[ensembl-dev] mysqldump for Macaca Fascicularis pre-data?

[Jan Vogel]

Hello Anne,

a dump would be great. If you don't have a site / location, I can send you
my dropbox link.
we could also use the Max-Planck-Institute websafe
https://ws.molgen.mpg.de/cgi-bin/websafe for exchange.

Thanks again,

   Jan



On Tue, Oct 7, 2014 at 4:32 AM, Anne Lyle <annelyle at ebi.ac.uk> wrote:

> Hi Jan
>
> You’re right that not all data is provided for “pre” species - we’ve
> started producing the basic FASTA files (DNA, cDNA, etc) as a matter of
> routine but that’s about it. I’ll have a look at sorting out a MySQL dump
> for you, though.
>
> As for plans, I’ll have to leave that up to the genebuilders to comment on.
>
> Regards
>
> Anne
>
>
>
> Anne Lyle
> Ensembl Web Developer
> European Bioinformatics Institute (EMBL-EBI)
> East Wing, A3-118, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
>
> Phone: +44 (0)1223 494178
> Email: annelyle at ebi.ac.uk
> Web: www.ensembl.org
>
>
>
>
>
> On 6 Oct 2014, at 19:03, Jan Vogel <jan.vogel at gmail.com> wrote:
>
>
> Hello Ensembl,
>
> I've seen that the crab-eating macaque assembly is up in pre.ensembl.org,
> based on MacFas5.0:
>
> http://pre.ensembl.org/Macaca_fascicularis/Info/Index/
>
> This is great, as I'm really interested in this organism and I like to
> work it.
>
> I'm looking for the mysql dump for Macaca Fascicularis so I can re-create
> the core database in m own environment - however, I did not find anything
> on the usual FTP server:
>
> ftp://ftp.ensembl.org/pub/pre/gtf/macaca_fascicularis/
>
> I also couldn't find the pre-db on the public mysql server….
>
> Any chance ensembl can provide this data ? Or does it exist and i just
> didn't find it ?
>
> I'm aware that this is  an ensembl pre-build, that not all standard data
> is available and this is all just "early-access".
>
> On a different note, it would also be great to know what the general plans
> with this species are - Is Ensembl planning on a full build or a projection
> build ? And is there a rough date when such a build will be released ?
>
> Thanks,
>
>    Jan Vogel
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