fix NPE

igvteam · Aug 15, 2024 · b1a775d · b1a775d
1 parent 193eddb
commit b1a775d
Showing 1 changed file with 4 additions and 1 deletion.
diff --git a/src/main/java/org/broad/igv/sam/AlignmentTileLoader.java b/src/main/java/org/broad/igv/sam/AlignmentTileLoader.java
@@ -134,7 +134,10 @@ AlignmentTile loadTile(String chr,
         boolean filterSecondaryAlignments = prefMgr.getAsBoolean(SAM_FILTER_SECONDARY_ALIGNMENTS);
         boolean filterSupplementaryAlignments = prefMgr.getAsBoolean(SAM_FILTER_SUPPLEMENTARY_ALIGNMENTS);
         ReadGroupFilter filter = ReadGroupFilter.getFilter();
-        boolean filterDuplicates = renderOptions.getDuplicatesOption() == AlignmentTrack.DuplicatesOption.FILTERED;
+        boolean filterDuplicates = renderOptions != null
+                ? renderOptions.getDuplicatesOption() == AlignmentTrack.DuplicatesOption.FILTERED
+                : prefMgr.getAsBoolean(SAM_FILTER_DUPLICATES);
+
         int qualityThreshold = prefMgr.getAsInt(SAM_QUALITY_THRESHOLD);
         int alignmentScoreTheshold = prefMgr.getAsInt(SAM_ALIGNMENT_SCORE_THRESHOLD);