Hi Peter, Thanks, I didn't realise it had been discussed! I don't know what would be a good markup system for citations. However, the current situation is that people are putting their citations into the <help> tag with no special markup, and it seems to work reasonably well. Maybe a simple field is all that's needed? Clare On 18 June 2012 19:50, Peter Cock <p.j.a.cock@googlemail.com> wrote:

On Mon, Jun 18, 2012 at 10:29 AM, Clare Sloggett <sloc@unimelb.edu.au> wrote:

...

Hi all,

I'd like to suggest, or request, a feature - I think that posting to galaxy-dev is the right place to start?

After I've done an analysis, it would be useful to be given a list of references for all the tools I used in that history, which I could use to cite the appropriate papers.

At the moment, it seems that most tool developers add a "please cite the following paper" note to the <help> tag in the wrapper so that it displays on the tool screen before you run it. I'd like to suggest: * adding a <cite> tag to the tool wrappers xml, * adding a feature to the history UI which will list all the references to cite for the a history.

I think this would encourage people to cite the tools they use properly and hence encourage developers to put their tools into the toolshed! With the standard tools moving into the toolshed it will be really important for tool wrappers to be maintained.

Any thoughts?

Clare

Hi Clare,

We talked about this at the end of last year, and yes, it would be a good idea: http://lists.bx.psu.edu/pipermail/galaxy-dev/2011-December/007873.html

Are you familiar enough with the area of semantic web/linked data to know what would be the best XML based markup to use for embedding the citations?

Peter

-- Clare Sloggett Research Fellow / Bioinformatician Life Sciences Computation Centre Victorian Life Sciences Computation Initiative University of Melbourne, Parkville Campus 187 Grattan Street, Carlton, Melbourne Victoria 3010, Australia Ph: 03 903 53357          M: 0414 854 759