Thanks a lot for the information. :) I'm new to the field so get confused
at times. I started downloading the NCBI databases locally, but I have two

1) There is no proper updating process for the locally installed NCBI
databases. (according to my knowledge) So it seems I have to re download
the database totally if I need to get them updated. And those databases are
almost always being updating. (.sigh)
2) After installing databases, is there a particular way to  let galaxy
know where are my databases located? So that they can be included in the
drop down menu of the blast+ wrappers for me to select :)

Thanks a lot in advance

Nilaksha Neththikumara.

On Wed, Mar 19, 2014 at 3:33 PM, Peter Cock <>wrote:

> On Wed, Mar 19, 2014 at 6:42 AM, Nilaksha Neththikumara
> <> wrote:
> > Hello all,
> >
> > The newly developed blast+ wrappers seem to be very useful, but it seems
> > like they do not contain the function to blast against remote servers
> > instead of installing the databases locally.
> > Am I missing something there? I need to do a remote search for a sequence
> > within galaxy instance so I can automate the process.
> > Help is much appreciated.
> >
> > Thanks a lot,
> > Nilaksha
> Hi Nilaksha,
> You are correct, the BLAST+ wrappers for Galaxy don't currently
> support the -remote option to connect to the NCBI over the
> internet to run the searches there - we've talked about this
> though, and I've filed an issue to track this in future:
> What do you mean by you need remote search for automation?
> You can download all the NCBI managed databases like NT/NR
> locally, so most tasks can be done without the -remote option.
> Peter
> P.S. The BLAST+ wrappers aren't 'newly developed', work
> started way back in 2011 ;)
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

To search Galaxy mailing lists use the unified search at:

Reply via email to