@jbrowse/plugin-variants 2.6.1 → 2.6.2

package/dist/ChordVariantDisplay/index.js

@@ -23,4 +23,3 @@ exports.default = (pluginManager) => {
         });
     });
 };
-//# sourceMappingURL=index.js.map

package/dist/ChordVariantDisplay/models/configSchema.js

@@ -22,4 +22,3 @@ function stateModelFactory(pluginManager) {
     });
 }
 exports.default = stateModelFactory;
-//# sourceMappingURL=configSchema.js.map

package/dist/ChordVariantDisplay/models/stateModelFactory.js

@@ -51,4 +51,3 @@ const stateModelFactory = (configSchema) => {
 // tracks all have a height
 //
 exports.default = stateModelFactory;
-//# sourceMappingURL=stateModelFactory.js.map

package/dist/LinearVariantDisplay/configSchema.js

@@ -19,4 +19,3 @@ function configSchemaF(pluginManager) {
     });
 }
 exports.default = configSchemaF;
-//# sourceMappingURL=configSchema.js.map

package/dist/LinearVariantDisplay/index.js

@@ -21,4 +21,3 @@ exports.default = (pluginManager) => {
         });
     });
 };
-//# sourceMappingURL=index.js.map

package/dist/LinearVariantDisplay/model.js

@@ -49,4 +49,3 @@ function stateModelFactory(configSchema) {
     }));
 }
 exports.default = stateModelFactory;
-//# sourceMappingURL=model.js.map

package/dist/StructuralVariantChordRenderer/Chord.js

@@ -85,4 +85,3 @@ const Chord = (0, mobx_react_1.observer)(function Chord({ feature, blocksForRefs
     return null;
 });
 exports.default = Chord;
-//# sourceMappingURL=Chord.js.map

package/dist/StructuralVariantChordRenderer/ReactComponent.js

@@ -60,4 +60,3 @@ exports.default = (0, mobx_react_1.observer)(function StructuralVariantChords({
             } }),
         chords));
 });
-//# sourceMappingURL=ReactComponent.js.map

package/dist/StructuralVariantChordRenderer/configSchema.js

@@ -35,4 +35,3 @@ const configSchema = (0, configuration_1.ConfigurationSchema)('StructuralVariant
     },
 }, { explicitlyTyped: true });
 exports.default = configSchema;
-//# sourceMappingURL=configSchema.js.map

package/dist/StructuralVariantChordRenderer/index.js

@@ -15,4 +15,3 @@ exports.default = (pluginManager) => {
         pluginManager,
     }));
 };
-//# sourceMappingURL=index.js.map

package/dist/VariantFeatureWidget/AnnotGrid.js

@@ -39,4 +39,3 @@ function VariantAnnotPanel({ rows, columns, }) {
             react_1.default.createElement(x_data_grid_1.DataGrid, { rowHeight: 25, rows: rows, columns: columns.map((c, i) => ({ ...c, width: widths[i] })), slots: { toolbar: checked ? x_data_grid_1.GridToolbar : null } })))) : null;
 }
 exports.default = VariantAnnotPanel;
-//# sourceMappingURL=AnnotGrid.js.map

package/dist/VariantFeatureWidget/BreakendOptionDialog.js

@@ -74,4 +74,3 @@ exports.default = (0, mobx_react_1.observer)(function BreakendOptionDialog({ mod
                 }, variant: "contained", color: "primary", autoFocus: true }, "OK"),
             react_1.default.createElement(material_1.Button, { onClick: () => handleClose(), color: "secondary", variant: "contained" }, "Cancel"))));
 });
-//# sourceMappingURL=BreakendOptionDialog.js.map

package/dist/VariantFeatureWidget/BreakendPanel.js

@@ -78,4 +78,3 @@ function BreakendPanel(props) {
                 } })) : null)) : null));
 }
 exports.default = BreakendPanel;
-//# sourceMappingURL=BreakendPanel.js.map

