@jbrowse/plugin-data-management 2.2.2 → 2.3.1
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/AddTrackWidget/components/AddTrackWidget.js +28 -5
- package/dist/AddTrackWidget/components/AddTrackWidget.js.map +1 -1
- package/dist/AddTrackWidget/components/ConfirmTrack.d.ts +2 -3
- package/dist/AddTrackWidget/components/ConfirmTrack.js +30 -177
- package/dist/AddTrackWidget/components/ConfirmTrack.js.map +1 -1
- package/dist/AddTrackWidget/components/DefaultAddTrackWorkflow.js.map +1 -1
- package/dist/AddTrackWidget/components/TextIndexingConfig.d.ts +6 -0
- package/dist/AddTrackWidget/components/TextIndexingConfig.js +109 -0
- package/dist/AddTrackWidget/components/TextIndexingConfig.js.map +1 -0
- package/dist/AddTrackWidget/components/TrackAdapterSelector.d.ts +6 -0
- package/dist/AddTrackWidget/components/TrackAdapterSelector.js +50 -0
- package/dist/AddTrackWidget/components/TrackAdapterSelector.js.map +1 -0
- package/dist/AddTrackWidget/components/TrackTypeSelector.d.ts +6 -0
- package/dist/AddTrackWidget/components/TrackTypeSelector.js +27 -0
- package/dist/AddTrackWidget/components/TrackTypeSelector.js.map +1 -0
- package/dist/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.js +3 -4
- package/dist/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.js.map +1 -1
- package/dist/HierarchicalTrackSelectorWidget/components/ToggleConnectionsDialog.js +3 -1
- package/dist/HierarchicalTrackSelectorWidget/components/ToggleConnectionsDialog.js.map +1 -1
- package/dist/HierarchicalTrackSelectorWidget/model.d.ts +2 -1
- package/dist/HierarchicalTrackSelectorWidget/model.js +5 -5
- package/dist/HierarchicalTrackSelectorWidget/model.js.map +1 -1
- package/dist/ucsc-trackhub/index.d.ts +2 -2
- package/dist/ucsc-trackhub/index.js.map +1 -1
- package/dist/ucsc-trackhub/model.d.ts +3 -2
- package/dist/ucsc-trackhub/model.js +41 -40
- package/dist/ucsc-trackhub/model.js.map +1 -1
- package/dist/ucsc-trackhub/ucscAssemblies.js.map +1 -1
- package/esm/AddTrackWidget/components/AddTrackWidget.js +6 -6
- package/esm/AddTrackWidget/components/AddTrackWidget.js.map +1 -1
- package/esm/AddTrackWidget/components/ConfirmTrack.d.ts +2 -3
- package/esm/AddTrackWidget/components/ConfirmTrack.js +28 -175
- package/esm/AddTrackWidget/components/ConfirmTrack.js.map +1 -1
- package/esm/AddTrackWidget/components/DefaultAddTrackWorkflow.js.map +1 -1
- package/esm/AddTrackWidget/components/TextIndexingConfig.d.ts +6 -0
- package/esm/AddTrackWidget/components/TextIndexingConfig.js +81 -0
- package/esm/AddTrackWidget/components/TextIndexingConfig.js.map +1 -0
- package/esm/AddTrackWidget/components/TrackAdapterSelector.d.ts +6 -0
- package/esm/AddTrackWidget/components/TrackAdapterSelector.js +45 -0
- package/esm/AddTrackWidget/components/TrackAdapterSelector.js.map +1 -0
- package/esm/AddTrackWidget/components/TrackTypeSelector.d.ts +6 -0
- package/esm/AddTrackWidget/components/TrackTypeSelector.js +22 -0
- package/esm/AddTrackWidget/components/TrackTypeSelector.js.map +1 -0
- package/esm/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.js +3 -4
- package/esm/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.js.map +1 -1
- package/esm/HierarchicalTrackSelectorWidget/components/ToggleConnectionsDialog.js +3 -1
- package/esm/HierarchicalTrackSelectorWidget/components/ToggleConnectionsDialog.js.map +1 -1
- package/esm/HierarchicalTrackSelectorWidget/model.d.ts +2 -1
- package/esm/HierarchicalTrackSelectorWidget/model.js +5 -5
- package/esm/HierarchicalTrackSelectorWidget/model.js.map +1 -1
- package/esm/ucsc-trackhub/index.d.ts +2 -2
- package/esm/ucsc-trackhub/index.js.map +1 -1
- package/esm/ucsc-trackhub/model.d.ts +3 -2
- package/esm/ucsc-trackhub/model.js +41 -40
- package/esm/ucsc-trackhub/model.js.map +1 -1
- package/esm/ucsc-trackhub/ucscAssemblies.js.map +1 -1
- package/package.json +3 -4
- package/src/AddTrackWidget/components/AddTrackWidget.test.tsx +3 -4
- package/src/AddTrackWidget/components/AddTrackWidget.tsx +6 -9
- package/src/AddTrackWidget/components/ConfirmTrack.tsx +36 -296
- package/src/AddTrackWidget/components/DefaultAddTrackWorkflow.tsx +0 -1
- package/src/AddTrackWidget/components/TextIndexingConfig.tsx +134 -0
- package/src/AddTrackWidget/components/TrackAdapterSelector.tsx +73 -0
- package/src/AddTrackWidget/components/TrackTypeSelector.tsx +46 -0
- package/src/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.tsx +4 -4
- package/src/HierarchicalTrackSelectorWidget/components/ToggleConnectionsDialog.tsx +5 -1
- package/src/HierarchicalTrackSelectorWidget/components/__snapshots__/HierarchicalTrackSelector.test.tsx.snap +1 -1
- package/src/HierarchicalTrackSelectorWidget/model.ts +7 -7
- package/src/PluginStoreWidget/components/__snapshots__/PluginStoreWidget.test.js.snap +0 -22
- package/src/ucsc-trackhub/{index.js → index.ts} +0 -0
- package/src/ucsc-trackhub/model.ts +119 -0
- package/src/ucsc-trackhub/{ucscAssemblies.js → ucscAssemblies.ts} +0 -0
- package/src/ucsc-trackhub/model.js +0 -125
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@@ -29,13 +29,12 @@ Object.defineProperty(exports, "__esModule", { value: true });
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const react_1 = __importStar(require("react"));
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const material_1 = require("@mui/material");
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const mui_1 = require("tss-react/mui");
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// icons
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const Add_1 = __importDefault(require("@mui/icons-material/Add"));
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// other
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const react_virtualized_auto_sizer_1 = __importDefault(require("react-virtualized-auto-sizer"));
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const util_1 = require("@jbrowse/core/util");
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const mobx_react_1 = require("mobx-react");
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const react_vtree_1 = require("react-vtree");
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const react_virtualized_auto_sizer_1 = __importDefault(require("react-virtualized-auto-sizer"));
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// icons
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const Add_1 = __importDefault(require("@mui/icons-material/Add"));
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const Header_1 = __importDefault(require("./Header"));
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const Node_1 = __importDefault(require("./Node"));
