[Vcftools-help] VCF-Annotate

[Mario D. <mar...@go...>]

Hello everyone,

at the moment I am trying to use the vcf-annotate command. I call it like this

zcat Normal5.vcf.gz | vcf-annotate -f d=4/D  | bgzip -c > Normal5_filtere.vcf.gz 

But then I get an error like this:

Use of uninitialized value in numeric lt (<) at /media/spare/software/vcftools_0.1.7/bin/vcf-annotate line 685, <STDIN> line 27.
Use of uninitialized value in numeric lt (<) at /media/spare/software/vcftools_0.1.7/bin/vcf-annotate line 685, <STDIN> line 28.
Use of uninitialized value in numeric lt (<) at /media/spare/software/vcftools_0.1.7/bin/vcf-annotate line 685, <STDIN> line 29.
Use of uninitialized value in numeric lt (<) at /media/spare/software/vcftools_0.1.7/bin/vcf-annotate line 685, <STDIN> line 30.
Use of uninitialized value in numeric lt (<) at /media/spare/software/vcftools_0.1.7/bin/vcf-annotate line 685, <STDIN> line 31.
Use of uninitialized value in numeric lt (<) at /media/spare/software/vcftools_0.1.7/bin/vcf-annotate line 685, <STDIN> line 32.
Use of uninitialized value in numeric lt (<) at /media/spare/software/vcftools_0.1.7/bin/vcf-annotate line 685, <STDIN> line 33
...

It doesn't matter which files I input. The input is generated by GATK.
Also I don't get errors or warnings while compiling VCF-Tools. Every other command works fine, also the PERL Path is exported.

When I run the validator, I don't get error.

Any ideas?

With best,

Mario
__
md
mar...@go...