Hi galaxians,
I'm having an issue with tool parameters when using conditional tag and
boolean parameters.
My xml is like this:
conditional name=mis_allowed_conditional
param name=mis_allowed_bool type=boolean label=Allow mismatch ?
truevalue=-m falsevalue= checked=no/
when value=-m
Please keep all replies on-list so that everyone can contribute.
Someone more knowledgeable about systems than me suggests that lsof(8) and/or
/proc/galaxy server pid/fd should yield some clues as to what file is being
written to.
Good luck,
J.
On Mar 25, 2013, at 10:01 AM, Joachim Jacob |
Hello Joachim,
Couple of things to check:
On Mar 25, 2013, at 10:01 AM, Joachim Jacob | VIB | wrote:
Hi,
About the exporting of history, which fails:
1. the preparation seems to work fine: meaning: choosing 'Export this
history' in the History menu leads to a URL that reports initially
Dear all,
this is the first time that I write to this mailing list.
I'm trying to setting up a local instance of galaxy. I enabled Trackster
visualization and it works fine and I can see the icon button of circster
visualization.
But if I click on it I receive an error. Obviously I get this
Hi
Does anyone have any experience or advice about running two servers on the same
database?
The pros are that I can test tools and some other changes against actual
datasets and check bug fixes directly by giving users temporary access to a dev
server so that they regress the bugs
On Mon, Mar 25, 2013 at 2:16 PM, Alexandre Loywick a.loyw...@gmail.com wrote:
Hi galaxians,
I'm having an issue with tool parameters when using conditional tag and
boolean parameters.
My xml is like this:
conditional name=mis_allowed_conditional
param name=mis_allowed_bool
On Mon, Mar 25, 2013 at 5:41 PM, Ted Goldstein tedgoldst...@gmail.com wrote:
Hi
Does anyone have any experience or advice about running
two servers on the same database?
My advice is don't do it. The moment you update the development
server to run with a new database schema version, your
Hello Ted!
Peter Cock wrote, On 03/25/2013 01:51 PM:
On Mon, Mar 25, 2013 at 5:41 PM, Ted Goldstein tedgoldst...@gmail.com wrote:
Hi
Does anyone have any experience or advice about running
two servers on the same database?
My advice is don't do it.
I'll second Peter's advice, don't ever
Couple of clarifications for the script, which aren't obvious:
Assaf Gordon wrote, On 03/25/2013 02:03 PM:
To facilitate that, we use the following script, that can quickly copy the
data from our production server to our development server.
Once it's run, the databases contain the same
I need a comprehensive understanding of the Best Practices for a Galaxy
Production Server.
(i) I've read Running Galaxy in a Production Environment and associated
wikis
(ii) I saw the presentations Building Scalable Galaxy (2010), Deploying
Galaxy on the Cloud (2010), and Cloudman: Galaxy on the
We have a CloudMan Galaxy install on Amazon and I'm able to upload FTP
files from FireZilla (or programatically through a Java service I wrote).
However, I'm unable to download that same file once uploaded.
The 550 response is a Requested action not take. File unavailable (e.g.,
file not found,
There have been some performance regressions in history display, we're
working on this actively:
https://trello.com/card/ui-refactoring-increase-speed-load-render-of-history-panel/506338ce32ae458f6d15e4b3/150
On Mon, Mar 25, 2013 at 5:06 PM, Langhorst, Brad langho...@neb.com wrote:
Is it
Is it my imagination or has the history panel become much slower in the latest
release?
Maybe I have something misconfigured?
Brad
--
Brad Langhorst
langho...@neb.commailto:langho...@neb.com
___
Please keep all replies on the list by
Hello,
There is a tool called EBI SRA on public galaxy https://main.g2.bx.psu.edu/
I was wondering if there is a way to add it to my local instance of
galaxy. I tried searching through the tool shed
http://toolshed.g2.bx.psu.edu/ but I didn't find anything
thanks,
Sergei
--
Sergei (Siarhei
Sure! This tool comes with the main galaxy distribution as of
'6443:4a39bc209487' (~Jan 2012), you just need to enable it. If
you're at or beyond that revision, to enable it you'll just need to
add the tool from data_source/ebi_sra.xml to your tool_conf.xml if
it isn't already there.
-Dannon
Hey y'all,
I noticed that my local galaxy instance doens't pickup latest updates from test
toolshed.
Steps to reproduce:
1. install obotools from test toolshed using hg clone
http://jor...@testtoolshed.g2.bx.psu.edu/repos/jorrit/obotools , revision
45:bb20766df19c
2. hg push new change of
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