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const useStyles = (0, mui_1.makeStyles)()(theme => ({
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@@ -1 +1 @@
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-
{"version":3,"file":"HierarchicalTrackSelector.js","sourceRoot":"","sources":["../../../src/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAgF;AAChF,4CAAmD;AACnD,uCAA0C;AAC1C,
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}, color: "primary" }), label: `${name}
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{"version":3,"file":"ToggleConnectionsDialog.js","sourceRoot":"","sources":["../../../src/HierarchicalTrackSelectorWidget/components/ToggleConnectionsDialog.tsx"],"names":[],"mappings":";;;;;;AAAA,kDAAyB;AACzB,4CAOsB;AACtB,yCAAyC;AACzC,uCAA0C;AAC1C,2CAAqC;AACrC,+DAGoC;AAGpC,SAAgB,QAAQ,CAAC,IAAY;IACnC,OAAO,IAAI,CAAC,MAAM,GAAG,EAAE,CAAC,CAAC,CAAC,GAAG,IAAI,CAAC,KAAK,CAAC,CAAC,EAAE,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,IAAI,CAAA;AAC5D,CAAC;AAFD,4BAEC;AAED,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,mBAAmB,EAAE;QACnB,KAAK,EAAE,GAAG;QACV,MAAM,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC;KACzB;CACF,CAAC,CAAC,CAAA;AAEH,SAAS,sBAAsB,CAAC,EAC9B,OAAO,EACP,WAAW,EACX,eAAe,GAKhB;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,EAAE,WAAW,EAAE,mBAAmB,EAAE,SAAS,GAAG,EAAE,EAAE,GAAG,OAAO,CAAA;IACpE,OAAO,CACL,8BAAC,WAAM,IACL,IAAI,QACJ,OAAO,EAAE,WAAW,EACpB,QAAQ,EAAC,IAAI,EACb,KAAK,EAAC,yBAAyB;QAE/B,8BAAC,wBAAa;YACZ,8BAAC,qBAAU,sDAAyD;YACpE,uCAAK,SAAS,EAAE,OAAO,CAAC,mBAAmB;gBACxC,WAAW,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE;oBACtB,MAAM,IAAI,GAAG,IAAA,8BAAc,EAAC,IAAI,EAAE,MAAM,CAAC,CAAA;oBACzC,MAAM,aAAa,GAAG,IAAA,8BAAc,EAAC,IAAI,EAAE,eAAe,CAAC,CAAA;oBAC3D,MAAM,KAAK,GAAG,SAAS,CAAC,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,KAAK,IAAI,CAAC,IAAI,CAAC,CAAA;oBACxD,OAAO,CACL,8BAAC,2BAAgB,IACf,GAAG,EAAE,IAAI,CAAC,YAAY,EACtB,OAAO,EACL,8BAAC,mBAAQ,IACP,OAAO,EAAE,CAAC,CAAC,KAAK,EAChB,QAAQ,EAAE,GAAG,EAAE;;gCACb,IAAI,KAAK,EAAE;oCACT,eAAe,CAAC,IAAI,CAAC,CAAA;iCACtB;qCAAM;oCACL,MAAA,OAAO,CAAC,cAAc,wDAAG,IAAI,CAAC,CAAA;iCAC/B;4BACH,CAAC,EACD,KAAK,EAAC,SAAS,GACf,EAEJ,KAAK,EAAE,GAAG,IAAI,IACZ,aAAa,CAAC,MAAM;4BAClB,CAAC,CAAC,GAAG,GAAG,QAAQ,CAAC,aAAa,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG;4BAC/C,CAAC,CAAC,EACN,EAAE,GACF,CACH,CAAA;gBACH,CAAC,CAAC;gBACD,CAAC,WAAW,CAAC,MAAM,CAAC,CAAC,CAAC,CACrB,8BAAC,qBAAU,+BAAkC,CAC9C,CAAC,CAAC,CAAC,IAAI,CACJ,CACQ;QAChB,8BAAC,wBAAa;YACZ,8BAAC,iBAAM,IACL,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,EAC5B,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,YAGR,CACK,CACT,CACV,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,sBAAsB,CAAC,CAAA"}
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@@ -11,7 +11,7 @@ export type TreeNode = {
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11
11
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};
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12
12
|
export declare function generateHierarchy(model: HierarchicalTrackSelectorModel, trackConfigurations: AnyConfigurationModel[], collapsed: {
|
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13
13
|
get: (arg: string) => boolean | undefined;
|
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14
|
-
}): TreeNode[];
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14
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+
}, extra?: string): TreeNode[];
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15
|
export default function stateTreeFactory(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
|
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16
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|
id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
|
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17
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|
type: import("mobx-state-tree").ISimpleType<"HierarchicalTrackSelectorWidget">;
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@@ -62,6 +62,7 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
|
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62
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})[];
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63
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};
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64
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|
connectionHierarchy(assemblyName: string, connection: {
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65
|
+
name: string;
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65
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|
tracks: AnyConfigurationModel[];
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66
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|
}): TreeNode[];
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67
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|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
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@@ -32,7 +32,7 @@ function filterTracks(tracks, self, assemblyName) {
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32
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|
return hasAnyOverlap(compatDisplays, trackDisplays);
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33
33
|
});
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34
34
|
}
|
|
35
|
-
function generateHierarchy(model, trackConfigurations, collapsed) {
|
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35
|
+
function generateHierarchy(model, trackConfigurations, collapsed, extra) {
|
|
36
36
|
const hierarchy = { children: [] };
|
|
37
37
|
const { filterText, view } = model;
|
|
38
38
|
const session = (0, util_1.getSession)(model);
|
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@@ -52,7 +52,7 @@ function generateHierarchy(model, trackConfigurations, collapsed) {
|
|
|
52
52
|
for (let i = 0; i < categories.length; i++) {
|
|
53
53
|
const category = categories[i];
|
|
54
54
|
const ret = currLevel.children.find(c => c.name === category);
|
|
55
|
-
const id = categories.slice(0, i + 1).join(',');
|
|
55
|
+
const id = extra + '-' + categories.slice(0, i + 1).join(',');
|
|
56
56
|
if (!ret) {
|
|
57
57
|
const n = {
|
|
58
58
|
children: [],
|
|
@@ -170,7 +170,7 @@ function stateTreeFactory(pluginManager) {
|
|
|
170
170
|
const { assemblyManager } = (0, util_1.getSession)(self);
|
|
171
171
|
const assembly = assemblyManager.get(assemblyName);
|
|
172
172
|
const conns = (assembly &&
|
|
173
|
-
(connectionInstances === null || connectionInstances === void 0 ? void 0 : connectionInstances.
