Fix paired end issu.e

cf75becc · Venkat Malladi · 3a5fbf2c · cf75becc
Commit cf75becc authored 6 years ago by Venkat Malladi
--- a/workflow/main.nf
+++ b/workflow/main.nf
@@ -126,7 +126,7 @@ process alignReads {

  if (pairedEnd) {
    """
-    python3 $baseDir/scripts/map_reads.py -f $reads -r ${index}/genome.fa -p
+    python3 $baseDir/scripts/map_reads.py -f ${reads[0]} ${reads[1]} -r ${index}/genome.fa -p
    """
  }
  else {