cleanup config

maxulysse · maxulysse · commit 804f3ad33458 · 2018-12-13T17:03:08.000+01:00
diff --git a/conf/munin.config b/conf/munin.config
@@ -68,7 +68,7 @@ process {
     memory = {2 * params.singleCPUMem}
   }
   withName:MergeBams {
-    cpus = 16
+    cpus = 8
     memory = {params.totalMemory}
   }
   withName:RecalibrateBam {
@@ -98,7 +98,6 @@ process {
     errorStrategy = {task.exitStatus == 143 ? 'retry' : 'ignore'}
   }
   withName:RunFreeBayes {
-    cpus = 1
     memory = {params.singleCPUMem * task.attempt}
   }
   withName:RunHaplotypecaller {
@@ -114,7 +113,6 @@ process {
   withName:RunMultiQC {
   }
   withName:RunMutect2 {
-    cpus = 1
     memory = {params.singleCPUMem * task.attempt}
   }
   withName:RunSamtoolsStats {
@@ -128,7 +126,6 @@ process {
     memory = {params.totalMemory}
   }
   withName:RunSnpeff {
-    cpus = 1
     errorStrategy = {task.exitStatus == 143 ? 'retry' : 'ignore'}
     memory = {params.singleCPUMem * task.attempt}
   }

Original file line number	Diff line number	Diff line change
`@@ -68,7 +68,7 @@ process {`
`68`	`68`	`memory = {2 * params.singleCPUMem}`
`69`	`69`	`}`
`70`	`70`	`withName:MergeBams {`
`71`		`- cpus = 16`
	`71`	`+ cpus = 8`
`72`	`72`	`memory = {params.totalMemory}`
`73`	`73`	`}`
`74`	`74`	`withName:RecalibrateBam {`
`@@ -98,7 +98,6 @@ process {`
`98`	`98`	`errorStrategy = {task.exitStatus == 143 ? 'retry' : 'ignore'}`
`99`	`99`	`}`
`100`	`100`	`withName:RunFreeBayes {`
`101`		`- cpus = 1`
`102`	`101`	`memory = {params.singleCPUMem * task.attempt}`
`103`	`102`	`}`
`104`	`103`	`withName:RunHaplotypecaller {`
`@@ -114,7 +113,6 @@ process {`
`114`	`113`	`withName:RunMultiQC {`
`115`	`114`	`}`
`116`	`115`	`withName:RunMutect2 {`
`117`		`- cpus = 1`
`118`	`116`	`memory = {params.singleCPUMem * task.attempt}`
`119`	`117`	`}`
`120`	`118`	`withName:RunSamtoolsStats {`
`@@ -128,7 +126,6 @@ process {`
`128`	`126`	`memory = {params.totalMemory}`
`129`	`127`	`}`
`130`	`128`	`withName:RunSnpeff {`
`131`		`- cpus = 1`
`132`	`129`	`errorStrategy = {task.exitStatus == 143 ? 'retry' : 'ignore'}`
`133`	`130`	`memory = {params.singleCPUMem * task.attempt}`
`134`	`131`	`}`