It turns out to be very easy to get pandoc citations into orgmode using helm-bibtex. It is not even that difficult to make the pandoc citations clickable to get similar features as in org-ref. They just don't have the org-element support. Having tried this, I don't see any obvious advantages over org-links (except that I still have to figure out how to export org to org, with a translation of org-link to pandoc citation).
See this example: http://kitchingroup.cheme.cmu.edu/blog/2015/01/29/Export-org-mode-to-docx-with-citations-via-pandoc/ The conversion is not perfect, but it gets pretty far. Probably not far enough to use for production except in the simplest cases. Matt Price writes: > On Wed, Jan 28, 2015 at 8:48 PM, John Kitchin <johnrkitc...@gmail.com> > wrote: > >> I can see how you could have a command insert links from a zotero >> database. You just need some way to get a list of the keys for that. it >> looks like zotxt could provide that. if not, it could be a few sqlite >> commands to get it. >> > Lets say we have citations like: zotero:zotero-key or [@zotero-key]. These >> are easy to get I think. >> > > I think zotxt already does this, though one would have to modify the link > format for ocmpativility. That part doesn't seem so hard, even for someone > like me. > >> >> I am still unclear on what you do after that. So far I only have used >> bibtex as the backend database, and there are programs like bibtex and >> pandox that create the bibliography from it. What is the end format you >> want? and how would zotero be used to generate the bibliography? >> >> For my own use, the most important end formats are html and odt/docx. Of > course it would be nice if there was a more generic solution so other > people could benefit. > Erik has written a python script, pandoc-zotxt, which allows an interface > with pandoc. I'm not sure how it works - -I haven't started using pandoc > in any serious way just yet. ( > https://github.com/egh/zotxt/tree/master/pandoc-zotxt) > > It also looks easy to query the zotero database with a list of keys and > retrieve a bibliography in html or plaintext formats. That would, I guess > be useful for HTML export. For ODT I think the situation is somewhat more > difficult, especially if one wants to retain "live" Zotero links in the > final stage, working with Libreoffice. > > thanks again John, > Matt > > > >> John >> >> ----------------------------------- >> John Kitchin >> Professor >> Doherty Hall A207F >> Department of Chemical Engineering >> Carnegie Mellon University >> Pittsburgh, PA 15213 >> 412-268-7803 >> http://kitchingroup.cheme.cmu.edu >> >> >> On Wed, Jan 28, 2015 at 8:34 PM, Matt Price <mopto...@gmail.com> wrote: >> >>> John, >>> >>> this does look very powerful. Do you see a path forward that would help >>> add zotero support to org-ref, probably using Erik's zotxt library? Does >>> that seem like a worthwhile goal for you? >>> >>> Matt >>> >>> >>> On Wed, Jan 28, 2015 at 6:01 PM, John Kitchin <johnrkitc...@gmail.com> >>> wrote: >>> >>>> With the latest version of org-ref, I can automate export from org >>>> through markdown to docx via pandoc like this: >>>> >>>> #+BEGIN_SRC emacs-lisp >>>> (defun ox-export-to-docx-and-open () >>>> "Export the current org file as a docx via markdown." >>>> (interactive) >>>> (let* ((bibfile (expand-file-name (car (org-ref-find-bibliography)))) >>>> ;; this is probably a full path >>>> (current-file (buffer-file-name)) >>>> (basename (file-name-sans-extension current-file)) >>>> (md-file (concat basename ".md")) >>>> (docx-file (concat basename ".docx"))) >>>> >>>> (when (file-exists-p docx-file) (delete-file docx-file)) >>>> (org-export-to-file 'md md-file) >>>> (shell-command (format >>>> "pandoc -s -S --bibliography=%s %s -o %s" >>>> bibfile md-file docx-file)) >>>> (org-open-file docx-file '(16)))) >>>> #+END_SRC >>>> >>>> >>>> this works because i defined a markdown format function that converts >>>> the cite link to pandoc format on export. I could avoid the markdown >>>> translation if I could do an org to org export that would do that. With >>>> a little work we could define file tags like: >>>> >>>> #+PANDOC_CSL: some-csl-file >>>> >>>> that would also get passed to the pandoc command to determine the style >>>> of the citation and bibliography. >>>> >>>> >>>> >>>> >>>> Matt Price writes: >>>> >>>> > i think I may have seen it these on the list at one point, but it's >>>> very >>>> > helpful to be reminded. >>>> > >>>> > I do think that the default fonts, etc., are a bit of an acquired >>>> taste for >>>> > humanists; and I've gotten used to using custom styles in html & odt >>>> for >>>> > size & placing of images; but even without following the instructions >>>> > carefully, export seems to work, which is pretyt amazing! >>>> > >>>> > Vikas recommends involving pandoc manually, as Erik H. has also >>>> suggested >>>> > to me; I would like to aovid doing that if possible, but if it has to >>>> be >>>> > done i guess I can find some way of automating it. >>>> > >>>> > There are clearly a lot of options in this space; I am still >>>> interested in >>>> > using Zotero if I can, so will continue working with zotxt, but >>>> hopefully >>>> > in a way that gets me closer to other people's usage patterns. >>>> > >>>> > thanks, >>>> > Matt >>>> > >>>> > >>>> > On Wed, Jan 28, 2015 at 3:31 PM, Vicente Vera <vicente...@gmail.com> >>>> wrote: >>>> > >>>> >> Hello. Interesting thread! >>>> >> Matt, have you read Vikas guide to writing papers with Org? >>>> >> https://github.com/vikasrawal/orgpaper >>>> >> From my point of view, using LaTeX through Org isn't difficult at all. >>>> >> You'll need to tweak a few things (packages, figures, etc.), but it's >>>> >> definitely easier for a beginner that starting a LaTeX document from >>>> >> scratch. >>>> >> Here's another article about writing LaTeX (social science) papers: >>>> >> https://github.com/kjhealy/workflow-paper >>>> >> >>>> >>>> -- >>>> Professor John Kitchin >>>> Doherty Hall A207F >>>> Department of Chemical Engineering >>>> Carnegie Mellon University >>>> Pittsburgh, PA 15213 >>>> 412-268-7803 >>>> @johnkitchin >>>> http://kitchingroup.cheme.cmu.edu >>>> >>> >>> >> -- Professor John Kitchin Doherty Hall A207F Department of Chemical Engineering Carnegie Mellon University Pittsburgh, PA 15213 412-268-7803 @johnkitchin http://kitchingroup.cheme.cmu.edu
