From 0e40321a5256e8c93659ecdd1e252d4f51036b51 Mon Sep 17 00:00:00 2001
From: chartl <chartl@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Thu, 4 Nov 2010 20:43:11 +0000
Subject: [PATCH] =?UTF-8?q?Br=C3=BCtall=20hack:=20make=20the=20bam=20list?=
 =?UTF-8?q?=20creator=20job=20wait=20for=20the=20interval=20creator=20job,?=
 =?UTF-8?q?=20so=20that=20there=20is=20an=20implicit=20dependency=20of=20U?=
 =?UTF-8?q?G=20on=20the=20interval=20list,=20by=20way=20of=20the=20bam=20l?=
 =?UTF-8?q?ist?=
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4628 348d0f76-0448-11de-a6fe-93d51630548a
---
 scala/qscript/chartl/private_mutations.q | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/scala/qscript/chartl/private_mutations.q b/scala/qscript/chartl/private_mutations.q
index 890bec937..0896d0873 100755
--- a/scala/qscript/chartl/private_mutations.q
+++ b/scala/qscript/chartl/private_mutations.q
@@ -365,6 +365,8 @@ class private_mutations extends QScript {
       var inSample = sample
       @Output(doc="foo")
       var outList = oList
+      @Input(doc = "foo")
+      var waitForMe: File = _
 
       def commandLine = {
         "grep %s /humgen/1kg/processing/allPopulations_wholeGenome_august_release/bamLists/*.list | tr ':' '\\t' | awk '{print $2}' > %s".format(
@@ -383,6 +385,7 @@ class private_mutations extends QScript {
       add(sites)
 
       var bamList : GetBamList = new GetBamList(s,new File(SCRATCH_DIR+"%s.bams.list".format(s)))
+      bamList.waitForMe = sites.out_list
 
       add(bamList)