From 4aaa60b32118c85fe34bbedc9be6bd5a89b62cd1 Mon Sep 17 00:00:00 2001
From: golobor <goloborodko.anton@gmail.com>
Date: Sun, 18 Nov 2018 03:32:01 -0500
Subject: [PATCH] v.0.2.0 - report mapq in pairs

---
 distiller.nf | 1 +
 1 file changed, 1 insertion(+)

diff --git a/distiller.nf b/distiller.nf
index 01c766e..4f4988e 100644
--- a/distiller.nf
+++ b/distiller.nf
@@ -400,6 +400,7 @@ process parse_chunks {
     """
     mkdir ./tmp4sort
     pairtools parse ${dropsam_flag} ${dropreadid_flag} ${dropseq_flag} \
+        --add-columns mapq \
         -c ${chrom_sizes} ${bam} \
             | pairtools sort --nproc ${task.cpus} \
                              -o ${library}.${run}.${chunk}.pairsam.${suffix} \