|
|
173
|
+
(connectionInstances === null || connectionInstances === void 0 ? void 0 : connectionInstances.map(c => ({
|
|
174
174
|
// @ts-ignore
|
|
175
175
|
id: (0, mobx_state_tree_1.getSnapshot)(c).configuration,
|
|
176
176
|
name: (0, configuration_1.getConf)(c, 'name'),
|
|
@@ -178,7 +178,7 @@ function stateTreeFactory(pluginManager) {
|
|
|
178
178
|
state: {
|
|
179
179
|
expanded: true,
|
|
180
180
|
},
|
|
181
|
-
})))) ||
|
|
181
|
+
})).filter(f => f.children.length))) ||
|
|
182
182
|
[];
|
|
183
183
|
return {
|
|
184
184
|
name: 'Root',
|
|
@@ -192,7 +192,7 @@ function stateTreeFactory(pluginManager) {
|
|
|
192
192
|
connectionHierarchy(assemblyName, connection) {
|
|
193
193
|
return generateHierarchy(
|
|
194
194
|
// eslint-disable-next-line @typescript-eslint/no-explicit-any
|
|
195
|
-
self, self.connectionTrackConfigurations(assemblyName, connection), self.collapsed);
|
|
195
|
+
self, self.connectionTrackConfigurations(assemblyName, connection), self.collapsed, connection.name);
|
|
196
196
|
},
|
|
197
197
|
}));
|
|
198
198
|
}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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|
|
1
|
+
{"version":3,"file":"model.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/model.ts"],"names":[],"mappings":";;;AAAA,qDAA8D;AAC9D,+DAIoC;AACpC,6CAK2B;AAC3B,sDAAwD;AACxD,sDAAwD;AAGxD,SAAS,aAAa,CAAI,KAAU,EAAE,EAAE,KAAU,EAAE;IAClD,OAAO,CAAC,CAAC,EAAE,CAAC,IAAI,CAAC,KAAK,CAAC,EAAE,CAAC,EAAE,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAA;AAC/C,CAAC;AAED,SAAS,YAAY,CACnB,MAAc,EACd,MAA6B,EAC7B,OAA6B;IAE7B,MAAM,UAAU,GAAG,IAAA,8BAAc,EAAC,MAAM,EAAE,UAAU,CAAyB,CAAA;IAC7E,MAAM,WAAW,GAAG,MAAM,CAAC,WAAW,EAAE,CAAA;IACxC,OAAO,CACL,IAAA,qBAAY,EAAC,MAAM,EAAE,OAAO,CAAC,CAAC,WAAW,EAAE,CAAC,QAAQ,CAAC,WAAW,CAAC;QACjE,CAAC,CAAC,CAAA,UAAU,aAAV,UAAU,uBAAV,UAAU,CAAE,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,WAAW,EAAE,CAAC,QAAQ,CAAC,WAAW,CAAC,EAAE,MAAM,CAAA,CACxE,CAAA;AACH,CAAC;AAWD,SAAS,YAAY,CACnB,MAA+B,EAC/B,IAAgC,EAChC,YAAoB;IAEpB,MAAM,EAAE,eAAe,EAAE,GAAG,IAAA,iBAAU,EAAC,IAAI,CAAC,CAAA;IAC5C,MAAM,EAAE,aAAa,EAAE,GAAG,IAAA,aAAM,EAAC,IAAI,CAAC,CAAA;IACtC,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;IAElD,IAAI,CAAC,QAAQ,EAAE;QACb,OAAO,EAAE,CAAA;KACV;IACD,MAAM,EAAE,UAAU,EAAE,GAAG,QAAQ,CAAA;IAC/B,OAAO,MAAM;SACV,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,aAAa,CAAC,UAAU,EAAE,IAAA,8BAAc,EAAC,CAAC,EAAE,eAAe,CAAC,CAAC,CAAC;SAC1E,MAAM,CAAC,CAAC,CAAC,EAAE;QACV,MAAM,EAAE,YAAY,EAAE,GAAG,aAAa,CAAC,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;QAClE,MAAM,cAAc,GAAG,YAAY,CAAC,GAAG,CAAC,CAAC,CAAmB,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;QACxE,MAAM,aAAa,GAAG,CAAC,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAmB,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;QACrE,OAAO,aAAa,CAAC,cAAc,EAAE,aAAa,CAAC,CAAA;IACrD,CAAC,CAAC,CAAA;AACN,CAAC;AAED,SAAgB,iBAAiB,CAC/B,KAAqC,EACrC,mBAA4C,EAC5C,SAAwD,EACxD,KAAc;IAEd,MAAM,SAAS,GAAG,EAAE,QAAQ,EAAE,EAAgB,EAAc,CAAA;IAC5D,MAAM,EAAE,UAAU,EAAE,IAAI,EAAE,GAAG,KAAK,CAAA;IAClC,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,KAAK,CAAC,CAAA;IAEjC,mBAAmB;SAChB,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,YAAY,CAAC,UAAU,EAAE,IAAI,EAAE,OAAO,CAAC,CAAC;SACvD,OAAO,CAAC,IAAI,CAAC,EAAE;QACd,iEAAiE;QACjE,MAAM,UAAU,GAAG,CAAC,GAAG,CAAC,IAAA,8BAAc,EAAC,IAAI,EAAE,UAAU,CAAC,IAAI,EAAE,CAAC,CAAC,CAAA;QAEhE,uEAAuE;QACvE,kEAAkE;QAClE,0BAA0B;QAC1B,IAAI,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,cAAc,CAAC,EAAE;YACzC,UAAU,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;SACtC;QAED,IAAI,SAAS,GAAG,SAAS,CAAA;QAEzB,wDAAwD;QACxD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,UAAU,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YAC1C,MAAM,QAAQ,GAAG,UAAU,CAAC,CAAC,CAAC,CAAA;YAC9B,MAAM,GAAG,GAAG,SAAS,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,QAAQ,CAAC,CAAA;YAC7D,MAAM,EAAE,GAAG,KAAK,GAAG,GAAG,GAAG,UAAU,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;YAC7D,IAAI,CAAC,GAAG,EAAE;gBACR,MAAM,CAAC,GAAG;oBACR,QAAQ,EAAE,EAAE;oBACZ,IAAI,EAAE,QAAQ;oBACd,EAAE;oBACF,eAAe,EAAE,CAAC,SAAS,CAAC,GAAG,CAAC,EAAE,CAAC;iBACpC,CAAA;gBACD,SAAS,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;gBAC1B,SAAS,GAAG,CAAC,CAAA;aACd;iBAAM;gBACL,SAAS,GAAG,GAAG,CAAA;aAChB;SACF;QACD,MAAM,MAAM,GAAG,IAAI,CAAC,MAAoD,CAAA;QAExE,uEAAuE;QACvE,SAAS,CAAC,QAAQ,CAAC,MAAM,CACvB,SAAS,CAAC,QAAQ,CAAC,SAAS,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,QAAQ,CAAC,MAAM,CAAC,EACxD,CAAC,EACD;YACE,EAAE,EAAE,IAAI,CAAC,OAAO;YAChB,IAAI,EAAE,IAAA,qBAAY,EAAC,IAAI,EAAE,OAAO,CAAC;YACjC,IAAI;YACJ,OAAO,EAAE,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,aAAa,KAAK,IAAI,CAAC;YACrD,QAAQ,EAAE,EAAE;SACb,CACF,CAAA;IACH,CAAC,CAAC,CAAA;IAEJ,OAAO,SAAS,CAAC,QAAQ,CAAA;AAC3B,CAAC;AA5DD,8CA4DC;AAED,SAAwB,gBAAgB,CAAC,aAA4B;IACnE,OAAO,uBAAK;SACT,KAAK,CAAC,iCAAiC,EAAE;QACxC,EAAE,EAAE,eAAS;QACb,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,iCAAiC,CAAC;QACtD,SAAS,EAAE,uBAAK,CAAC,GAAG,CAAC,uBAAK,CAAC,OAAO,CAAC;QACnC,UAAU,EAAE,EAAE;QACd,IAAI,EAAE,uBAAK,CAAC,aAAa,CACvB,aAAa,CAAC,gBAAgB,CAAC,MAAM,EAAE,YAAY,CAAC,CACrD;KACF,CAAC;SACD,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;QACf,SAAS,EAAE,EAA6B;KACzC,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB,cAAc,CAAC,GAA4B;YACzC,IAAI,CAAC,SAAS,GAAG,IAAA,aAAM,EAAC,CAAC,GAAG,IAAI,CAAC,SAAS,EAAE,GAAG,GAAG,CAAC,EAAE,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,CAAA;QACtE,CAAC;QACD,mBAAmB,CAAC,GAA4B;YAC9C,IAAI,CAAC,SAAS,GAAG,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAA;QAC/D,CAAC;QACD,cAAc;YACZ,IAAI,CAAC,SAAS,GAAG,EAAE,CAAA;QACrB,CAAC;QACD,OAAO,CAAC,IAAa;YACnB,IAAI,CAAC,IAAI,GAAG,IAAI,CAAA;QAClB,CAAC;QACD,cAAc,CAAC,QAAgB;YAC7B,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,QAAQ,EAAE,CAAC,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,QAAQ,CAAC,CAAC,CAAA;QAC7D,CAAC;QACD,eAAe;YACb,IAAI,CAAC,UAAU,GAAG,EAAE,CAAA;QACtB,CAAC;QACD,aAAa,CAAC,OAAe;YAC3B,IAAI,CAAC,UAAU,GAAG,OAAO,CAAA;QAC3B,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd,kBAAkB,CAAC,YAAoB;YACrC,MAAM,EAAE,eAAe,EAAE,GAAG,IAAA,iBAAU,EAAC,IAAI,CAAC,CAAA;YAC5C,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;YAClD,MAAM,SAAS,GAAG,QAAQ,aAAR,QAAQ,uBAAR,QAAQ,CAAE,aAAa,CAAC,QAAQ,CAAA;YAClD,MAAM,QAAQ,GAAG,aAAa,CAAC,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;YAC1D,IAAI,CAAC,SAAS,EAAE;gBACd,OAAO,SAAS,CAAA;aACjB;YACD,KAAK,MAAM,OAAO,IAAI,SAAS,CAAC,QAAQ,EAAE;gBACxC,IAAI,QAAQ,CAAC,YAAY,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,OAAO,CAAC,IAAI,CAAC,EAAE;oBAC5D,OAAO,SAAS,CAAA;iBACjB;aACF;QACH,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd,mBAAmB,CAAC,YAAoB;YACtC,IAAI,CAAC,IAAI,CAAC,IAAI,EAAE;gBACd,OAAO,EAAE,CAAA;aACV;YACD,MAAM,EAAE,MAAM,EAAE,eAAe,EAAE,GAAG,IAAA,iBAAU,EAAC,IAAI,CAAC,CAAA;YACpD,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;YAClD,IAAI,CAAC,QAAQ,EAAE;gBACb,OAAO,EAAE,CAAA;aACV;YACD,MAAM,MAAM,GAAG,IAAI,CAAC,kBAAkB,CAAC,YAAY,CAAC,CAAA;YACpD,qEAAqE;YACrE,sCAAsC;YACtC,OAAO,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,MAAM,CAAC;gBACrC,GAAG,YAAY,CAAC,MAAM,EAAE,IAAI,EAAE,YAAY,CAAC;aAC5C,CAAC,CAAA;QACJ,CAAC;QAED,IAAI,aAAa;;YACf,OAAO,CAAA,MAAA,IAAI,CAAC,IAAI,0CAAE,aAAa,KAAI,EAAE,CAAA;QACvC,CAAC;QAED,6BAA6B,CAC3B,YAAoB,EACpB,UAA+C;YAE/C,IAAI,CAAC,IAAI,CAAC,IAAI,EAAE;gBACd,OAAO,EAAE,CAAA;aACV;YAED,+DAA+D;YAC/D,OAAO,YAAY,CAAC,UAAU,CAAC,MAAM,EAAE,IAAI,EAAE,YAAY,CAAC,CAAA;QAC5D,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd,SAAS,CAAC,YAAoB;YAC5B,MAAM,IAAI,GAAG,iBAAiB;YAC5B,8DAA8D;YAC9D,IAAW,EACX,IAAI,CAAC,mBAAmB,CAAC,YAAY,CAAC,EACtC,IAAI,CAAC,SAAS,CACf,CAAA;YAED,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,IAAI,CAAC,CAAA;YAChC,MAAM,EAAE,mBAAmB,EAAE,GAAG,OAAO,CAAA;YAEvC,MAAM,EAAE,eAAe,EAAE,GAAG,IAAA,iBAAU,EAAC,IAAI,CAAC,CAAA;YAC5C,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;YAClD,MAAM,KAAK,GACT,CAAC,QAAQ;iBACP,mBAAmB,aAAnB,mBAAmB,uBAAnB,mBAAmB,CACf,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC;oBACV,aAAa;oBACb,EAAE,EAAE,IAAA,6BAAW,EAAC,CAAC,CAAC,CAAC,aAAa;oBAChC,IAAI,EAAE,IAAA,uBAAO,EAAC,CAAC,EAAE,MAAM,CAAC;oBACxB,QAAQ,EAAE,IAAI,CAAC,mBAAmB,CAAC,YAAY,EAAE,CAAC,CAAC;oBACnD,KAAK,EAAE;wBACL,QAAQ,EAAE,IAAI;qBACf;iBACF,CAAC,EACD,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAA,CAAC;gBACpC,EAAE,CAAA;YAEJ,OAAO;gBACL,IAAI,EAAE,MAAM;gBACZ,EAAE,EAAE,MAAM;gBACV,QAAQ,EAAE;oBACR,EAAE,IAAI,EAAE,QAAQ,EAAE,EAAE,EAAE,QAAQ,EAAE,QAAQ,EAAE,IAAI,EAAE;oBAChD,GAAG,KAAK;iBACT;aACF,CAAA;QACH,CAAC;QAED,mBAAmB,CACjB,YAAoB,EACpB,UAA6D;YAE7D,OAAO,iBAAiB;YACtB,8DAA8D;YAC9D,IAAW,EACX,IAAI,CAAC,6BAA6B,CAAC,YAAY,EAAE,UAAU,CAAC,EAC5D,IAAI,CAAC,SAAS,EACd,UAAU,CAAC,IAAI,CAChB,CAAA;QACH,CAAC;KACF,CAAC,CAAC,CAAA;AACP,CAAC;AA3ID,mCA2IC"}
