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From: "Blanchette, Marco" <MAB@stowers.org>
To: "emacs-orgmode@gnu.org" <emacs-orgmode@gnu.org>
Subject: R code not producing expected results
Date: Thu, 12 Aug 2010 23:32:55 -0500	[thread overview]
Message-ID: <C88A3527.16634%mab@stowers.org> (raw)

Dear all,

Sorry if this is something totally obvious but I am learning to use org-mode for my everyday work with R. I just installed the latest stable release of org-mode (v7.01g) on top of GNU Emacs 23.1.50.1 (x86_64-apple-darwin10.2.0, NS apple-appkit-1038.25). I also installed the CRAN ascii package v0.7 on top of R v2.11.1. I am currently working on a MacBook pro with Snow Leopard 10.6.4

Early on today, while reading the org-babel intro, I was able to run the following example but somehow, later tonight, it started to break and I spent the last few hours scratching my head to understand what change and why it now suddenly break. Your help will be greatly appreciated as I am discovering that org-mode in collaboration with org-babel have great potential to help us create more readable report of our daily analysis, as long as I can get through these early hurdles.

Here is the org buffer that now breaks:

* Two examples of R code that worked when I started the tutorial but suddenly started to fail...

** some R code that should generate a nice table
 #+BEGIN_SRC R
  library(ascii)
  options(asciiType="org")

  d <- as.data.frame(replicate(4,rnorm(100)))

  ascii(cor(d),include.rownames=T, include.colnames=T,header=T)
#+END_SRC

** Some code straight from [[http://orgmode.org/worg/org-contrib/babel/languages/org-babel-doc-R.php][org-babel]]
 #+BEGIN_SRC R
library(ascii)
options(asciiType="org")
ascii(summary(table(1:4, 1:4)))
#+END_SRC


With the following error recover from the *Org-Babel Error* buffer

Loading required package: proto
Error in as.data.frame.default(x[[i]], optional = TRUE) :
  cannot coerce class 'c("ascii", "proto", "environment")' into a data.frame
Calls: write.table ... data.frame -> as.data.frame -> as.data.frame.default
Execution halted

Thanks for the helps.
--
Marco Blanchette, Ph.D.
Assistant Investigator
Stowers Institute for Medical Research
1000 East 50th St.

Kansas City, MO 64110

Tel: 816-926-4071
Cell: 816-726-8419
Fax: 816-926-2018

next             reply	other threads:[~2010-08-13  4:32 UTC|newest]

Thread overview: 4+ messages / expand[flat|nested]  mbox.gz  Atom feed  top
2010-08-13  4:32 Blanchette, Marco [this message]
2010-08-13  6:23 ` R code not producing expected results Thomas S. Dye
2010-08-13  6:57 ` Charles C. Berry
     [not found] ` <1668ca$1opjg@mail.curie.net>
2010-08-13  8:19   ` David Hajage

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