Sweave: conflict between setwd and \SweaveOpts{prefix.string=}
Matthieu Stigler wrote:
Hello
I think there is a conflict between setwd() and
\SweaveOpts{prefix.string=}. In the same document, those both command
get Sweave confuse the files and directories. See:
say my .Rnw document is in File1
If one inserts some setwd() for another file:
-setwd(File2)
then the command \SweaveOpts{prefix.string=graphics/Rplots} will search
the "graphics" folder in File2 because of command setwd(File2) and not
in File1 where the .Rnw file is and as is said in Sweave Manual A10.
Hence Latex get really confused and does not work anymore: the command
\includegraphics looks for folder "graphics" in the usual File1 but
those can have been stored in File2.
I tried to add some:
\usepackage{graphicx}
\graphicspath{{../File2/graphics/}}
but resulot was not so convincing
Is there anyway to avoid this? Thanks!
You could use a fully qualified prefix, so it doesn't matter what the current directory is when you save a plot. Or you could avoid setwd(). Or you could change back to the original directory before drawing a plot. It would probably make sense for Sweave to do the last of these internally: it is mixing up characteristics of the session it's running in with characteristics of the session it is running. However, this is a pretty strange case, and I'm not sure fixing it will be a high priority. Duncan Murdoch