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@@ -1,2 +1,2 @@
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1
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-
export { default as modelFactory } from
|
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2
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-
export { default as configSchema } from
|
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1
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+
export { default as modelFactory } from './model';
|
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2
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+
export { default as configSchema } from './configSchema';
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@@ -1 +1 @@
|
|
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1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/index.
|
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1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/index.ts"],"names":[],"mappings":";;;;;;AAAA,iCAAiD;AAAxC,sHAAA,OAAO,OAAgB;AAChC,+CAAwD;AAA/C,6HAAA,OAAO,OAAgB"}
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@@ -1,4 +1,5 @@
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1
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-
|
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1
|
+
import PluginManager from '@jbrowse/core/PluginManager';
|
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2
|
+
export default function UCSCTrackHubConnection(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
|
|
2
3
|
name: import("mobx-state-tree").ISimpleType<string>;
|
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3
4
|
tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
|
|
4
5
|
} & {
|
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@@ -23,5 +24,5 @@ export default function UCSCTrackHubConnection(pluginManager: any): import("mobx
|
|
|
23
24
|
} & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[]): import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyModelType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>>;
|
|
24
25
|
clear(): void;
|
|
25
26
|
} & {
|
|
26
|
-
connect(): void
|
|
27
|
+
connect(): Promise<void>;
|
|
27
28
|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
|
|
@@ -7,82 +7,83 @@ const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
|
|
|
7
7
|
const configuration_1 = require("@jbrowse/core/configuration");
|
|
8
8
|
const util_1 = require("@jbrowse/core/util");
|
|
9
9
|
const mobx_state_tree_1 = require("mobx-state-tree");
|
|
10
|
+
// locals
|
|
10
11
|
const configSchema_1 = __importDefault(require("./configSchema"));
|
|
11
12
|
const ucscTrackHub_1 = require("./ucscTrackHub");
|
|
12
13
|
function UCSCTrackHubConnection(pluginManager) {
|
|
13
|
-
return mobx_state_tree_1.types
|
|
14
|
-
.model({
|
|
14
|
+
return mobx_state_tree_1.types
|
|
15
|
+
.compose('UCSCTrackHubConnection', (0, models_1.BaseConnectionModelFactory)(pluginManager), mobx_state_tree_1.types.model({
|
|
15
16
|
configuration: (0, configuration_1.ConfigurationReference)(configSchema_1.default),
|
|
16
17
|
type: mobx_state_tree_1.types.literal('UCSCTrackHubConnection'),
|
|
17
|
-
})
|
|
18
|
+
}))
|
|
18
19
|
.actions(self => ({
|
|
19
|
-
connect() {
|
|
20
|
-
const connectionName = (0, configuration_1.getConf)(self, 'name');
|
|
21
|
-
const hubFileLocation = (0, configuration_1.getConf)(self, 'hubTxtLocation');
|
|
20
|
+
async connect() {
|
|
22
21
|
const session = (0, util_1.getSession)(self);
|
|
23
|
-
|
|
24
|
-
.
