From 97ffa0decfbd046670313bebf36022a081b57fc9 Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Fri, 8 Apr 2016 11:15:01 +0200
Subject: [PATCH] Added job delay
---
.../nl/lumc/sasc/biopet/core/BiopetCommandLineFunction.scala | 3 +++
1 file changed, 3 insertions(+)
diff --git a/public/biopet-core/src/main/scala/nl/lumc/sasc/biopet/core/BiopetCommandLineFunction.scala b/public/biopet-core/src/main/scala/nl/lumc/sasc/biopet/core/BiopetCommandLineFunction.scala
index a7bdaf92f..c03c0a717 100644
--- a/public/biopet-core/src/main/scala/nl/lumc/sasc/biopet/core/BiopetCommandLineFunction.scala
+++ b/public/biopet-core/src/main/scala/nl/lumc/sasc/biopet/core/BiopetCommandLineFunction.scala
@@ -50,9 +50,12 @@ trait BiopetCommandLineFunction extends CommandLineResources { biopetFunction =>
writer.println("set -eubf")
writer.println("set -o pipefail")
lines.foreach(writer.println)
+ jobDelayTime.foreach(x => writer.println(s"sleep $x"))
writer.close()
}
+ var jobDelayTime: Option[Int] = config("job_delay_time")
+
// This overrides the default "sh" from queue. For Biopet the default is "bash"
updateJobRun = {
case jt: JobTemplate =>
--
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