[galaxy-dev] Local instance and storage space to provide

Dear all, To purchase equipment related to a local instance of Galaxy, I would like to have your feedback. Did you notice load problems when 10 to 20 users launch jobs at the same time and on a single instance of Galaxy, with mi-RNA or RNA seq data ? What do you recommend in terms of storag

[galaxy-dev] Update Galaxy instance with Mercurial error

Dear Galaxy users, I am running a Galaxy instance in my institution's server and I want to keep it up to date with the latest release. Nevertheless when i try hg incoming i get the following error: abort: There is no Mercurial repository here (.hg not found)! Most probably the administrator o

[galaxy-dev] Galaxy and Toolshed issues

Hi, I have been trying out the latest version of Galaxy and a newly installed local toolshed and I have a few questions/suggestions/bug reports: 1. Tool Versioning: a) As I understand from the wiki, when I create a new version of a tool in a tool shed I must then install the latest versi

Re: [galaxy-dev] Galaxy and Toolshed issues

Hello Shaun, On 7/31/12 09:37:23.000, SHAUN WEBB wrote: Genome indexing: 1. I realise this is just a beta feature and it will be great when fully integrated. I tried to generate bowtie2 indexes for an installed build. I can see the job appear below the table in yellow and it contains the messag

Re: [galaxy-dev] Galaxy and Toolshed issues

Thanks Dave. I think I had a permission error on my bowtie2 directory. It seems to be running ok now. However the previous job is still there saying it's running but not. Is there any way to cancel these jobs or do I need to do it via the database? Thanks for the info. Shaun Quoting Da

Re: [galaxy-dev] Galaxy and Toolshed issues

Hi Shaun, On Jul 31, 2012, at 9:37 AM, SHAUN WEBB wrote: > > Hi, I have been trying out the latest version of Galaxy and a newly installed > local toolshed and I have a few questions/suggestions/bug reports: > > 1. Tool Versioning: > > a) As I understand from the wiki, when I create a new ver

[galaxy-dev] Workshop on Extending High-Performance Computing Beyond its Traditional User Communities

Galaxy developers, There is an upcoming workshop on accessible HPC that might be of interest to many of you. It would be great to see the Galaxy community perspective included in these discussions. Details follow. Thanks, James -- http://www.psc.edu/index.php/escience-2012-workshop Extending

[galaxy-dev] .loc files and Reload a tool's configuration

Hi all, I'm puzzled by the following: Edits to blastdb.loc are reflected when I reload NCBI BLAST+ blastn from Admin tools. This is great. HOWEVER, edits to bowtie_indices.loc, bwa_index.loc, etc. are not reflected when their respective tools are reloaded. Is this an error with my configuration

[galaxy-dev] Error in loading tools.

Hi Galaxy Community! Hope all is well. I've been trying to install some tools in my Galaxy Cloudman instance (using image: ami-da58aab3 ) from the main toolshed. When I try to "install to local Galaxy" I get the error: Not Found The resource could not be found. No action for /admin_toolshed/pre

Re: [galaxy-dev] Error in loading tools.

The problem here is that the public toolshed interface has been updated more recently than the galaxy install on that cloud instance. You should be good to go if you update galaxy (possible through the admin interface at /cloud/admin/) to the latest version. -Dannon On Jul 31, 2012, at 12:11

[galaxy-dev] August 2012 Galaxy Update

Hello all The August 2012 Galaxy Update is now availableat http://wiki.g2.bx.psu.edu/GalaxyUpdates/2012_08. Highlights include - GCC2012 & GCC2013: slides are there; v

[galaxy-dev] egg distribution error when running galaxy-central

Hi all, I'm trying to run galaxy-central on my laptop in order to play around with some changes, and I'm having trouble getting it to run. I can run galaxy-dist without problems and have been working with that (so its eggs are all installed already), but now I want to create a pull request so want

Re: [galaxy-dev] egg distribution error when running galaxy-central

On 1 August 2012 15:28, Clare Sloggett wrote: >I can run > galaxy-dist without problems and have been working with that (so its > eggs are all installed already), but now I want to create a pull > request so want to run galaxy-dist. oops, of course I mean 'so want to run galaxy-central.' --