Re: Slight problems with links

[Emmanuel Charpentier <emm.charpentier@free.fr>]

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Dear John,
Indeed, I missed your point. I'll have to bet back to you after
reading, understanding the code (org-mode is a tall order...) and
*thinking*.
However, the troubling fact that ox-latex manages to export org's
labelling correctly shows that its author might be up to somethong.
Indeed I just checked that its exported docx can be converted by pandoc
into a "correct" docx (correct here meaning that my captions are
correctly labelled and numbered).
Have to think again...
--Emmanuel Charpentier
Le lundi 29 avril 2019 à 17:23 -0400, John Kitchin a écrit :
> I think you have missed the main point. My point was first to find
> some format that pandoc faithfully converts to docx with all the
> features you need, and then we can figure out how to turn org-ref/org 
> into that format. So, if you can write a LaTeX document that is
> correctly converted to docx (correct bibliography, figure labels, and
> cross-references, correct code, etc), then we can probably get org to
> output the right latex. But if LaTeX isn't converted to docx
> correctly in pandoc, it does not seem likely that org will either
> with any simple exporter.
> John
> 
> -----------------------------------
> 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
> 
> 
> 
> On Mon, Apr 29, 2019 at 5:19 PM Emmanuel Charpentier <
> emm.charpentier@free.fr> wrote:
> > Dear John,
> > Le lundi 29 avril 2019 à 16:57 -0400, John Kitchin a écrit :
> > > For org-ref, there isn't much magic on what happens on export.
> > > LaTeX is certainly the most well supported, and it seems like org
> > > -> latex -> pandoc is the only way that makes sense to get to
> > > docx to me.  Using pandoc on org files directly is probably
> > > hopeless unless you can get pandoc to include some definitions
> > > for the org-ref links.
> > 
> > This might be difficult : the development of ox-pandoc seems to not
> > be very active at the moment...
> > > Some of the link types in org-ref have some exports defined for
> > > org, html, latex, sometimes ascii. If one of these works well
> > > with pandoc we could try to make them output something useful for
> > > them, or at least make sure that org->org export turns them into
> > > something useful. 
> > 
> > I'm currently looking at the ox-latex exporter in order to
> > understand what it does for source blocks with org's names and
> > captions (and try to fix the fact that they are labeled and nubered
> > as figures...). Theis understanding might help me to go in the
> > direction  you suggest.
> > > Getting figure/table numbers has always been tricky; I don't
> > > think this worked well with pandoc, and handling it on the org
> > > side requires some preprocessing to add numbers. For now, the ox-
> > > word exporter in scimax comes closest, but it isn't a feature I
> > > use a lot, so it hasn't been improved in a while.
> > 
> > Again, looking at what ox-latex does for org's names and captions
> > might be helpful. Ox-pandoc seems to do a decent job on docx
> > output.
> > > John
> > > 
> > > -----------------------------------
> > > 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
> > > 
> > > 
> > > 
> > > On Mon, Apr 29, 2019 at 1:06 PM Emmanuel Charpentier <
> > > emm.charpentier@free.fr> wrote:
> > > > Dear list,
> > > > 
> > > > 
> > > > 
> > > > one of my uses od org-mode is to prepare documents wrapping R
> > > > (and
> > > > 
> > > > sometimes Sagemath) call results in interpretation text. My
> > > > reference
> > > > 
> > > > output is .pdf documents, but I *have* to prepare a .docx
> > > > version (for
> > > > 
> > > > use in managerial spheres, where computer literacy is *very*
> > > > low.
> > > > 
> > > > Cross-references and citations are a sine qua non, maths are
> > > > useful.
> > > > 
> > > > 
> > > > 
> > > > I have been annoyed by a couple of deficiencies and
> > > > inconsistencies
> > > > 
> > > > between exporters, so I prepared a test document testing
> > > > various cases.
> > > > 
> > > > This documents and some exports are attached (NE = Native
> > > > exporter, PE
> > > > 
> > > > = ox-pandoc exporter).
> > > > 
> > > > 
> > > > 
> > > > TL;DR :
> > > > 
> > > > 
> > > > 
> > > >   * I tested the built-in latex/pdf exporter as well as ox-
> > > > pandoc, the
> > > > 
> > > > latter both for .pdf and .docx export. The built-in ODT
> > > > exporter
> > > > 
> > > > doesn't export citations ; therefore, I didn't test it further.
> > > > 
> > > > 
> > > > 
> > > > 
> > > > 
> > > >   * org-ref's :labels and :refs do not export to anything but
> > > > the
> > > > 
> > > > built-in latex exporter. The native system of #+NAME:s and
> > > > #+CAPTION:s,
> > > > 
> > > > a bit on the heavy side, seems not to fail (except that they do
> > > > not
> > > > 
> > > > expand in a caption...).
> > > > 
> > > > 
> > > > 
> > > >   * Maths, tables, figures are unproblematic.
> > > > 
> > > > 
> > > > 
> > > >   * The requirements of org-reftex, the built-in latex exporter
> > > > and ox-
> > > > 
> > > > pandoc being mutually incompatible, and some ingenuity is
> > > > required. see
> > > > 
> > > > the attached org source. Org-ref's requirements do not simplify
> > > > the
> > > > 
> > > > situation...
> > > > 
> > > > 
> > > > 
> > > >   * Code snippets (i. e. source blocks exporting code) have a
> > > > 
> > > > captioning/numbering problem :
> > > > 
> > > > 
> > > > 
> > > >     - With the built-in latex exporter, they are numbered and
> > > > labeled
> > > > 
> > > > as figures.
> > > > 
> > > > 
> > > > 
> > > >     - The pandoc latex exporter numbers them separately (as
> > > > seen by
> > > > 
> > > > referencing them), but do not output this number (nor the
> > > > category)
> > > > 
> > > > before the caption.
> > > > 
> > > > 
> > > > 
> > > >     - The pandoc .docx exporter works as advertised.
> > > > 
> > > > 
> > > > 
> > > > So I have a couple of questions:
> > > > 
> > > > 
> > > > 
> > > >   * What can be done to reconcile org-ref's, latex-exporter's
> > > > and ox-
> > > > 
> > > > pandoc's requirements for bibliographies ?
> > > > 
> > > > 
> > > > 
> > > >   * How to fix the pdf exporters' quirks with code snippets ?
> > > > 
> > > > 
> > > > 
> > > > HTH,
> > > > 
> > > > 
> > > > 
> > > > --
> > > > 
> > > > Emmanuel Charpentier
> > > > 

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