package/dist/VariantFeatureWidget/VariantAnnotationTable.js

@@ -14,4 +14,3 @@ function VariantAnnotationTable({ data, fields, title, }) {
             })) || [], columns: fields.map(c => ({ field: c })) }))) : null;
 }
 exports.default = VariantAnnotationTable;
-//# sourceMappingURL=VariantAnnotationTable.js.map

package/dist/VariantFeatureWidget/VariantFeatureWidget.js

@@ -52,4 +52,3 @@ function CsqPanel({ descriptions, feature, }) {
     return (react_1.default.createElement(VariantAnnotationTable_1.default, { fields: csqFields, data: csq, title: "Variant CSQ field" }));
 }
 exports.default = (0, mobx_react_1.observer)(VariantFeatureDetails);
-//# sourceMappingURL=VariantFeatureWidget.js.map

package/dist/VariantFeatureWidget/VariantSampleGrid.js

@@ -92,4 +92,3 @@ function VariantSamples(props) {
                 } }))));
 }
 exports.default = VariantSamples;
-//# sourceMappingURL=VariantSampleGrid.js.map

package/dist/VariantFeatureWidget/index.js

@@ -50,4 +50,3 @@ exports.default = (pluginManager) => {
         ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./VariantFeatureWidget')))),
     }));
 };
-//# sourceMappingURL=index.js.map

package/dist/VariantTrack/configSchema.js

@@ -15,4 +15,3 @@ const configSchema = (pluginManager) => (0, configuration_1.ConfigurationSchema)
     baseConfiguration: (0, pluggableElementTypes_1.createBaseTrackConfig)(pluginManager),
 });
 exports.default = configSchema;
-//# sourceMappingURL=configSchema.js.map

package/dist/VariantTrack/index.js

@@ -17,4 +17,3 @@ exports.default = (pm) => {
         });
     });
 };
-//# sourceMappingURL=index.js.map

package/dist/VcfAdapter/VcfAdapter.js

@@ -104,4 +104,3 @@ class VcfAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
 }
 VcfAdapter.capabilities = ['getFeatures', 'getRefNames'];
 exports.default = VcfAdapter;
-//# sourceMappingURL=VcfAdapter.js.map

package/dist/VcfAdapter/configSchema.js

@@ -15,4 +15,3 @@ const VcfAdapter = (0, configuration_1.ConfigurationSchema)('VcfAdapter', {
     },
 }, { explicitlyTyped: true });
 exports.default = VcfAdapter;
-//# sourceMappingURL=configSchema.js.map

package/dist/VcfAdapter/index.js

@@ -36,4 +36,3 @@ exports.default = (pluginManager) => {
         getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./VcfAdapter'))).then(r => r.default),
     }));
 };
-//# sourceMappingURL=index.js.map

package/dist/VcfFeature/index.js

@@ -12,9 +12,10 @@ class VCFFeature {
     }
     // eslint-disable-next-line @typescript-eslint/no-explicit-any
     get(field) {
+        var _a;
         return field === 'samples'
             ? this.variant.SAMPLES
-            : this.data[field] || this.variant[field];
+            : (_a = this.data[field]) !== null && _a !== void 0 ? _a : this.variant[field];
     }
     set() { }
     parent() {
@@ -56,4 +57,3 @@ class VCFFeature {
     }
 }
 exports.default = VCFFeature;
-//# sourceMappingURL=index.js.map

package/dist/VcfFeature/util.js

@@ -123,4 +123,3 @@ exports.getSOAndDescByExamination = getSOAndDescByExamination;
 function makeDescriptionString(soTerm, ref, alt) {
     return `${soTerm} ${ref} -> ${alt}`;
 }
-//# sourceMappingURL=util.js.map

package/dist/VcfTabixAdapter/VcfTabixAdapter.js

@@ -72,4 +72,3 @@ class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
     freeResources( /* { region } */) { }
 }
 exports.default = default_1;
-//# sourceMappingURL=VcfTabixAdapter.js.map

package/dist/VcfTabixAdapter/configSchema.js

@@ -36,4 +36,3 @@ const VcfTabixAdapter = (0, configuration_1.ConfigurationSchema)('VcfTabixAdapte
     }),
 }, { explicitlyTyped: true });
 exports.default = VcfTabixAdapter;
-//# sourceMappingURL=configSchema.js.map

