RNAseq_sen1D.nf: mapping process: update to last modification on

upstream

src/RNAseq_sen1D.nf

@@ -193,6 +193,7 @@ process index_fasta {
 
   output:
     file "*.index*" into index_files
+    file "*_report.txt" into indexing_report
 
   script:
 """
@@ -224,7 +225,7 @@ process mapping_fastq {
   script:
   index_id = index[0]
   for (index_file in index) {
-    if (index_file =~ /.*\.1\.ebwt/) {
+  if (index_file =~ /.*\.1\.ebwt/ && !(index_file =~ /.*\.rev\.1\.ebwt/)) {
         index_id = ( index_file =~ /(.*)\.1\.ebwt/)[0][1]
     }
   }