Hi,
How is it possible to change the deafult display ratio in galaxy?
(The ratio between the tools, center history)
Thanks,
Hagai
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OK (I see now I have posted twice the same error from the log - silly of
me, sorry).
First this: yes, the permissions in the data library are set so that
only I and one other person can access the data library (set by one
sharing role for both of us)
The entries in the job table related to
Hi,
I found that in order to change static/scripts/mvc/data.js, I had to delete
static/scripts/packed/mvc/data.js.
After doing so, I have added the following patch in order to add links
inside tabular view.
else if (column_types[index] === 'str' || column_types === 'list') {
/* Left
Hello Carl,
We are using galaxy-dist on revision a4113cc1cb5e.
When we talk about private dataset, we mean datasets that have been uploaded to
a user history through the Upload file tool. The access permission is allowed
only to the current user role for these datasets.
Anonymous user are not
Il giorno mar, 19/03/2013 alle 15.20 -0400, Raj Ayyampalayam ha
scritto:
One of the first few tools I tested was the ncbi makebkastdb tool. When
I try to run it the history for that particular job is immediately shown
as follows:
0: (unnamed dataset)
Failed to retrieve dataset
On Wed, Mar 20, 2013 at 10:08 AM, Nicola Soranzo sora...@crs4.it wrote:
Il giorno mar, 19/03/2013 alle 15.20 -0400, Raj Ayyampalayam ha
scritto:
One of the first few tools I tested was the ncbi makebkastdb tool. When
I try to run it the history for that particular job is immediately shown
as
Il giorno mer, 20/03/2013 alle 12.41 +, Peter Cock ha scritto:
On Wed, Mar 20, 2013 at 10:08 AM, Nicola Soranzo sora...@crs4.it wrote:
Il giorno mar, 19/03/2013 alle 15.20 -0400, Raj Ayyampalayam ha
scritto:
One of the first few tools I tested was the ncbi makebkastdb tool. When
I
Hi Shaun.
Is this still an issue for you this morning, on the public Main Galaxy
server at https://main.g2.bx.psu.edu/?
I am unable to reproduce with a test dataset:
- bed custom track
- datatype = customtrack
- database = hg18
display at UCSC main is functional, and it is the only external
If anyone is following this thread, it turned out to be an error specific to
Safari Web browser.
The tool shed functionality works fine on Firefox.
It has been identified as an issue and reproduced by the Galaxy team.
Thanks Dannon for going above and beyond in tracking this down!
Adam
On Wed, Mar 20, 2013 at 1:55 PM, Peter Cock p.j.a.c...@googlemail.com wrote:
On Wed, Mar 20, 2013 at 1:52 PM, Nicola Soranzo sora...@crs4.it wrote:
Il giorno mer, 20/03/2013 alle 12.41 +, Peter Cock ha scritto:
The patch just removes the MetadataElement call - is that wise?
Hi Peter,
my
Hi,
I installed galaxy locally and want to develop some tools, but I don't know
where start. I would know what are wrappers and what I could do with this, and
if is possible develop a tool in java.
Thanks
Ramão
Sure, tools can be written in anything you'd like -- the wrapper
you're referring to is just XML that tells galaxy how to interact with
your command line tool. Here are some resources that should get you
started:
http://screencast.g2.bx.psu.edu/toolIntegration/
Thank you Dannon
Date: Wed, 20 Mar 2013 11:17:19 -0400
Subject: Re: [galaxy-dev] What are wrappers, how can I use this?
From: dannon.ba...@gmail.com
To: ramao_tiago_tibur...@hotmail.com
CC: galaxy-dev@lists.bx.psu.edu
Sure, tools can be written in anything you'd like -- the wrapper
Hi Guys,
Thanks for the quick response. I installed the latest blast datatypes
from the toolshed and that fixed the issue.
Peter, can you also fix the $outfile.extra_files_path to
$outfile.files_path on line 5 in the makedb wrapper xml file.
Thanks,
-Raj
On Wednesday, March 20, 2013
On Wed, Mar 20, 2013 at 3:43 PM, Raj Ayyampalayam ra...@uga.edu wrote:
Hi Guys,
Thanks for the quick response. I installed the latest blast datatypes from
the toolshed and that fixed the issue.
Great - thanks for letting us know so promptly.
Peter, can you also fix the
On Mon, Apr 30, 2012 at 4:47 PM, Nate Coraor n...@bx.psu.edu wrote:
On Apr 25, 2012, at 9:39 AM, Louise-Amélie Schmitt wrote:
Hi everyone,
I just wanted to ask how the extra_file_path is handled in case of job
running as the real user since the file_path is only writable by the
galaxy user.
On Wed, Mar 20, 2013 at 3:47 PM, Peter Cock p.j.a.c...@googlemail.com wrote:
On Wed, Mar 20, 2013 at 3:43 PM, Raj Ayyampalayam ra...@uga.edu wrote:
Hi Guys,
Thanks for the quick response. I installed the latest blast datatypes from
the toolshed and that fixed the issue.
Great - thanks for
Hi Jen, I should have said this is in my own install. It works fine at
the main server.
I only noticed this as I was running a tutorial I created last year.
So I can only say that something has changed in the last year..
I was wondering where in the configuration files or scripts galaxy
Hi Nate,
I am trying to rsync the indexes and getting a rsync error.
$ rsync -avz rsync://datacache.g2.bx.psu.edu/indexes/phiX .
@ERROR: chroot failed
rsync error: error starting client-server protocol (code 5) at
main.c(1530) [receiver=3.0.6]
Should I change anything in my command?
Thanks,
Hi, any update for cloudman with openstack . the page seems quite old
http://wiki.galaxyproject.org/CloudMan/OpenStack
--
Regards
Zeeshan Ali Shah
System Administrator - PDC HPC
PhD researcher (IT security)
Kungliga Tekniska Hogskolan
+46 8 790 9115
http://www.pdc.kth.se/members/zashah
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