@datagrok/bio 2.21.11 → 2.21.12

package/src/widgets/sequence-scrolling-widget.ts

@@ -1,42 +1,355 @@
+/* eslint-disable rxjs/no-ignored-subscription */
+/* eslint-disable max-lines */
 /* eslint-disable max-len */
 /* eslint-disable max-lines-per-function */
 import * as grok from 'datagrok-api/grok';
 import * as DG from 'datagrok-api/dg';
 import * as ui from 'datagrok-api/ui';
 
-import {MSAScrollingHeader} from '@datagrok-libraries/bio/src/utils/sequence-position-scroller';
+import {ConservationTrack, MSAHeaderTrack, MSAScrollingHeader, WebLogoTrack} from '@datagrok-libraries/bio/src/utils/sequence-position-scroller';
 import {MonomerPlacer} from '@datagrok-libraries/bio/src/utils/cell-renderer-monomer-placer';
 import {ALPHABET, TAGS as bioTAGS} from '@datagrok-libraries/bio/src/utils/macromolecule';
 import {_package} from '../package';
+import {getMonomerLibHelper} from '@datagrok-libraries/bio/src/monomer-works/monomer-utils';
+import {ISeqHandler} from '@datagrok-libraries/bio/src/utils/macromolecule/seq-handler';
+import * as RxJs from 'rxjs';
+import {filter} from 'rxjs/operators';
+
+// ============================================================================
+// OPTIMIZED VIEWPORT-AWARE CACHING WITH FORCE UPDATE SUPPORT
+// ============================================================================
+class MSAViewportManager {
+  private static conservationCache: DG.LruCache<string, number[]> = new DG.LruCache<string, number[]>(100);
+  private static webLogoCache: DG.LruCache<string, Map<number, Map<string, number>>> = new DG.LruCache<string, Map<number, Map<string, number>>>(100);
+
+  // Track when data was last invalidated for force updates
+  private static lastInvalidationTime: number = 0;
+
+  // Cache chunks of 200 positions at a time
+  private static readonly CHUNK_SIZE = 50;
+
+  /**
+   * Clear all caches and update invalidation timestamp for force updates
+   */
+  static clearAllCaches(): void {
+    MSAViewportManager.conservationCache = new DG.LruCache<string, number[]>(100);
+    MSAViewportManager.webLogoCache = new DG.LruCache<string, Map<number, Map<string, number>>>(100);
+    MSAViewportManager.lastInvalidationTime = Date.now();
+  }
+
+  /**
+   * Get the last invalidation time (used by tracks to detect forced updates)
+   */
+  static getLastInvalidationTime(): number {
+    return MSAViewportManager.lastInvalidationTime;
+  }
+
+  private static getChunkCacheKey(column: DG.Column, chunkStart: number, chunkEnd: number): string {
+    const dataFrame = column.dataFrame;
+    // Use framework's built-in versioning instead of complex hash
+    return `${dataFrame.id}_${column.name}_f${dataFrame.filter.version}_${chunkStart}_${chunkEnd}`;
+  }
+
+  private static getConservationChunk(seqHandler: ISeqHandler, start: number, end: number, cacheKey: string): number[] {
+    return MSAViewportManager.conservationCache.getOrCreate(cacheKey, () => {
+      // conservation track is only shown together with weblogo track, so we can reuse weblogo for this caluclation
+      const webLogoChunk = MSAViewportManager.getWebLogoChunk(seqHandler, start, end, cacheKey);
+      const chunkSize = end - start;
+      const scores = new Array(chunkSize).fill(0);
+      for (let i = start; i < end; i++) {
+        const entries = webLogoChunk.get(i);
+        if (!entries || entries.size === 0)
+          continue;
+        let totalResidues = 0;
+        let mostCommonCount = 0;
+        const gapS = seqHandler.defaultGapOriginal;
+        // Single pass to find both total and max
+        for (const [mon, count] of entries.entries()) {
+          if (!mon || mon === gapS) continue; // Skip gaps
+          totalResidues += count;
+          if (count > mostCommonCount)
