[ensembl-dev] vep script json output

[Will McLaren]

Hello again,

This is now fixed on release/81; you can run INSTALL.pl to pick up the fix.

Let me know if you are using an older version and I can patch the fix there
too.

Regards

Will

On 20 August 2015 at 23:14, Rodrigo Garcia <rgarcia at inmegen.gob.mx> wrote:

> Hello!
>
> Creating json files is a great feature but I think I may have found a bug
> on the variant_effect_predictor.pl script.
>
> Using the --json flag some -not all- of the objects exported have the
> string ARRAY and some hash instead of an array on pubmed and clin_sig
> fields.
>
> Like so: "pubmed":["ARRAY(0xf2b8178)"]
>
> or sometimes: "clin_sig":["ARRAY(0x14211470)"]
>
> Some entries are fine, with several pubmed IDs or different clinical
> significances, all properly formatted in JSON.
> But not all.
>
> Cheers!
>
> Rodrigo
>
>
>
> P.S. Hi list! My name is Rodrigo, I do some bioinformatics work for a
> mexican genomics institute. I'm a happy user of VEP and other ensembl
> tools. Thanks, great software!
>
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