[R] R CMD check testing environment

Ross Boylan ross at biostat.ucsf.edu
Sat Aug 21 01:47:47 CEST 2004

I can't tell from the docs  ("Writing R Extensions" 1.9.1) exactly what
environment the tests, examples, and vignettes that R CMD check tries to
run are in.

In particular:
1) how do I get the package loaded?
2) how do I access data in the data/ directory?
3) where is the material in the other directories?  (e.g., has inst/
material been installed?  where?)

Apparently (section 1.3) stuff in demo/ is not checked, which seems odd.

By inspecting some other packages, it seems the answer to 1) is that the
package is already loaded, so I don't need to say library(...).  In
particular, I don't need to figure out what lib.loc is.

I have some C code as part of the package, so that (well the .so file)
needs to be loaded too.

2) Others seem to just say data(..), but this doesn't work for me.
I created the data with
save(gold, e2, q2, file="mspath/data/inputs", compress=TRUE)
and later renamed the file to inputs.RData.  (check didn't think the
file counted without the extension).

I have tried to access it in my test script (under tests/) with both
load and data (e.g., data("inputs"), data("inputs.RData"),
data(inputs)).  I get
> data(inputs)
Warning message: 
Data set 'inputs' not found in: data(inputs) 

For that matter, my assumed answer to 1) doesn't seem to be working out,
because when I try to access one of my functions it tells me it can't
find it.  The function name is the same as the package name.

Perhaps the problem is I have inferred answers from \example{}, and the
story for tests/ is different.

Although I'm currently focussed on running a script in tests/, I'd like
to know what the story is for \examples in documentation or vignettes.


P.S. Is there a typical way to produce the .Rout.save file used in
tests/?  What I'm doing is a slightly awkward 2-step process.
Ross Boylan                                      wk:  (415) 502-4031
530 Parnassus Avenue (Library) rm 115-4          ross at biostat.ucsf.edu
Dept of Epidemiology and Biostatistics           fax: (415) 476-9856
University of California, San Francisco
San Francisco, CA 94143-0840                     hm:  (415) 550-1062

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