+            mostCommonCount = count;
+        }
+        // Calculate conservation score
+        scores[i - start] = totalResidues > 0 ? mostCommonCount / totalResidues : 0;
+      }
+      return scores;
+    });
+  }
+
+  private static getWebLogoChunk(seqHandler: ISeqHandler, start: number, end: number, cacheKey: string): Map<number, Map<string, number>> {
+    return MSAViewportManager.webLogoCache.getOrCreate(cacheKey, () => {
+      const dataFrame = seqHandler.column.dataFrame;
+      const webLogoData: Map<number, Map<string, number>> = new Map();
+      // OPTIMIZED: Use filter iterator
+      const visibleCount = dataFrame.filter.trueCount;
+      if (visibleCount <= 1)
+        return webLogoData;
+
+      // pre-alocate residue counts map
+      for (let i = start; i < end; i++)
+        webLogoData.set(i, new Map());
+
+      const filter = dataFrame.filter;
+
+      const oneOverCount = 1 / visibleCount; // Pre-calculate for performance
+
+      for (let i = -1; (i = filter.findNext(i, true)) !== -1;) {
+        // OPTIMIZED: Use seqHandler.getSplitted which has internal caching
+        const seqChunk = seqHandler.getSplitted(i).getOriginalRegion(start, end);
+        if (seqChunk.length === 0) continue;
+        for (let pos = 0; pos < seqChunk.length; pos++) {
+          const residue = seqChunk[pos];
+          // in weblogo, do not skip gaps, they are important
+          const residueMap = webLogoData.get(start + pos)!;
+          // add oneOverCount here to avoid division later
+          residueMap.set(residue, (residueMap.get(residue) || 0) + oneOverCount);
+        }
+      }
+      return webLogoData;
+    });
+  }
+
+  static getConservationForViewport(seqHandler: any, viewportStart: number, viewportEnd: number, maxLength: number): number[] {
+    // Create a full-sized array filled with zeros
+    const result: number[] = new Array(maxLength).fill(0);
+
+    // Calculate which chunks we need
+    const startChunk = Math.floor(viewportStart / MSAViewportManager.CHUNK_SIZE) * MSAViewportManager.CHUNK_SIZE;
+    const endChunk = Math.ceil(viewportEnd / MSAViewportManager.CHUNK_SIZE) * MSAViewportManager.CHUNK_SIZE;
+
+    // Get all needed chunks and place them in the correct positions
+    for (let chunkStart = startChunk; chunkStart < endChunk; chunkStart += MSAViewportManager.CHUNK_SIZE) {
+      const chunkEnd = Math.min(chunkStart + MSAViewportManager.CHUNK_SIZE, maxLength);
+      const cacheKey = MSAViewportManager.getChunkCacheKey(seqHandler.column, chunkStart, chunkEnd);
+      const chunkData = MSAViewportManager.getConservationChunk(seqHandler, chunkStart, chunkEnd, cacheKey);
+
+      // Copy chunk data to the correct positions in the result array
+      for (let i = 0; i < chunkData.length && (chunkStart + i) < maxLength; i++)
+        result[chunkStart + i] = chunkData[i];
+    }
+
+    return result;
+  }
+
+  static getWebLogoForViewport(seqHandler: any, viewportStart: number, viewportEnd: number, maxLength: number): Map<number, Map<string, number>> {
+    const result: Map<number, Map<string, number>> = new Map();
+
+    // Calculate which chunks we need
+    const startChunk = Math.floor(viewportStart / MSAViewportManager.CHUNK_SIZE) * MSAViewportManager.CHUNK_SIZE;
+    const endChunk = Math.ceil(viewportEnd / MSAViewportManager.CHUNK_SIZE) * MSAViewportManager.CHUNK_SIZE;
+
+    // Get all needed chunks and place them in the correct positions
+    for (let chunkStart = startChunk; chunkStart < endChunk; chunkStart += MSAViewportManager.CHUNK_SIZE) {
+      const chunkEnd = Math.min(chunkStart + MSAViewportManager.CHUNK_SIZE, maxLength);
+      const cacheKey = MSAViewportManager.getChunkCacheKey(seqHandler.column, chunkStart, chunkEnd);
