[Vcftools-help] vcf-compare using -g

[Ryan J T. <uq...@uq...>]

Hello all,

I'm just getting started using vcf-tools, so apologies if I'm being a 
little dense.

When I run vcf-compare with no options it works just fine. I get nice VN 
numbers etc. It shows that ~25% of my calls are unique to each file, and 
~75% are common.

But if I run vcf-compare with the the "-g" option I get the following:

Error: There is no overlap between any of the samples, yet haplotype 
comparison was requested.
  at /opt/sw/vcftools_0.1.7/bin/vcf-compare line 29
         main::error('Error: There is no overlap between any of the 
samples, yet ha...') called at /opt/sw/vcftools_0.1.7/bin/vcf-compare 
line 220
         main::compare_vcfs('HASH(0x14e1d48)') called at 
/opt/sw/vcftools_0.1.7/bin/vcf-compare line 19

Can anyone help me out with this?

Thanks,
Ryan