package/dist/VcfTabixAdapter/index.js

@@ -39,4 +39,3 @@ exports.default = (pluginManager) => {
         getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./VcfTabixAdapter'))).then(r => r.default),
     }));
 };
-//# sourceMappingURL=index.js.map

package/dist/extensionPoints.js

@@ -48,4 +48,3 @@ exports.default = (pluginManager) => {
         };
     });
 };
-//# sourceMappingURL=extensionPoints.js.map

package/dist/index.js

@@ -32,4 +32,3 @@ class VariantsPlugin extends Plugin_1.default {
 exports.default = VariantsPlugin;
 var VcfFeature_1 = require("./VcfFeature");
 Object.defineProperty(exports, "VcfFeature", { enumerable: true, get: function () { return __importDefault(VcfFeature_1).default; } });
-//# sourceMappingURL=index.js.map

package/esm/ChordVariantDisplay/index.js

@@ -18,4 +18,3 @@ export default (pluginManager) => {
         });
     });
 };
-//# sourceMappingURL=index.js.map

package/esm/ChordVariantDisplay/models/configSchema.js

@@ -20,4 +20,3 @@ function stateModelFactory(pluginManager) {
     });
 }
 export default stateModelFactory;
-//# sourceMappingURL=configSchema.js.map

package/esm/ChordVariantDisplay/models/stateModelFactory.js

@@ -49,4 +49,3 @@ const stateModelFactory = (configSchema) => {
 // tracks all have a height
 //
 export default stateModelFactory;
-//# sourceMappingURL=stateModelFactory.js.map

package/esm/LinearVariantDisplay/configSchema.js

@@ -16,4 +16,3 @@ export default function configSchemaF(pluginManager) {
         explicitlyTyped: true,
     });
 }
-//# sourceMappingURL=configSchema.js.map

package/esm/LinearVariantDisplay/index.js

@@ -16,4 +16,3 @@ export default (pluginManager) => {
         });
     });
 };
-//# sourceMappingURL=index.js.map

package/esm/LinearVariantDisplay/model.js

@@ -46,4 +46,3 @@ export default function stateModelFactory(configSchema) {
         },
     }));
 }
-//# sourceMappingURL=model.js.map

package/esm/StructuralVariantChordRenderer/Chord.js

@@ -80,4 +80,3 @@ const Chord = observer(function Chord({ feature, blocksForRefs, radius, config,
     return null;
 });
 export default Chord;
-//# sourceMappingURL=Chord.js.map

package/esm/StructuralVariantChordRenderer/ReactComponent.js

@@ -32,4 +32,3 @@ export default observer(function StructuralVariantChords({ features, config, dis
             } }),
         chords));
 });
-//# sourceMappingURL=ReactComponent.js.map

package/esm/StructuralVariantChordRenderer/configSchema.js

@@ -33,4 +33,3 @@ const configSchema = ConfigurationSchema('StructuralVariantChordRenderer', {
     },
 }, { explicitlyTyped: true });
 export default configSchema;
-//# sourceMappingURL=configSchema.js.map

package/esm/StructuralVariantChordRenderer/index.js

@@ -10,4 +10,3 @@ export default (pluginManager) => {
         pluginManager,
     }));
 };
-//# sourceMappingURL=index.js.map

package/esm/VariantFeatureWidget/AnnotGrid.js

@@ -13,4 +13,3 @@ export default function VariantAnnotPanel({ rows, columns, }) {
             React.createElement(ResizeBar, { widths: widths, setWidths: setWidths, scrollLeft: scrollLeft }),
             React.createElement(DataGrid, { rowHeight: 25, rows: rows, columns: columns.map((c, i) => ({ ...c, width: widths[i] })), slots: { toolbar: checked ? GridToolbar : null } })))) : null;
 }
-//# sourceMappingURL=AnnotGrid.js.map

