zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Fix the outputs so the proper files are gathered (not automatic due to multiplexer) 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5654 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
chartl 2011-04-15 23:55:12 +00:00
parent e5ef8388fc
commit 23fac043d9
1 changed files with 6 additions and 3 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

7
scala/qscript/oneoffs/chartl/ScatterGatherAssociation.q
View File

@ -80,9 +80,12 @@ class ScatterGatherAssociation extends QScript {
@Output(doc="sd") @Output(doc="sd")
@Gather(classOf[SimpleTextGatherFunction]) @Gather(classOf[SimpleTextGatherFunction])
var sd : File = new File(String.format("%s.%s.%s",base,"SampleDepth",ext)) var sd : File = new File(String.format("%s.%s.%s",base,"SampleDepth",ext))
@Output(doc="rli") @Output(doc="rai")
@Gather(classOf[SimpleTextGatherFunction]) @Gather(classOf[SimpleTextGatherFunction])
var rli : File = new File(String.format("%s.%s.%s",base,"ReadsLargeInsertSize",ext)) var rli : File = new File(String.format("%s.%s.%s",base,"ReadsAberrantInsertSize",ext))
@Output(doc="rwi")
@Gather(classOf[SimpleTextGatherFunction])
var rwi : File = new File(String.format("%s.%s.%s",base,"ReadsWithIndels",ext))
override def commandLine = { override def commandLine = {
var bedStr : String = "" var bedStr : String = ""