From mboxrd@z Thu Jan 1 00:00:00 1970 From: Xebar Saram Subject: Re: jabref like orgmode based solution to bibliography management (not for latex) Date: Sat, 5 Dec 2015 14:17:30 +0200 Message-ID: References: <87r3py5b8f.fsf@posteo.de> <87h9qs67i9.fsf@posteo.de> Mime-Version: 1.0 Content-Type: multipart/alternative; boundary=001a114bc05cac90bb0526259b01 Return-path: Received: from eggs.gnu.org ([2001:4830:134:3::10]:46212) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1a5BmP-0002Dl-B2 for emacs-orgmode@gnu.org; Sat, 05 Dec 2015 07:17:35 -0500 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1a5BmN-0002iT-LD for emacs-orgmode@gnu.org; Sat, 05 Dec 2015 07:17:33 -0500 Received: from mail-yk0-x230.google.com ([2607:f8b0:4002:c07::230]:36515) by eggs.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1a5BmN-0002iP-Eb for emacs-orgmode@gnu.org; Sat, 05 Dec 2015 07:17:31 -0500 Received: by ykdr82 with SMTP id r82so150498380ykd.3 for ; Sat, 05 Dec 2015 04:17:31 -0800 (PST) In-Reply-To: <87h9qs67i9.fsf@posteo.de> List-Id: "General discussions about Org-mode." List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: emacs-orgmode-bounces+geo-emacs-orgmode=m.gmane.org@gnu.org Sender: emacs-orgmode-bounces+geo-emacs-orgmode=m.gmane.org@gnu.org To: Titus von der Malsburg Cc: org mode --001a114bc05cac90bb0526259b01 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: quoted-printable Hi again Titus and list so the semester is finally nearing the end which means i finally have some time (and a life :)) to get back to what i partially started a few months ago. i have a question regarding Predefined searches. i have a search that works well for searching papers i authored. i am thinking of moving towards 2 bib files instead of 1 big one, that is one for my papers and one for the rest (any disadvantages of using 2 bib files?). i want to add in the Predefined search to only draw from my file (mypaper.b= ib), even though in the default helm-bibtex sources it will have 2 inputs. is such a thing possible? this is how a current search i have looks like #+BEGIN_SRC emacs-lisp :results none ;; Define helm-search with predefined search expression: (defun helm-bibtex-ikloog-publications () "Search BibTeX entries authored by me" (interactive) (helm :sources '(helm-source-bibtex) :full-frame t :input "kloog !unpublished !prep " :candidate-number-limit 500)) #+END_SRC how does one add the specific .bib file filter? best Z On Sun, May 31, 2015 at 7:23 PM, Titus von der Malsburg wrote: > > On 2015-05-31 Sun 03:01, Xebar Saram wrote: > > Thanks so much everyone for these great replies. i will investigate thi= s > > further today and let everyone know how im going with my transition :) > > > > thanks again > > > > PS: Titus, do you think that the helm-bibtex APA style reference list > > could be user customizable in the future? > > Depends on what you mean by customizable. If you mean a customization > option to allows you to replace the function for APA formatting with > another function, then yes that would definitely make sense. > > Titus > > > > > Z. > > > > On Sat, May 30, 2015 at 6:56 PM, John Kitchin > > wrote: > > > >> > >> > >> On Saturday, May 30, 2015, Titus von der Malsburg > >> wrote: > >> > >>> > >>> On 2015-05-30 Sat 01:20, Xebar Saram wrote: > >>> > Hi all > >>> > > >>> > i have been using jabref for the past 2-4 years in my academia work > to > >>> > manage my reference library. i dont use latex (..its on my TODO > >>> list...when > >>> > (f ever) i have time..) so for now i just want something to manage = my > >>> > references. the key things i need to move over from jabref are: > >>> > >>> Author of helm-bibtex here. > >>> > >>> > 1. easy add references > >>> > >>> Helm-bibtex doesn=E2=80=99t deal with this because I prefer to edit m= y BibTeX > >>> file by hand. BibTeX retrieved from journals is almost always messy > and > >>> I need to edit it anyway. It=E2=80=99s not too hard, though: I click= on BibTeX > >>> export on the journal page, the BibTeX file is opened in Emacs, I fix > >>> it, and use a command that appends it to my bibliography. > >>> > >>> However, I think org-ref has tools that do more to support importing > new > >>> entries and org-ref combines well with helm-bibtex. > >> > >> > >> Org-ref has doi-utils that let you add bibtex entries and download PDF= s > >> from a doi or crossref query. > >> > >> > >>> > >>> > 2. a way to quick filter references (helm bibtex seems like a good > >>> solution) > >>> > >>> That=E2=80=99s what helm-bibtex was written to solve. > >>> > >>> > 3. filter lists based on tags/keywords (orgmode has that covered) > >>> > >>> In helm-bibtex you can also search for keywords and tags. > >>> > >>> > 4. this one is important: a way to quickly export selected > references in > >>> > word/odf/html based on a pre fixed style (ie Nature, Chicago etc) > >>> > >>> helm-bibtex can generate references in APA style but as far as I can > see > >>> Chicago style is very similar, so it shouldn=E2=80=99t be hard to add= support > >>> for that. > >>> > >>> > anyone uses such a system in emacs/org and can recommend the way to > >>> > go? > >>> > >>> For more details, see: https://github.com/tmalsburg/helm-bibtex > >>> > >>> Titus > >>> > >>> > >> > >> -- > >> 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 > >> > >> > >> > > --001a114bc05cac90bb0526259b01 Content-Type: text/html; charset=UTF-8 Content-Transfer-Encoding: quoted-printable
Hi again Titus and list

