[ensembl-dev] REST server replies with "assembly_name":"GRCh38" with other species than human

[Paolo Cozzi]

Thank you all for your support, I'll check my scripts and I will control 
assembly detail.

I have another bug to report: searching in VEP endpoint for sheep and 
horse, I got {"error":"something bad has happened"}. Here the curl lines:

$ curl -H "content-type:application/json" -H "accept:application/json" 
--data '{ "variants" : ["21 26960070 rs116645811 G A . . .", "21 
26965148 rs1135638 G A . . ." ] }' http://rest.ensembl.org/vep/sheep/region

$ curl -H "content-type:application/json" -H "accept:application/json" 
--data '{ "variants" : ["21 26960070 rs116645811 G A . . .", "21 
26965148 rs1135638 G A . . ." ] }' http://rest.ensembl.org/vep/horse/region

Thank you for your sopport,

regards,

Paolo



Il 14/10/2014 12:52, mag ha scritto:
> Hi Paolo,
>
> Thanks again for reporting this.
>
> The issue has been fixed and pushed onto our live server.
> Please do not hesitate to report any further issues.
>
>
> Regards,
> Magali
>
> On 13/10/2014 15:11, Paolo Cozzi wrote:
>>
>> Dear Kieron,
>>
>> thank you for your suggestion. I will temporarily fix my script in 
>> order to retrive the correct assembly via info endpoint. I will wait 
>> for VEP endpoint bugfix
>>
>> Regards,
>>
>> Paolo
>>
>>
>>
>> Il 13/10/2014 15:42, Kieron Taylor ha scritto:
>>> Hi Paolo,
>>>
>>> Thanks for your bug report. This is clearly an error. While the VEP 
>>> endpoint output may be reporting the wrong assembly, you can still 
>>> turn to info/assembly to get the correct response while we figure 
>>> out where the bug has come from.
>>>
>>> http://rest.ensembl.org/info/assembly/cow
>>>
>>> Regards,
>>>
>>> Kieron Taylor
>>> Ensembl Core
>>>
>>>
>>> On 13/10/2014 14:28, Paolo Cozzi wrote:
>>>>
>>>> Dear all,
>>>>
>>>> Using REST server with other species than human, I found always
>>>> "assembly_name":"GRCh38", for example:
>>>>
>>>> $ curl -H "content-type:application/json" -H "accept:application/json"
>>>> --data '{ "variants" : ["21 26960070 rs116645811 G A . . .", "21
>>>> 26965148 rs1135638 G A . . ." ] }' 
>>>> http://rest.ensembl.org/vep/cow/region
>>>>
>>>> [{"input":"21 26960070 rs116645811 G A . .
>>>> .","assembly_name":"GRCh38","end":26960070,"seq_region_name":"21","transcript_consequences":[{"gene_id":"ENSBTAG00000012351","variant_allele":"A","biotype":"protein_coding","gene_symbol_source":"EntrezGene","consequence_terms":["intron_variant"],"strand":1,"gene_symbol":"ARNT2","transcript_id":"ENSBTAT00000016391"}],"strand":1,"id":"rs116645811","allele_string":"G/A","most_severe_consequence":"intron_variant","start":26960070}, 
>>>>
>>>> ...
>>>>
>>>> Could be possible to fix assembly name?
>>>>
>>>> Thank you for your support,
>>>>
>>>> Regards,
>>>>
>>>> Paolo
>>>>
>>>>
>>>>
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>>>
>>>
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