On 08/08/2013 07:38 PM, Dave Clements wrote:
I wanted to ask though, are there specific reasons for not using a
service like YouTube / Vimeo etc?
Yes! Um, but I can't remember what they are (sadly, this is true).
We'll talk about this on the next outreach call, and I'll post here
Thanks for the update, Dave!
Was delighted to see that the videos from all the talks (except
lightning talks) are up at:
http://wiki.galaxyproject.org/Events/GCC2013/Program
I wanted to ask though, are there specific reasons for not using a
service like YouTube / Vimeo etc?
That would make
Hi,
At UPPMAX, are interested both in Galaxy, and the GenomeSpace
project[1], and wanted to check if there are people on the Galaxy team
or other galaxers who are involved in the GenomeSpace project, that
will be in Oslo next week?
If so, I would be interested to meet up!
BestRegards
//
Cool! :)
Feel free to join the Google+ group as well, and link your blog posts
there, to notify users (and make it easy for us to share further):
http://gplus.to/galaxyportal
Cheers
// Samuel
On 05/31/2013 08:35 AM, Saket Choudhary wrote:
Hi Everyone!
I have been selected to work on the
Hi,
I realized there was no Galaxy group on G+, although I find G+ is a
really nice medium for some kind of posts, especially for things like
showing off some work you have done, without disturbing others on the
mailing lists.
Feel free to chime in:
http://gplus.to/galaxyportal
Cheers,
//
Hi, thanks for the quick reply!
On 02/25/2013 08:39 PM, Peter Cock wrote:
I realize that when the master script (run.R in my case) is run, it will
not find the other files, since it is itself moved away to a temporary
working directory (something like
On 12/14/2012 07:40 PM, Peter Cock wrote:
On Fri, Dec 14, 2012 at 6:18 PM, Samuel Lampa samuel.la...@gmail.com wrote:
There are existing tools which produce a PDF file as a Galaxy output,
shown as its own 'green box' in the history. This works quite nicely
if the browser shows the PDF in-line
Hi,
I'm looking into integrating some R scripts into Galaxy, which create
some graphics / plots. We are interested in integrating those in galaxy
somehow, or otherwise presenting them to the user in an as easy way as
possible.
I wanted to check if there is some support for this kind of
Hi,
I'm creating a galaxy tool [0] for querying external SPARQL (the
Semantic Web query language) endpoints to get back data in tabular formats.
I run into a problem though, since SPARQL queries contain curly braces,
and Galaxy obviously converts these to an internal representation __oc__
On 11/16/2012 08:50 PM, Daniel Blankenberg wrote:
You can import and use the restore_text function from galaxy.lib.util to
restore the characters.
Thanks! I guess this will be a good starter at least, although I might
play a bit with the sanitizers as well, as you hint about below.
Anyway,
at the configurations in universe_wsgi.ini:
library_import_dir
user_library_import_dir
allow_library_path_paste
which gives you many option to access data out side of the Galaxy
database/ folder - without duplicating the data.
Regards, Hans-Rudolf
On 11/14/2012 03:23 PM, Samuel Lampa wrote
Hi,
We are looking into ways to integrate galaxy into the workflows of users
at our cluster, with lots of NGS users running all and any kind of
analyses on their typically huge amounts of data. For this we use a
parallel file system, available on all compute nodes.
This file system,
while creating a
link in the database folder.
Sounds like a hack to me, but may work.
cheers,
jorrit
On Wed, Nov 14, 2012 at 2:52 PM, Samuel Lampa samuel.la...@gmail.com
mailto:samuel.la...@gmail.com wrote:
Hi,
We are looking into ways to integrate galaxy into the workflows
On 08/23/2011 03:47 AM, Peter Cock wrote:
On Mon, Aug 22, 2011 at 5:29 PM, Samuel Lampa
samuel.la...@scilifelab.uu.se wrote:
Hi,
I'm trying to parse the XML toolconfig format, for generating a lightweight
command config wizard in an Eclipse based product.
I wonder: Boolean parameters
Quick question to you devs,
I need to find the code where the tool configs are parsed ... especially
the free-text if-else clauses in the command-tag.
Could someone point me to the file?
TIA
// Samuel
--
System Expert / Bioinformatician
SNIC-UPPMAX / SciLifeLab Uppsala
Uppsala University,
On Jul 22, 2011, at 9:41 AM, Samuel Lampa wrote:
Quick question to you devs,
I need to find the code where the tool configs are parsed ... especially the
free-text if-else clauses in the command-tag.
Could someone point me to the file?
TIA
// Samuel
--
System Expert / Bioinformatician
SNIC
directives?
Best
// Samuel
On 07/22/2011 04:45 PM, Samuel Lampa wrote:
Ah, thanks! I somehow missed that file altogether ...
// Samuel
On 07/22/2011 03:59 PM, Greg Von Kuster wrote:
Samuel,
Look at the parse(0 method in the Tool class in
~/lib/galaxy/tools/__init__.py for most of it. You should
Hi Alex,
Much thanks for your input.
On 07/13/2011 02:31 PM, Bossers, Alex wrote:
as far as the xml goes. Yes it usually is accompanied by a py perl or bash
script. However you could extract at least the user configurable options to
gather input/output and setting parameters from the
Hi,
I have been looking into re-using the galaxy toolconfig xml files
outside galaxy, for auto-generating wizards for command line tools, in
an own little (eclipse based) software (For a short background, see [1]).
I have come to realize though that the xml-files are not really
independent,
19 matches
Mail list logo
