[ensembl-dev] Local MySQL install...

Remo Sanges noncoding at gmail.com
Wed Feb 23 10:17:52 GMT 2011

Dear Steve,

in order to use all the functionalities of the compara API you need access to an ensembl_compara_XX database as well as to all the core databases of the species you are working on.

Maybe a bit OT but it would be great if you could share your script....



On 02/18/2011 09:59 AM, Steve Moss wrote:
> Dear all,
> I have created a Perl script that automatically retrieves all the databases (currently just for core) from the ftp.ensembl.org/pub/current_mysql <http://ftp.ensembl.org/pub/current_mysql> site directory, extracts them and inserts them into a local MySQL database. I am doing lots of parallel runs retrieving data and thought it would be both more time effective for me, as well as limiting the number of connections made to your MySQL servers.
> I am using the Core and Compara APIs and my question is, what databases will I need to use all the functionality of both the Core and Compara APIs? I assume just the core databases for Core, but would I need any others, for example when using the HomologyAdaptor and SytentyAdaptor in Compara?
> Cheers,
> Steve

Remo Sanges - Ph.D.
Bioinformatics - Animal Physiology and Evolution
Stazione Zoologica Anton Dohrn
Villa Comunale I, 80121 Napoli - Italy
+39 081 5833428

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