Re: Error exporting org-ref.org to LaTeX (was: Re: Warnings while installing org-ref)

[John Kitchin <jkitchin@andrew.cmu.edu>]

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You might have to require org-id and a few other org-ref libs for wos,
Scopus and arxiv links. See the notes near the end of that document. I am
traveling sans emacs right now so I don't have the exact place to look, but
it is in a section on alternate builds I think.



On Sat, May 27, 2017 at 4:52 PM Lars Bjørndal <lars@lamasti.net> wrote:

> On Fri, May 26, 2017 at 04:06:52PM -0400, John Kitchin wrote:
> > I pushed a bunch of commits today to clean up a lot of these. There are
> > still a few that I don't know how to get rid of, but it should be a lot
> > cleaner now.
>
> Thanks a lot.
>
> To learn Org, Org-ref and exports, I tried to export the org-ref.org
> to LaTeX. The .tex file is produced, but I get the following error
> message:
>
>   user-error: Unable to resolve link:
> "id:212B487E-CC38-4BDF-9F0E-6993845AF49B"
>
> What does that mean?
>
> Thanks and regards, Lars
>
> > Lars Bjørndal writes:
> >
> > > I installed org-ref from Elpa, and I got some warnings. Emacs version:
> > >
> > > GNU Emacs 25.2.1 (x86_64-redhat-linux-gnu, GTK+ Version 3.20.10) of
> 2017-05-02
> > >
> > > I'm not sure how critical these error messages are.
> > >
> > > Fri May 26 14:59:37 2017
> > > Entering directory `/home/tstl/.emacs.d/elpa/key-chord-20160227.438/'
> > >
> > > In key-chord-input-method:
> > > key-chord.el:341:16:Warning: sit-for called with 3 arguments, but
> > > accepts only
> > >     1-2
> > > i May 26 14:59:45 2017
> > > Entering directory `/home/tstl/.emacs.d/elpa/helm-core-20170526.36/'
> > >
> > > In helm-position:
> > > helm-lib.el:388:14:Warning: macro `helm-position' defined too late
> > >
> > > In end of data:
> > > helm-lib.el:1006:1:Warning: the following functions are not known to be
> > > defined\
> > > :
> > >     helm-interpret-value, helm-get-current-source
> > >
> > > Compiling file
> > > /home/tstl/.emacs.d/elpa/helm-bibtex-20170321.1306/bibtex-comple\
> > > tion.el at Fri May 26 14:59:54 2017
> > > Entering directory
> `/home/tstl/.emacs.d/elpa/helm-bibtex-20170321.1306/'
> > >
> > > In end of data:
> > > bibtex-completion.el:1210:1:Warning: the following functions are not
> > > known to b\
> > > e defined:
> > >     reftex-what-macro, org-find-property,
> > >         reftex-locate-bibliography-files
> > >
> > > Entering directory `/home/tstl/.emacs.d/elpa/org-ref-20170523.1821/'
> > >
> > > In end of data:
> > > doi-utils.el:1361:1:Warning: the following functions are not known to
> be
> > > define\
> > > d:
> > >     org-ref-find-bibliography, reftex-get-bib-field,
> > >         org-ref-bib-citation
> > >
> > > Compiling file
> > > /home/tstl/.emacs.d/elpa/org-ref-20170523.1821/org-ref-bibtex.el\
> > >  at Fri May 26 14:59:57 2017
> > >
> > > In org-ref-bibtex-assoc-pdf-with-entry:
> > > org-ref-bibtex.el:728:25:Warning: reference to free variable
> > >     `org-ref-pdf-directory'
> > >
> > > In orhc-bibtex-field-formatter:
> > > org-ref-bibtex.el:1092:27:Warning: reference to free variable
> > >     `org-ref-pdf-directory'
> > >     org-ref-bibtex.el:1098:27:Warning: reference to free variable
> > >         `org-ref-notes-directory'
> > >
> > > In end of data:
> > > org-ref-bibtex.el:1324:1:Warning: the following functions are not known
> > > to be d\
> > > efined:
> > >     reftex-get-bib-field, org-ref-find-bibliography
> > >
> > > Compiling file
> > > /home/tstl/.emacs.d/elpa/org-ref-20170523.1821/org-ref-citeproc.\