+      const chunkData = MSAViewportManager.getWebLogoChunk(seqHandler, chunkStart, chunkEnd, cacheKey);
+
+      // Copy chunk data to the result map (positions are already correct)
+      for (const [pos, data] of chunkData.entries()) {
+        if (pos < maxLength)
+          result.set(pos, data);
+      }
+    }
+
+    return result;
+  }
+}
+
+// ============================================================================
+//  SMART TRACKS
+// ============================================================================
+
+class LazyWebLogoTrack extends WebLogoTrack {
+  private seqHandler: any;
+  private maxLength: number;
+  private lastViewportStart: number = -1;
+  private lastViewportEnd: number = -1;
+  private lastInvalidationTime: number = 0;
+  private forceNextUpdate: boolean = false;
+
+  constructor(
+    seqHandler: any,
+    maxLength: number,
+    height: number = 45,
+    title: string = 'WebLogo'
+  ) {
+    super(new Map(), height, '', title);
+    this.seqHandler = seqHandler;
+    this.maxLength = maxLength;
+
+    this.visible = seqHandler.column.dataFrame.filter.trueCount > 1;
+  }
+
+  public forceUpdate(): void {
+    this.forceNextUpdate = true;
+  }
+
+  public resetViewportTracking(): void {
+    this.lastViewportStart = -1;
+    this.lastViewportEnd = -1;
+  }
+
+  private updateForViewport(viewportStart: number, viewportEnd: number): void {
+    const currentInvalidationTime = MSAViewportManager.getLastInvalidationTime();
+    const cacheWasInvalidated = currentInvalidationTime > this.lastInvalidationTime;
+
+    const viewportChanged = (
+      Math.abs(this.lastViewportStart - viewportStart) >= 10 ||
+      Math.abs(this.lastViewportEnd - viewportEnd) >= 10
+    );
+
+    // Only update if viewport changed significantly OR cache was invalidated OR force update is set
+    if (!viewportChanged && !cacheWasInvalidated && !this.forceNextUpdate)
+      return;
+
+
+    // Reset flags and update tracking
+    this.forceNextUpdate = false;
+    this.lastViewportStart = viewportStart;
+    this.lastViewportEnd = viewportEnd;
+    this.lastInvalidationTime = currentInvalidationTime;
+
+    // Add buffer to reduce cache misses on small scrolls
+    const bufferedStart = Math.max(0, viewportStart - 20);
+    const bufferedEnd = Math.min(this.maxLength, viewportEnd + 20);
+
+    const webLogoData = MSAViewportManager.getWebLogoForViewport(
+      this.seqHandler,
+      bufferedStart,
+      bufferedEnd,
+      this.maxLength
+    );
+
+    this.updateData(webLogoData);
+  }
+
+  draw(x: number, y: number, width: number, height: number, windowStart: number,
+    positionWidth: number, totalPositions: number, currentPosition: number): void {
+    // Calculate what positions are actually visible
+    const visiblePositions = Math.ceil(width / positionWidth) + 2;
+    const viewportEnd = Math.min(windowStart + visiblePositions, totalPositions);
+
+    // Update data for just the visible range
+    this.updateForViewport(windowStart - 1, viewportEnd - 1); // Convert to 0-based
+
+    // Call parent draw method
+    super.draw(x, y, width, height, windowStart, positionWidth, totalPositions, currentPosition);
+  }
+}
+
+class LazyConservationTrack extends ConservationTrack {
+  private seqHandler: any;
+  private maxLength: number;
+  private lastViewportStart: number = -1;
+  private lastViewportEnd: number = -1;
+  private lastInvalidationTime: number = 0;
+  private forceNextUpdate: boolean = false;
+
+  constructor(
+    seqHandler: any,
+    maxLength: number,
+    height: number = 45,
+    colorScheme: 'default' | 'rainbow' | 'heatmap' = 'default',
+    title: string = 'Conservation'
+  ) {
+    super([], height, colorScheme, title);
+    this.seqHandler = seqHandler;
+    this.maxLength = maxLength;
+
+    // OPTIMIZED: Use dataFrame.filter.trueCount directly
+    this.visible = seqHandler.column.dataFrame.filter.trueCount > 1;
+  }
+
+  public forceUpdate(): void {
+    this.forceNextUpdate = true;
+  }
+
+  public resetViewportTracking(): void {
+    this.lastViewportStart = -1;
+    this.lastViewportEnd = -1;
+  }
+
+  private updateForViewport(viewportStart: number, viewportEnd: number): void {
+    const currentInvalidationTime = MSAViewportManager.getLastInvalidationTime();
+    const cacheWasInvalidated = currentInvalidationTime > this.lastInvalidationTime;
+
+    const viewportChanged = (
+      Math.abs(this.lastViewportStart - viewportStart) >= 10 ||
+      Math.abs(this.lastViewportEnd - viewportEnd) >= 10
+    );
+
+    // Only update if viewport changed significantly OR cache was invalidated OR force update is set
+    if (!viewportChanged && !cacheWasInvalidated && !this.forceNextUpdate)
+      return;
+
+
+    // Reset flags and update tracking
+    this.forceNextUpdate = false;
+    this.lastViewportStart = viewportStart;
+    this.lastViewportEnd = viewportEnd;
+    this.lastInvalidationTime = currentInvalidationTime;
+
+    // Add buffer to reduce cache misses on small scrolls
+    const bufferedStart = Math.max(0, viewportStart - 20);
+    const bufferedEnd = Math.min(this.maxLength, viewportEnd + 20);
+
+    const conservationScores = MSAViewportManager.getConservationForViewport(
+      this.seqHandler,
+      bufferedStart,
+      bufferedEnd,
+      this.maxLength
+    );
+
+    this.updateData(conservationScores);
+  }
+
+  draw(x: number, y: number, width: number, height: number, windowStart: number,
+    positionWidth: number, totalPositions: number, currentPosition: number): void {
+    // Calculate what positions are actually visible
+    const visiblePositions = Math.ceil(width / positionWidth) + 2;
+    const viewportEnd = Math.min(windowStart + visiblePositions, totalPositions);
+
+    this.updateForViewport(windowStart - 1, viewportEnd - 1); // Convert to 0-based
+
+    // Call parent draw method
+    super.draw(x, y, width, height, windowStart, positionWidth, totalPositions, currentPosition);
+  }
+}
+
+// ============================================================================
+//  MAIN HANDLER
+// ============================================================================
 
 export function handleSequenceHeaderRendering() {
   const handleGrid = (grid: DG.Grid) => {
     setTimeout(() => {
-      if (grid.isDetached)
-        return;
+      if (grid.isDetached) return;
+
       const df = grid.dataFrame;
-      if (!df)
-        return;
+      if (!df) return;
+
       const seqCols = df.columns.bySemTypeAll(DG.SEMTYPE.MACROMOLECULE);
+
       for (const seqCol of seqCols) {
-        // TODO: Extend this to non-canonical monomers and non msa
         const sh = _package.seqHelper.getSeqHandler(seqCol);
-        if (!sh)
-          continue;
-        if (sh.isHelm() || sh.alphabet === ALPHABET.UN)
-          continue;
+        if (!sh) continue;
+        if (sh.isHelm() || sh.alphabet === ALPHABET.UN) continue;
 
         const gCol = grid.col(seqCol.name);
-        if (!gCol)
-          continue;
+        if (!gCol) continue;
+
+        let positionStatsViewerAddedOnce = !!grid.tableView &&
+          Array.from(grid.tableView.viewers).some((v) => v.type === 'Sequence Position Statistics');
 
-        let positionStatsViewerAddedOnce = !!grid.tableView && Array.from(grid.tableView.viewers).some((v) => v.type === 'Sequence Position Statistics');
         const isMSA = sh.isMsa();
         const ifNan = (a: number, els: number) => (Number.isNaN(a) ? els : a);
