[Bioc-devel] Sweave changes (keep.source = TRUE or FALSE?)
friedrich.leisch at stat.uni-muenchen.de
Wed Dec 6 12:16:33 CET 2006
>>>>> On Tue, 05 Dec 2006 15:23:24 -0500,
>>>>> Duncan Murdoch (DM) wrote:
> Right, that's what we want to do. But I want an easier way for someone
> with an existing document to get the old behaviour.
My plan would be the following:
1) Set the default of all Sweave options via options(), such that it
can be changed in the Rprofile of a site-wide installation or in a
user's ~/.Rprofile file or even on a per-directory basis. This will
also result in R CMD build reading the desired defaults.
2) Have something like
R CMD Sweave --opts "additional args passed to Sweave() call"
to be able to override it even from the shell.
If BioC decides to default to keep.source=FALSE and stylepath=TRUE
then it will not be necessary to touch any existing vignettes. R CMD
check and build currently run R --vanilla and hence ignore the stuff in
1), so will need changes there, too. But nothing that's not doable,
I'll give it a shot over Christmas break.
More information about the Bioc-devel