From: Andreas Leha <andreas.leha@med.uni-goettingen.de>
To: emacs-orgmode@gnu.org
Subject: Re: [BUG] [babel] [R] :colnames yes conflicts with :results file
Date: Tue, 06 Jan 2015 15:39:41 +0000 [thread overview]
Message-ID: <olu7fwzgbpe.fsf@med.uni-goettingen.de> (raw)
In-Reply-To: m2oaqc3toj.fsf@krugs.de
Hi Rainer,
Thanks for following up on this.
Rainer M Krug <Rainer@krugs.de> writes:
> Andreas Leha <andreas.leha@med.uni-goettingen.de> writes:
>
>> Hi all,
>
> Hi
>
>>
>> There seems to be a bug in babel (at least for R) when it comes to
>> source blocks producing file links but taking tables with headers. In
>> that case, ':colnames yes' disables the ':results file' directive.
>
> I don't think this is a bug as it is not clear what should happen.
I disagree. I consider it a bug because it is a functional limitation.
If I see it correctly, there is no way to generate a file link when
passing a table with header.
I'd expect the :colnames yes to take effect only if there is actually a
table. If that was the behaviour, then there would be no functional
limitation of that kind.
> In the org manual it states concerning the :results file
>
> ,----
> | * `file' The results will be interpreted as the path to a file, and
> | will be inserted into the Org mode buffer as a file link. E.g.,
> | `:results value file'.
> `----
>
> But the :colnames only works on tables (i.e. :results table) - but the
> result is represented as a link to a file. So what should happen?
Well, I think -- as you say -- :colnames works only on tables. Since
there is no table (more than that, actually: I specifically do *not
want* a table), the :colnames should not apply.
I ask org to produce a file link but get a table. For me that clearly
is unexpected.
>
> If you would like to have a table with links to files, the easiest is to
> put the file names into [[]] in R and then return them in a table - or
> use :results output and "draw" the table.
Exactly.
>
> But as it stands, these two header arguments do not go together.
>
> It would be nice to have a warning (or even error) in org, or at least a
> table of header argument precedence.
I'd say a warning does not fix this. As I might need ':colnames yes'
for an input table and ':results file' for the output.
At least that is my view.
Thanks,
Andreas
>
> By the way - never used the :results file - but now I will! Thanks.
>
> Hope this helps,
>
> Rainer
>
>
>>
>> Here is the Cm:
>> * test
>>
>> #+BEGIN_SRC R :results file replace
>> "some_file.csv"
>> #+END_SRC
>>
>> #+RESULTS:
>> [[file:some_file.csv]]
>>
>> #+BEGIN_SRC R :colnames yes :results file replace
>> "some_file.csv"
>> #+END_SRC
>>
>> #+RESULTS:
>> | x |
>> |---------------|
>> | some_file.csv |
>>
>>
>>
>> * My Setup
>> #+begin_src emacs-lisp
>> (concat
>> (replace-regexp-in-string " on .*" "" (emacs-version))
>> "\n"
>> (replace-regexp-in-string " @.*" ")" (org-version nil t))
>> "\n"
>> (replace-regexp-in-string "].*" "]" (ess-version)))
>> #+end_src
>>
>> #+RESULTS:
>> : GNU Emacs 24.4.50.1 (x86_64-apple-darwin13.3.0, NS appkit-1265.21 Version 10.9.4 (Build 13E28))
>> : of 2014-09-02
>> : Org-mode version 8.3beta (release_8.3beta-717-ga8096c)
>> : ess-version: 14.05 [git: 4283f1304a54502c42707b6a4ba347703f0992dd]
>>
>> Regards,
>> Andreas
>>
>>
>>
next prev parent reply other threads:[~2015-01-06 15:41 UTC|newest]
Thread overview: 10+ messages / expand[flat|nested] mbox.gz Atom feed top
2015-01-06 12:40 [BUG] [babel] [R] :colnames yes conflicts with :results file Andreas Leha
2015-01-06 13:49 ` Rainer M Krug
2015-01-06 15:39 ` Andreas Leha [this message]
2015-01-06 17:50 ` Aaron Ecay
2015-01-07 9:11 ` Rainer M Krug
2015-01-06 16:01 ` Thomas S. Dye
2015-01-07 9:19 ` Rainer M Krug
2015-01-07 17:14 ` Thomas S. Dye
2015-01-07 9:33 ` Sebastien Vauban
2015-01-07 13:45 ` Rainer M Krug
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