Did you try what was suggested below in my reply 5 days ago?
Ross
Jun 29 (5 days ago)
to *azuzolo*, galaxy-dev
Hi, Amanda,
If your previous version was very old, it may have lacked a parameter added
to universe_wsgi.ini some time ago to control universal "sanitization" of
HTML as a security precau
Hello sachit,
Sachit Adhikari writes:
>
>
> I am getting this error:
>
> Error in tophat:
>
> [2013-02-13 20:46:41] Beginning TopHat run (v2.0.7)
> ---
> [2013-02-13 20:46:41] Checking for Bowtie
> Bowtie version:2.0.6.0
>
Hej Jeremy!
That's certainly neater. There are many more wrapper that do the same - using
mkdtemp() without a dir argument. Is there any plan to perform the same changes
on these (bam-to-sam, etc...)?
Cheers,
Nico
---
Nicolas Delhomm
Hey,
I'm writing a XML for a tool that produces a number of output files. As the
number is not known before the tool is run, I used the strategy outlined here:
http://wiki.galaxyproject.org/Admin/Tools/Multiple%20Output%20Files#Number_of_Output_datasets_cannot_be_determined_until_tool_run
First,
Dear Carl,
The javascript console displayed no errors. Below is the output of hg summary
[root@vnc galaxy-dist]# hg summary
not trusting file /home/data/galaxy-python/galaxy-dist/.hg/hgrc from untrusted
user andongab, group csys
not trusting file /home/data/galaxy-python/galaxy-dist/.hg/hgrc fro
Nevermind, it's not important. All of my data was test data, and the
migration was seemless to postgresql. I'll just re-register the users and
re-import the fastq files.
On Wed, Jul 3, 2013 at 5:40 PM, Lee Katz wrote:
> Hi, I am realizing, hopefully not to late, that I need to convert my
> da
Hi, I am realizing, hopefully not to late, that I need to convert my
database to postgresql so that I can have concurrent sessions and all the
other goodness that it brings to the table. Is there an easy way to
convert? I am trying to do it on the command line, but it isn't working so
well. I am
I recently updated my local testing Galaxy install to the latest stable
version. When I went to test the working of HTML output in some scripts
that worked in previous installs of Galaxy, the latest stable version gave
me an empty return with a message of 'no peek' rather than outputting the
HTML f
> That's certainly neater. There are many more wrapper that do the same - using
> mkdtemp() without a dir argument. Is there any plan to perform the same
> changes on these (bam-to-sam, etc...)?
I made the same change for the BAM to SAM wrapper so that it create temp files
in the job working di
Template/root directory is missing from my file-system since last update.
I have cloned the repository. It seems to miss too.
Is there any problem with the repo ?
Thankx.
-Message d'origine-
De : Adam Brenner [mailto:aebre...@uci.edu]
Envoyé : mercredi 3 juillet 2013 07:51
À : Bertrand P
It works! Thanks! And--getting back to the original request--it doesn't
have the multiplexing button anymore after setting it as avalable: false.
Awesome!
On Tue, Jul 2, 2013 at 7:19 PM, Brad Chapman wrote:
>
> Lee;
> I pushed a fix to the nglims fork on bitbucket which should resolve this
>
Hi,
I found my problem:
in the production instances universe_wsgi.ini
the value for "collect_outputs_from" was different that in my VM.
It is set to:
collect_outputs_from = job_working_directory
Perhaps one could update the documentation that deals with multiple output
files and mention that the
Thanks Ron,
This will be a big help.
Cheers.
Steve McMahon
Manager, ASC Cluster Services
Information Management & Technology (IM&T)
CSIRO
Phone: +61-2-62142968 | Mobile: +61-4-00779318
steve.mcma...@csiro.au | www.csiro.au
PO Box 225, DICKSON ACT 2602
1 Wilf Crane Crescent, Yarralumla ACT
Hey,
I'm writing a XML for a tool that produces a number of output files. As the
number is not known before the tool is run, I used the strategy outlined here:
http://wiki.galaxyproject.org/Admin/Tools/Multiple%20Output%20Files#Number_of_Output_datasets_cannot_be_determined_until_tool_run
First,
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