Peter / Paul - I propose to take this a step farther. How about developing a galaxy tool that uses a history/workflow to write a draft of your methods section using principles from Natural Language Generation [http://en.wikipedia.org/wiki/Natural_language_generation], with relevant citations pulled as you suggest, as well as automatically generating a .ps figure of your history/workflow. Ever hopeful, Casey Casey Bergman, Ph.D. Faculty of Life Sciences University of Manchester Michael Smith Building Oxford Road, M13 9PT Manchester, UK Tel: +44-(0)161-275-1713 Lab: +44-(0)161-275-5980 Fax: +44-(0)161-275-5082 skype: caseymbergman Email: casey.bergman@manchester.ac.uk Web: http://bergmanlab.smith.man.ac.uk/ Twitter: http://twitter.com/bergmanlab On 15 Dec 2011, at 15:22, Peter Cock wrote:
Hi Paul, Sean,
On Thu, Dec 15, 2011 at 3:09 PM, Paul Gordon <gordonp@ucalgary.ca> wrote:
Excellent idea, and the BibTeX comment makes sense too...
I'm glad there is enthusiasm for the basic idea :)
However, while I am a LaTeX and BibTeX user and fan, I really don't think BibTex is an appropriate choice for embedding a citation within the Galaxy tool XML files. Let's face it, BibTeX is not mainstream and would be an additional hurdle for tool authors to add their citations. I think it has to be XML based.
Now this could be something incredibly simple, with just a DOI tag/attribute and a plain text citation string. But I suspect there is a suitable existing XML standard we should adopt. Maybe citations using RDFa? http://wiki.digitalclassicist.org/Citations_with_added_RDFa
Peter ___________________________________________________________ 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: