Bug fix -- coverage track mismatches not showing. Fixes #1860

igvteam · Aug 5, 2024 · b3013b7 · b3013b7
1 parent edde742
commit b3013b7
Showing 1 changed file with 4 additions and 3 deletions.
diff --git a/js/bam/alignmentContainer.js b/js/bam/alignmentContainer.js
@@ -54,16 +54,17 @@ class AlignmentContainer {
                     colorBy
                 }) {
 
+        this.alleleFreqThreshold = alleleFreqThreshold === undefined ? 0.2 : alleleFreqThreshold
+        this.samplingWindowSize = samplingWindowSize || 100
+        this.samplingDepth = samplingDepth || 1000
+
         this.chr = chr
         this.start = Math.floor(start)
         this.end = Math.ceil(end)
         this.length = (end - start)
         this.coverageMap = new CoverageMap(chr, start, end, this.alleleFreqThreshold)
         this.downsampledIntervals = []
 
-        this.alleleFreqThreshold = alleleFreqThreshold === undefined ? 0.2 : alleleFreqThreshold
-        this.samplingWindowSize = samplingWindowSize || 100
-        this.samplingDepth = samplingDepth || 1000
 
         // Enable basemods
         if (colorBy && colorBy.startsWith("basemod")) {