added M in SAM cigar strings

metagenlab · Aug 30, 2024 · 2e62511 · 2e62511
1 parent dab621c
commit 2e62511
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/mess/workflow/rules/simulate/short_reads.smk b/mess/workflow/rules/simulate/short_reads.smk
@@ -16,7 +16,7 @@ if PAIRED:
 
 
 if BAM:
-    art_args += "-sam"
+    art_args += "-sam -M"
 
 
 sam_out = temp(os.path.join(dir.out.short, "{sample}", "{fasta}", "{contig}.txt"))