Re: [O] Organizing and taming hectic Academia work (faculty viewpoint)? Tips or a good guides sought after :)

[Phillip Lord]

For me, I was interested in integrating it with my literate work
(lentic). The idea would be a document with some formal representation
(using OWL, but it could be anything at all) and some English (or bad
English as this is science) representation in the org-mode view.

I could hide the formal view, and use this to generate a word doc for
the biologists to say "is this what you said, and what you mean?". Then
use their comments and feedback to update both the English AND the
formal representation.

I've already had a paper bounced on the (daft) grounds that "biologists
are never going to use Emacs and Clojure" (which I never said they
would). A word based representation would be fantastic.

I shall investigate further.

Phil

John Kitchin <address@hidden> writes:

> I also wasn't familiar with it.
>
> I just played around with it a bit to see if you could integrate org-ref
> with this. You mostly can do it, but the document probably would need
> some final manual polishing for some things.
>
> http://kitchingroup.cheme.cmu.edu/blog/2015/06/11/ox-pandoc-org-mode-+-org-ref-to-docx-with-bibliographies/
>
>
>
> Phillip Lord writes:
>
>> I didn't know about this -- this could be a killer feature for me. I
>> work a lot with biologists and medics and they are completely
>> word-centric.
>>
>> Phil
>>
>> Titus von der Malsburg <address@hidden> writes:
>>
>>> On 2015-06-10 Wed 07:14, Ken Mankoff wrote:
>>>> I found a happy medium working in Org, exporting to LaTeX, and then
>>>> using Pandoc to convert to Word.
>>>
>>> With ox-pandoc you can export to .docx directly.  No need to go through
>>> LaTeX.  Ox-pandoc is pretty amazing.
>>>
>>>   Titus
>>>
>>>> I would send the Word and always the canonical PDF version in case some
>>>> equations got messed up. This requires manually incorporating the tracked
>>>> changes from Word, but I've never been a fan of just clicking "accept" on
>>>> changes anyway, and don't mind the manual re-integration of comments.
>>>>
>>>>   -k.
>>>>
>>>>
>>>> On 2015-06-10 at 09:49, John Kitchin <address@hidden> wrote:
>>>>> Speaking as an advisor/teacher, you should do what they want if you want
>>>>> them to help you.
>>>>>
>>>>> You could ask if they are willing to comment on the pdf, either by hand
>>>>> writing on a printed version, or by pdf commenting, or maybe in the
>>>>> LaTeX source. But, if that is not what they want, and they cannot work
>>>>> with what you give them, you will not get as much feedback as you want,
>>>>> and you will end up creating frustration on your end and theirs.
>>>>>
>>>>> windy writes:
>>>>>
>>>>>> Another question, I am a student , I think it is a big problem that how 
>>>>>> to
>>>>>> exchange you article with your teacher, because the teacher will comment
>>>>>> or revise your article once again and again.
>>>>>>
>>>>>> However, Many teachers will not use emacs to write articles and also the
>>>>>> pdf file is not so convenient to do some modification, how will you deal
>>>>>> with the problem ?
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> 在2015年06月09 21时21分, "John Kitchin"<address@hidden>写道:
>>>>>>
>>>>>> you might also enjoy our youtube video:
>>>>>> https://www.youtube.com/watch?v=fgizHHd7nOo
>>>>>>
>>>>>> And this one on using org-mode in teaching:
>>>>>> https://www.youtube.com/watch?v=IsSMs-4GlT8&list=FLQp2VLAOlvq142YN3JO3y8w
>>>>>>
>>>>>> and
>>>>>> https://www.youtube.com/watch?v=cRUCiF2MwP4
>>>>>>
>>>>>> See http://github.com/jkitchin/jmax for my Emacs setup for
>>>>>> org-mode.
>>>>>>
>>>>>> My only other advice is start learning to program in emacs-lisp. It took
>>>>>> me about four years to get proficient enough to write org-ref. I learned
>>>>>> by solving lots of little problems, and building up to bigger
>>>>>> problems. A lot of those are documented in my blog. Read the emacs and
>>>>>> emacs-lisp manuals (read them in Emacs or in a browser). They take some
>>>>>> time, so skip the stuff that doesn't make sense and come back to it
>>>>>> later if you need to. Consider getting the book at
>>>>>> https://www.masteringemacs.org. It isn't about org-mode, but it will
>>>>>> make you better at using Emacs. Consider reading Land of Lisp. It isn't
>>>>>> about Emacs or Emacs-lisp, but it might interest you in programming in a
>>>>>> lispy language, and it is a fun read.
>>>>>>
>>>>>> Buy the org-mode book:
>>>>>> http://www.amazon.com/Org-Mode-Reference-Manual-Organize/dp/9881327709/ref=sr_1_1?ie=UTF8&qid=1433855847&sr=8-1&keywords=org-mode.
