From 59c0f738db6fd754d479c7b5c79ac50ac6f7d968 Mon Sep 17 00:00:00 2001
From: AndreaGuarracino <andreaguarracino@outlook.com>
Date: Sun, 31 Mar 2024 20:34:36 -0500
Subject: [PATCH] explicit separator for vg 1.40.0

---
 pggb | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pggb b/pggb
index 3c293bb..74796da 100755
--- a/pggb
+++ b/pggb
@@ -670,7 +670,7 @@ if [[ $vcf_spec != false ]]; then
         if [[ ! -s $vcf || $resume == false ]]; then
           echo "[vg::deconstruct] making VCF with reference=$ref and delim=# xxxxxxxxxxxxx $s ------------ $pop_length"
           ( TEMPDIR=$(pwd) $timer -f "$fmt" vg deconstruct -P "$ref" \
-                   -e -a -t $threads "$prefix_smoothed_output".final.gfa >"$vcf" ) 2> >(tee -a "$log_file")
+                   -H "#" -e -a -t $threads "$prefix_smoothed_output".final.gfa >"$vcf" ) 2> >(tee -a "$log_file")
           bcftools stats "$vcf" > "$vcf".stats
         fi