fix wrong variable name with RNAseq causing removing twice the output

arnaudceol · Jul 13, 2016 · e4fdd5b · e4fdd5b
1 parent e21ac4e
commit e4fdd5b
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/pipeline/merging.R b/pipeline/merging.R
@@ -184,7 +184,7 @@ merging <- function ( flags, flagsPRE, id_merge_primary ) {
 		updateInfoOnDB( SQL )
 
 		if ( paired ) {
-			cmd <- paste(
+			execute <- paste(
 					getHTSFlowPath("featuresCounts")
 					,"-T 16 -p -P -a"
 					,gtf
@@ -195,7 +195,7 @@ merging <- function ( flags, flagsPRE, id_merge_primary ) {
 			)
 			tryOrExit(execute, "feature counts")
 		} else {
-			cmd <- paste(
+			execute <- paste(
 					getHTSFlowPath("featuresCounts")
 					,"-T 16 -a"
 					,gtf