This is a bit of a tangent from true LyX issues, but it is related and I suspect the expertise exists on this list to solve my problem. I appreciate any help. For those also on the R-Help mailing list, I apologize for the duplication.
I use LyX on a Windows XP machine with R 2.10.1 and a recent installation of MiKTeX 2.8. I followed Jeff Laake's instructions on the LyX Wiki (which I recently posted! -- http://wiki.lyx.org/LyX/LyxWithRThroughSweave) and had things all set up to run Sweave and Stangle and then make the PDF through R (though a batch script called from LyX then on to a MakeSweave.R file that does the work through R). All of this system worked just fine until I ran some MiKTeX updates yesterday. After the updates yesterday, which I noticed included the miktex core stuff, everything goes smoothly except that the code in the MakeSweave.R file that runs texi2dvi (an R function that calls the MiKTeX-distributed texi2dvi.exe to do the work) seems not to produce a PDF but gives no warnings or errors. The contents of the batch file are: Rterm --no-site-file --no-save -f "C:/Program Files/LyX 1.6.5/bin/MakeSweave.R" --args %1 The batch file is called in the temporary directory where LyX does its work, The MakeSweave.R contents are: library(tools) args <- commandArgs() filename <- args[length(args)] Sweave(filename) Stangle(filename) basename <- sub("\\.(Rnw|Rtex|nw)$", "", filename) texi2dvi(paste(basename, ".tex", sep=""), pdf=TRUE) I run LyX from a command window and watch what goes on in the background. All goes fine through the whole process, texi2dvi runs and finishes (and I can confirm that it finds and executes texi2dvi.exe in the MiKTeX bin), and then LyX pukes an error that it cannot open the PDF because the PDF does not exist. Indeed, if I check the temp directory for LyX, all files are present but the PDF. I get no other warnings or errors from texi2dvi and cannot figure out why this happens. Can someone help me figure out why texi2dvi fails to produce a PDF? Does anyone know if it is perhaps something about MiKTeX and the way the texi2dvi.exe works? Might it be possible to bypass that program and do the conversion via LyX more directly after R finishes the Sweaving and Stangling? A potential complication (as always) is that I am working in a non-Admin account on the machine. I can invoke Admin permissions to change things and had managed to get everything working before. Permissions may be an issue, but I have set full access to all the folders involved in this process (R, LyX, MiKTeX bins for example), and this got it working prior to updates. I am hoping that is not it. It seems like an issue with texi2dvi. Dave Hewitt Research Fishery Biologist USGS Western Fisheries Research Center Klamath Falls Field Station, Oregon http://profile.usgs.gov/dhewitt
