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Re: [O] helm-bibtex questions


From: Titus von der Malsburg
Subject: Re: [O] helm-bibtex questions
Date: Fri, 26 Jun 2015 10:21:40 -0700

On 2015-06-26 Fri 00:21, Xebar Saram wrote:
> Hi Titus
>
> Another round of helm-bibtex questions if you dont mind (question come
> since i use it 50 times a day now ;-))

No problem.  I’ve also learned a couple of things though this exchange.

> 1. is there a way (or a keybind) to select all entries filtered? now to
> select all my publications for example i have to use C-space
> repeatedly.

Key bindings are inherited from Helm so it’s useful to consult Helm’s
documentation for question of that type.  I just checked and found that
M-a selects all candidates.

> 2. what is the syntax for greater then? for example all articles > 2012
> (year)

I’m afraid that’s not possible because 2012 is just another string for
the purposes of matching.  But you may want to check Helm’s
documentation and mailing lists.  Helm is full of surprises.

> 4. i cant get helm-bibtex to search the biblatex field of pubstate. are
> biblatex (biber) supported/ i have this in my config?
>
> (setq helm-bibtex-additional-search-fields '(pubstate))

This works on my setup.  Helm-bibtex doesn’t really care whether
something is a BibTeX or a Biblatex field.  You should be able to use
any kind of field whether standard or not.  Note that additional search
fields are not displayed in the results list (they are only used for
matching).  Perhaps that’s why you thought it doesn’t work?

> also on a related issue i assume one can define many fields in the above
> example. since my elisp sucks would the syntax be this
>
> (setq helm-bibtex-additional-search-fields '(pubstate tags))

This is correct.

> or do you need to qoute them or use a , symbol?
>
> 5. i love the insert formatted reference (f5) option and use it often
> sending people references:
> a. does it also auto send that to the clipboard?

There is currently no way to copy references directly to the
clipboard.  My recommendation is to use one of Emacs’ mail clients, then
you don’t need the clipboard.  Mu4e is absolutely fantastic (especially
when combined with helm-mu).

> b. it cuts most of the authors name and leaves only the first few. is there
> a switch to get it to print all authors. is that a latex cite formatting
> issue?

Not sure what you mean by “cuts most of the authors”.  It doesn’t cut
anything in my setup.  Could you please provide an example?  (Perhaps
this is something for the issue tracker on Github.)

