[ensembl-dev] vep script json output

[Rodrigo Garcia]

Many thanks!

Rodrigo

On 08/24/2015 10:27 AM, Will McLaren wrote:
> 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 
> <mailto: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
>     <http://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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