[ensembl-dev] rep 74 error

Will McLaren wm2 at ebi.ac.uk
Wed Dec 11 15:40:48 GMT 2013


Hello Natasja,

I think you may have updated your script version to 74 but your API version
is 73 or earlier - either run the INSTALL.pl script to update if you used
that initially, or use CVS to update your Ensembl API checkout if you used
CVS.

Regards

Will McLaren
Ensembl Variation


On 11 December 2013 13:09, Natasja Spring Ehlers <naspeh at cbs.dtu.dk> wrote:

> Dear developers list,
>
> I have been running the VEP script version 74 in the following way:
>
>  /tools/bin/perl
> /home/projects/pr_46298/naspeh/tools/variant_effect_predictor/variant_effect_predictor/
> variant_effect_predictor.pl --cache --dir_cache
> /home/projects/pr_46298/naspeh/tools/variant_effect_predictor/variant_effect_predictor/cache_dir/
> -i $FILE -o $OUTFILE --sift p --polyphen p --humdiv --allele_number
> --numbers --symbol --protein --domains --regulatory --gmaf --maf_1kg
> --maf_esp --pubmed --vcf --plugin Conservation --force_overwrite
>
> but receives the error:
>
> "%COL_DESCS" is not exported by the Bio::EnsEMBL::Variation::Utils::VEP
> module
>
> Best,
> Natasja
>
>
>
>
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