Best wishes,

  Titus


>
> best and thanks so much again
>
> Z
>
> On Mon, Jun 22, 2015 at 6:12 PM, Titus von der Malsburg <address@hidden>
> wrote:
>
>>
>>
>> Here is my CV in org-mode:
>>
>>   https://gist.github.com/tmalsburg/96084ba82281937c26b7
>>
>> It’s a pretty straightforward org document except for one thing: the key
>> to making this work was biblatex which can be used to create several
>> lists of references filtered according to keywords, author, etc.  This
>> allowed me to have separate sections for journal articles, conference
>> presentations, etc.  I store the relevant keywords in the tags field of
>> the BibTeX entries and since biblatex doesn’t know this field, I copy
>> the tags on-the-fly to the keywords field (see DeclareSourcemap in the
>> LaTeX headers).
>>
>>   Titus
>>
>> On 2015-06-22 Mon 07:28, Xebar Saram wrote:
>> > Hi John
>> >
>> > a bit off topic, but do you also write your academic CV in orgmode or
>> > lateX? in anycase would you mind sharing your org/latex CV template? it
>> > would be helpful as a starting point for me if thats possible.
>> >
>> > kind regards and thanks so much in advance
>> >
>> > Z
>> >
>> > On Sun, Jun 21, 2015 at 9:40 PM, John Kitchin <address@hidden>
>> > wrote:
>> >
>> >> sweet! I did not know you could do that! I will be refactoring org-ref
>> >> soon to do that instead of redefining the commands!
>> >>
>> >> 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 Sun, Jun 21, 2015 at 2:29 PM, Titus von der Malsburg <
>> >> address@hidden> wrote:
>> >>
>> >>>
>> >>> On 2015-06-19 Fri 03:56, Xebar Saram wrote:
>> >>> > Hi again Titus
>> >>> >
>> >>> > 2 quick questions that arose from using helm-bitex today extensively:
>> >>> >
>> >>> > how does one exclude in the search items? for example i want to
>> search
>> >>> for
>> >>> > xebar without keyword "progress" (I want to exclude in progress
>> articles
>> >>> > not published yet)
>> >>> >
>> >>> > is it possible to define default enter command in helm-bibtex ?
>> >>>
>> >>> Yes.  Helm uses the first action as the default action.  To move an
>> >>> action to the top of the list you can use the following code:
>> >>>
>> >>>   (helm-delete-action-from-source "Insert BibTeX key"
>> helm-source-bibtex)
>> >>>   (helm-add-action-to-source "Insert BibTeX key"
>> 'helm-bibtex-insert-key
>> >>> helm-source-bibtex 0)
>> >>>
>> >>> The second argument in the second line is the function that executes
>> the
>> >>> action.  Here is a list of all actions and their functions:
>> >>>
>> >>>   Open PDF file (if present): helm-bibtex-open-pdf
>> >>>   Open URL or DOI in browser: helm-bibtex-open-url-or-doi
>> >>>   Insert citation: helm-bibtex-insert-citation
>> >>>   Insert reference: helm-bibtex-insert-reference
>> >>>   Insert BibTeX key: helm-bibtex-insert-key
>> >>>   Insert BibTeX entry: helm-bibtex-insert-bibtex
>> >>>   Attach PDF to email: helm-bibtex-add-PDF-attachment
>> >>>   Edit notes: helm-bibtex-edit-notes
>> >>>   Show entry: helm-bibtex-show-entry
>> >>>
>> >>> Best,
>> >>>
>> >>>   Titus
>> >>>
>> >>> >
>> >>> > best
>> >>> >
>> >>> > Z
>> >>> >
>> >>> > On Thu, Jun 18, 2015 at 9:38 PM, Titus von der Malsburg <
>> >>> address@hidden>
>> >>> > wrote:
>> >>> >
>> >>> >>
>> >>> >> On 2015-06-18 Thu 04:32, Xebar Saram wrote:
>> >>> >> > Hi Titus and thx so much for the answers!
>> >>> >> >
>> >>> >> > i will in the future use the github page to make requests.
>> >>> >> >
>> >>> >> > "The number of matches will be displayed in the mode line. "
>> >>> >> >
>> >>> >> > i see that now thx! :) the problem was(is) that its colored black
>> on
>> >>> my
>> >>> >> > black modline BG which makes it invisible ;-) i assume thats an
>> helm
>> >>> >> config
>> >>> >> > i need to change
>> >>> >> >
>> >>> >> >
>> >>> >> > "If you don’t want to type these search expressions, you could
>> >>> create a
>> >>> >> > command that invokes helm-bibtex with a default search expression
>> and
>> >>> >> that
>> >>> >> > command could be bound to a keyboard shortcut."
>> >>> >> >
>> >>> >> > that would be prefect for me and a solution to my issue. would you
>> >>> mind
>> >>> >> > giving an example of such a code chunk. unfortunately i dont know
>> >>> elisp
>> >>> >> though
>> >>> >> > as john recommended i will do my best this summer when the
>> semester
>> >>> ends
>> >>> >> to
>> >>> >> > try and pick it up :)
>> >>> >>
>> >>> >> Sure, here you go:
>> >>> >>
>> >>> >> #+BEGIN_SRC elisp
>> >>> >> ;; Define helm-search with predefined search expression:
>> >>> >> (defun helm-bibtex-my-publications ()
>> >>> >>   "Search BibTeX entries authored by Xebar Saram."
>> >>> >>   (interactive)
>> >>> >>   (helm :sources '(helm-source-bibtex)
>> >>> >>         :full-frame t
>> >>> >>         :input "xebar saram"
>> >>> >>         :candidate-number-limit 500))
>> >>> >>
>> >>> >> ;; Bind this search function to Ctrl-x p:
>> >>> >> (global-set-key (kbd "C-x p") 'helm-bibtex-my-publications)
>> >>> >> #+END_SRC
>> >>> >>
>> >>> >> > i will definitely use your tag system as you recommended, sounds
>> >>> perfect
>> >>> >> > for me
>> >>> >>
>> >>> >> The tag system also comes in handy when generating publication lists
>> >>> for