> > > el at Fri May 26 14:59:57 2017
> > >
> > > In end of data:
> > > org-ref-citeproc.el:919:1:Warning: the function
> > >     `org-ref-get-bibtex-key-and-file' is not known to be defined.
> > >
> > > Compiling file
> > > /home/tstl/.emacs.d/elpa/org-ref-20170523.1821/org-ref-core.el a\
> > > t Fri May 26 14:59:57 2017
> > >
> > > In org-ref-update-pre-post-text:
> > > org-ref-core.el:3259:16:Warning: `delete-backward-char' is for
> > > interactive use
> > >     only; use `delete-char' instead.
> > >     org-ref-core.el:3260:12:Warning: `delete-backward-char' is for
> > >     interactive use
> > >         only; use `delete-char' instead.
> > >
> > > In end of data:
> > > org-ref-core.el:3498:1:Warning: the following functions are not known
> to
> > > be def\
> > > ined:
> > >     org-ref-match-next-cite-link, org-ref-match-next-label-link,
> > >         org-ref-match-next-ref-link,
> > >             org-ref-make-org-link-cite-key-visible,
> > >             org-in-commented-heading-p
> > >
> > > Compiling file
> > > /home/tstl/.emacs.d/elpa/org-ref-20170523.1821/org-ref-helm-bibt\
> > > ex.el at Fri May 26 14:59:58 2017
> > >
> > > In org-ref-format-citation:
> > > org-ref-helm-bibtex.el:308:22:Warning: assignment to free variable
> `end'
> > > org-ref-helm-bibtex.el:313:37:Warning: assignment to free variable
> > > `path'
> > > org-ref-helm-bibtex.el:313:37:Warning: reference to free variable `end'
> > > org-ref-helm-bibtex.el:311:16:Warning: looking-back called with 1
> > > argument,
> > >     but requires 2-3
> > >     org-ref-helm-bibtex.el:313:18:Warning: reference to free variable
> > >     `path'
> > >
> > > In org-ref-helm-load-completions-async:
> > > org-ref-helm-bibtex.el:367:22:Warning: assignment to free variable
> > >     `bibtex-completion-cached-candidates'
> > >     org-ref-helm-bibtex.el:371:20:Warning: assignment to free variable
> > >         `bibtex-completion-bibliography-hash'
> > >
> > > In org-ref-browser:
> > > org-ref-helm-bibtex.el:681:20:Warning: `show-all' is an obsolete
> > > function (as
> > >     of 25.1); use `outline-show-all' instead.
> > >     org-ref-helm-bibtex.el:712:61:Warning: assignment to free variable
> > >         `count-key-pos'
> > >         org-ref-helm-bibtex.el:715:68:Warning: reference to free
> > >         variable
> > >             `count-key-pos'
> > >
> > > Compiling file
> > > /home/tstl/.emacs.d/elpa/org-ref-20170523.1821/org-ref-helm.el a\
> > > t Fri May 26 14:59:58 2017
> > >
> > > In org-ref:
> > > org-ref-helm.el:289:78:Error: `add-to-list' can't use lexical var
> > > `matches';
> > >     use `push' or `cl-pushnew'
> > >     org-ref-helm.el:317:54:Error: `add-to-list' can't use lexical var
> > >     `matches';
> > >         use `push' or `cl-pushnew'
> > >         org-ref-helm.el:306:39:Error: `add-to-list' can't use lexical
> > >         var `matches';
> > >             use `push' or `cl-pushnew'
> > >             org-ref-helm.el:380:47:Warning: reference to free variable
> > >             `org-latex-prefer-user-labels'
> > >
> > > Compiling file
> > > /home/tstl/.emacs.d/elpa/org-ref-20170523.1821/org-ref-pdf.el at\
> > >  Fri May 26 14:59:59 2017
> > >
> > > In end of data:
> > > org-ref-pdf.el:248:1:Warning: the following functions are not known to
> > > be defin\
> > > ed:
> > >     pdf-view-assert-active-region, pdf-view-active-region-text,
> > >         pdf-view-deactivate-region
> > >
> > > Lars
> >
> >
> > --
> > 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
> >
>
> --
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

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