         const getStart = () => ifNan(Math.max(Number.parseInt(seqCol.getTag(bioTAGS.positionShift) ?? '0'), 0), 0) + 1;
         const getCurrent = () => ifNan(Number.parseInt(seqCol.getTag(bioTAGS.selectedPosition) ?? '-2'), -2);
         const getFontSize = () => MonomerPlacer.getFontSettings(seqCol).fontWidth;
-        // get the maximum length of seqs by getting the primitive length first and then splitting it with correct splitter;
+
+        // Get maximum sequence length. since this scroller is only applicable to Single character monomeric sequences,
+        // we do not need to check every single sequence and split it, instead, max length will coorelate with length of the longest string
         let pseudoMaxLenIndex = 0;
         let pseudoMaxLength = 0;
         const cats = seqCol.categories;
@@ -51,88 +364,175 @@ export function handleSequenceHeaderRendering() {
         const split = sh.splitter(seq);
         const maxSeqLen = split ? split.length : 30;
 
-        const defaultHeaderHeight = 40;
-        const scroller = new MSAScrollingHeader({
-          canvas: grid.overlay,
-          headerHeight: defaultHeaderHeight,
-          totalPositions: maxSeqLen + 1,
-          onPositionChange: (scrollerCur, scrollerRange) => {
-            setTimeout(() => {
-              const start = getStart();
-              const cur = getCurrent();
-              if (start !== scrollerRange.start)
-                seqCol.setTag(bioTAGS.positionShift, (scrollerRange.start - 1).toString());
-              if (cur !== scrollerCur) {
-                seqCol.setTag(bioTAGS.selectedPosition, (scrollerCur).toString());
-                if (scrollerCur >= 0 && !positionStatsViewerAddedOnce && grid.tableView) {
-                  positionStatsViewerAddedOnce = true;
-                  const v = grid.tableView.addViewer('Sequence Position Statistics', {sequenceColumnName: seqCol.name});
-                  grid.tableView.dockManager.dock(v, DG.DOCK_TYPE.DOWN, null, 'Sequence Position Statistics', 0.4);
-                }
-              }
-            });
-          },
+        // Do not Skip if sequences are too short, rather, just don't render the tracks by default
+
+        const STRICT_THRESHOLDS = {
+          WITH_TITLE: 58, // BASE + TITLE_HEIGHT(16) + TRACK_GAP(4)
+          WITH_WEBLOGO: 107, // WITH_TITLE + DEFAULT_TRACK_HEIGHT(45) + TRACK_GAP(4)
+          WITH_BOTH: 156 // WITH_WEBLOGO + DEFAULT_TRACK_HEIGHT(45) + TRACK_GAP(4)
+        };
+
+        let initialHeaderHeight: number;
+        if (seqCol.length > 100_000 || maxSeqLen < 50) {
+          // Single sequence: just dotted cells
+          initialHeaderHeight = STRICT_THRESHOLDS.WITH_TITLE;
+        } else {
+          if (seqCol.length > 50_000)
+            initialHeaderHeight = STRICT_THRESHOLDS.WITH_WEBLOGO;
+          else
+            initialHeaderHeight = STRICT_THRESHOLDS.WITH_BOTH;
+        }
+
+        let webLogoTrackRef: LazyWebLogoTrack | null = null;
+        let conservationTrackRef: LazyConservationTrack | null = null;
+        const filterChangeSub = DG.debounce(
+          RxJs.merge(df.onFilterChanged, df.onDataChanged.pipe(filter((a) => a?.args?.column === seqCol))), 100
+        ).subscribe(() => {
+          MSAViewportManager.clearAllCaches();
+
+          if (webLogoTrackRef) {
+            webLogoTrackRef.resetViewportTracking();
+            webLogoTrackRef.forceUpdate();
+          }
+          if (conservationTrackRef) {
+            conservationTrackRef.resetViewportTracking();
+            conservationTrackRef.forceUpdate();
+          }
+          setTimeout(() => {
+            if (!grid.isDetached)
+              grid.invalidate();
+          }, 50);
         });
