On Jan 10, 2012, at 10:20 PM, Ryan Golhar wrote:
On Tue, Jan 10, 2012 at 11:43 AM, Ryan Golhar ngsbioinformat...@gmail.com
wrote:
Hi Ryan,
You could check it in lib/galaxy/config.py, after it's read. By any chance,
are you using galaxy-central vs. galaxy-dist? It's possible that due
Dear developers,
Subject: Minor issue - Confusion about public / user name.
Description:
When creating an account or managing user information, the error ``User name
must contain only lower-case letters, numbers and '-''' may occur if the user
chooses an invalid public name. This error can be
Good catch Jeroen. It's fixed on the development branch in changeset
0d1d62b8be2e
J.
On Jan 11, 2012, at 9:04 AM, J. F. J. Laros wrote:
Dear developers,
Subject: Minor issue - Confusion about public / user name.
Description:
When creating an account or managing user information, the
Dave Clements kindly suggested that I post this to the list.
My team is looking for someone to help out with the ever increasing need
of data analysis in our centre. We support the diverse bioinformatics
needs of 18 groups (http://www.wcb.ed.ac.uk) and currently there are
many large NGS
it is also set to True:
[galaxy@bic galaxy-dist]$ grep Ryan *.log
runner0.log:galaxy.jobs WARNING 2012-01-10 22:17:26,381 Ryan Golhar -
self.set_metadata_externally = True
Clearly something else is going on here. On my last import of BAM file,
even after samtools finished indexing the
Hi,
I would like to use the Rename Dataset action with a value base on
the input. I was wondering if there is a way to do this
programmatically?
Searching the list I found this enhancement request that I think could
help me, any update on this feature?
Hi Carlos,
The enhancement request you linked would cover exactly what you want to do, but
unfortunately I don't have any updates other than that it's definitely still on
the wish list.
-Dannon
On Jan 11, 2012, at 11:02 AM, Carlos Borroto wrote:
Hi,
I would like to use the Rename Dataset
On Jan 11, 2012, at 10:56 AM, Ryan Golhar wrote:
it is also set to True:
[galaxy@bic galaxy-dist]$ grep Ryan *.log
runner0.log:galaxy.jobs WARNING 2012-01-10 22:17:26,381 Ryan Golhar -
self.set_metadata_externally = True
Clearly something else is going on here. On my last import of
On Wed, Jan 11, 2012 at 11:16 AM, Nate Coraor n...@bx.psu.edu wrote:
On Jan 11, 2012, at 10:56 AM, Ryan Golhar wrote:
it is also set to True:
[galaxy@bic galaxy-dist]$ grep Ryan *.log
runner0.log:galaxy.jobs WARNING 2012-01-10 22:17:26,381 Ryan Golhar -
self.set_metadata_externally =
Good Morning galaxy group!
I was hoping that someone might have some ideas on a problem we have
experienced a handful of times running galaxy on our local cluster.
Occasionally we experience some communication timeouts between out cluster
head node and a compute node which will self heal.
Hi,I am trying to install some tools from the main toolshed, and the installation went OK for the tool "tabToHtml (really something that galaxy should do out of the box...Show tab data in actual tables, rather than a dump of text).But when I try to run the tool, it is just marked as queued only
Hello Thon,
In case you don't get an answer from the community, you can send your question
to the repository owner by selecting the option from the Repository Options
pop-up menu in the upper right corner when viewing the repository in the tool
shed.
inline: repository_actions.tiff
Greg Von
I thought I once saw a publication (or presentation maybe) talking about
AnnoVar being available in Galaxy but I don't see it online or in
galaxy-dist, nor in the tool shed. Is it really available?
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Thanks, but I don't think this is a problem with the tool itself, but with galaxy.I think it just does not run the toolshed tool...ThonOn Jan 11, 2012, at 01:04 PM, Greg Von Kuster g...@bx.psu.edu wrote:Hello Thon, In case you don't get an answer from the community, you can send your question to
Im trying to install a tool from the toolshed that showed me this error. NameError: global name 'copy_sample_loc_file' is not definedI know the tool is trying to install the loc file...Does this not work yet?Thon
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Hi Thon,
This may be a bug. Can you let me know which repository you are trying to
install?
Thanks
On Jan 11, 2012, at 5:10 PM, Anthonius deBoer wrote:
Im trying to install a tool from the toolshed that showed me this error.
NameError: global name 'copy_sample_loc_file' is not defined
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