@datagrok-libraries/bio 5.45.2 → 5.45.3

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Files changed (12) hide show
  1. package/CHANGELOG.md +7 -0
  2. package/package.json +1 -1
  3. package/src/utils/cell-renderer-back-base.d.ts +1 -1
  4. package/src/utils/cell-renderer-back-base.d.ts.map +1 -1
  5. package/src/utils/cell-renderer-back-base.js.map +1 -1
  6. package/src/utils/cell-renderer-monomer-placer.d.ts +1 -0
  7. package/src/utils/cell-renderer-monomer-placer.d.ts.map +1 -1
  8. package/src/utils/cell-renderer-monomer-placer.js +14 -11
  9. package/src/utils/cell-renderer-monomer-placer.js.map +1 -1
  10. package/src/utils/macromolecule/utils.d.ts.map +1 -1
  11. package/src/utils/macromolecule/utils.js +2 -7
  12. package/src/utils/macromolecule/utils.js.map +1 -1
package/CHANGELOG.md CHANGED
@@ -1,5 +1,12 @@
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  # bio changelog
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+ ## 5.45.3 (2024-10-16)
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+
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+ ### Bug fixes
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+
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+ * Fix splitterWithSeparator
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+ * Fix MonomerPlacer onMouseMove handling
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+
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  ## 5.45.2 (2024-10-11)
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  ### Bug fixes
package/package.json CHANGED
@@ -8,7 +8,7 @@
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  "access": "public"
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  },
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  "friendlyName": "Datagrok bio library",
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- "version": "5.45.2",
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+ "version": "5.45.3",
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  "description": "Bio utilities, types supporting Macromolecule, Molecule3D data",
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  "dependencies": {
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  "@datagrok-libraries/chem-meta": "^1.2.7",
package/src/utils/cell-renderer-back-base.d.ts CHANGED
@@ -31,7 +31,7 @@ export declare abstract class CellRendererBackBase<TValue> extends CellRendererB
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  /** Not null if rendered on a grid */
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  gridCol: DG.GridColumn | null, tableCol: DG.Column<TValue>, logger: ILogger);
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  private static viewerCounter;
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- private readonly viewerId;
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+ protected readonly viewerId: number;
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  protected toLog(): string;
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  protected destroy(): void;
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  protected invalidateGrid(): void;
package/src/utils/cell-renderer-back-base.d.ts.map CHANGED
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package/src/utils/cell-renderer-monomer-placer.d.ts CHANGED
@@ -30,6 +30,7 @@ export declare class MonomerPlacer extends CellRendererBackBase<string> {
30
30
  /** View is required to subscribe and handle for data frame changes */
31
31
  constructor(gridCol: DG.GridColumn | null, tableCol: DG.Column<string>, logger: ILogger, monomerLengthLimit: number, propsProvider: () => MonomerPlacerProps);
32
32
  init(): Promise<void>;
33
+ toLog(): string;
33
34
  protected getMonomerLib(): IMonomerLibBase | null;
34
35
  protected reset(): void;
35
36
  protected invalidateGrid(): void;
package/src/utils/cell-renderer-monomer-placer.d.ts.map CHANGED
@@ -1 +1 @@
1
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1
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package/src/utils/cell-renderer-monomer-placer.js CHANGED
@@ -3,7 +3,7 @@ import * as DG from 'datagrok-api/dg';
3
3
  import wu from 'wu';
4
4
  import { getSeqHelper } from './seq-helper';
5
5
  import { ALPHABET, NOTATION, TAGS as bioTAGS } from './macromolecule';
6
- import { CellRendererBackBase, getGridCellColTemp } from './cell-renderer-back-base';
6
+ import { CellRendererBackBase } from './cell-renderer-back-base';
7
7
  import { getMonomerLibHelper } from '../monomer-works/monomer-utils';
8
8
  import { errInfo } from './err-info';
9
9
  import { DrawStyle, printLeftOrCentered, TAGS as mmcrTAGS } from './cell-renderer';
@@ -81,6 +81,9 @@ export class MonomerPlacer extends CellRendererBackBase {
81
81
  }));
82
82
  this.reset();
83
83
  }
84
+ toLog() {
85
+ return `MonomerPlacer<${this.viewerId}>`;
86
+ }
84
87
  getMonomerLib() {
85
88