-        // adjust header hight automatically only if the sequences are long enough
-        if (maxSeqLen > 40)
-          grid.props.colHeaderHeight = 65;
-
-        setTimeout(() => { if (grid.isDetached) return; gCol.width = 400; }, 300); // needed because renderer sets its width
-        grid.sub(grid.onCellRender.subscribe((e) => {
-          const cell = e.cell;
-          if (!cell || !cell.isColHeader || cell?.gridColumn?.name !== gCol?.name)
-            return;
-          const cellBounds = e.bounds;
-          if (!cellBounds || cellBounds.height <= 50) {
-            scroller.headerHeight = 0;
-            return;
+
+        grid.sub(filterChangeSub);
+
+        const initializeHeaders = (monomerLib: any = null) => {
+          const tracks: { id: string, track: MSAHeaderTrack, priority: number }[] = [];
+
+          // Create lazy tracks only if we have multiple sequences
+
+          // OPTIMIZED: Pass seqHandler directly instead of column/splitter
+          const conservationTrack = new LazyConservationTrack(
+            sh,
+            maxSeqLen,
+            45, // DEFAULT_TRACK_HEIGHT
+            'default',
+            'Conservation'
+          );
+          conservationTrackRef = conservationTrack; // Store reference
+          tracks.push({id: 'conservation', track: conservationTrack, priority: 1});
+
+          // OPTIMIZED: Pass seqHandler directly
+          const webLogoTrack = new LazyWebLogoTrack(
+            sh,
+            maxSeqLen,
+            45, // DEFAULT_TRACK_HEIGHT
+            'WebLogo'
+          );
+          webLogoTrackRef = webLogoTrack; // Store reference
+
+          if (monomerLib) {
+            webLogoTrack.setMonomerLib(monomerLib);
+            webLogoTrack.setBiotype(sh.defaultBiotype || 'PEPTIDE');
           }
 
-          const headerTitleSpace = 20;
-          const availableTitleSpace = cellBounds.height - defaultHeaderHeight;
-          // Only draw title if we have enough space for it
-          if (availableTitleSpace > headerTitleSpace) {
-            // update header height to fit whole header
-            scroller.headerHeight = cellBounds.height - headerTitleSpace;
+          webLogoTrack.setupDefaultTooltip();
+          tracks.push({id: 'weblogo', track: webLogoTrack, priority: 2});
+
+
+          // Create the scrolling header
+          const scroller = new MSAScrollingHeader({
+            canvas: grid.overlay,
+            headerHeight: initialHeaderHeight,
+            totalPositions: maxSeqLen + 1,
+            onPositionChange: (scrollerCur, scrollerRange) => {
+              setTimeout(() => {
+                const start = getStart();
+                const cur = getCurrent();
+                if (start !== scrollerRange.start)
+                  seqCol.setTag(bioTAGS.positionShift, (scrollerRange.start - 1).toString());
 
-            const ctx = grid.overlay.getContext('2d');
-            if (!ctx)
+                if (cur !== scrollerCur) {
+                  seqCol.setTag(bioTAGS.selectedPosition, (scrollerCur).toString());
+                  if (scrollerCur >= 0 && !positionStatsViewerAddedOnce && grid.tableView) {
+                    positionStatsViewerAddedOnce = true;
+                    const v = grid.tableView.addViewer('Sequence Position Statistics', {sequenceColumnName: seqCol.name});
+                    grid.tableView.dockManager.dock(v, DG.DOCK_TYPE.DOWN, null, 'Sequence Position Statistics', 0.4);
+                  }
+                }
+              });
+            },
+            onHeaderHeightChange: (_newHeight) => {
+              // Update grid header height
+              if (grid.isDetached || _newHeight < STRICT_THRESHOLDS.WITH_TITLE) return;
+              setTimeout(() => grid.props.colHeaderHeight = _newHeight);
