From 135ac71739753fbd95042c51672400cc65654c84 Mon Sep 17 00:00:00 2001
From: subwaystation <simon.heumos@qbic.uni-tuebingen.de>
Date: Mon, 12 Apr 2021 17:48:15 +0200
Subject: [PATCH] --precise-clipping 0.501 new GraphAligner default

---
 pgge | 1 +
 1 file changed, 1 insertion(+)

diff --git a/pgge b/pgge
index 4d3627d..7cb8959 100755
--- a/pgge
+++ b/pgge
@@ -344,6 +344,7 @@ do
             -f "$graph_aligner_fasta_input" \
             -a "$prefix_pgge"."$n"."$gfa_base".gaf \
             -x "$alignment_mode" \
+            --precise-clipping 0.501 \
             -t "$threads" \
             2> >(tee -a "$log_file")
         ("$timer" -f "$fmt" cut -f 2,3,4,16 "$prefix_pgge"."$n"."$gfa_base".gaf \