package/esm/VariantFeatureWidget/BreakendOptionDialog.js

@@ -49,4 +49,3 @@ export default observer(function BreakendOptionDialog({ model, handleClose, feat
                 }, variant: "contained", color: "primary", autoFocus: true }, "OK"),
             React.createElement(Button, { onClick: () => handleClose(), color: "secondary", variant: "contained" }, "Cancel"))));
 });
-//# sourceMappingURL=BreakendOptionDialog.js.map

package/esm/VariantFeatureWidget/BreakendPanel.js

@@ -49,4 +49,3 @@ export default function BreakendPanel(props) {
                     setBreakpointDialog(false);
                 } })) : null)) : null));
 }
-//# sourceMappingURL=BreakendPanel.js.map

package/esm/VariantFeatureWidget/VariantAnnotationTable.js

@@ -8,4 +8,3 @@ export default function VariantAnnotationTable({ data, fields, title, }) {
                 ...Object.fromEntries(elt.split('|').map((e, i) => [fields[i], e])),
             })) || [], columns: fields.map(c => ({ field: c })) }))) : null;
 }
-//# sourceMappingURL=VariantAnnotationTable.js.map

package/esm/VariantFeatureWidget/VariantFeatureWidget.js

@@ -47,4 +47,3 @@ function CsqPanel({ descriptions, feature, }) {
     return (React.createElement(VariantAnnotationTable, { fields: csqFields, data: csq, title: "Variant CSQ field" }));
 }
 export default observer(VariantFeatureDetails);
-//# sourceMappingURL=VariantFeatureWidget.js.map

package/esm/VariantFeatureWidget/VariantSampleGrid.js

@@ -66,4 +66,3 @@ export default function VariantSamples(props) {
                     toolbar: { printOptions: { disableToolbarButton: true } },
                 } }))));
 }
-//# sourceMappingURL=VariantSampleGrid.js.map

package/esm/VariantFeatureWidget/index.js

@@ -20,4 +20,3 @@ export default (pluginManager) => {
         ReactComponent: lazy(() => import('./VariantFeatureWidget')),
     }));
 };
-//# sourceMappingURL=index.js.map

package/esm/VariantTrack/configSchema.js

@@ -13,4 +13,3 @@ const configSchema = (pluginManager) => ConfigurationSchema('VariantTrack', {},
     baseConfiguration: createBaseTrackConfig(pluginManager),
 });
 export default configSchema;
-//# sourceMappingURL=configSchema.js.map

package/esm/VariantTrack/index.js

@@ -12,4 +12,3 @@ export default (pm) => {
         });
     });
 };
-//# sourceMappingURL=index.js.map

package/esm/VcfAdapter/VcfAdapter.js

@@ -99,4 +99,3 @@ class VcfAdapter extends BaseFeatureDataAdapter {
 }
 VcfAdapter.capabilities = ['getFeatures', 'getRefNames'];
 export default VcfAdapter;
-//# sourceMappingURL=VcfAdapter.js.map

package/esm/VcfAdapter/configSchema.js

@@ -13,4 +13,3 @@ const VcfAdapter = ConfigurationSchema('VcfAdapter', {
     },
 }, { explicitlyTyped: true });
 export default VcfAdapter;
-//# sourceMappingURL=configSchema.js.map

package/esm/VcfAdapter/index.js

@@ -8,4 +8,3 @@ export default (pluginManager) => {
         getAdapterClass: () => import('./VcfAdapter').then(r => r.default),
     }));
 };
-//# sourceMappingURL=index.js.map

package/esm/VcfFeature/index.js

@@ -10,9 +10,10 @@ export default class VCFFeature {
     }
     // eslint-disable-next-line @typescript-eslint/no-explicit-any
     get(field) {
+        var _a;
         return field === 'samples'
             ? this.variant.SAMPLES
-            : this.data[field] || this.variant[field];
+            : (_a = this.data[field]) !== null && _a !== void 0 ? _a : this.variant[field];
     }
     set() { }
     parent() {
@@ -53,4 +54,3 @@ export default class VCFFeature {
         };
     }
 }
-//# sourceMappingURL=index.js.map