+            },
+          });
+
+          scroller.setupTooltipHandling();
+
+          // Add tracks to scroller
+          tracks.forEach(({id, track}) => {
+            scroller.addTrack(id, track);
+          });
+
+          scroller.setSelectionData(df, seqCol, sh);
+
+          grid.props.colHeaderHeight = initialHeaderHeight;
+
+          // Set column width
+          setTimeout(() => {
+            if (grid.isDetached) return;
+            gCol.width = 400;
+          }, 300);
+
+          // Handle cell rendering
+          grid.sub(grid.onCellRender.subscribe((e) => {
+            const cell = e.cell;
+            if (!cell || !cell.isColHeader || cell?.gridColumn?.name !== gCol?.name)
               return;
-            // Save context state
-            ctx.save();
-            ctx.rect(cellBounds.x, cellBounds.y, cellBounds.width, headerTitleSpace);
-            ctx.clip();
-            // Draw title text
-            ctx.font = grid.props.colHeaderFont ?? 'bold 13px Roboto, Roboto Local';
-            ctx.fillStyle = '#4a4a49';
-            ctx.textAlign = 'center';
-            ctx.textBaseline = 'middle';
-
-            // Position the title in the middle of the available space above the header
-            const titleX = cellBounds.x + cellBounds.width / 2;
-            const titleY = cellBounds.y + headerTitleSpace / 2;
-
-            // Draw the text
-            ctx.fillText(seqCol.name ?? '', titleX, titleY);
-
-            ctx.restore();
-          } else
-            scroller.headerHeight = Math.max(defaultHeaderHeight, cellBounds.height);
-
-          const titleShift = Math.max(0, availableTitleSpace ?? 0) > headerTitleSpace ? headerTitleSpace : 0;
-          const font = getFontSize();
-          scroller.positionWidth = font + (isMSA ? 8 : 0);
-          const start = getStart();
-          const startPadding = isMSA ? 0 : 4;
-          scroller.draw(cellBounds.x + startPadding, cellBounds.y + titleShift, cellBounds.width - startPadding, cellBounds.height - titleShift, getCurrent(), start, e);
-        }));
+
+
+            const cellBounds = e.bounds;
+            if (!cellBounds) return;
+
+            // Set dynamic properties
+            scroller.headerHeight = cellBounds.height;
+            const font = getFontSize();
+            scroller.positionWidth = font + (isMSA ? 8 : 0);
+
+            const start = getStart();
+            const startPadding = isMSA ? 0 : 4;
+
+            scroller.draw(
+              cellBounds.x + startPadding,
+              cellBounds.y,
+              cellBounds.width - startPadding,
+              cellBounds.height,
+              getCurrent(),
+              start,
+              e,
+              seqCol.name
+            );
+          }));
+        };
+
+        // Initialize with monomer library
+        getMonomerLibHelper()
+          .then((libHelper) => {
+            const monomerLib = libHelper.getMonomerLib();
+            initializeHeaders(monomerLib);
+          })
+          .catch((error) => {
+            console.error('Error loading monomerLib:', error);
+            initializeHeaders();
+          });
       }
     }, 1000);
   };
-  // handle all new grids
+
   const _ = grok.events.onViewerAdded.subscribe((e) => {
-    if (!e.args || !(e.args.viewer instanceof DG.Grid))
-      return;
+    if (!e.args || !(e.args.viewer instanceof DG.Grid)) return;
     const grid = e.args.viewer as DG.Grid;
     handleGrid(grid);
   });
@@ -140,7 +540,6 @@ export function handleSequenceHeaderRendering() {
   const openTables = grok.shell.tableViews;
   for (const tv of openTables) {
     const grid = tv?.grid;
-    if (grid)
-      handleGrid(grid);
+    if (grid) handleGrid(grid);
   }
 }