On Thu, Dec 15, 2011 at 6:16 AM, Peter Cock wrote:
> Dear all,
>
> It has become a convention that each tool/wrapper in
> Galaxy includes citation instructions in their help text
> (although not all the tools do this - I think they should).
>
> It occurred to me this could be formalised, with expl
On Sun, Oct 7, 2012 at 10:38 AM, Perez, Ricardo wrote:
> Dear all,
>
> I am currently working on downloading the genome data from the UCSC database.
> I have figured out how to obtain the genome of one species at a time, however
> this would take a bit of time if I have to type every command by h
On Thu, Feb 17, 2011 at 8:07 AM, Peter Cock wrote:
> On Thu, Feb 17, 2011 at 12:37 PM, Sean Davis wrote:
> >
> > On Thu, Feb 17, 2011 at 5:48 AM, Peter wrote:
> >>
> >> Once in Galaxy all the data files have the extension .dat on disk, so
> >> I would
On Thu, Feb 17, 2011 at 5:48 AM, Peter Cock wrote:
> On Thu, Feb 17, 2011 at 3:00 AM, Sean Davis wrote:
> > I have a tool that takes a pdb file as input. The authors of the
> *compiled*
> > code require that the suffix be either ".pdb" or ".ent". When
On Tue, Apr 5, 2011 at 12:27 PM, andrew stewart
wrote:
> I'm aware of how to configure Galaxy to use SGE in universe_wsgi.ini,
> however what I want to do is a little different.
Hi, Andrew. Take a look at this page:
https://bitbucket.org/galaxy/galaxy-central/wiki/Config/Cluster
In particular,
On Fri, Apr 8, 2011 at 10:26 AM, Nate Coraor wrote:
> Assaf Gordon wrote:
>
>> Forgot to mention SGE/PBS: you definitely want to use them (even if you're
>> using a single machine),
>> because the local job runner doesn't take into account multi-threaded
>> programs when scheduling jobs.
>> So a
2011/4/8 Louise-Amélie Schmitt :
> Hello everyone
>
> I just met a huge problem concerning the database. I'm currently trying
> to transfer my data from MySQL to PostgreSQL by writing a Perl script
> that would do the job.
>
> Here is the issue: In the "form_definition" table, one of the field
> id
Hi, Hari.
You should probably make sure that you can connect to postgres from
the command line before trying to connect using galaxy. In
particular, it looks like you need to set up this file correctly:
http://www.postgresql.org/docs/8.2/static/auth-pg-hba-conf.html
Sean
On Tue, Apr 12, 2011
On Tue, Apr 26, 2011 at 5:11 AM, Peter Cock wrote:
> Hi all,
>
> So far we've been running our local Galaxy instance on
> a single machine, but I would like to be able to offload
> (some) jobs onto our local SGE cluster. I've been reading
> https://bitbucket.org/galaxy/galaxy-central/wiki/Config/C
