2012/3/21 Makis Ladoukakis <makis4e...@hotmail.com>: > Dear Galaxy users, > > I have been trying to upload a blastable database in my local instance of > galaxy. I have used the nr database and generated all the nhr, nin, nsq, and > nal files. I have also edited the blastdb.loc file in the > galaxy-dist/tool-data/ directory and it looks like this: > > database [build data] path > nr_01_Mar_2012 nr 15 Mar 2012 /home/user/Desktop/nr.00/nr > > > Nevertheless when i start galaxy the megablast tool can't recognise the > database. Am I missing something?
The NR database comes split up into many parts, 00 to 06 currently, and you need to download them all. They are linked by the nr.pal file, which you should also have downloaded. The database is then used via the full name of the nr.pal file (but without the .pal extension). If you are running Galaxy on a server, it is likely your systems administrator can/has setup a shared set of NCBI BLAST databases for all the system users (including Galaxy), to avoid unnecessary copies under /home Note that queries about local Galaxy installations are normally handled via the galaxy-dev mailing list (although perhaps the project needs three lists now given local Galaxy installations are getting more common and not everyone wants to follow the Galaxy development itself). Peter ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/