  return this.tableCol.temp[".mm.cellRenderer.overriddenLibrary" /* MmcrTemps.overriddenLibrary */] ?? this.sysMonomerLib;
86
89
  }
@@ -180,8 +183,8 @@ export class MonomerPlacer extends CellRendererBackBase {
180
183
  for (let seqIdx = startIdx; seqIdx < endIdx; seqIdx++) {
181
184
  if (this._processedRows.get(seqIdx) && maxVisibleSeqLength <= this._processedMaxVisibleSeqLength)
182
185
  continue;
183
- const seqSS = this.seqHelper.getSeqHandler(this.tableCol)
184
- .getSplitted(seqIdx, maxVisibleSeqLength);
186
+ const sh = this.seqHelper.getSeqHandler(this.tableCol);
187
+ const seqSS = sh.getSplitted(seqIdx, maxVisibleSeqLength);
185
188
  const visibleSeqLength = Math.min(maxVisibleSeqLength, seqSS.length);
186
189
  if (visibleSeqLength > res.length)
187
190
  res.push(...new Array(visibleSeqLength - res.length).fill(minMonWidth));
@@ -226,6 +229,8 @@ export class MonomerPlacer extends CellRendererBackBase {
226
229
  const gridCol = this.gridCol;
227
230
  const tableCol = this.tableCol;
228
231
  const dpr = window.devicePixelRatio;
232
+ const logPrefix = `${this.toLog()}.render()`;
233
+ this.logger.debug(`${logPrefix}, start`);
229
234
  // Cell renderer settings
230
235
  let maxLengthOfMonomer = this.monomerLengthLimit;
231
236
  if (mmcrTAGS.maxMonomerLength in tableCol.tags) {
@@ -319,14 +324,11 @@ export class MonomerPlacer extends CellRendererBackBase {
319
324
  }
320
325
  }
321
326
  onMouseMove(gridCell, e) {
327
+ const logPrefix = `${this.toLog()}.onMouseMove()`;
322
328
  if (!this.seqHelper || gridCell.tableRowIndex == null)
323
329
  return;
324
330
  // if (gridCell.cell.column.getTag(bioTAGS.aligned) !== ALIGNMENT.SEQ_MSA)
325
331
  // return;
326
- const [_gridCol, tableCol, temp] = getGridCellColTemp(gridCell);
327
- const seqColTemp = temp.rendererBack;
328
- if (!seqColTemp)
329
- return; // Can do nothing without precalculated data
330
332
  const gridCellBounds = gridCell.bounds;
331
333
  // const value: any = gridCell.cell.value;
332
334
  //
@@ -336,8 +338,9 @@ export class MonomerPlacer extends CellRendererBackBase {
336
338
  // maxLengthWordsSum[posI] = maxLengthWordsSum[posI - 1] + maxLengthWords[posI];
337
339
  // const maxIndex = maxLengthWords.length;
338
340
  const argsX = e.offsetX - gridCell.gridColumn.left + (gridCell.gridColumn.left - gridCellBounds.x);
339
- const left = seqColTemp.getPosition(gridCell.tableRowIndex, argsX, gridCellBounds.width);
340
- const sh = this.seqHelper.getSeqHandler(tableCol);
341
+ const left = this.getPosition(gridCell.tableRowIndex, argsX, gridCellBounds.width);
342
+ this.logger.debug(`${logPrefix}, start, argsX: ${argsX}, left: ${left}`);
343
+ const sh = this.seqHelper.getSeqHandler(this.tableCol);
341
344
  const seqSS = sh.getSplitted(gridCell.tableRowIndex);
342
345
  if (left !== null && left < seqSS.length) {
343
346
  const alphabet = sh.alphabet ?? ALPHABET.UN;
@@ -347,10 +350,10 @@ export class MonomerPlacer extends CellRendererBackBase {
347
350
  symbol: seqSS.getCanonical(left),
348
351
  };
349
352
  const tooltipElements = [];
350
- let monomerDiv = seqColTemp._monomerStructureMap[seqMonomer.symbol];
353
+ let monomerDiv = this._monomerStructureMap[seqMonomer.symbol];
351
354
  if (!monomerDiv || true) {
352
355
  const monomerLib = this.getMonomerLib();
353
- monomerDiv = seqColTemp._monomerStructureMap[seqMonomer.symbol] = (() => {
356
+ monomerDiv = this._monomerStructureMap[seqMonomer.symbol] = (() => {
354
357
  return monomerLib ? monomerLib.getTooltip(seqMonomer.biotype, seqMonomer.symbol) :
355
358
  ui.divText('Monomer library is not available');
356
359
  })();
package/src/utils/cell-renderer-monomer-placer.js.map CHANGED
@@ -1 +1 @@
1
- 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package/src/utils/macromolecule/utils.d.ts.map CHANGED
@@ -1 +1 @@
1
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package/src/utils/macromolecule/utils.js CHANGED
@@ -112,15 +112,10 @@ export function getSplitterWithSeparator(separator, limit = undefined) {
112
112
  return new StringListSeqSplitted([], GapOriginals[NOTATION.SEPARATOR]);
113
113
  else {
114
114
  let mmList;
115
- const mRe = new RegExp(String.raw `"-"|'-'|[^${separator}]+`, 'g'); // depends on separator args
115
+ const mRe = new RegExp(`(?<=^|\\${separator})("-"|'-'|[^\\${separator}]*)(?=\\${separator}|$)`, 'g'); // depends on separator args
116
116
  if (limit !== undefined) {
117
117
  mRe.lastIndex = 0;
118
- mmList = new Array(Math.ceil(limit));
119
- let mEa = null;
120
- let mI = 0;
121
- while ((mEa = mRe.exec(seq)) !== null && mI < limit)
122
- mmList[mI++] = mEa[0].replace(`"-"`, '').replace(`'-'`, '');
123
- mmList.splice(mI);
118
+ mmList = wu(seq.matchAll(mRe)).take(limit).map((ea) => ea[0]).toArray();
124
119
  }
125
120
  else
126
121
  mmList = seq.replaceAll('\"-\"', '').replaceAll('\'-\'', '').split(separator, limit);
package/src/utils/macromolecule/utils.js.map CHANGED
@@ -1 +1 @@
1
- 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