Brilliant, thanks! I had seen the FAQ, but didn't know about configfiles. Much
From: ja...@taylorlab.org [mailto:ja...@taylorlab.org] On Behalf Of James Taylor
Sent: Monday, October 29, 2012 2:03 PM
To: Gomez, Ann
Subject: Re: [galaxy-dev] MrBayes wrapper - set parameters through Galaxy?
I think you may be able to do this by generating another nexus file using
"configfiles" in the Galaxy tool config which just contains a command block,
similar to the example here:
On Mon, Oct 29, 2012 at 1:24 PM, Gomez, Ann <ann.go...@agr.gc.ca> wrote:
> 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 it in the command block of the Nexus file. Am I correct in
> thinking this is not possible since MrBayes does not have a way to invoke
> commands in-line?
> To clarify for non-MrBayes people, my limited understanding is that
> you either invoke the interpreter with "$ mb" and then enter your
> commands, or directly execute a Nexus file (containing the data and
> commands) with " $ mb <nexusfilename>".
> Please correct me if I'm missing something or thinking about this
> completely wrong. I'd appreciate any input about MrBayes or a similar kind of
> Ann Gomez
> Agriculture and Agri-Food Canada | Agriculture et Agroalimentaire
> KW Neatby Bldg | éd. KW Neatby
> 960 Carling Ave| 960, avenue Carling
> Ottawa, ON | Ottawa (ON) K1A 0C6
> E-mail Address / Adresse courriel: ann.go...@agr.gc.ca Telephone |
> Téléphone 613-759-6805 Facsimile | Télécopieur 613-759-1701 Government
> of Canada | Gouvernement du Canada
> Please keep all replies on the list by using "reply all"
> in your mail client. To manage your subscriptions to this and other
> Galaxy lists, please use the interface at:
Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at: