Correct argument

BimberLab · Mar 3, 2025 · e084086 · e084086
1 parent 6040cd6
commit e084086
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/singlecell/src/org/labkey/singlecell/run/NimbleHelper.java b/singlecell/src/org/labkey/singlecell/run/NimbleHelper.java
@@ -501,7 +501,7 @@ public static void write10xBarcodes(File bam, Logger log, Readset rs, ReferenceG
         // Write barcodes:
         DISCVRSeqRunner runner = new DISCVRSeqRunner(log);
         List<String> barcodeArgs = new ArrayList<>(runner.getBaseArgs("Save10xBarcodes"));
-        barcodeArgs.add("--bam");
+        barcodeArgs.add("-I");
         barcodeArgs.add(bam.getPath());
 
         File cbOutput = new File(bam.getParentFile(), SequenceAnalysisService.get().getUnzippedBaseName(bam.getName()) + "cb.txt.gz");