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explicit separator for vg 1.40.0 #384

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Apr 1, 2024
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explicit separator for vg 1.40.0 #384

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2 changes: 1 addition & 1 deletion pggb
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Original file line number Diff line number Diff line change
Expand Up @@ -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

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