@jbrowse/plugin-dotplot-view 3.0.5 → 3.2.0

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.
Files changed (13) hide show
  1. package/dist/DotplotView/components/DotplotView.js +1 -1
  2. package/dist/DotplotView/components/PanButtons.js +1 -1
  3. package/dist/DotplotView/components/WarningDialog.js +2 -2
  4. package/dist/DotplotView/model.d.ts +2 -0
  5. package/dist/DotplotView/model.js +7 -5
  6. package/dist/LaunchDotplotView.js +2 -2
  7. package/esm/DotplotView/components/DotplotView.js +1 -1
  8. package/esm/DotplotView/components/PanButtons.js +1 -1
  9. package/esm/DotplotView/components/WarningDialog.js +2 -2
  10. package/esm/DotplotView/model.d.ts +2 -0
  11. package/esm/DotplotView/model.js +7 -5
  12. package/esm/LaunchDotplotView.js +2 -2
  13. package/package.json +4 -4
package/dist/DotplotView/components/DotplotView.js CHANGED
@@ -241,7 +241,7 @@ const DotplotViewInternal = (0, mobx_react_1.observer)(function ({ model, }) {
241
241
  top: mouseupClient[1] + 50,
242
242
  left: mouseupClient[0] + 50,
243
243
  }
244
- : undefined, style: { zIndex: 10000 }, menuItems: [
244
+ : undefined, style: { zIndex: 800 }, menuItems: [
245
245
  {
246
246
  label: 'Zoom in',
247
247
  onClick: () => {
package/dist/DotplotView/components/PanButtons.js CHANGED
@@ -20,7 +20,7 @@ const useStyles = (0, mui_1.makeStyles)()({
20
20
  margin: 0,
21
21
  position: 'absolute',
22
22
  right: 50,
23
- zIndex: 1000,
23
+ zIndex: 500,
24
24
  top: 50,
25
25
  },
26
26
  icon: {
package/dist/DotplotView/components/WarningDialog.js CHANGED
@@ -15,8 +15,8 @@ const useStyles = (0, mui_1.makeStyles)()({
15
15
  });
16
16
  function getTrackWarnings({ trackWarnings, }) {
17
17
  const rows = [];
18
- for (let i = 0; i < trackWarnings.length; i++) {
19
- const track = trackWarnings[i];
18
+ for (const [i, trackWarning] of trackWarnings.entries()) {
19
+ const track = trackWarning;
20
20
  const name = (0, configuration_1.getConf)(track, 'name');
21
21
  const d = track.displays[0];
22
22
  for (let j = 0; j < d.warnings.length; j++) {
package/dist/DotplotView/model.d.ts CHANGED
@@ -166,6 +166,7 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
166
166
  type: import("mobx-state-tree").ISimpleType<string>;
167
167
  configuration: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
168
168
  minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
169
+ pinned: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
169
170
  displays: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
170
171
  }, {
171
172
  readonly rpcSessionId: any;
@@ -182,6 +183,7 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
182
183
  } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
183
184
  } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | undefined;
184
185
  } & {
186
+ setPinned(flag: boolean): void;
185
187
  setMinimized(flag: boolean): void;
186
188
  showDisplay(displayId: string, initialSnapshot?: {}): void;
187
189
  hideDisplay(displayId: string): number;
package/dist/DotplotView/model.js CHANGED
@@ -246,11 +246,13 @@ function stateModelFactory(pm) {
246
246
  hideTrack(trackId) {
247
247
  const schema = pm.pluggableConfigSchemaType('track');
248
248
  const conf = (0, mobx_state_tree_1.resolveIdentifier)(schema, (0, mobx_state_tree_1.getRoot)(self), trackId);
249
- const t = self.tracks.filter(t => t.configuration === conf);
249
+ const tracks = self.tracks.filter(t => t.configuration === conf);
250
250
  (0, mobx_1.transaction)(() => {
251
- t.forEach(t => self.tracks.remove(t));
251
+ for (const track of tracks) {
252
+ self.tracks.remove(track);
253
+ }
252
254
  });
253
- return t.length;
255
+ return tracks.length;
254
256
  },
255
257
  toggleTrack(trackId) {
256
258
  const hiddenCount = this.hideTrack(trackId);
@@ -387,11 +389,11 @@ function stateModelFactory(pm) {
387
389
  }
388
390
  const views = [self.hview, self.vview];
389
391
  (0, mobx_1.transaction)(() => {
390
- self.assemblyNames.forEach((name, index) => {
392
+ for (const [index, name] of self.assemblyNames.entries()) {
391
393
  const assembly = session.assemblyManager.get(name);
392
394
  const view = views[index];
393
395
  view.setDisplayedRegions((assembly === null || assembly === void 0 ? void 0 : assembly.regions) || []);
394
- });
396
+ }
395
397
  self.showAllRegions();
396
398
  });
397
399
  }, { delay: 1000 }));
package/dist/LaunchDotplotView.js CHANGED
@@ -15,9 +15,9 @@ function LaunchDotplotView(pluginManager) {
15
15
  model.setAssemblyNames(assemblyNames[0], assemblyNames[1]);
16
16
  });
17
17
  const idsNotFound = [];
18
- tracks.forEach(track => {
18
+ for (const track of tracks) {
19
19
  tryTrack(model, track, idsNotFound);
20
- });
20
+ }
21
21
  if (idsNotFound.length) {
22
22