|
|
25
|
-
const
|
|
22
|
+
try {
|
|
23
|
+
const connectionName = (0, configuration_1.getConf)(self, 'name');
|
|
24
|
+
const hubFileLocation = (0, configuration_1.getConf)(self, 'hubTxtLocation');
|
|
25
|
+
const hubFile = await (0, ucscTrackHub_1.fetchHubFile)(hubFileLocation);
|
|
26
|
+
const genomeFile = hubFile.get('genomesFile');
|
|
27
|
+
if (!genomeFile) {
|
|
28
|
+
throw new Error('genomesFile not found on hub');
|
|
29
|
+
}
|
|
30
|
+
const hubUri = new URL(hubFileLocation.uri, hubFileLocation.baseUri);
|
|
31
|
+
const genomesFileLocation = hubUri
|
|
26
32
|
? {
|
|
27
|
-
uri: new URL(
|
|
33
|
+
uri: new URL(genomeFile, hubUri).href,
|
|
28
34
|
locationType: 'UriLocation',
|
|
29
35
|
}
|
|
30
36
|
: {
|
|
31
|
-
localPath:
|
|
37
|
+
localPath: genomeFile,
|
|
32
38
|
locationType: 'LocalPathLocation',
|
|
33
39
|
};
|
|
34
|
-
|
|
35
|
-
hubFile,
|
|
36
|
-
(0, ucscTrackHub_1.fetchGenomesFile)(genomesFileLocation),
|
|
37
|
-
]);
|
|
38
|
-
})
|
|
39
|
-
.then(([hubFile, genomesFile]) => {
|
|
40
|
+
const genomesFile = await (0, ucscTrackHub_1.fetchGenomesFile)(genomesFileLocation);
|
|
40
41
|
const trackDbData = [];
|
|
41
42
|
for (const [genomeName, genome] of genomesFile) {
|
|
42
43
|
const assemblyNames = (0, configuration_1.getConf)(self, 'assemblyNames');
|
|
43
44
|
if (assemblyNames.length > 0 &&
|
|
44
45
|
!assemblyNames.includes(genomeName)) {
|
|
45
|
-
|
|
46
|
+
continue;
|
|
46
47
|
}
|
|
47
|
-
const
|
|
48
|
-
if (!
|
|
48
|
+
const conf = session.assemblies.find(a => (0, configuration_1.readConfObject)(a, 'name') === genomeName);
|
|
49
|
+
if (!conf) {
|
|
49
50
|
throw new Error(`Cannot find assembly for "${genomeName}" from the genomes file for connection "${connectionName}"`);
|
|
50
51
|
}
|
|
51
|
-
const
|
|
52
|
+
const trackDb = genome.get('trackDb');
|
|
53
|
+
if (!trackDb) {
|
|
54
|
+
throw new Error('genomesFile not found on hub');
|
|
55
|
+
}
|
|
56
|
+
const trackDbFileLocation = hubUri
|
|
52
57
|
? {
|
|
53
|
-
uri: new URL(
|
|
58
|
+
uri: new URL(trackDb, new URL(genomeFile, hubUri)).href,
|
|
54
59
|
locationType: 'UriLocation',
|
|
55
60
|
}
|
|
56
61
|
: {
|
|
57
|
-
localPath:
|
|
62
|
+
localPath: trackDb,
|
|
58
63
|
locationType: 'LocalPathLocation',
|
|
59
64
|
};
|
|
60
|
-
trackDbData.push(
|
|
65
|
+
trackDbData.push([
|
|
61
66
|
trackDbFileLocation,
|
|
62
|
-
(0, ucscTrackHub_1.fetchTrackDbFile)(trackDbFileLocation),
|
|
67
|
+
await (0, ucscTrackHub_1.fetchTrackDbFile)(trackDbFileLocation),
|
|
63
68
|
genomeName,
|
|
64
|
-
|
|
65
|
-
])
|
|
69
|
+
conf,
|
|
70
|
+
]);
|
|
66
71
|
}
|
|
67
|
-
|
|
68
|
-
|
|
69
|
-
.then(trackDbData => {
|
|
70
|
-
for (const [trackDbFileLocation, trackDbFile, genomeName, assemblyConf,] of trackDbData) {
|
|
71
|
-
const sequenceAdapter = (0, configuration_1.readConfObject)(assemblyConf, [
|
|
72
|
+
for (const [trackDbFileLocation, trackDbFile, genomeName, conf,] of trackDbData) {
|
|
73
|
+
const sequenceAdapter = (0, configuration_1.readConfObject)(conf, [
|
|
72
74
|
'sequence',
|
|
73
75
|
'adapter',
|
|
74
76
|
]);
|
|
75
|
-
|
|
76
|
-
self.addTrackConfs(tracks);
|
|
77
|
+
self.addTrackConfs((0, ucscTrackHub_1.generateTracks)(trackDbFile, trackDbFileLocation, genomeName, sequenceAdapter));
|
|
77
78
|
}
|
|
78
|
-
}
|
|
79
|
-
|
|
80
|
-
console.error(
|
|
81
|
-
session.notify(`There was a problem connecting to the UCSC Track Hub "${self.name}". Please make sure you have entered a valid hub.txt file. The error that was thrown is: "${
|
|
79
|
+
}
|
|
80
|
+
catch (e) {
|
|
81
|
+
console.error(e);
|
|
82
|
+
session.notify(`There was a problem connecting to the UCSC Track Hub "${self.configuration.name}". Please make sure you have entered a valid hub.txt file. The error that was thrown is: "${e}"`, 'error');
|
|
82
83
|
session.breakConnection(self.configuration);
|
|
83
|
-
}
|
|
84
|
+
}
|
|
84
85
|
},
|
|
85
|
-
}))
|
|
86
|
+
}));
|
|
86
87
|
}
|
|
87
88
|
exports.default = UCSCTrackHubConnection;
|
|
88
89
|
//# sourceMappingURL=model.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"model.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/model.
