So I just want to install one target database so that I can simply
test whether blast is installed and working correctly.

Are there any included with Galaxy, or do I need to download a
database?  Could you guys point me to a good file to test with?

Following the directions you sent I got to the point of downloading a
file.  I tried download
ftp://ftp.ncbi.nlm.nih.gov/blast/db/nr.00.tar.gz but I don't see a
*.chunk file nor *.nhr, nin, nsq etc that are referenced in the
included blastdb.loc

Thanks,

Greg

On Mon, Dec 10, 2012 at 3:35 PM, Jeremy Goecks <jeremy.goe...@emory.edu> wrote:
> Please see the Megablast section on this page for instructions about getting
> and adding target databases to Galaxy:
>
> http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup
>
> Best,
> J.
>
> On Dec 10, 2012, at 2:59 PM, greg wrote:
>
> I have a fresh install on our cluster.
>
> I'm trying to test out the Megablast tool.  The problem is that
> nothing is listed under "against target database".  Where do I get the
> target databases and how do I tell galaxy about them?
>
> Thanks,
>
> Greg
>
> Here's what the tool looks like:
>
> Megablast (version 1.2.0)
> Compare these sequences:
> against target database:
> using word size:
> Size of best perfect match (-word_size)
> report hits above this identity (-perc_identity):
> no cutoff if 0
> set expectation value cutoff (-evalue):
> Filter out low complexity regions? (-dust):
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