  throw new Error(`Could not resolve identifiers: ${idsNotFound.join(',')}`);
23
23
  }
package/esm/DotplotView/components/DotplotView.js CHANGED
@@ -203,7 +203,7 @@ const DotplotViewInternal = observer(function ({ model, }) {
203
203
  top: mouseupClient[1] + 50,
204
204
  left: mouseupClient[0] + 50,
205
205
  }
206
- : undefined, style: { zIndex: 10000 }, menuItems: [
206
+ : undefined, style: { zIndex: 800 }, menuItems: [
207
207
  {
208
208
  label: 'Zoom in',
209
209
  onClick: () => {
package/esm/DotplotView/components/PanButtons.js CHANGED
@@ -15,7 +15,7 @@ const useStyles = makeStyles()({
15
15
  margin: 0,
16
16
  position: 'absolute',
17
17
  right: 50,
18
- zIndex: 1000,
18
+ zIndex: 500,
19
19
  top: 50,
20
20
  },
21
21
  icon: {
package/esm/DotplotView/components/WarningDialog.js CHANGED
@@ -13,8 +13,8 @@ const useStyles = makeStyles()({
13
13
  });
14
14
  function getTrackWarnings({ trackWarnings, }) {
15
15
  const rows = [];
16
- for (let i = 0; i < trackWarnings.length; i++) {
17
- const track = trackWarnings[i];
16
+ for (const [i, trackWarning] of trackWarnings.entries()) {
17
+ const track = trackWarning;
18
18
  const name = getConf(track, 'name');
19
19
  const d = track.displays[0];
20
20
  for (let j = 0; j < d.warnings.length; j++) {
package/esm/DotplotView/model.d.ts CHANGED
@@ -166,6 +166,7 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
166
166
  type: import("mobx-state-tree").ISimpleType<string>;
167
167
  configuration: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
168
168
  minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
169
+ pinned: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
169
170
  displays: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
170
171
  }, {
171
172
  readonly rpcSessionId: any;
@@ -182,6 +183,7 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
182
183
  } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
183
184
  } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | undefined;
184
185
  } & {
186
+ setPinned(flag: boolean): void;
185
187
  setMinimized(flag: boolean): void;
186
188
  showDisplay(displayId: string, initialSnapshot?: {}): void;
187
189
  hideDisplay(displayId: string): number;
package/esm/DotplotView/model.js CHANGED
@@ -206,11 +206,13 @@ export default function stateModelFactory(pm) {
206
206
  hideTrack(trackId) {
207
207
  const schema = pm.pluggableConfigSchemaType('track');
208
208
  const conf = resolveIdentifier(schema, getRoot(self), trackId);
209
- const t = self.tracks.filter(t => t.configuration === conf);
209
+ const tracks = self.tracks.filter(t => t.configuration === conf);
210
210
  transaction(() => {
211
- t.forEach(t => self.tracks.remove(t));
211
+ for (const track of tracks) {
212
+ self.tracks.remove(track);
213
+ }
212
214
  });
213
- return t.length;
215
+ return tracks.length;
214
216
  },
215
217
  toggleTrack(trackId) {
216
218
  const hiddenCount = this.hideTrack(trackId);
@@ -347,11 +349,11 @@ export default function stateModelFactory(pm) {
347
349
  }
348
350
  const views = [self.hview, self.vview];
349
351
  transaction(() => {
350
- self.assemblyNames.forEach((name, index) => {
352
+ for (const [index, name] of self.assemblyNames.entries()) {
351
353
  const assembly = session.assemblyManager.get(name);
352
354
  const view = views[index];
353
355
  view.setDisplayedRegions((assembly === null || assembly === void 0 ? void 0 : assembly.regions) || []);
354
- });
356
+ }
355
357
  self.showAllRegions();
356
358
  });
357
359
  }, { delay: 1000 }));
package/esm/LaunchDotplotView.js CHANGED
@@ -12,9 +12,9 @@ export default function LaunchDotplotView(pluginManager) {
12
12
  model.setAssemblyNames(assemblyNames[0], assemblyNames[1]);
13
13
  });
14
14
  const idsNotFound = [];
15
- tracks.forEach(track => {
15
+ for (const track of tracks) {
16
16
  tryTrack(model, track, idsNotFound);
17
- });
17
+ }
18
18
  if (idsNotFound.length) {
19
19
  throw new Error(`Could not resolve identifiers: ${idsNotFound.join(',')}`);
20
20
  }
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@jbrowse/plugin-dotplot-view",
3
- "version": "3.0.5",
3
+ "version": "3.2.0",
4
4
  "description": "JBrowse 2 dotplot view",
5
5
  "keywords": [
6
6
  "jbrowse",
@@ -36,8 +36,8 @@
36
36
  "clean": "rimraf dist esm *.tsbuildinfo"
37
37
  },
38
38
  "dependencies": {
39
- "@jbrowse/core": "^3.0.5",
40
- "@jbrowse/plugin-alignments": "^3.0.5",
39
+ "@jbrowse/core": "^3.2.0",
40
+ "@jbrowse/plugin-alignments": "^3.2.0",
41
41
  "@mui/icons-material": "^6.0.0",
42
42
  "@mui/material": "^6.0.0",
43
43
  "@mui/x-data-grid": "^7.0.0",
@@ -59,5 +59,5 @@
59
59
  "publishConfig": {
60
60
  "access": "public"
61
61
  },
62
- "gitHead": "a03749efe19e51609922272b845a331897346789"
62
+ "gitHead": "c750e3f56706a490c19ba75abd807fec5e38aebf"
63
63
  }