[Vcftools-help] vcftools --hardy (Segmentation fault)

[Saeed H. Al T. <sal...@gm...>]

Hi ,

On Mac 10.6.6 I used the following command

$ vcftools --vcf 12Apr11_ALL_ANNOT_FILTERED_MERGED.vcf --hardy

where 12Apr11_ALL_ANNOT_FILTERED_MERGED.vcf  is a merged file (using
vcf-merge) of 100+ exomes.
but this command returns Segmentation fault error

------------------------------------
VCFtools - v0.1.5
(C) Adam Auton 2009

Parameters as interpreted:
--hardy
--vcf 12Apr11_ALL_ANNOT_FILTERED_MERGED.vcf

Scanning 12Apr11_ALL_ANNOT_FILTERED_MERGED.vcf ...
Segmentation fault
------------------------------------

I tried to sort , bgzip the VCF file and ran the command again as:

$ vcftools --gzvcf 12Apr11_ALL_ANNOT_FILTERED_MERGEDsorted.vcf.gz --hardy

------------------------------------
VCFtools - v0.1.5
(C) Adam Auton 2009

Parameters as interpreted:
--hardy
EXPERIMENTAL AND UNTESTED!!! --gzvcf
12Apr11_ALL_ANNOT_FILTERED_MERGEDsorted.vcf.gz

Scanning 12Apr11_ALL_ANNOT_FILTERED_MERGEDsorted.vcf.gz ...
Error:VCF version must be v4.0:
You are using version VCFv4.0
------------------------------------
My  VCF file version is 4.0 indeed.

Thanks,
Saeed