>>>>>> yes,
>>>>>> it is the same stuff as in the manual, but it is a book you can read
>>>>>> anywhere anytime.
>>>>>>
>>>>>> Start by learning how to get org-mode to do some things you want. Just
>>>>>> do one thing a day. Every day.
>>>>>>
>>>>>> You hopefully have 30+ years of career ahead of you, so even if it takes
>>>>>> a few years or more to learn how to program in emacs-lisp to customize
>>>>>> your workflows, you still have plenty of time to benefit from it!
>>>>>>
>>>>>> Best wishes,
>>>>>>
>>>>>> Holger Wenzel writes:
>>>>>>
>>>>>>> Hi Xebar,
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> Xebar Saram <zeltakc <at> gmail.com> writes:
>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> Dear Martin
>>>>>>>> Thanks so much for your prompt response. I did ofc do an extensive 
>>>>>>>> google
>>>>>>> research yet found that as can be seen in your link most entries focus 
>>>>>>> on
>>>>>>> either writing papers or general bits an pieces .What i am looking for 
>>>>>>> is a
>>>>>>> holistic approach regarding organizing all aspects of academic life and 
>>>>>>> to
>>>>>>> hear workflows of other colleagues using org for that
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> I'd start with:
>>>>>>>
>>>>>>> http://kitchingroup.cheme.cmu.edu/blog/2014/08/08/What-we-are-using-org-
>>>>>>> mode-for/
>>>>>>>
>>>>>>> follow John Kitchin's blog there closely and read everything he posts in
>>>>>>> this list.
>>>>>>>
>>>>>>> Cheers,
>>>>>>>
>>>>>>> Holger
>>>>>>>> z
>>>>>>>>
>>>>>>>>
>>>>>>>> On Tue, Jun 9, 2015 at 12:16 AM, M <Elwood151 <at> web.de> wrote:
>>>>>>>> >
>>>>>>>> >
>>>>>>>> > Von: Xebar Saram <zeltakc <at> gmail.com>
>>>>>>>> > Datum: Mon, 8 Jun 2015 19:39:14 +0300
>>>>>>>> > An: org mode <emacs-orgmode <at> gnu.org>
>>>>>>>> > Betreff: [O] Organizing and taming hectic Academia work (faculty
>>>>>>> viewpoint)?
>>>>>>>> > Tips or a good guides sought after :)
>>>>>>>> >> Hi all
>>>>>>>> >
>>>>>>>> > Im a young assistant professor (in humanities and thus my horrific
>>>>>>> coding
>>>>>>>> > skills..basically non ) and having been using orgmode for a year or 
>>>>>>>> > two
>>>>>>>> > now. I love orgmode dearly and use it mainly for note taking, lists 
>>>>>>>> > etc
>>>>>>>> >
>>>>>>>> > I am aware of the fantastic orgmode capabilities that could benefit 
>>>>>>>> > me
>>>>>>> greatly
>>>>>>>> > such as exporting, email tie-ins, beamer support, organizing my
>>>>>>> bibliography
>>>>>>>> > (i have switched to a .bib file recently for my references), agenda
>>>>>>>> > capabilities and so much moreand have tried several of these with 
>>>>>>>> > mild
>>>>>>>> > success.
>>>>>>>> >
>>>>>>>> > unfortunately (and this maybe due to me not being very technical and
>>>>>>> lack of
>>>>>>>> > coding skills) i still feel like im really not using orgmode to its
>>>>>>> potential
>>>>>>>> > and still feel miserably lost in terms of organizing my work in 
>>>>>>>> > academia
>>>>>>> from
>>>>>>>> > all aspects.
>>>>>>>> >
>>>>>>>> > i am looking for 2 things really:
>>>>>>>> > 1. as i said in the post topic a good guide if anyone is aware of or
>>>>>>> detailed
>>>>>>>> > examples of using org in Academia (mainly aimed at faculty :))
>>>>>>>> >
>>>>>>>> > 2. related to that as a young researcher with multiple students, 
>>>>>>>> > paper
>>>>>>>> > writing, grant applications, department duties, endless TODOS, 
>>>>>>>> > endless
>>>>>>> email i
>>>>>>>> > would really be grateful for even non org specific tips on how other
>>>>>>> people
>>>>>>>> > organize all this to make life more..well..organized :)
>>>>>>>> >
>>>>>>>> > thanks alot in advance and sorry for the long mail
>>>>>>>> >
>>>>>>>> > best
>>>>>>>> >
>>>>>>>> > Z
>>>>>>>>
>>>>>>>> Dear Xebar,
>>>>>>>> I think the first 10 results of the correspondindg google search 
>>>>>>>> already
>>>>>>>> show some very interesting examples:http://www.google.com/search?
>>>>>>> client=safari&rls=en&q=emacs+org-mode+in+resear
>>>>>>>> ch&ie=UTF-8&oe=UTF-8
>>>>>>>> Did you have a look at those?
>>>>>>>> Kind regards
>>>>>>>> Martin
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>
>
> --
> 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
>
>

-- 
Phillip Lord,                           Phone: +44 (0) 191 208 7827
Lecturer in Bioinformatics,             Email: address@hidden
School of Computing Science,            
http://homepages.cs.ncl.ac.uk/phillip.lord
Room 914 Claremont Tower,               skype: russet_apples
Newcastle University,                   twitter: phillord
NE1 7RU