[ensembl-dev] error in is_var_novel VEP.pm

Will McLaren wm2 at ebi.ac.uk
Wed Sep 26 09:44:23 BST 2012


Hi Michael,

Thanks as always for detailed bug report.

Fixed on CVS branch.

Will

On 25 September 2012 23:41, Michael Yourshaw <myourshaw at ucla.edu> wrote:
> I am testing with the CVS API downloaded today, 2012-09-25.
>
> I get this error at the line "foreach my $a(split /\//,
> $new_var->allele_string) {“ in VEP.pm:
>
> Use of uninitialized value in split at
> /share/apps/myourshaw/ensembl/ensembl-variation/modules/Bio/EnsEMBL/Variation/Utils/VEP.pm
> line 4424, <GEN1> line 5029.
>
> The attached VCF input will cause the error.
>
> Terminal output also attached so you can see my configuration.
>
>
>
>
>
>>
> Michael Yourshaw
>
> UCLA Geffen School of Medicine
> Department of Human Genetics, Nelson Lab
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>
> myourshaw at ucla.edu
>
> 970.691.8299
>
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