>> >>> >> CVs and web pages because BibTeX does not distinguish between
>> >>> conference
>> >>> >> papers, posters, and talks.  If you have tags for that, it’s
>> relatively
>> >>> >> easy to create separate sections for these types of publications
>> using
>> >>> >> biblatex or bib2bib and bibtex2html in the case of web pages.
>> >>> >>
>> >>> >> > thanks again for your kind help and the amazing app ;-)
>> >>> >>
>> >>> >> You are welcome.
>> >>> >>
>> >>> >>   Titus
>> >>> >>
>> >>> >> >
>> >>> >> > best
>> >>> >> >
>> >>> >> > Z
>> >>> >> >
>> >>> >> >
>> >>> >> >
>> >>> >> > On Wed, Jun 17, 2015 at 11:02 PM, Titus von der Malsburg <
>> >>> >> address@hidden
>> >>> >> >> wrote:
>> >>> >> >
>> >>> >> >>
>> >>> >> >> On 2015-06-17 Wed 11:08, Xebar Saram wrote:
>> >>> >> >> > Hi Titus
>> >>> >> >> >
>> >>> >> >> > I have been exploring helm-bibtex a bit today and have some
>> >>> questions.
>> >>> >> >> btw
>> >>> >> >> > is this the preferred way to make requests/ask questions or is
>> >>> >> >> > github preferred?
>> >>> >> >>
>> >>> >> >> Helm-bibtex is not part of org (although it tries to work well
>> with
>> >>> >> >> org).  So I’m not sure whether this list is the best place for
>> >>> >> >> discussing it.  For now the issue tracker on Github might be a
>> >>> better
>> >>> >> >> option:
>> >>> >> >>
>> >>> >> >>   https://github.com/tmalsburg/helm-bibtex/issues
>> >>> >> >>
>> >>> >> >> > in any case i was wondering a few things:
>> >>> >> >> >
>> >>> >> >> > 1. is it possible to have custom sorting? i want all views to
>> >>> sort by
>> >>> >> >> > Author, year, month
>> >>> >> >>
>> >>> >> >> I prefer to see the entries in the (inverse) order in which they
>> >>> appear
>> >>> >> >> in the BibTeX file.  This way, recent additions show up at the
>> >>> >> >> top.  However, I agree that sorting would be useful (see issues
>> #5
>> >>> and
>> >>> >> >> #21); it just doesn’t have high priority for me.  Pull requests
>> >>> welcome.
>> >>> >> >>
>> >>> >> >> > 2. i would really like a way to have stored smart groups (like
>> the
>> >>> >> jabref
>> >>> >> >> > dynamic groups if your aware of that). that is for example
>> create
>> >>> a
>> >>> >> group
>> >>> >> >> > that auto selects all publications i have (by my first/last
>> name)
>> >>> and
>> >>> >> >> shows
>> >>> >> >> > the count (in numbers) of these publications.
>> >>> >> >>
>> >>> >> >> I’m not familiar with smart groups but it seems that all
>> >>> helm-bibtex is
>> >>> >> >> doing is giving you very flexible smart groups defined by your
>> >>> search
>> >>> >> >> expressions.  For example, if you want a list of your
>> publications,
>> >>> you
>> >>> >> >> can simple enter your name.  And if you want a list of your
>> >>> articles,
>> >>> >> >> you can enter your name + “article”.  If you want all your
>> articles
>> >>> from
>> >>> >> >> 2010, enter your name + “articles 2010”.  And so on.  The number
>> of
>> >>> >> >> matches will be displayed in the mode line.  If you don’t want to
>> >>> type
>> >>> >> >> these search expressions, you could create a command that invokes
>> >>> >> >> helm-bibtex with a default search expression and that command
>> could
>> >>> be
>> >>> >> >> bound to a keyboard shortcut.
>> >>> >> >>
>> >>> >> >> > Another example is a group to keep track of all the papers im
>> >>> working
>> >>> >> on
>> >>> >> >> or
>> >>> >> >> > invloved with by matching keyword author and prep/*other key
>> word
>> >>> >> >>
>> >>> >> >> I use two BibTeX fields to tag entries: “keywords” for keywords
>> >>> >> >> describing the content of the paper (as usual) and “tags” for
>> meta
>> >>> >> >> data.  Values that I use in tags are “own”, “manuscript”,
>> “poster”,
>> >>> >> >> “talk”, … So if I want a list of all articles in progress, I
>> search
>> >>> for
>> >>> >> >> “own manuscript”.  Since the tags field is non-standard, it has
>> to
>> >>> be
>> >>> >> >> added to `helm-bibtex-additional-search-fields`.
>> >>> >> >>
>> >>> >> >> Another solution would be to use the pubstate field and to search
>> >>> for
>> >>> >> >> your name and “forthcoming” (add pubstate to
>> >>> >> >> helm-bibtex-additional-search-fields for this to work).
>> >>> >> >>
>> >>> >> >> > 3.is it possible to ass an option to auto generate a bibkey
>> for a
>> >>> >> >> selected
>> >>> >> >> > citation based on user criteria such as
>> author(date)short-title?
>> >>> >> >>
>> >>> >> >> Maintaining the content of the BibTeX file not really in the
>> scope
>> >>> of
>> >>> >> >> helm-bibtex (I prefer to write my BibTeX entries by hand).
>> Perhaps
>> >>> >> >> org-ref or ebib can help here?  Once you have a function that
>> >>> generates
>> >>> >> >> a new key and inserts it in the BibTeX file, you can easily add
>> it
>> >>> to
>> >>> >> >> the list of actions in helm-bibtex.
>> >>> >> >>
>> >>> >> >> Hope that helps.
>> >>> >> >>
>> >>> >> >>   Titus
>> >>> >> >>
>> >>> >> >> > thx so much in advance, you and john have given me confidence
>> to
>> >>> >> finally
>> >>> >> >> > dive into the whole latex/bibteX world
>> >>> >> >> >
>> >>> >> >> > best
>> >>> >> >> >
>> >>> >> >> > Z
>> >>> >> >>
>> >>> >> >>
>> >>> >>
>> >>> >>
>> >>>
>> >>>
>> >>
>>
>>

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