|
|
1
|
+
{"version":3,"file":"model.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/model.ts"],"names":[],"mappings":";;;;;AACA,uEAAuF;AACvF,+DAIoC;AACpC,6CAA+C;AAC/C,qDAAuC;AAEvC,SAAS;AACT,kEAAyC;AACzC,iDAKuB;AAEvB,SAAwB,sBAAsB,CAAC,aAA4B;IACzE,OAAO,uBAAK;SACT,OAAO,CACN,wBAAwB,EACxB,IAAA,mCAA0B,EAAC,aAAa,CAAC,EACzC,uBAAK,CAAC,KAAK,CAAC;QACV,aAAa,EAAE,IAAA,sCAAsB,EAAC,sBAAY,CAAC;QACnD,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,wBAAwB,CAAC;KAC9C,CAAC,CACH;SACA,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB,KAAK,CAAC,OAAO;YACX,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,IAAI,CAAC,CAAA;YAChC,IAAI;gBACF,MAAM,cAAc,GAAG,IAAA,uBAAO,EAAC,IAAI,EAAE,MAAM,CAAC,CAAA;gBAC5C,MAAM,eAAe,GAAG,IAAA,uBAAO,EAAC,IAAI,EAAE,gBAAgB,CAAC,CAAA;gBACvD,MAAM,OAAO,GAAG,MAAM,IAAA,2BAAY,EAAC,eAAe,CAAC,CAAA;gBACnD,MAAM,UAAU,GAAG,OAAO,CAAC,GAAG,CAAC,aAAa,CAAC,CAAA;gBAC7C,IAAI,CAAC,UAAU,EAAE;oBACf,MAAM,IAAI,KAAK,CAAC,8BAA8B,CAAC,CAAA;iBAChD;gBAED,MAAM,MAAM,GAAG,IAAI,GAAG,CAAC,eAAe,CAAC,GAAG,EAAE,eAAe,CAAC,OAAO,CAAC,CAAA;gBACpE,MAAM,mBAAmB,GAAG,MAAM;oBAChC,CAAC,CAAC;wBACE,GAAG,EAAE,IAAI,GAAG,CAAC,UAAU,EAAE,MAAM,CAAC,CAAC,IAAI;wBACrC,YAAY,EAAE,aAAa;qBAC5B;oBACH,CAAC,CAAC;wBACE,SAAS,EAAE,UAAU;wBACrB,YAAY,EAAE,mBAAmB;qBAClC,CAAA;gBACL,MAAM,WAAW,GAAG,MAAM,IAAA,+BAAgB,EAAC,mBAAmB,CAAC,CAAA;gBAC/D,MAAM,WAAW,GAAG,EAAE,CAAA;gBACtB,KAAK,MAAM,CAAC,UAAU,EAAE,MAAM,CAAC,IAAI,WAAW,EAAE;oBAC9C,MAAM,aAAa,GAAG,IAAA,uBAAO,EAAC,IAAI,EAAE,eAAe,CAAC,CAAA;oBACpD,IACE,aAAa,CAAC,MAAM,GAAG,CAAC;wBACxB,CAAC,aAAa,CAAC,QAAQ,CAAC,UAAU,CAAC,EACnC;wBACA,SAAQ;qBACT;oBACD,MAAM,IAAI,GAAG,OAAO,CAAC,UAAU,CAAC,IAAI,CAClC,CAAC,CAAC,EAAE,CAAC,IAAA,8BAAc,EAAC,CAAC,EAAE,MAAM,CAAC,KAAK,UAAU,CAC9C,CAAA;oBACD,IAAI,CAAC,IAAI,EAAE;wBACT,MAAM,IAAI,KAAK,CACb,6BAA6B,UAAU,2CAA2C,cAAc,GAAG,CACpG,CAAA;qBACF;oBACD,MAAM,OAAO,GAAG,MAAM,CAAC,GAAG,CAAC,SAAS,CAAC,CAAA;oBACrC,IAAI,CAAC,OAAO,EAAE;wBACZ,MAAM,IAAI,KAAK,CAAC,8BAA8B,CAAC,CAAA;qBAChD;oBACD,MAAM,mBAAmB,GAAG,MAAM;wBAChC,CAAC,CAAC;4BACE,GAAG,EAAE,IAAI,GAAG,CAAC,OAAO,EAAE,IAAI,GAAG,CAAC,UAAU,EAAE,MAAM,CAAC,CAAC,CAAC,IAAI;4BACvD,YAAY,EAAE,aAAa;yBAC5B;wBACH,CAAC,CAAC;4BACE,SAAS,EAAE,OAAO;4BAClB,YAAY,EAAE,mBAAmB;yBAClC,CAAA;oBACL,WAAW,CAAC,IAAI,CAAC;wBACf,mBAAmB;wBACnB,MAAM,IAAA,+BAAgB,EAAC,mBAAmB,CAAC;wBAC3C,UAAU;wBACV,IAAI;qBACI,CAAC,CAAA;iBACZ;gBACD,KAAK,MAAM,CACT,mBAAmB,EACnB,WAAW,EACX,UAAU,EACV,IAAI,EACL,IAAI,WAAW,EAAE;oBAChB,MAAM,eAAe,GAAG,IAAA,8BAAc,EAAC,IAAI,EAAE;wBAC3C,UAAU;wBACV,SAAS;qBACV,CAAC,CAAA;oBACF,IAAI,CAAC,aAAa,CAChB,IAAA,6BAAc,EACZ,WAAW,EACX,mBAAmB,EACnB,UAAU,EACV,eAAe,CAChB,CACF,CAAA;iBACF;aACF;YAAC,OAAO,CAAC,EAAE;gBACV,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;gBAChB,OAAO,CAAC,MAAM,CACZ,yDAAyD,IAAI,CAAC,aAAa,CAAC,IAAI,6FAA6F,CAAC,GAAG,EACjL,OAAO,CACR,CAAA;gBACD,OAAO,CAAC,eAAe,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;aAC5C;QACH,CAAC;KACF,CAAC,CAAC,CAAA;AACP,CAAC;AAnGD,yCAmGC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"ucscAssemblies.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/ucscAssemblies.