package/esm/VcfFeature/util.js

@@ -117,4 +117,3 @@ export function getSOAndDescByExamination(ref, alt) {
 function makeDescriptionString(soTerm, ref, alt) {
     return `${soTerm} ${ref} -> ${alt}`;
 }
-//# sourceMappingURL=util.js.map

package/esm/VcfTabixAdapter/VcfTabixAdapter.js

@@ -66,4 +66,3 @@ export default class extends BaseFeatureDataAdapter {
     }
     freeResources( /* { region } */) { }
 }
-//# sourceMappingURL=VcfTabixAdapter.js.map

package/esm/VcfTabixAdapter/configSchema.js

@@ -34,4 +34,3 @@ const VcfTabixAdapter = ConfigurationSchema('VcfTabixAdapter', {
     }),
 }, { explicitlyTyped: true });
 export default VcfTabixAdapter;
-//# sourceMappingURL=configSchema.js.map

package/esm/VcfTabixAdapter/index.js

@@ -9,4 +9,3 @@ export default (pluginManager) => {
         getAdapterClass: () => import('./VcfTabixAdapter').then(r => r.default),
     }));
 };
-//# sourceMappingURL=index.js.map

package/esm/extensionPoints.js

@@ -46,4 +46,3 @@ export default (pluginManager) => {
         };
     });
 };
-//# sourceMappingURL=extensionPoints.js.map

package/esm/index.js

@@ -24,4 +24,3 @@ export default class VariantsPlugin extends Plugin {
     }
 }
 export { default as VcfFeature } from './VcfFeature';
-//# sourceMappingURL=index.js.map

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-variants",
-  "version": "2.6.1",
+  "version": "2.6.2",
   "description": "JBrowse 2 variant adapters, tracks, etc.",
   "keywords": [
     "jbrowse",
@@ -20,7 +20,6 @@
   "main": "dist/index.js",
   "files": [
     "dist",
-    "src",
     "esm"
   ],
   "scripts": {
@@ -33,7 +32,7 @@
     "useSrc": "node ../../scripts/useSrc.js",
     "prebuild": "npm run clean",
     "build:esm": "tsc --build tsconfig.build.esm.json",
-    "build:es5": "tsc --build tsconfig.build.es5.json",
+    "build:commonjs": "tsc --build tsconfig.build.commonjs.json",
     "clean": "rimraf dist esm *.tsbuildinfo"
   },
   "dependencies": {
@@ -64,5 +63,5 @@
   "distModule": "esm/index.js",
   "srcModule": "src/index.ts",
   "module": "esm/index.js",
-  "gitHead": "1cbe7ba097fb2d2763c776e5e429e4670cdd583c"
+  "gitHead": "bbea587a402d9974acdd804a33f4b77f31a2fd5f"
 }

package/dist/ChordVariantDisplay/index.js.map

@@ -1 +0,0 @@
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package/dist/ChordVariantDisplay/models/configSchema.js.map

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package/dist/ChordVariantDisplay/models/stateModelFactory.js.map

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package/dist/LinearVariantDisplay/configSchema.js.map

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package/dist/LinearVariantDisplay/index.js.map

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package/dist/LinearVariantDisplay/model.js.map

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package/dist/StructuralVariantChordRenderer/ReactComponent.js.map

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package/dist/StructuralVariantChordRenderer/configSchema.js.map

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package/dist/StructuralVariantChordRenderer/index.js.map

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package/dist/VariantFeatureWidget/AnnotGrid.js.map

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package/dist/VariantFeatureWidget/BreakendOptionDialog.js.map

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package/dist/VariantFeatureWidget/BreakendPanel.js.map

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package/dist/VariantFeatureWidget/VariantSampleGrid.js.map

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package/dist/VariantTrack/configSchema.js.map

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package/dist/VcfAdapter/VcfAdapter.js.map

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package/dist/VcfAdapter/configSchema.js.map

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package/dist/VcfAdapter/index.js.map

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package/dist/VcfFeature/index.js.map

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