Re: Problem with org-ref

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

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What about the value of org-ref-pdf-directory. This seems to be where your
error is coming from. Your debugger info suggests it is set to nil.

Debugger entered--Lisp error: (wrong-type-argument stringp nil)
  file-name-as-directory(nil)
  org-ref-open-bibtex-notes()
  doi-utils-insert-bibtex-entry-fr

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 Thu, Dec 24, 2015 at 10:16 PM, Andreas Kiermeier <
andreas.kiermeier@gmail.com> wrote:

> I've set the HOME environment variable to "C:/Users/andre_000/Documents"
> and hence need the .. to get into the Dropbox folder.
>
> Executing (find-file org-ref-bibliography-notes) does find and open the
> correct notes file.
>
> Using an absolute path, as in:
>
> (setq org-ref-bibliography-notes
> "C:/Users/andre_000/Dropbox/_biblio/org-ref/bibnotes.org"
>       org-ref-default-bibliography
> '("C:/Users/andre_000/Dropbox/_biblio/refs.bib"))
>
> results in the same error.
>
> After dropping a PDF file into the .bib file I end up with the following
> additional entry (for example) in the bibnotes.org file. I thought I'd
> include it just to ensure that nothing gets chopped of - this entry
> correctly reflect the PDF.
>
> ** TODO 2007 - Taenia Saginata in Europe
>  :PROPERTIES:
>   :Custom_ID: dorny_2007
>   :AUTHOR: Dorny \& Praet
>   :JOURNAL: Veterinary Parasitology
>   :YEAR: 2007
>   :VOLUME: 149
>   :PAGES: 22-24
>   :DOI: 10.1016/j.vetpar.2007.07.004
>   :URL: http://dx.doi.org/10.1016/j.vetpar.2007.07.004
>  :END:
>
> Does the notes file need a specific set up in terms of headers etc?
>
>
> --
> Dr Andreas Kiermeier | Director
> Statistical Process Improvement Consulting and Training Pty Ltd
> Mbl: +61 (4)23 028 565 | Email: andreas.kiermeier@gmail.com
> Australia
>
> On 25 December 2015 at 13:17, John Kitchin <jkitchin@andrew.cmu.edu>
> wrote:
>
>> That is an odd looking path. On Mac that would expand to something like
>>
>> /Users/Dropbox/_biblio/org-ref/bibnotes.org
>>
>> and on linux
>>
>> /home/Dropbox/_biblio/org-ref/bibnotes.org
>>
>> usually you should not have permission for that, and neither make sense
>> to me.
>>
>> Does (file-exists-p org-ref-bibliography-notes) return true?
>>
>> or alternatively does (find-file org-ref-bibliography-notes) actually
>> open a writable file?
>>
>> I would think this is what you want (unless you have some unusual setup
>> and permissions):
>>
>> (setq org-ref-bibliography-notes "~/Dropbox/_biblio/org-ref/bibnotes.org"
>>        org-ref-default-bibliography '("~/Dropbox/_biblio/refs.bib"))
>>
>> i.e. no .. in the path.
>>
>> Andreas Kiermeier writes:
>>
>> > Hi John,
>> >
>> > I've set it at follows (based on your setup) in my init.el file:
>> >
>> > (setq org-ref-bibliography-notes "~/../Dropbox/_biblio/org-ref/
>> bibnotes.org"
>> >       org-ref-default-bibliography '("~/../Dropbox/_biblio/refs.bib"))
>> >
>> > So, non-nil.
>> >
>> > Andreas
>> >
>> > On 25 December 2015 at 00:45, John Kitchin <jkitchin@andrew.cmu.edu>
>> wrote:
>> >
>> >>
>> >> On Thu, Dec 24, 2015 at 1:04 AM, Andreas Kiermeier <
>> >> andreas.kiermeier@gmail.com> wrote:
>> >>
>> >>> org-ref-open-bibtex-notes()
>> >>
>> >>
>> >> That looks like a different error that occurs in
>> org-ref-open-bibtex-notes().
>> >> Up to that point everything looks normal.
>> >>
>> >> What do you have your org-ref-bibliography-notes variable set to? The
>> >> default value is nil which would cause that error.
>> >>
>> >>
>> >>
>> >> 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
>> >>
>> >>
>>
>> --
>> 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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