|
|
1
|
+
{"version":3,"file":"ucscAssemblies.js","sourceRoot":"","sources":["../../src/ucsc-trackhub/ucscAssemblies.ts"],"names":[],"mappings":";AAAA,yEAAyE;AACzE,yFAAyF;AACzF,oDAAoD;;AAEpD,kBAAe;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;QAoMP,CAAC,KAAK,CAAC,OAAO,CAAC,CAAA"}
|
|
@@ -1,20 +1,20 @@
|
|
|
1
|
-
import React from 'react';
|
|
1
|
+
import React, { useState } from 'react';
|
|
2
2
|
import { observer } from 'mobx-react';
|
|
3
3
|
import { FormControl, FormHelperText, Select, MenuItem } from '@mui/material';
|
|
4
|
-
import { getEnv
|
|
4
|
+
import { getEnv } from '@jbrowse/core/util';
|
|
5
5
|
import DefaultAddTrackWorkflow from './DefaultAddTrackWorkflow';
|
|
6
6
|
import PasteConfigWorkflow from './PasteConfigWorkflow';
|
|
7
7
|
function AddTrackSelector({ model }) {
|
|
8
|
-
const [val, setVal] =
|
|
8
|
+
const [val, setVal] = useState('Default add track workflow');
|
|
9
9
|
const { pluginManager } = getEnv(model);
|
|
10
|
-
const widgets = pluginManager.
|
|
10
|
+
const widgets = pluginManager.getAddTrackWorkflowElements();
|
|
11
11
|
const ComponentMap = {
|
|
12
|
-
Default: DefaultAddTrackWorkflow,
|
|
12
|
+
'Default add track workflow': DefaultAddTrackWorkflow,
|
|
13
13
|
'Add track JSON': PasteConfigWorkflow,
|
|
14
14
|
...Object.fromEntries(widgets.map(w => [w.name, w.ReactComponent])),
|
|
15
15
|
};
|
|
16
16
|
// make sure the selected value is in the list
|
|
17
|
-
const val2 = ComponentMap[val] ? val : 'Default';
|
|
17
|
+
const val2 = ComponentMap[val] ? val : 'Default add track workflow';
|
|
18
18
|
const Component = ComponentMap[val2];
|
|
19
19
|
return (React.createElement(React.Fragment, null,
|
|
20
20
|
React.createElement(FormControl, null,
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"AddTrackWidget.js","sourceRoot":"","sources":["../../../src/AddTrackWidget/components/AddTrackWidget.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,MAAM,OAAO,CAAA;
|
|
1
|
+
{"version":3,"file":"AddTrackWidget.js","sourceRoot":"","sources":["../../../src/AddTrackWidget/components/AddTrackWidget.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AACvC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,EAAE,WAAW,EAAE,cAAc,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AAC7E,OAAO,EAAE,MAAM,EAAE,MAAM,oBAAoB,CAAA;AAI3C,OAAO,uBAAuB,MAAM,2BAA2B,CAAA;AAC/D,OAAO,mBAAmB,MAAM,uBAAuB,CAAA;AAEvD,SAAS,gBAAgB,CAAC,EAAE,KAAK,EAA4B;IAC3D,MAAM,CAAC,GAAG,EAAE,MAAM,CAAC,GAAG,QAAQ,CAAC,4BAA4B,CAAC,CAAA;IAC5D,MAAM,EAAE,aAAa,EAAE,GAAG,MAAM,CAAC,KAAK,CAAC,CAAA;IACvC,MAAM,OAAO,GAAG,aAAa,CAAC,2BAA2B,EAAE,CAAA;IAC3D,MAAM,YAAY,GAAG;QACnB,4BAA4B,EAAE,uBAAuB;QACrD,gBAAgB,EAAE,mBAAmB;QACrC,GAAG,MAAM,CAAC,WAAW,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,EAAE,CAAC,CAAC,cAAc,CAAC,CAAC,CAAC;KACX,CAAA;IAE1D,8CAA8C;IAC9C,MAAM,IAAI,GAAG,YAAY,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,4BAA4B,CAAA;IACnE,MAAM,SAAS,GAAG,YAAY,CAAC,IAAI,CAAC,CAAA;IACpC,OAAO,CACL;QACE,oBAAC,WAAW;YACV,oBAAC,MAAM,IAAC,KAAK,EAAE,IAAI,EAAE,QAAQ,EAAE,KAAK,CAAC,EAAE,CAAC,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC,IAC/D,MAAM,CAAC,IAAI,CAAC,YAAY,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAClC,oBAAC,QAAQ,IAAC,GAAG,EAAE,CAAC,EAAE,KAAK,EAAE,CAAC,IACvB,CAAC,CACO,CACZ,CAAC,CACK;YACT,oBAAC,cAAc,qCAA4C,CAC/C;QAEd,+BAAM;QACN,oBAAC,SAAS,IAAC,KAAK,EAAE,KAAK,GAAI,CAC1B,CACJ,CAAA;AACH,CAAC;AAED,eAAe,QAAQ,CAAC,gBAAgB,CAAC,CAAA"}
|
|
@@ -1,7 +1,6 @@
|
|
|
1
1
|
/// <reference types="react" />
|
|
2
2
|
import { AddTrackModel } from '../model';
|
|
3
|
-
declare
|
|
3
|
+
declare const _default: ({ model, }: {
|
|
4
4
|
model: AddTrackModel;
|
|
5
|
-
})
|
|
6
|
-
declare const _default: typeof ConfirmTrack;
|
|
5
|
+
}) => JSX.Element;
|
|
7
6
|
export default _default;
|