so the semester= is finally nearing the end which means i finally have some time (and a lif= e :)) to get back to what i partially started a few months ago.
<= br>
i have a question regarding=C2=A0Predefined searches. i have = a search that works well for searching papers i authored.=C2=A0
i= am thinking of moving towards 2 bib files instead of 1 big one, that is on= e for my papers and one for the rest (any disadvantages of using 2 bib file= s?).
i want to add in the=C2=A0Predefined search to only draw fro= m my file (mypaper.bi= b), even though in the default helm-bibtex sources it will have 2 inputs. is such a thing possib= le?

this is how a current search i have looks like=

#+BEGIN_SRC emacs<= /span>-lisp :results none

=C2=A0;; Define helm-sea= rch with predefined search expression:
=C2=A0(defun helm-bibtex-ikloog-publications ()
=C2=A0 =C2=A0"Search BibTeX entries authored by= me"
=C2=A0 =C2=A0(interactive)
=C2=A0 =C2=A0(helm= :sources '(helm-source-bibtex)
=C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0:full-frame t
=C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0:input "kloog !unpublished !prep "
=C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0:candidate-number-limit 500))
#+END_SRC

how does one add the specific .bib file filter?<= /div>

best

Z

On Sun, May 31, 2015 at = 7:23 PM, Titus von der Malsburg <malsburg@posteo.de> wrote:=

On 2015-05-31 Sun 03:01, Xebar Saram wrote:
> Thanks so much everyone for these great replies. i will investigate th= is
> further today and let everyone know how im going with my transition :)=
>
> thanks again
>
> PS: Titus, do you think=C2=A0 that the helm-bibtex APA style reference= list
> could be user customizable in the future?

Depends on what you mean by customizable.=C2=A0 If you mean a custom= ization
option to allows you to replace the function for APA formatting with
another function, then yes that would definitely make sense.

=C2=A0 Titus

>
> Z.
>
> On Sat, May 30, 2015 at 6:56 PM, John Kitchin <jkitchin@andrew.cmu.edu>
> wrote:
>
>>
>>
>> On Saturday, May 30, 2015, Titus von der Malsburg <malsburg@posteo.de>
>> wrote:
>>
>>>
>>> On 2015-05-30 Sat 01:20, Xebar Saram wrote:
>>> > Hi all
>>> >
>>> > i have been using jabref for the past 2-4 years in my aca= demia work to
>>> > manage my reference library. i dont use latex (..its on m= y TODO
>>> list...when
>>> > (f ever) i have time..) so for now i just want something = to manage my
>>> > references. the key things i need to move over from jabre= f are:
>>>
>>> Author of helm-bibtex here.
>>>
>>> > 1. easy add references
>>>
>>> Helm-bibtex doesn=E2=80=99t deal with this because I prefer to= edit my BibTeX
>>> file by hand.=C2=A0 BibTeX retrieved from journals is almost a= lways messy and
>>> I need to edit it anyway.=C2=A0 It=E2=80=99s not too hard, tho= ugh: I click on BibTeX
>>> export on the journal page, the BibTeX file is opened in Emacs= , I fix
>>> it, and use a command that appends it to my bibliography.
>>>
>>> However, I think org-ref has tools that do more to support imp= orting new
>>> entries and org-ref combines well with helm-bibtex.
>>
>>
>> Org-ref has doi-utils that let you add bibtex entries and download= PDFs
>> from a doi or crossref query.
>>
>>
>>>
>>> > 2. a way to quick filter references (helm bibtex seems li= ke a good
>>> solution)
>>>
>>> That=E2=80=99s what helm-bibtex was written to solve.
>>>
>>> > 3. filter lists based on tags/keywords (orgmode has that = covered)
>>>
>>> In helm-bibtex you can also search for keywords and tags.
>>>
>>> > 4. this one is important: a way to quickly export selecte= d references in
>>> > word/odf/html based on a pre fixed style (ie=C2=A0 Nature= , Chicago etc)
>>>
>>> helm-bibtex can generate references in APA style but as far as= I can see
>>> Chicago style is very similar, so it shouldn=E2=80=99t be hard= to add support
>>> for that.
>>>
>>> > anyone uses such a system in emacs/org and can recommend = the way to
>>> > go?
>>>
>>> For more details, see: https://github.com/tmals= burg/helm-bibtex
>>>
>>>=C2=A0 =C2=A0Titus
>>>
>>>
>>
>> --
>> 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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