From acc2f1c9fefafbe45afd87834676e10142b9a241 Mon Sep 17 00:00:00 2001 From: kshakir Date: Wed, 19 Jan 2011 21:43:43 +0000 Subject: [PATCH] Updated FCPTest to use the new path to fullCallingPipeline.q changed in r5017. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5027 348d0f76-0448-11de-a6fe-93d51630548a --- .../sting/queue/pipeline/FullCallingPipelineTest.scala | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/scala/test/org/broadinstitute/sting/queue/pipeline/FullCallingPipelineTest.scala b/scala/test/org/broadinstitute/sting/queue/pipeline/FullCallingPipelineTest.scala index e6c6ead27..6eb1f4cd6 100644 --- a/scala/test/org/broadinstitute/sting/queue/pipeline/FullCallingPipelineTest.scala +++ b/scala/test/org/broadinstitute/sting/queue/pipeline/FullCallingPipelineTest.scala @@ -90,7 +90,7 @@ class FullCallingPipelineTest extends BaseTest { var cleanType = "cleaned" // Run the pipeline with the expected inputs. - var pipelineCommand = ("-retry 1 -S scala/qscript/fullCallingPipeline.q" + + var pipelineCommand = ("-retry 1 -S scala/qscript/playground/fullCallingPipeline.q" + " -jobProject %s -Y %s -refseqTable %s" + " --gatkjar %s/dist/GenomeAnalysisTK.jar") .format(projectName, yamlFile, dataset.refseq, new File(".").getAbsolutePath)