[Rd] Best practices - R CMD check and vignettes

From: James MacDonald <jmacdon_at_med.umich.edu>
Date: Mon, 17 Sep 2007 23:07:01 -0400


Hi,

I have a package that contains two vignettes that both use saved objects in the examples directory of the package. With previous versions of R I could have a code chunk in the vignette like this:

<<echo=false>>=
load("../examples/somedata.Rdata")
@

followed by a code chunk like

<<eval=false>>=
foo <- bar("data")
@

that simulated the actual reading in of the data (I use a saved object to limit package size).

This passed check with previous versions of R, but under R-2.6.0alpha, the vignettes are dumped into an inst directory in the <package>.Rcheck directory, where Sweave() and texi2dvi() are run. Unfortunately, the above code chunks no longer work.

I can certainly hard code the first chunk to find the .Rdata file, but I have to imagine there is a much more elegant way to do this.

Any suggestions?

Best,

Jim

-- 
James W. MacDonald, MS
Biostatistician
UMCCC cDNA and Affymetrix Core
University of Michigan
1500 E Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623

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