Correct arguments to BcftoolsFillTagsStep

BimberLab · Jan 24, 2024 · 961ab8c · 961ab8c
1 parent f50e5d8
commit 961ab8c
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/BcftoolsFillTagsStep.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/BcftoolsFillTagsStep.java
@@ -100,6 +100,7 @@ public VariantProcessingStep.Output processVariants(File inputVCF, File outputDi
             throw new PipelineJobException("No annotations were selected");
         }
 
+        options.add("--");
         options.add("-t");
         options.add(StringUtils.join(annotations, ","));