From: Nick Dokos <nicholas.dokos@hp.com>
To: "Christopher W. Ryan" <cryan@binghamton.edu>
Cc: nicholas.dokos@hp.com, emacs-orgmode@gnu.org
Subject: Re: Babel problem (was how do scientists use org mode?)
Date: Thu, 02 Feb 2012 15:12:51 -0500 [thread overview]
Message-ID: <14326.1328213571@alphaville> (raw)
In-Reply-To: Message from "Christopher W. Ryan" <cryan@binghamton.edu> of "Thu, 02 Feb 2012 13:59:03 EST." <4F2ADCF7.9070402@binghamton.edu>
Christopher W. Ryan <cryan@binghamton.edu> wrote:
> John and Nick--
>
> The question about whether I have python on my machine is not silly--I
> am. Got so carried away I forgot I was on my work computer, which indeed
> does not have python. But I do have R and perl, and similar code blocks
> in either language yield the same problem, so I'll just focus on them as
> examples (he said, sheepishly.)
>
> I usually interface with R via emacs ESS. Currently ESS is using R
> version 2.11.1.
>
> R executable is in C:\Program Files\R\R-2.11.1\bin
>
> I usually interface with perl via another text editor, Programmer's
> Notepad, set up with drop-down menu item to execute the file in perl.
>
> Perl executable is in C:\strawberry\perl\bin
>
> C:\Org\org-7.7\lisp contains, among others, files called ob-R.el and
> ob-perl.el
>
> Currently my path variable looks like this:
>
> Files\QuickTime\QTSystem\;C:\WINDOWS\system32\WindowsPowerShell\v1.0;C:\Xpdf;C:\strawberry\perl\bin;C:\strawberry\c\bin;C:\strawberry\perl\site\bin
>
>
> My .emacs now contains:
>
> ;; active Babel languages
> (org-babel-do-load-languages
> 'org-babel-load-languages
> '((R . t)
> (python . t)
> (perl . t)
> ))
>
>
> As to Nick's questions,
>
> M-x locate-library RET ob-R RET
>
> tells me ob-R is located in C:\Org\org-7.7\lisp\ob-R.el
>
> M-: to evaluate (require 'ob-R.el)
>
> yields ob-R in the minibuffer
>
> Then C-c C-c in the R code block yields
>
> Code block produced not output.
>
> in the minibuffer,
>
> and a new buffer that says,
>
> 'R' is not recognized as an internal or external command,
> operable program or batch file.
>
It's probably a path issue as you surmise below.
ob-R.el includes the following:
(defvar org-babel-R-command "R --slave --no-save"
"Name of command to use for executing R code.")
Try setting something like
(setq org-bable-R-command "/full/path/to/R --slave --no-save")
in your .emacs, although the exact format for Windows is going to
be different. This is meant as a test, not as a fix: if that works,
then you can figure out how to change your path and get rid of the
hack.
>
> I tried evaluating (require 'ob-perl) and this yielded
>
> ob-perl
>
> in the minibuffer, and thereafter the perl code block executed properly.
>
Ok, that's promising.
> I wonder if I need to put the path to R in my PATH variable? (come to
> think of it, don't know why it's not already there); its absence has so
> far not prevented me from using R via ESS.
>
Probably.
Nick
prev parent reply other threads:[~2012-02-02 20:12 UTC|newest]
Thread overview: 3+ messages / expand[flat|nested] mbox.gz Atom feed top
2012-02-02 17:27 Babel problem (was how do scientists use org mode?) John Hendy
2012-02-02 18:59 ` Christopher W. Ryan
2012-02-02 20:12 ` Nick Dokos [this message]
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