[ensembl-dev] vep warning when using cache

[Will McLaren]

Hi Guillermo,

Did you say you had run convert_cache.pl in an earlier email?

This may be the issue here. Can you send on the content of the file
[cache_dir]/homo_sapiens/80_GRCh37/info.txt

It may be you need to re-run the convert_cache script, possibly after
downloading the original cache again.

Will

On 10 June 2015 at 15:40, Guillermo Marco Puche <
guillermo.marco at sistemasgenomicos.com> wrote:

>  Dear devs,
>
> I'm experiencing the following warnings when using vep local cache with
> variant_effect_predictor script:
>
>  Argument "-/C" isn't numeric in numeric eq (==) at /share/apps/src/ensembl_80-variation/modules/Bio/EnsEMBL/Variation/Utils/VEP.pm line 6218.
>
> Use of uninitialized value in split at /share/apps/src/ensembl_80-variation/modules/Bio/EnsEMBL/Variation/Utils/VEP.pm line 6223.
>
>
> If no cache is used warnings disappear.
>
> Input VCF: example_GRCh38.vcf  (inside
> https://github.com/Ensembl/ensembl-tools/archive/release/80.zip)
> Cache downloaded from:
> ftp://ftp.ensembl.org/pub/release-80/variation/VEP/homo_sapiens_vep_80_GRCh38.tar.gz
>
> Best regards,
> Guillermo.
>
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