diff --git a/main.nf b/main.nf
index ef103355badbe45ac707c83d7b4b12a08f3a3f87..5109b84e90a662b73f51581da9d0d4aa43e206e3 100644
--- a/main.nf
+++ b/main.nf
@@ -153,18 +153,11 @@ if (params.input_paths){
    raw_reads = Channel.create()
    raw_reads_2 = Channel.create()
 
-   if ( params.split_fastq ){
-      Channel
-         .from( params.input_paths )
-         .map { row -> [ row[0], [file(row[1][0]), file(row[1][1])]] }
-	 .splitFastq( by: params.fastq_chunks_size, pe:true, file: true, compress:true)
-         .separate( raw_reads, raw_reads_2 ) { a -> [tuple(a[0], a[1]), tuple(a[0], a[1])] }
-   }else{
-     Channel
-        .from( params.input_paths )
-	.map { row -> [ row[0], [file(row[1][0]), file(row[1][1])]] }
-	.separate( raw_reads, raw_reads_2 ) { a -> [tuple(a[0] + "_R1", a[1][0]), tuple(a[0] + "_R2", a[1][1])] }
-   }
+   Channel
+      .from( params.input_paths )
+      .map { row -> [ row[0], [file(row[1][0]), file(row[1][1])]] }
+      .separate( raw_reads, raw_reads_2 ) { a -> [tuple(a[0] + "_R1", a[1][0]), tuple(a[0] + "_R2", a[1][1])] }
+
 }else{
    raw_reads = Channel.create()
    raw_reads_2 = Channel.create()