Consistent case for cached pbmm2 indexes

bbimber · bbimber · commit d718cab8578a · 2022-10-06T08:34:11.000-07:00
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/alignment/Pbmm2Wrapper.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/alignment/Pbmm2Wrapper.java
@@ -111,7 +111,7 @@ public IndexOutput createIndex(ReferenceGenome referenceGenome, File outputDir)
             output.appendOutputs(referenceGenome.getWorkingFastaFile(), indexDir);
 
             //recache if not already
-            AlignerIndexUtil.saveCachedIndex(hasCachedIndex, getPipelineCtx(), indexDir, "pbmm2", referenceGenome);
+            AlignerIndexUtil.saveCachedIndex(hasCachedIndex, getPipelineCtx(), indexDir, getProvider().getName(), referenceGenome);
 
             return output;
         }

Original file line number	Diff line number	Diff line change
`@@ -111,7 +111,7 @@ public IndexOutput createIndex(ReferenceGenome referenceGenome, File outputDir)`
`111`	`111`	`output.appendOutputs(referenceGenome.getWorkingFastaFile(), indexDir);`
`112`	`112`
`113`	`113`	`//recache if not already`
`114`		`- AlignerIndexUtil.saveCachedIndex(hasCachedIndex, getPipelineCtx(), indexDir, "pbmm2", referenceGenome);`
	`114`	`+ AlignerIndexUtil.saveCachedIndex(hasCachedIndex, getPipelineCtx(), indexDir, getProvider().getName(), referenceGenome);`
`115`	`115`
`116`	`116`	`return output;`
`117`	`117`	`}`