R devel - Sep 2007 - Best practices - R CMD check and vignettes

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

Jim,

But I'm not sure if this works if the package has not been installed (or
it might find a version already installed in your library path), but
give it a try:

   load(system.file("examples", "somedata.Rdata", package =
"PkgName"))

Max 

-----Original Message-----
From: r-devel-bounces at r-project.org
[mailto:r-devel-bounces at r-project.org] On Behalf Of James MacDonald
Sent: Monday, September 17, 2007 11:07 PM
To: r-devel at stat.math.ethz.ch
Subject: [Rd] Best practices - R CMD check and vignettes

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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