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bbimber · bbimber · commit 8e95311c27ab · 2024-12-18T15:48:26.000-08:00
diff --git a/SequenceAnalysis/api-src/org/labkey/api/sequenceanalysis/pipeline/AlignerIndexUtil.java b/SequenceAnalysis/api-src/org/labkey/api/sequenceanalysis/pipeline/AlignerIndexUtil.java
@@ -40,7 +40,7 @@ public static boolean copyIndexIfExists(PipelineContext ctx, AlignmentOutputImpl
 
     public static boolean copyIndexIfExists(PipelineContext ctx, AlignmentOutputImpl output, String localName, String webserverName, ReferenceGenome genome, boolean forceCopyLocal) throws PipelineJobException
     {
-        ctx.getLogger().debug("copying index to shared dir if exists: " + localName);
+        ctx.getLogger().debug("checking if index exists: " + localName + ". copy local: " + forceCopyLocal);
         if (ctx.getWorkDir() == null)
         {
             throw new PipelineJobException("PipelineContext.getWorkDir() is null");

Original file line number	Diff line number	Diff line change
`@@ -40,7 +40,7 @@ public static boolean copyIndexIfExists(PipelineContext ctx, AlignmentOutputImpl`
`40`	`40`
`41`	`41`	`public static boolean copyIndexIfExists(PipelineContext ctx, AlignmentOutputImpl output, String localName, String webserverName, ReferenceGenome genome, boolean forceCopyLocal) throws PipelineJobException`
`42`	`42`	`{`
`43`		`- ctx.getLogger().debug("copying index to shared dir if exists: " + localName);`
	`43`	`+ ctx.getLogger().debug("checking if index exists: " + localName + ". copy local: " + forceCopyLocal);`
`44`	`44`	`if (ctx.getWorkDir() == null)`
`45`	`45`	`{`
`46`	`46`	`throw new PipelineJobException("PipelineContext.getWorkDir() is null");`