACxB,wBAAwB,EACxB,EAAE,EACF;QACE;;WAEG;QACH,iBAAiB,EAAE,aAAa,CAAC,cAAc,CAAC,qBAAqB,CAAC;aACnE,YAAY;QACf,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC"}

package/esm/LinearGCContentDisplay/stateModel.d.ts

@@ -1,6 +1,10 @@
 /// <reference types="react" />
 import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 import PluginManager from '@jbrowse/core/PluginManager';
+/**
+ * #stateModel LinearGCContentDisplay
+ * base model BaseWiggleDisplayModel
+ */
 export default 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>;
@@ -75,6 +79,9 @@ export default function stateModelFactory(pluginManager: PluginManager, configSc
         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<"LinearGCContentDisplay">;
 }, {
     rendererTypeName: string;
@@ -300,5 +307,10 @@ export default function stateModelFactory(pluginManager: PluginManager, configSc
         overrideHeight: number;
     }): Promise<JSX.Element>;
 } & {
+    /**
+     * #method
+     * retrieves the sequence adapter from parent track, and puts it as a
+     * subadapter on a GCContentAdapter
+     */
     renderProps(): any;
 }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;

package/esm/LinearGCContentDisplay/stateModel.js

@@ -1,14 +1,26 @@
 import { getConf, } from '@jbrowse/core/configuration';
 import { linearWiggleDisplayModelFactory } from '@jbrowse/plugin-wiggle';
 import { types } from 'mobx-state-tree';
+/**
+ * #stateModel LinearGCContentDisplay
+ * base model BaseWiggleDisplayModel
+ */
 export default function stateModelFactory(pluginManager, configSchema) {
     return types
         .compose('LinearGCContentDisplay', linearWiggleDisplayModelFactory(pluginManager, configSchema), types.model({
+        /**
+         * #property
+         */
         type: types.literal('LinearGCContentDisplay'),
     }))
         .views(self => {
         const { renderProps: superRenderProps } = self;
         return {
+            /**
+             * #method
+             * retrieves the sequence adapter from parent track, and puts it as a
+             * subadapter on a GCContentAdapter
+             */
             renderProps() {
                 const sequenceAdapter = getConf(self.parentTrack, 'adapter');
                 return {

package/esm/LinearGCContentDisplay/stateModel.js.map

@@ -1 +1 @@
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+{"version":3,"file":"stateModel.js","sourceRoot":"","sources":["../../src/LinearGCContentDisplay/stateModel.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,OAAO,GAER,MAAM,6BAA6B,CAAA;AAEpC,OAAO,EAAE,+BAA+B,EAAE,MAAM,wBAAwB,CAAA;AACxE,OAAO,EAAE,KAAK,EAAE,MAAM,iBAAiB,CAAA;AAEvC;;;GAGG;AACH,MAAM,CAAC,OAAO,UAAU,iBAAiB,CACvC,aAA4B,EAC5B,YAAwC;IAExC,OAAO,KAAK;SACT,OAAO,CACN,wBAAwB,EACxB,+BAA+B,CAAC,aAAa,EAAE,YAAY,CAAC,EAC5D,KAAK,CAAC,KAAK,CAAC;QACV;;WAEG;QACH,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,wBAAwB,CAAC;KAC9C,CAAC,CACH;SACA,KAAK,CAAC,IAAI,CAAC,EAAE;QACZ,MAAM,EAAE,WAAW,EAAE,gBAAgB,EAAE,GAAG,IAAI,CAAA;QAC9C,OAAO;YACL;;;;eAIG;YACH,WAAW;gBACT,MAAM,eAAe,GAAG,OAAO,CAAC,IAAI,CAAC,WAAW,EAAE,SAAS,CAAC,CAAA;gBAC5D,OAAO;oBACL,GAAG,gBAAgB,EAAE;oBACrB,aAAa,EAAE;wBACb,IAAI,EAAE,kBAAkB;wBACxB,eAAe;qBAChB;iBACF,CAAA;YACH,CAAC;SACF,CAAA;IACH,CAAC,CAAC,CAAA;AACN,CAAC"}

