revise-tophat2

tasks/tophat2.wdl

@@ -10,7 +10,7 @@ task tophat2 {
    String cluster
 
    command <<<
-      tophat2 -p 8 -G ${gtf} -o ${base} ${genome_directory}/${idx_prefix} ${read1} ${read2}
+      tophat2 -p 8 -G ${gtf} -o ${base} --library-type fr-unstranded --solexa-quals ${genome_directory}/${idx_prefix} ${read1} ${read2}
    >>>
    
    runtime {