Ensure DeepVariant/docker has FAI index

BimberLab · Jan 22, 2024 · e4ddb61 · e4ddb61
1 parent 97ace2f
commit e4ddb61
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/DeepVariantAnalysis.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/DeepVariantAnalysis.java
@@ -212,7 +212,7 @@ public void execute(File inputBam, File refFasta, File outputGvcf, PipelineOutpu
             ensureLocalCopy(SequenceUtil.getExpectedIndex(inputBam), workDir, tracker);
 
             File refFastaLocal = ensureLocalCopy(refFasta, workDir, tracker);
-            ensureLocalCopy(new File(refFastaLocal.getPath() + ".fai"), workDir, tracker);
+            ensureLocalCopy(new File(refFasta.getPath() + ".fai"), workDir, tracker);
             ensureLocalCopy(new File(FileUtil.getBaseName(refFasta.getPath()) + ".dict"), workDir, tracker);
 
             File localBashScript = new File(workDir, "docker.sh");