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).


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