Peter,
Thanks for reporting this issue, it looks like there might be a bug in
tool_list.py, which I will be looking into. In the meantime, you should
still be able to run functional tests for your tool by executing
sh run_functional_tests.sh -id tool_id
Where tool_id is the ID you have
David,
While I look into the cause of this error, could you tell me which
revision of Galaxy you're running?
--Dave B.
On 4/11/13 12:51:03.000, David Bonsall wrote:
Dear Galaxy team,
I'm trying to install NCBI + tools on a local instance of galaxy (rep:
8.1546099212f), but I get the
Peter,
The automated testing framework is also running against the test tool
shed. Could you send me a link to the repository that is behaving oddly?
--Dave B.
On 4/12/13 06:42:04.000, Peter Cock wrote:
Hi all,
I'd like to be able to experiment with the new automated testing
recently
Hi,
Our galaxy instance runs jobs in a SGE cluster using 2 job-handlers. The
SGE cluster uses a Job Submission Verifier (JSV) that rejects any job
submission that specify core
binding strategies.
When Galaxy starts, the first jobs we submit works perfectly:
First job submission:
On Mon, Apr 15, 2013 at 2:20 PM, Dave Bouvier d...@bx.psu.edu wrote:
Peter,
The automated testing framework is also running against the test tool shed.
Could you send me a link to the repository that is behaving oddly?
e.g. http://toolshed.g2.bx.psu.edu/view/peterjc/tmhmm_and_signalp
On the
On Mon, Apr 15, 2013 at 2:15 PM, Dave Bouvier d...@bx.psu.edu wrote:
Peter,
Thanks for reporting this issue, it looks like there might be a bug in
tool_list.py, which I will be looking into. In the meantime, you should
still be able to run functional tests for your tool by executing
sh
Peter,
Thanks for the contribution, I've verified that it works, and it has
been committed in 9395:388e86c30bad.
--Dave B.
On 4/15/13 09:59:46.000, Peter Cock wrote:
On Mon, Apr 15, 2013 at 2:15 PM, Dave Bouvier d...@bx.psu.edu wrote:
Peter,
Thanks for reporting this issue, it looks
On Mon, Apr 15, 2013 at 3:12 PM, Dave Bouvier d...@bx.psu.edu wrote:
Peter,
Thanks for the contribution, I've verified that it works, and it has been
committed in 9395:388e86c30bad.
--Dave B.
Great, thank you :)
Peter
___
Please
Peter,
I'm unable to duplicate that behavior, the View tool functional test
results option shows up on the test tool shed both when I'm logged in
and logged out. My suggestion would be to clear your browser's cookies
and cache, and see if that makes a difference.
--Dave B.
On 4/15/13
On Mon, Apr 15, 2013 at 3:56 PM, Dave Bouvier d...@bx.psu.edu wrote:
Peter,
I'm unable to duplicate that behavior, the View tool functional test
results option shows up on the test tool shed both when I'm logged in and
logged out. My suggestion would be to clear your browser's cookies and
Hi,
is there a general rule to handle dependencies inside of
tool_dependencies.xml?
Lets assume I write a matplotlib orphan tool_dependencies.xml file.
matplotlib depends on numpy. Numpy has already a orphan definition.
Is there a way to include numpy as dependency inside the
Hi Greg,
If numpy is not required for compiling matplotlib components (i.e.,
matplotlib components just use numpy after installation),
then you should be able to make this work using a complex repository
dependency for numpy in your tool_dependencies.xml definition for matplotlib.
The
Hi,
After a crash recovery and a second trial I must admit that I cannot
upgrade our galaxy instance.
I need some help...
the facts:
initial instance:
$ hg head
changeset: 8796:961ae35ba612
branch: stable
tag: tip
parent: 8794:1c7174911392
user:Nate Coraor
This looks like just a configuration file problem. What is the value
of the various static_ options (like static_dir =) in your
universe_wsgi.ini?
On Mon, Apr 15, 2013 at 7:25 PM, Christophe Antoniewski
christophe.antoniew...@snv.jussieu.fr wrote:
webapp = wrap_in_static( webapp,
Hi Björn,
On Apr 15, 2013, at 6:31 PM, Björn Grüning wrote:
Hi Greg,
If numpy is not required for compiling matplotlib components (i.e.,
matplotlib components just use numpy after installation),
then you should be able to make this work using a complex repository
dependency for numpy
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