Hi !!
I've got a problem with PBS when I want to submit a job to our cluster with
Galaxy.
Every time, PBS says me pbs_submit failed, PBS error 15023: Bad user - no
password entry.
Indeed, Galaxy uses my email address (used in Galaxy) as user by default !
But, before, when I used SGE on my
On Fri, May 25, 2012 at 4:54 PM, Peter Cock p.j.a.c...@googlemail.com wrote:
Hi Edward,
It has taken me a while but I'm how trying to use HMMER3, and do so
from within Galaxy.
I've realised that the per sequence and per domain tables from hmmscan
and hmmsearch (via the --tblout and
Hello all,
I would like to learn Galaxy and more, as my interest is in
Bioinformatics and computational research.Please any help for tutorial
materials
Thank you in advance
Twaha
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Hi,
Have you created the index files using the exact same version of bwa?
I've had segfaults when using references indexed on a different computer
running a different version.
Geert
On 05/28/2012 08:54 PM, CHEBBI Mohamed Amine wrote:
Hi !
I have a problem when i execute BWA from my local
Hi,All of a sudden I am getting these errors when I submit a job in my Galaxy system.I can't recall I changed anything and I checked the universe file but nothing obvious there...Any ideas?ThanksThongalaxy.jobs.runners.drmaa ERROR 2012-05-29 09:40:46,873 Uncaught exception queueing jobTraceback
Unfortunately this is one of the most glaring problems with the UI based workflow engine that is Galaxy (That, and no modular workflows)...You cannot easily pair up more than one set of paired end reads from the UI, you need to use the API to run pairs of FASTQ files like that...I have written a
Todd,
Errors when importing history archives are not exposed well right now.
If you look at the job table in your Galaxy database, you should be able to see
why the job failed. Using SQL like this should work:
--
select * from job where tool_id='__export_history__' order by id desc limit 5;
Hi,Is there a way to turn of the special pretty print version for VCF files since it is not working correctly?I now have to download every VCF file I want to look at rather than being able to see the first MB of the text file it is...Where is this pretty printer and how do I turn it off?ThanksThon
Hmm. Chrome on OSX looks good to me, please do send over the VCF file and I
can take a look.
Do you see any javascript errors in the browser console?
On May 29, 2012, at 6:31 PM, Anthonius deBoer wrote:
Hi Dannon,
I could share the VCF file, but I think it is dependent on the browser you
Hi,
Has there been any change in the way galaxy-dist server is started up? I am
getting following error after running 'run.sh --daemon' command after galaxy
initializes config files from .sample files:
{{{
Initializing community_wsgi.ini from community_wsgi.ini.sample
Initializing
What Galaxy revision are you running? Given the new information I'd guess it's
an erroneous console.log that was removed in bb7f51fb545d.
On May 29, 2012, at 6:49 PM, Anthonius deBoer wrote:
Interestingly when I open the Developer Tools in Chrome, my VCF file is
actually loading...As soon
I'm running the latest galaxy central verson that I pulled down today...On May 29, 2012, at 03:59 PM, Dannon Baker dannonba...@me.com wrote:What Galaxy revision are you running? Given the new information I'd guess it's an erroneous console.log that was removed in bb7f51fb545d. On May 29, 2012,
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