[ensembl-dev] changes in get_all_dblinks info

mailsvl at fastmail.fm mailsvl at fastmail.fm
Thu Jul 28 09:14:11 BST 2011


Ah ok, yes pls keep the whole description in there (or any other way of
using the API to retrieve the whole description for that matter..).
Thanks for the quick respons!

Stef


----- Original message -----
From: "Rhoda Kinsella" <rhoda at ebi.ac.uk>
To: mailsvl at fastmail.fm
Cc: "Ensembl DevList" <dev at ensembl.org>
Date: Wed, 27 Jul 2011 15:37:13 +0100
Subject: Re: [ensembl-dev] changes in get_all_dblinks info

Hi Stef
For release 63, the description was moved to the display_id as the  
numbers that were there in the display_id column in previous releases  
were confusing. We realize that the description should have also  
remained in the description column and we will rectify this for  
release 64. Apologies for any inconvenience caused.
Regards
Rhoda


On 27 Jul 2011, at 15:15, mailsvl at fastmail.fm wrote:

> Hi,
>
> I'm trying to make the code I have for using the api of v60 to work
> with v63 as well and noticed the following:
>
> When getting the dblinks for a gene with "get_all_DBLinks" and
> selecting the "MIM_MORBID" entry there seems to be a discrepancy
> between which info is stored at which key... For example looking at
> gene ENSG00000107485 the fields look like shown below... The info from
> "description" field now seems (in v63) to be stored at the
> "display_id" key, leaving "description" empty and shortening the
> string..? Is this intentional? How can I get to the full MIM
> description?
>
> ===========================================
> version 60
> ===========================================
> primary_id: 146255
> dbname: MIM_MORBID
> dbID: 1274781
> db_display_name: MIM disease
> display_id: #146255
> description:  HYPOPARATHYROIDISM, SENSORINEURAL DEAFNESS, AND RENAL
> DISEASE
>
> ===========================================
> version 63
> ===========================================
> primary_id: 146255
> dbname: MIM_MORBID
> dbID: 10253877
> db_display_name: MIM disease
> display_id:  HYPOPARATHYROIDISM, SENSORINEURAL  [#]
> description:
>
> Thanks,
> Stef
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Rhoda Kinsella Ph.D.
Ensembl Bioinformatician,
European Bioinformatics Institute (EMBL-EBI),
Wellcome Trust Genome Campus,
Hinxton
Cambridge CB10 1SD,
UK.


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