I implemented some of this partially. I made it so you can specify the
default cite link in a user variable, with a default of cite. When you type
C-c ], this format will automatically be used. If you want to choose
another format, type C-u C-c ] which will prompt you for a type, and then
use the reftex-citation command to complete it. I added most of the
citation types I know of to this. Most of those will not work with
completion. I did make the cite link completion function use the default
link type, so that it will at least do what you want. I might add
completion functions for all the link types, it is just a lot of cut and
pasting. and I do not use that much. I just wanted to see if I could do it
;)

I also added addbibresource as a link type, and updated org-ref to be able
to use that instead of bibliography.

Thanks for the ideas!

John

-----------------------------------
John Kitchin
Associate Professor
Doherty Hall A207F
Department of Chemical Engineering
Carnegie Mellon University
Pittsburgh, PA 15213
412-268-7803
http://kitchingroup.cheme.cmu.edu



On Thu, May 1, 2014 at 9:30 AM, Eric S Fraga <e.fraga@ucl.ac.uk> wrote:

> On Thursday,  1 May 2014 at 08:47, John Kitchin wrote:
>
> [...]
>
> Hi John,
>
> thanks for your quick response!
>
> > an alternative would be to use a prefix command that gave you an option
> to
> > change the cite format, similar to the minibuffer menu for cite links. I
> > have not written much prefix code before, but I will try that out.
>
> This would be good, with many a way of stating the default one would
> like?  For instance, for grant proposals, I often use autocite in
> biblatex for generating citations as footnotes whereas for research
> papers I use cite most often.
>
> > In the end, the link definitions can be as short as this:
> >
> > #+BEGIN_SRC emacs-lisp :tangle org-ref.el
> > (org-add-link-type
> >  "cite"
> >  'org-ref-cite-onclick-minibuffer-menu
> >  'org-ref-cite-link-format)
> > #+END_SRC
>
> My comment was not so much the definitions you used but that you were
> overwriting those that I had already defined.  Your definitions were
> arguably better than mine so maybe I was being a bit picky here... :)
>
> > I wrote this for my research group to use, and eventually the links have
> to
> > be defined somewhere. I am not sure what the best place would be. It is
> an
> > interesting issue of reproducibility though. Two people with different
> link
> > definitions would get different results.
>
> Yes, this is true but there is so much that can be customised in org
> that you will never have reproducibility at this level (e.g. handling of
> latex snippets, code listings, even latex classes).  I would leave
> something like this to a separate set of code that is not part of
> org-ref.
>
> > It should be easy enough to make an addbibresource link that does the
> same
> > thing as the bibliography link. And maybe to modify the find-bibliography
> > code to check for that too. I have never used biblatex though, so I dont
> > have any experience with it.
>
> I have only started using biblatex recently, and that was because I
> wanted to use autocite.  The only change I had to make was \bibliography
> to \addbibresource.  I still use the same bibtex files.  Of course,
> others may be making more effective use of biblatex...
>
> >>> 4. The customisation interface for org-ref-default-bibliography should
> be
> >>>      list aware...
> >>
> > I think I fixed this.
>
> Thanks!
> --
> : Eric S Fraga (0xFFFCF67D), Emacs 24.4.50.2, Org release_8.2.6-923-g233c11
>