@jbrowse/plugin-alignments 1.7.3 → 1.7.6
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/AlignmentsFeatureDetail/AlignmentsFeatureDetail.js +26 -26
- package/dist/AlignmentsFeatureDetail/index.js +3 -3
- package/dist/AlignmentsFeatureDetail/index.test.js +2 -2
- package/dist/AlignmentsTrack/index.js +2 -2
- package/dist/BamAdapter/BamAdapter.js +31 -31
- package/dist/BamAdapter/BamAdapter.test.js +10 -10
- package/dist/BamAdapter/BamSlightlyLazyFeature.js +6 -6
- package/dist/BamAdapter/MismatchParser.js +6 -6
- package/dist/BamAdapter/MismatchParser.test.js +2 -2
- package/dist/BamAdapter/configSchema.js +2 -2
- package/dist/BamAdapter/index.js +6 -6
- package/dist/CramAdapter/CramAdapter.js +31 -31
- package/dist/CramAdapter/CramAdapter.test.js +10 -10
- package/dist/CramAdapter/CramSlightlyLazyFeature.js +6 -6
- package/dist/CramAdapter/CramTestAdapters.js +18 -18
- package/dist/CramAdapter/configSchema.js +2 -2
- package/dist/CramAdapter/index.js +6 -6
- package/dist/HtsgetBamAdapter/HtsgetBamAdapter.js +9 -9
- package/dist/HtsgetBamAdapter/configSchema.js +2 -2
- package/dist/HtsgetBamAdapter/index.js +6 -6
- package/dist/LinearAlignmentsDisplay/components/AlignmentsDisplay.js +8 -8
- package/dist/LinearAlignmentsDisplay/index.js +5 -5
- package/dist/LinearAlignmentsDisplay/models/configSchema.js +2 -2
- package/dist/LinearAlignmentsDisplay/models/configSchema.test.js +11 -11
- package/dist/LinearAlignmentsDisplay/models/model.js +15 -15
- package/dist/LinearPileupDisplay/components/ColorByModifications.js +18 -18
- package/dist/LinearPileupDisplay/components/ColorByTag.js +11 -11
- package/dist/LinearPileupDisplay/components/FilterByTag.js +26 -26
- package/dist/LinearPileupDisplay/components/LinearPileupDisplayBlurb.js +4 -4
- package/dist/LinearPileupDisplay/components/SetFeatureHeight.js +12 -12
- package/dist/LinearPileupDisplay/components/SetMaxHeight.js +10 -10
- package/dist/LinearPileupDisplay/components/SortByTag.js +10 -10
- package/dist/LinearPileupDisplay/configSchema.js +5 -7
- package/dist/LinearPileupDisplay/configSchema.test.js +12 -12
- package/dist/LinearPileupDisplay/index.js +4 -4
- package/dist/LinearPileupDisplay/model.d.ts +2 -3
- package/dist/LinearPileupDisplay/model.js +189 -63
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.js +10 -10
- package/dist/LinearSNPCoverageDisplay/index.js +4 -4
- package/dist/LinearSNPCoverageDisplay/models/configSchema.js +1 -1
- package/dist/LinearSNPCoverageDisplay/models/configSchema.test.js +7 -7
- package/dist/LinearSNPCoverageDisplay/models/model.d.ts +1 -1
- package/dist/LinearSNPCoverageDisplay/models/model.js +11 -11
- package/dist/NestedFrequencyTable.js +7 -7
- package/dist/PileupRPC/rpcMethods.js +23 -23
- package/dist/PileupRenderer/PileupLayoutSession.js +8 -8
- package/dist/PileupRenderer/PileupRenderer.d.ts +2 -3
- package/dist/PileupRenderer/PileupRenderer.js +40 -40
- package/dist/PileupRenderer/components/PileupRendering.js +13 -13
- package/dist/PileupRenderer/components/PileupRendering.test.js +2 -2
- package/dist/PileupRenderer/configSchema.js +2 -2
- package/dist/PileupRenderer/index.js +4 -4
- package/dist/SNPCoverageAdapter/SNPCoverageAdapter.js +22 -22
- package/dist/SNPCoverageAdapter/configSchema.js +2 -2
- package/dist/SNPCoverageAdapter/index.js +6 -6
- package/dist/SNPCoverageRenderer/SNPCoverageRenderer.js +12 -12
- package/dist/SNPCoverageRenderer/configSchema.js +2 -2
- package/dist/SNPCoverageRenderer/index.js +3 -3
- package/dist/index.js +10 -10
- package/dist/index.test.js +2 -2
- package/dist/shared.js +5 -5
- package/dist/util.d.ts +1 -1
- package/dist/util.js +3 -3
- package/package.json +4 -5
- package/src/LinearPileupDisplay/configSchema.ts +1 -4
- package/src/LinearPileupDisplay/model.ts +96 -19
- package/src/PileupRenderer/PileupRenderer.tsx +6 -2
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value: true
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exports
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var _configuration = require("@jbrowse/core/configuration");
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var _mobxStateTree = require("mobx-state-tree");
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function PileupConfigFactory(pluginManager) {
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var PileupRendererConfigSchema = pluginManager.getRendererType('PileupRenderer').configSchema;
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var SvgFeatureRendererConfigSchema = pluginManager.getRendererType('SvgFeatureRenderer').configSchema; // modify config schema to take in a sub coverage display
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var PileupRendererConfigSchema = pluginManager.getRendererType('PileupRenderer').configSchema; // modify config schema to take in a sub coverage display
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defaultRendering: {
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type: 'stringEnum',
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model: _mobxStateTree.types.enumeration('Rendering', ['pileup'
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model: _mobxStateTree.types.enumeration('Rendering', ['pileup']),
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defaultValue: 'pileup'
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},
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renderers: (0, _configuration.ConfigurationSchema)('RenderersConfiguration', {
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PileupRenderer: PileupRendererConfigSchema
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PileupRenderer: PileupRendererConfigSchema
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renderer: '',
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@@ -44,4 +42,4 @@ function PileupConfigFactory(pluginManager) {
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}
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var _default = PileupConfigFactory;
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function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; }
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function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !Reflect.construct) return false; if (Reflect.construct.sham) return false; if (typeof Proxy === "function") return true; try { Boolean.prototype.valueOf.call(Reflect.construct(Boolean, [], function () {})); return true; } catch (e) { return false; } }
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var PileupRendererPlugin = /*#__PURE__*/function (_Plugin) {
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function PileupRendererPlugin() {
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(0, _createClass2.default)(PileupRendererPlugin, [{
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value: function install(pluginManager) {
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(0, _PileupRenderer
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(0, _PileupRenderer.default)(pluginManager);
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}]);
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return PileupRendererPlugin;
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}(_Plugin3
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}(_Plugin3.default);
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var SvgFeatureRendererPlugin = /*#__PURE__*/function (_Plugin2) {
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function SvgFeatureRendererPlugin() {
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(0, _classCallCheck2.default)(this, SvgFeatureRendererPlugin);
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(0, _createClass2.default)(SvgFeatureRendererPlugin, [{
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}(_Plugin3.default);
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displayId: 'display0',
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@@ -5,7 +5,7 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
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value: true
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exports
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exports.default = register;
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function register(pluginManager) {
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pluginManager.addDisplayType(function () {
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name: 'LinearPileupDisplay',
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stateModel: (0, _model
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stateModel: (0, _model.default)(configSchema),
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trackType: 'AlignmentsTrack',
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viewType: 'LinearGenomeView',
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ReactComponent: _pluginLinearGenomeView.BaseLinearDisplayComponent
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@@ -1,7 +1,6 @@
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|
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|
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import { Feature } from '@jbrowse/core/util';
|
|
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import { ContentCopy as ContentCopyIcon } from '@jbrowse/core/ui/Icons';
|
|
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import { Instance } from 'mobx-state-tree';
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import { Feature } from '@jbrowse/core/util/simpleFeature';
|
|
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import { AnyConfigurationModel } from '@jbrowse/core/configuration/configurationSchema';
|
|
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import { LinearPileupDisplayConfigModel } from './configSchema';
|
|
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declare const stateModelFactory: (configSchema: LinearPileupDisplayConfigModel) => import("mobx-state-tree").IModelType<{
|
|
@@ -174,7 +173,7 @@ declare const stateModelFactory: (configSchema: LinearPileupDisplayConfigModel)
|
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headers?: Record<string, string> | undefined;
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signal?: AbortSignal | undefined;
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filters?: string[] | undefined;
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}): Promise<
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}): Promise<{}>;
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setRegionStatsP(p?: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined): void;
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setRegionStats(estimatedRegionStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
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clearRegionStats(): void;
|