On Tue, Feb 11, 2014 at 5:09 PM, Peter Cock p.j.a.c...@googlemail.com wrote:
On Tue, Feb 11, 2014 at 4:42 PM, Peter Cock p.j.a.c...@googlemail.com wrote:
On Tue, Feb 11, 2014 at 3:41 PM, Dave Bouvier d...@bx.psu.edu wrote:
Peter,
Thanks for pointing this out, I've applied your changes in
Thanks!
I didn't get output before the error, so I think no tools were migrated
successfully. I tried to strip down the XML to only hold the first tool, but
that gave the same error.
I hope to try a fresh install today keeping the database and all settings not
related to toolshed ( ie copy
Hi,
I was pointed to CAP3 by a colleague who likes to have it included in our local
Galaxy instance.
Searching for cap3 in the Galaxy repositories I only found the packages
package_cap3_3 provided by jjohnson:
Graham,
I've not been able to duplicate that error on my local instance, which
is running the most recent revision on the stable branch. To help track
down this issue, could you paste the output of 'hg summary' run from the
Galaxy installation path?
--Dave B.
On 02/12/2014 06:13 AM,
Hi Dave,
I was able to get galaxy back up by doing a fresh install, moving the
old database folder in the new install, reconfiguring universe and
job_conf, and leaving tool_conf and all shed related items to default. I
also truncated the tables 'tool_dependency', tool_shed_repository and
Hi Dave,
Thanks for the prompt reply. Here’s the information that you asked for, plus
some other bits and bobs.
$ hg summary
parent: 11216:c458a0fe1ba8
Merge security fix for filtering tools from stable/next-stable.
branch: default
commit: 9 modified, 193 unknown
update: (current)
$ python
Graham,
I was able to reproduce the error by updating to changeset
11216:c458a0fe1ba8, and I've determined that the bug causing this error
was fixed in 11310:9bde6f2b9c59. I would recommend updating to the
current stable release as described on the following page:
Hi, Federico
Starting with the next distribution (and in the current 'galaxy-central'),
you'll be able to do just that.
Here's the documentation for it:
https://wiki.galaxyproject.org/Learn/Managing%20Datasets#Searching_Datasets
In future releases, we hope to enable the use of multiple
Hi,
We are trying to add a new tool to our local galaxy instance with the following
requirements.
When a user clicks on the tool in side panel from tools list, a table display
should appear where the first element in each row is a clickable link. Users
can click on any of the element, and
Hi,
I am trying to set up Galaxy to interface with a Cray system which runs
Torque/PBS.
After reading this Galaxy wiki page:
https://wiki.galaxyproject.org/Admin/Config/Performance/Cluster#PBS
I was able to scramble torque egg with the following command:
Hi,
Is it possible to get a popup dialog box to appear for a tool? If so any
examples on this please?
i.e. the popup may just give a warning or an info message etc... that the user
can confirm before proceeding. Or maybe another way to achieve the same thing?
Thanks
Neil
Neil Burdett
Hi Nate Simon,
was that solved? I think it's still not working? Or is that a
regression. In particular shed_host/repos/owner/repo/tool_id is not
working, and that is what is 90% needed, or?
Thanks,
Bjoern
From: Nate Coraor [mailto:n...@bx.psu.edu]
This should work, it looks like there
Am Mittwoch, den 12.02.2014, 10:46 + schrieb Peter Cock:
On Tue, Feb 11, 2014 at 5:09 PM, Peter Cock p.j.a.c...@googlemail.com wrote:
On Tue, Feb 11, 2014 at 4:42 PM, Peter Cock p.j.a.c...@googlemail.com
wrote:
On Tue, Feb 11, 2014 at 3:41 PM, Dave Bouvier d...@bx.psu.edu wrote:
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