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[lyx.git] / lib / scripts / lyxsweave.R

diff --git a/lib/scripts/lyxsweave.R b/lib/scripts/lyxsweave.R
index 8ab0ea99510d3df33f39b0fe2a02257f0a030e6f..7573d315c1fd5d7b668edd23236757355ef6ae7a 100644 (file)
--- a/lib/scripts/lyxsweave.R
+++ b/lib/scripts/lyxsweave.R
@@ -1,10 +1,76 @@
+# file lyxsweave.R
+# This file is part of LyX, the document processor.
+# Licence details can be found in the file COPYING.
+
+# author Jean-Marc Lasgouttes
+# author Yihui Xie
+
+# Full author contact details are available in file CREDITS
+
 # Wrapper around Sweave that sets up some things for LyX
-# argument 1 is the file name
+# argument 1 is the absolute name of the input file
+# argument 2 is the absolute name of the output file
+# argument 3 is the iconv name for the encoding of the file
+# argument 4 is the original document directory
+
+.cmdargs <- commandArgs(trailingOnly=TRUE)
+.doc.enc <- .cmdargs[3]
+
+# check whether Sweave.sty is seen by LaTeX. if it is not, we will
+# copy it alongside the .tex file (in general in the temporary
+# directory). This means that an exported LaTeX file will not work,
+# but this is a problem of installation of R on the user's machine.
+# The advantage compared to the use of stylepath, is that the exported
+# .tex file will be portable to another machine. (JMarc)
+if (!length(system("kpsewhich Sweave.sty", intern=TRUE, ignore.stderr=TRUE))) {
+  .texmf.path <- file.path(R.home("share"), "texmf")
+  if (!file.exists(.sweave.sty <- file.path(.texmf.path, "Sweave.sty"))) {
+    .sweave.sty <- file.path(.texmf.path, "tex", "latex", "Sweave.sty")
+  } 
+  file.copy(.sweave.sty, dirname(.cmdargs[2]), overwrite=TRUE)
+  rm(list = c('.sweave.sty', '.texmf.path'))
+}
+
+
+# Change current directory to the document directory, so that R can find 
+# data files.
+setwd(.cmdargs[4])
+
+# this is passed as a prefix.string to tell where temporary files should go
+# the output file without extension and without '.'
+tmpout <- gsub(".", "-", sub("\\.tex$", "", basename(.cmdargs[2])), fixed = TRUE)
+# replace
+.prefix.str <- paste(dirname(.cmdargs[2]), tmpout, sep="/")
+rm(tmpout)
+
+# avoid the default Rplots.pdf
+options(device = function(...) {
+  pdf(file = tempfile())
+})
 
-args <- commandArgs(trailingOnly=T)
+# finally run sweave
 
-# check whether Sweave.sty is seen by LaTeX
-sweavesty <- system("kpsewhich Sweave.sty", intern=T, ignore.stderr=T)
-sp <- (length(sweavesty) == 0)
+# The Sweave version provided with R >= 0.13.1 has proper handling for
+# encodings and our workaround for previous versions does not work
+# anymore. Therefore, the invocation has to be different.
+if (is.null(formals(Sweave)$encoding)) {
+  # set default encoding for input and output files; .orig.enc is used in
+  # the sweave module preamble to reset the encoding to what it was.
+  .orig.enc <- getOption("encoding")
+  options(encoding=.doc.enc)
+  Sweave(file=.cmdargs[1], output=.cmdargs[2], syntax="SweaveSyntaxNoweb", 
+         prefix.string=.prefix.str)
+} else {
+  Sweave(file=.cmdargs[1], output=.cmdargs[2], syntax="SweaveSyntaxNoweb", 
+         prefix.string=.prefix.str, encoding=.doc.enc)
+}
 
-Sweave(args[1], stylepath=sp)
+# remove absolute path from \includegraphics
+options(encoding=.doc.enc) # encoding may have been changed in the preamble chunk
+ls.doc <- readLines(.cmdargs[2])
+ls.cmd <- paste('\\includegraphics{', dirname(.cmdargs[2]), "/", sep = "")
+ls.idx <- grep(ls.cmd, ls.doc, fixed = TRUE)
+if (length(ls.idx)) {
+   ls.doc[ls.idx] <- sub(ls.cmd, "\\includegraphics{", ls.doc[ls.idx], fixed = TRUE)
+   writeLines(ls.doc, .cmdargs[2])
+}