Re: [Rd] R CMD build cannot create vignettes on Windows if Makefile is used
On 11/09/2010 12:52 AM, Hervé Pagès wrote:
Hi,
I found the following problem with recent R-devel
(2010-08-26 r52817) on Windows (32-bit and 64-bit):
'R CMD build pkg' gets stalled during vignette
creation for packages that have a Makefile in pkg/inst/doc.
It seems that the problem is that the commands used in the
Makefile for converting .tex to .pdf are not able to locate
the Sweave.sty file anymore (if I drop this file to
pkg/inst/doc, then the problem goes away).
This sounds like a problem that only the package maintainer could
address. Presumably it will be temporary: once they adjust to the new
organization of the share/texmf directory, things will be fine again.
The reorg is described in this NEWS item:
* Directory R_HOME/share/texmf now follows the TDS conventions, so
can be set as a texmf tree ('root directory' in MiKTeX parlance).
Duncan Murdoch
I noticed that the location of Sweave.sty shipped with
R has changed recently (moved from ${R_HOME}/share/texmf
to ${R_HOME}/share/texmf/tex/latex/). Could that be related
to the problem?
I don't see that problem on platforms other than Windows or
with R 2.12
Thanks,
H.
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[Rd] Sweave issue; keep.source=TRUE and cacheSweave incompatible?
This could well be a package-specific issue, and so perhaps not for R-devel.
The author of the relevant package is CC'd in any event.
I'm seeing some odd behavior from Sweave with keep.source=TRUE when using
driver=cacheSweaveDriver from the cacheSweave package.
It would seem that code chunks with keep.source=TRUE aren't being parsed
correctly; the corresponding Schunk starts at the *very top* of the Rnw file,
snippet shown below.
The error seems specific to R 2.12.0; cacheSweave + keep.source=TRUE seems to
work ok in R 2.11.
Many thanks
Simon
Version details:
R version 2.12.0 Under development (unstable) (2010-09-10 r52888)
cacheSweave package 0.4-4
Sweave invocation and output:
Sweave(test.Rnw,driver=cacheSweaveDriver)
Writing to file test.tex
Processing code chunks ...
1 : term hide (label=setCache)
2 : echo term verbatim (label=rnorm)
3 : echo keep.source term verbatim (label=runif)
4 : echo term verbatim (label=summary)
You can now run LaTeX on 'test.tex'
Bad Schunk:
\begin{Schunk}
\begin{Sinput}
\documentclass{article}
\usepackage[noae]{Sweave}
\begin{document}
\SweaveOpts{prefix.string=foo,png=FALSE,echo=TRUE,eps=FALSE}
@
setCache,echo=FALSE,results=hide=
library(cacheSweave)
setCacheDir(./cache)
@ %def
This is a test.
@
rnorm,cache=TRUE=
summary(rnorm(n=100))
@ %def
This is another test.
@
runif,cache=TRUE,keep.source=TRUE=
z - runif(n=100)
\end{Sinput}
\end{Schunk}
Simon Jackman, Depts of Political Science (by courtesy) Statistics,
Stanford University, Stanford, CA 94305-6044, USA.
http://jackman.stanford.edu
Co-Principal Investigator, American National Election Studies
cell: +1 (650) 387 3019 fax: +1 (650) 724-9095
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Re: [Rd] R CMD build cannot create vignettes on Windows if Makefile is used
Hi Duncan,
On 09/11/2010 03:56 AM, Duncan Murdoch wrote:
On 11/09/2010 12:52 AM, Hervé Pagès wrote:
Hi,
I found the following problem with recent R-devel
(2010-08-26 r52817) on Windows (32-bit and 64-bit):
'R CMD build pkg' gets stalled during vignett
creation for packages that have a Makefile in pkg/inst/doc.
It seems that the problem is that the commands used in the
Makefile for converting .tex to .pdf are not able to locate
the Sweave.sty file anymore (if I drop this file to
pkg/inst/doc, then the problem goes away).
This sounds like a problem that only the package maintainer could
address. Presumably it will be temporary: once they adjust to the new
organization of the share/texmf directory, things will be fine again.
The reorg is described in this NEWS item:
* Directory R_HOME/share/texmf now follows the TDS conventions, so
can be set as a texmf tree ('root directory' in MiKTeX parlance).
Before this reorg, the package maintainer didn't have to care about
where to find things in R_HOME/share/texmf. 'R CMD build' would just
find them by setting the TEXINPUTS envir variable appropriately (and
then commands in the inst/doc/Makefile file would find them too).
This reorg was checked in svn as rev 52256. I see the following
adjustments to TEXINPUTS:
** On Unix (src/scripts/Rcmd.in file):
-## Append 'share/texmf' to TeX's input search path.
-if test -z $TEXINPUTS}; then
- TEXINPUTS=.:${R_SHARE_DIR}/texmf:
+## Append 'share/texmf/...' to TeX's input search path.
+if test -z ${TEXINPUTS}; then
+ TEXINPUTS=.:${R_SHARE_DIR}/texmf/tex/latex:
else
- TEXINPUTS=.:${TEXINPUTS}:${R_SHARE_DIR}/texmf:
+ TEXINPUTS=.:${TEXINPUTS}:${R_SHARE_DIR}/texmf/tex/latex:
fi
export TEXINPUTS
** On Windows (src/gnuwin32/fixed/etc/Rcmd_environ file):
-TEXINPUTS=.;${TEXINPUTS};${R_SHARE_DIR}/texmf;
+TEXINPUTS=.;${TEXINPUTS};${R_SHARE_DIR}/texmf/tex/latex;
The path seems to have been adjusted correctly. So my question is:
why isn't this working on Windows for packages that use a Makefile?
Thanks,
H.
Duncan Murdoch
I noticed that the location of Sweave.sty shipped with
R has changed recently (moved from ${R_HOME}/share/texmf
to ${R_HOME}/share/texmf/tex/latex/). Could that be related
to the problem?
I don't see that problem on platforms other than Windows or
with R 2.12
Thanks,
H.
--
Hervé Pagès
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M2-B876
P.O. Box 19024
Seattle, WA 98109-1024
E-mail: hpa...@fhcrc.org
Phone: (206) 667-5791
Fax:(206) 667-1319
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