[ensembl-dev] vep script json output
Rodrigo Garcia
rgarcia at inmegen.gob.mx
Thu Aug 20 23:14:33 BST 2015
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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