[Vcftools-help] bcftools merge fails to merge AC field

[Warren W. K. <wkr...@gm...>]

Hi,
I am trying to merge site lists in vcf format. When I run this command:

bcftools merge --info-rules AC:sum file1.vcf.gz file2.vcf.gz

I get this error:

Only fixed-length vectors are supported with "sum", cannot run with AC

What am I doing wrong?

Thanks,
Winni Kretzschmar

PS The contents of the two files is below.  Both files have been indexed
using bcftools index

less file1.vcf.gz

##fileformat=VCFv4.2
##INFO=<ID=AN,Number=1,Type=Integer,Description="Total Allele Count">
##INFO=<ID=AC,Number=A,Type=Integer,Description="Alternate Allele Count">
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO
1       10505   .       A       T       100     PASS    AC=1;AN=5070
1       10506   .       C       G       100     PASS    AC=1;AN=5070
1       10511   .       G       A       100     PASS    AC=1;AN=5070
1       10539   .       C       A       100     PASS    AC=3;AN=5070
1       10542   .       C       T       100     PASS    AC=1;AN=5070
1       10579   .       C       A       100     PASS    AC=1;AN=5070

less file2.vcf.gz

##fileformat=VCFv4.2
##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes">
##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in
called genotypes">
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO
1       52238   .       T       G       0       PASS    AC=4148;AN=4198
1       55299   .       C       T       0       PASS    AC=744;AN=4198
1       55315   .       A       T       0       PASS    AC=1;AN=4198
1       55326   .       T       C       0       PASS    AC=62;AN=4198
1       57033   .       T       C       0       PASS    AC=86;AN=4198
1       57064   .       G       A       0       PASS    AC=74;AN=4198