Bugfix to sawfish

bbimber · bbimber · commit a7abcb9b154a · 2025-07-11T07:58:42.000-07:00
diff --git a/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/SawfishJointCallingHandler.java b/SequenceAnalysis/src/org/labkey/sequenceanalysis/run/analysis/SawfishJointCallingHandler.java
@@ -177,7 +177,7 @@ private File runSawfishCall(JobContext ctx, List<File> inputs, ReferenceGenome g
 
         private File getExe()
         {
-            return SequencePipelineService.get().getExeForPackage("PBSVPATH", "pbsv");
+            return SequencePipelineService.get().getExeForPackage("SAWFISHPATH", "sawfish");
         }
     }
 }

Original file line number	Diff line number	Diff line change
`@@ -177,7 +177,7 @@ private File runSawfishCall(JobContext ctx, List<File> inputs, ReferenceGenome g`
`177`	`177`
`178`	`178`	`private File getExe()`
`179`	`179`	`{`
`180`		`- return SequencePipelineService.get().getExeForPackage("PBSVPATH", "pbsv");`
	`180`	`+ return SequencePipelineService.get().getExeForPackage("SAWFISHPATH", "sawfish");`
`181`	`181`	`}`
`182`	`182`	`}`
`183`	`183`	`}`