Re: [galaxy-dev] Examples of Galaxy tools in the toolsheds that install and run JAR files properly?

2014-08-30 Thread Lukasse, Pieter
Hi Melissa, See also https://toolshed.g2.bx.psu.edu/view/pieterlukasse/prims_masscomb or https://toolshed.g2.bx.psu.edu/view/pieterlukasse/prims_proteomics Regards, Pieter. -Original Message- From: galaxy-dev-boun...@lists.bx.psu.edu [mailto:galaxy-dev-boun...@lists.bx.psu.edu] On

Re: [galaxy-dev] when else in conditional ? RE: refresh_on_change : is this a valid attribute? Any other ideas/options??

2014-08-30 Thread Lukasse, Pieter
Yes, adding a when else option would be nice. However, what I really would like to have is a way to tell in one select box which other select box(es) should be refreshed when its value is changed by the user. For example: param name=cmb_col_type type=select label=Select column type

Re: [galaxy-dev] when else in conditional ? RE: refresh_on_change : is this a valid attribute? Any other ideas/options??

2014-08-30 Thread Lukasse, Pieter
Hm...and now I’m completely stuck because apparently a conditional cannot be set at runtime in a workflow...? Ideas anyone? Thanks, Pieter. From: galaxy-dev-boun...@lists.bx.psu.edu [mailto:galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Lukasse, Pieter Sent: zaterdag 30 augustus 2014

Re: [galaxy-dev] Examples of Galaxy tools in the toolsheds that install and run JAR files properly?

2014-08-30 Thread Dave Bouvier
Melissa, You can find additional examples in the following repository: https://toolshed.g2.bx.psu.edu/view/devteam/package_picard_1_56_0 Which is then sourced by the following two repositories: https://toolshed.g2.bx.psu.edu/view/devteam/picard

[galaxy-dev] error with multi dataset tool run

2014-08-30 Thread Robert Baertsch
I submitted 13 fastq files to tophat2 using DRMAA and got this error. Is it fatal? BTW: This is a super cool feature. I’m running the following version of galaxy-dist. changeset: 14212:91547729ffde branch: stable tag: tip user:Nate Coraor n...@bx.psu.edu date: