Hi guys,
I have deploy a galaxy on a cluster (so I installed it on a NFS share that
it's accessible by all cluster compute nodes).
Everything is running fine. Now I am looking for a way such that every
job dispatched to a compute node uses that node's local /tmp as working
directory.
I know gala
Hi Galaxy team,
I have two instances of galaxy on the same host, and have enabled page
edition
(I set enable_pages = True on universe_wsgi.ini file).
I have set the parameter "cookie_path" different for each instance.
I'm disconnected from galaxy when I try to edit a page content.
But when I
You should also set "/home/nate/galaxy_dist/database/ftp/%U" to the path
were ftp-uploads will be stored. This is specified in universe_wsgi.ini
as "ftp_upload_dir = /path/to/galaxy-ftp"
Best regards,
Geert
On 06/18/2012 09:45 AM, Misharl mon wrote:
Hi,
Thank you very much for your reply. I
Ok Geert,
Thanks a lot,
Best regards
Mish
Date: Tue, 19 Jun 2012 12:30:27 +0200
From: geert.vandewey...@ua.ac.be
To: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] Configuring Proftpd for galaxy.
You should also set "/home/nate/galaxy_dist/database/ftp/%U" to the
Hi Nate,
I want to add new page in galaxy . My motive is that when i click on a
link of galaxy , it should open a new page . can u share any doc about
adding new page . I want to add new page like mako file which contains
html and python code .
Regards
shashi
-
I think my question has been answered:
http://gmod.827538.n3.nabble.com/NFS-Cluster-and-working-directories-questions-td3784165.html
Hopefully can see the enhancements in the near future.
Cheers.
Derrick
On Tue, Jun 19, 2012 at 5:01 PM, Derrick Lin wrote:
> Hi guys,
>
> I have deploy a galax
Another relevant question, my institute has configured a NFS volume that
based on a SSD disk pool on the file server.
I want to use it for improving galaxy's job execution on big dataset.
However, the SSD volume has only 2.5TB (they are very expensive...). So
migrate the entire database folder to
Hello ,
I want to add one feature in the galaxy, which when selected will direct
the user to a new web page. The code is in python. Can anybody guide on
that how to add and compile the new web- page.
Thanks And Regards
Neetu
___
Please ke
I finally have found a solution to my problem.
In fact my tool needs in its command line the name of the files without the
extension, (example : only "fileName", instead of "fileName.xxx fileName.yyy")
and that is what mattered in my opinion. Note : the name of the two files is
exactly the same
Hi jeremy,
Thanks for Reply..
Regards
shashi
On Tue, 2012-06-05 at 08:27 -0400, Jeremy Goecks wrote:
> Shashi,
>
> Here's our recommended approach:
>
> (1) create the mako page in /templates or in an appropriate subdirectory
>
> (2) write a controller method that processes inputs and then fil
Hi Galaxy team !
I'am trying to remove userless histories from my galaxy database as
mentoned in this link (
by using the command above :
python cleanup_datasets.py universe_wsgi.ini -d 60 -1
However I get an error message like this :
File "cleanup_datasets.py", line 13, in
from galaxy impor
I would like to preserve the newlines in the input parameters of my tool.
I already found out that I can preserve the other characters such as ^,@ and
more using the following xml code.
On Tue, Jun 19, 2012 at 5:25 PM, Dam, Jesse van wrote:
> I would like to preserve the newlines in the input parameters of my tool.
What exactly are you hoping to get as the command line
that Galaxy will execute?
Peter
___
Please keep all re
I found a solution, it seemed that I made a stupid mistake somewhere. But the
following solution will work to preserve the original text in the edit field.
Add the following to your parameter
Hello Jesse,
Dam, Jesse van wrote, On 06/19/2012 01:27 PM:
> I found a solution, it seemed that I made a stupid mistake somewhere. But the
> following solution will work to preserve the original text in the edit field.
>
> Add the following to your parameter
>
> [...]
>
> Then I use the followi
Hi,
I installed bowtie2 and when running tophat I get the following error:
Error in tophat:
[2012-06-19 14:02:39] Beginning TopHat run (v2.0.3)
---
[2012-06-19 14:02:39] Checking for Bowtie
Bowtie version:2.0.0.6
[2012-06-19
Hi,
I actually fixed it. I changed the wrapper in the line 105 from:
cmd_index = 'bowtie-build %s -f %s %s' % ( space, options.own_file,
index_path )
to
cmd_index = 'bowtie2-build %s -f %s %s' % ( space, options.own_file,
index_path )
Luciano
On Tue, Jun 19, 2012 at 3:03 PM, Luciano
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