[galaxy-dev] Extra files saved outside of Galaxy's history?

2012-12-11 Thread Gomez, Ann
Hi all, I have a pipeline involving a series of scripts, which creates directories (and many subdirectories), that I'd like to wrap for use in Galaxy. Although the contents of the folders are not the primary output of the pipeline, (and I don't want them as history items), I'd still like them t

Re: [galaxy-dev] MrBayes wrapper - set parameters through Galaxy?

2012-10-29 Thread Gomez, Ann
PM To: Gomez, Ann Cc: galaxy-dev@lists.bx.psu.edu List Subject: Re: [galaxy-dev] MrBayes wrapper - set parameters through Galaxy? Hi Ann, Configfiles is the way to go. I have writtent the BEAST (and TreeAnnotator), Garli, and RAxML wrappers that are all available in the Galaxy ToolShed. BEAST us

Re: [galaxy-dev] MrBayes wrapper - set parameters through Galaxy?

2012-10-29 Thread Gomez, Ann
Brilliant, thanks! I had seen the FAQ, but didn't know about configfiles. Much appreciated! Ann -Original Message- From: ja...@taylorlab.org [mailto:ja...@taylorlab.org] On Behalf Of James Taylor Sent: Monday, October 29, 2012 2:03 PM To: Gomez, Ann Cc: galaxy-dev@lists.bx.ps

[galaxy-dev] MrBayes wrapper - set parameters through Galaxy?

2012-10-29 Thread Gomez, Ann
Hello all, I've written a MrBayes wrapper that accepts a Nexus file (presumably containing a data block and a command block). In order to make it a bit easier for new users, I was hoping to be able to let users specify some parameters, such as their model, in Galaxy, as opposed to including