Re: citeproc-org and org-ref 3

[Joseph Vidal-Rosset]

Dear John,

It is in fact an org cite issue. With org-ref 2, I used to write:
something like [[cite:key][page  n]]  with C-l + description .

With org-ref 3, I see that I must write now: [[cite:key page n]] and it
works with ieee csl style also.

(I still do not know how to quote directly references of pages in the
cite key when I need to quote pages.)

Best wishes, and thanks !

Jo.

Le 04/12/2021 à 16:07, John Kitchin a écrit :
> AFAICT this is also a style issue. This document:
>
> #+csl-style: apa-5th-edition.csl
>
> See [[cite:&scalia-2020-evaluat-scalab pg. 127]].
>
> bibliography:~/Dropbox/emacs/bibliography/references.bib
>
> exports to:
> image.png.
>
> This one:
> #+csl-style: apa-numeric-superscript-brackets.csl
>
> See [[cite:&scalia-2020-evaluat-scalab pg. 127]].
>
> bibliography:~/Dropbox/emacs/bibliography/references.bib
> exports to
> image.png
>
> and this one (note the extra HTML_HEAD lines which fixes the separate
> lines due to the div elements (Thank you for this tip Max!).
>
> #+csl-style: biochimica-et-biophysica-acta.csl
> #+HTML_HEAD: <style type="text/css">
> #+HTML_HEAD:   .csl-left-margin, .csl-right-inline { display: inline; }
> #+HTML_HEAD: </style>
>
> See [[cite:&scalia-2020-evaluat-scalab pg. 127]].
>
> bibliography:~/Dropbox/emacs/bibliography/references.bib
>
>
> leads to
> image.png
>
>
> You can see that the first two styles show the locators, but the last
> one you use does not. I don't think that is something org-ref can or
> should fix. That would be something to fix in the styles themselves.
>
> John
>
> -----------------------------------
> Professor John Kitchin (he/him/his)
> Doherty Hall A207F
> Department of Chemical Engineering
> Carnegie Mellon University
> Pittsburgh, PA 15213
> 412-268-7803
> @johnkitchin
> http://kitchingroup.cheme.cmu.edu <http://kitchingroup.cheme.cmu.edu>
>
>
>
> On Sat, Dec 4, 2021 at 9:45 AM Joseph Vidal-Rosset
> <joseph@vidal-rosset.net <mailto:joseph@vidal-rosset.net>> wrote:
>
>     Dear John,
>
>     Another more important point.  It is now more probably a point where
>     org-ref 3  needs to be improved: it seems to me that the format
>     [numerical_reference, page] or (name_reference, page) cannot be produced
>     for the html export.
>
>     (The format [numerical_reference, page]  was produced with org-ref2 +
>     citeproc-org , see for example:
>
>     
> https://www.vidal-rosset.net/a_logical_remark_on_swinburnes_cartesian_argument_for_substance_dualism.html
>     
> <https://www.vidal-rosset.net/a_logical_remark_on_swinburnes_cartesian_argument_for_substance_dualism.html>
>
>     Swinburne’s argument is an amended version of Descartes’s in Discourse
>     on the Method [1, p. 127]:
>     )
>
>     I hope that there is a solution.
>
>     Best wishes,
>
>     Jo.
>
>     Le 03/12/2021 à 18:13, John Kitchin a écrit :
>      > I think this is caused by something in the style, or in how citeproc
>      > uses the style.
>      >
>      > This document:
>      >
>      > #+csl-style: biochimica-et-biophysica-acta.csl
>      >
>      > See [[cite:&scalia-2020-evaluat-scalab]].
>      >
>      > bibliography:~/Dropbox/emacs/bibliography/references.bib
>      >
>      > Leads to (as you have seen):
>      >
>      > image.png
>      >
>      > The html for that reference looks like:
>      > <div class="csl-bib-body">
>      >    <div class="csl-entry"><a id="citeproc_bib_item_1"></a>
>      >      <div class="csl-left-margin">[1]</div><div
>      > class="csl-right-inline">G. Scalia, C.A. Grambow, B. Pernici,
>     Y.-P. Li,
>      > W.H. Green, <a href="https://doi.org/10.1021/acs.jcim.9b00975
>     <https://doi.org/10.1021/acs.jcim.9b00975>
>      > <https://doi.org/10.1021/acs.jcim.9b00975
>     <https://doi.org/10.1021/acs.jcim.9b00975>>">Evaluating Scalable
>      > Uncertainty Estimation Methods for Deep Learning-Based Molecular
>      > Property Prediction</a>, Journal of Chemical Information and
>     Modeling,
>      > 60 (2020) 2697-2717.</div>
>      >    </div>
>      > </div>
>      > </div>
>      >
>      > I don't see why there is an extra line there, I guess it is some CSS
>      > styling.
>      >
>      > if you change the csl style to apa-numeric-superscript-brackets.csl
>      >
>      > you get
>      > image.png
>      >
>      > which I think is closer to what you want. The html for this looks
>     like
>      > this, and does not have some of the div elements seen above. I guess
>      > this is something in the style files themselves.
>      >
>      > <div class="csl-bib-body">
>      >    <div class="csl-entry"><a id="citeproc_bib_item_1"></a>1.
>     Scalia, G.,
>      > Grambow, C. A., Pernici, B., Li, Y.-P., &#38; Green, W. H. (2020).
>      > Evaluating Scalable Uncertainty Estimation Methods for Deep
>      > Learning-Based Molecular Property Prediction. <i>Journal of Chemical
>      > Information and Modeling</i>, <i>60</i>(6), 2697–2717. <a
>      > href="https://doi.org/10.1021/acs.jcim.9b00975
>     <https://doi.org/10.1021/acs.jcim.9b00975>
>      > <https://doi.org/10.1021/acs.jcim.9b00975
>     
> <https://doi.org/10.1021/acs.jcim.9b00975>>">https://doi.org/10.1021/acs.jcim.9b00975
>     <https://doi.org/10.1021/acs.jcim.9b00975>
>      > <https://doi.org/10.1021/acs.jcim.9b00975
>     <https://doi.org/10.1021/acs.jcim.9b00975>></a></div>
>      > </div>
>      > </div>
>      >
>      >
>      >
>      > John
>      >
>      > -----------------------------------
>      > Professor John Kitchin (he/him/his)
>      > Doherty Hall A207F
>      > Department of Chemical Engineering
>      > Carnegie Mellon University
>      > Pittsburgh, PA 15213
>      > 412-268-7803
>      > @johnkitchin
>      > http://kitchingroup.cheme.cmu.edu
>     <http://kitchingroup.cheme.cmu.edu>
>     <http://kitchingroup.cheme.cmu.edu <http://kitchingroup.cheme.cmu.edu>>
>      >
>      >
>      >
>      > On Fri, Dec 3, 2021 at 11:49 AM Joseph Vidal-Rosset
>      > <joseph@vidal-rosset.net <mailto:joseph@vidal-rosset.net>
>     <mailto:joseph@vidal-rosset.net <mailto:joseph@vidal-rosset.net>>>
>     wrote:
>      >
>      >     Le 03/12/2021 à 16:24, John Kitchin a écrit : > I have seen this
>      >     happen at times, and I think it is style and maybe > browser
>      >     dependent. > > Could you send me a small example (including
>     the csl
>      >     file you use) that > I could look at? Dear John, In
>     attachment, two
>      >     small examples, the same text exported with
>      >     biochimica-et-biophysica-acta.csl and with ieee-with-url.csl Best
>      >     wishes, Jo.
>      >
>