primtrim output

theiagen · Nov 4, 2024 · 1888803 · 1888803
1 parent 5c5cc4f
commit 1888803
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/workflows/theiacov/wf_theiacov_ont.wdl b/workflows/theiacov/wf_theiacov_ont.wdl
@@ -428,6 +428,6 @@ workflow theiacov_ont {
     String? qc_check = qc_check_task.qc_check
     File? qc_standard = qc_check_task.qc_standard
     # Non-flu specific outputs
-    String percentage_mapped_reads = select_first([stats_n_coverage.percentage_mapped_reads, flu_track.percentage_mapped_reads, ""])
+    String percentage_mapped_reads = select_first([stats_n_coverage_primtrim.percentage_mapped_reads, stats_n_coverage.percentage_mapped_reads, flu_track.percentage_mapped_reads, ""])
   }
 }