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-gccontent",
-  "version": "2.3.1",
+  "version": "2.3.3",
   "description": "JBrowse 2 gccontent concepts",
   "keywords": [
     "jbrowse",
@@ -46,7 +46,7 @@
     "mobx-react": "^7.0.0",
     "mobx-state-tree": "^5.0.0",
     "react": ">=16.8.0",
-    "rxjs": "^6.0.0"
+    "rxjs": "^7.0.0"
   },
   "publishConfig": {
     "access": "public"
@@ -54,5 +54,5 @@
   "distModule": "esm/index.js",
   "srcModule": "src/index.ts",
   "module": "esm/index.js",
-  "gitHead": "75c4cba2f50c626c62881abd5851dbf2435c2401"
+  "gitHead": "283e0387ccd5acc9f092cf00804d1fcac212e68d"
 }

package/src/GCContentAdapter/GCContentAdapter.ts

@@ -2,6 +2,7 @@ import {
   BaseFeatureDataAdapter,
   BaseOptions,
 } from '@jbrowse/core/data_adapters/BaseAdapter'
+import { firstValueFrom } from 'rxjs'
 import { ObservableCreate } from '@jbrowse/core/util/rxjs'
 import { SimpleFeature, Feature, Region } from '@jbrowse/core/util'
 import { toArray } from 'rxjs/operators'
@@ -51,7 +52,7 @@ export default class extends BaseFeatureDataAdapter {
         },
         opts,
       )
-      const feats = await ret.pipe(toArray()).toPromise()
+      const feats = await firstValueFrom(ret.pipe(toArray()))
       const residues = feats[0]?.get('seq') || ''
 
       for (let i = hw; i < residues.length - hw; i += this.windowDelta) {

package/src/LinearGCContentDisplay/config.ts

@@ -4,16 +4,17 @@ import PluginManager from '@jbrowse/core/PluginManager'
 /**
  * #config LinearGCContentDisplay
  */
-function x() {} // eslint-disable-line @typescript-eslint/no-unused-vars
-
 export default function WiggleConfigFactory(pluginManager: PluginManager) {
-  const baseConfiguration = pluginManager.getDisplayType(
-    'LinearWiggleDisplay',
-  ).configSchema
-
   return ConfigurationSchema(
     'LinearGCContentDisplay',
     {},
-    { baseConfiguration, explicitlyTyped: true },
+    {
+      /**
+       * #baseConfiguration
+       */
+      baseConfiguration: pluginManager.getDisplayType('LinearWiggleDisplay')
+        .configSchema,
+      explicitlyTyped: true,
+    },
   )
 }

package/src/LinearGCContentDisplay/stateModel.ts

@@ -6,6 +6,10 @@ import PluginManager from '@jbrowse/core/PluginManager'
 import { linearWiggleDisplayModelFactory } from '@jbrowse/plugin-wiggle'
 import { types } from 'mobx-state-tree'
 
+/**
+ * #stateModel LinearGCContentDisplay
+ * base model BaseWiggleDisplayModel
+ */
 export default function stateModelFactory(
   pluginManager: PluginManager,
   configSchema: AnyConfigurationSchemaType,
@@ -15,12 +19,20 @@ export default function stateModelFactory(
       'LinearGCContentDisplay',
       linearWiggleDisplayModelFactory(pluginManager, configSchema),
       types.model({
+        /**
+         * #property
+         */
         type: types.literal('LinearGCContentDisplay'),
       }),
     )
     .views(self => {
       const { renderProps: superRenderProps } = self
       return {
+        /**
+         * #method
+         * retrieves the sequence adapter from parent track, and puts it as a
+         * subadapter on a GCContentAdapter
+         */
         renderProps() {
           const sequenceAdapter = getConf(self.parentTrack, 'adapter')
           return {