[ensembl-dev] VEP: Cache assembly version (GRCh37) and database or selected assembly version (GRCh38) do not match

[Guillermo Marco Puche]

Hello Will,

Indeed I run a local Ensembl installation. I've installed 
homo_sapiens_*_76_38 that's why I'm getting the error. It was a 
missunderstading from my part. I guess it's time to move to GRCh38.
Anyways I was trying to find homo_sapiens_*_76_37 MySQL links for 
download but I just find homo_sapiens_*_76_38 on FTP server.

Could you give me a link to a mirror for homo_sapiens_*_76_37?

Thank you.

Best regards,
Guillermo.

El 15/09/14 a las #4, Will McLaren escribió:
> Hi Guillermo,
>
> Are you also running your own database server?
>
> The GRCh37 v76 databases are hosted on a different port on 
> ensembldb.ensembl.org <http://ensembldb.ensembl.org> (3337); to get 
> the VEP to use this you can add the flag --port 3337 to your command 
> line. If you don't use the DB (most VEP functionality does not use the 
> DB at all, see 
> http://www.ensembl.org/info/docs/tools/vep/script/vep_cache.html#limitations), 
> you can bypass this completely and use --offline. See 
> http://www.ensembl.org/info/docs/tools/vep/script/vep_other.html#assembly 
> for more details.
>
> If you are using your own DB server then you will need to make sure 
> you have mirrored the correct human databases; you should have 
> homo_sapiens_*_76_37 (* being core, variation and funcgen).
>
> HTH
>
> Will McLaren
> Ensembl Variation
>
>
> On 15 September 2014 09:04, Guillermo Marco Puche 
> <guillermo.marco at sistemasgenomicos.com 
> <mailto:guillermo.marco at sistemasgenomicos.com>> wrote:
>
>     I forgot to mention than I've already tried to specify assembly
>     with VEP "--assembly" flag:
>
>     ERROR: Assembly version specified by --assembly (GRCh37) and
>     assembly.default meta key (GRCh38) do not match
>
>     El 15/09/14 a las #4, Guillermo Marco Puche escribió:
>>     Hello,
>>
>>     I installed Ensembl 76 on my local server. I'm not ready yet to
>>     annotate variants vs GRCh38.
>>     I thought that ensembl 76 version supports both GRCh37 and
>>     GRCh38. I downloaded 76 vep cache for GRCh37:
>>
>>     ftp://ftp.ensembl.org/pub/release-76/variation/VEP/homo_sapiens_merged_vep_76_GRCh37.tar.gz
>>
>>     I get the following error:
>>
>>     *ERROR: Cache assembly version (GRCh37) and database or selected
>>     assembly version (GRCh38) do not match.**
>>     *
>>     I got a bit confused since I saw both cache for GRCh37/38, I
>>     would like to know if in Ensembl 76 I can stilll annotate with
>>     GRCh37 or I just have to move asap to GRCh38 to use 76 version.
>>
>>     Thank you.
>>
>>     Best regards,
>>     Guillermo.
>>
>>
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