Re: [Rd] [Bioc-devel] Sweave windows style path (was Re: texmf error on 7 packages on devel winXP build nodes)
On Sun, 27 Aug 2006 07:45:00 -0700,
Martin Morgan (MM) wrote:
[A build system misconfiguration at Bioconductor lead to a discussion
about whether \usepackage{Sweave} should be included in .Rnw
documents. Leaving this line out causes a problem on Windows, as
indicated below.]
I think the problem is '~', which should, according to Donald
Arseneau's comment in this thread
http://groups.google.com/group/comp.text.tex/browse_thread/thread/640e89078d0697c4/5b6f9fc6b0da21bf?lnk=gstq=windows+file+pathrnum=4#5b6f9fc6b0da21bf
be \string~. If this is the correct change, perhaps an upstream fix
could be introduced in src/library/util/R/Sweave.R.
Sorry to join in late, I am currently at a conference with limited
access to the Internet. I am not su sure how easy it is to make the
conversion, i.e. if it is save to unconditionally change all tildes in
the path as suggested above. Does anybody have any experience wether
that is save on all platforms and TeX installations?
Personally I think it would make a lot of sense if the Bioconductor
check machines could include a version of RHOME/share/texmf in their
TeX input path ... that would also allow to use Rd.sty etc.
Otherwise most of what has been said in this thread is true: The full
path is inserted into the document by Sweave such that you donnot have
to copy something from RHOME to your tex installation every time you
install a new version of R.
On Unix it is easy: Put /usr/local/lib/R/share/texmf (or wherever you
typically install your default R) into your tex path and you are
done. On windows the normal R installation path contains the version
number, so this will fail. Hence I did the path thing in R as a
convenience for authors (and to make sure that R version and
Sweave.sty are consistent, but the .sty is pretty stable anyway).
Maybe the installer could/should create
c:\programme\R\R-latest
as a link to the newest installed version?
Just a thought.
Best,
Fritz
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Re: [Rd] [Bioc-devel] Sweave windows style path (was Re: texmf error on 7 packages on devel winXP build nodes)
Maybe the installer could/should create c:\programme\R\R-latest as a link to the newest installed version? Not on an OS without links I think having the correct TeX path is the user's responsibility, and suggest Sweave stops trying to be helpful. There is no guarantee that the path you find will be a valid TeX string on any OS (there are plenty of possible exceptions on a Unix-alike, so it is not a Windows-specific problem). -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] [Bioc-devel] Sweave windows style path (was Re: texmf error on 7 packages on devel winXP build nodes)
Have a look at Rfind.bat in
http://cran.r-project.org/contrib/extra/batchfiles/
which uses the registry to find various software used by R.
On 8/28/06, Friedrich Leisch [EMAIL PROTECTED] wrote:
On Sun, 27 Aug 2006 07:45:00 -0700,
Martin Morgan (MM) wrote:
[A build system misconfiguration at Bioconductor lead to a discussion
about whether \usepackage{Sweave} should be included in .Rnw
documents. Leaving this line out causes a problem on Windows, as
indicated below.]
I think the problem is '~', which should, according to Donald
Arseneau's comment in this thread
http://groups.google.com/group/comp.text.tex/browse_thread/thread/640e89078d0697c4/5b6f9fc6b0da21bf?lnk=gstq=windows+file+pathrnum=4#5b6f9fc6b0da21bf
be \string~. If this is the correct change, perhaps an upstream fix
could be introduced in src/library/util/R/Sweave.R.
Sorry to join in late, I am currently at a conference with limited
access to the Internet. I am not su sure how easy it is to make the
conversion, i.e. if it is save to unconditionally change all tildes in
the path as suggested above. Does anybody have any experience wether
that is save on all platforms and TeX installations?
Personally I think it would make a lot of sense if the Bioconductor
check machines could include a version of RHOME/share/texmf in their
TeX input path ... that would also allow to use Rd.sty etc.
Otherwise most of what has been said in this thread is true: The full
path is inserted into the document by Sweave such that you donnot have
to copy something from RHOME to your tex installation every time you
install a new version of R.
On Unix it is easy: Put /usr/local/lib/R/share/texmf (or wherever you
typically install your default R) into your tex path and you are
done. On windows the normal R installation path contains the version
number, so this will fail. Hence I did the path thing in R as a
convenience for authors (and to make sure that R version and
Sweave.sty are consistent, but the .sty is pretty stable anyway).
Maybe the installer could/should create
c:\programme\R\R-latest
as a link to the newest installed version?
Just a thought.
Best,
Fritz
__
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Re: [Rd] [Bioc-devel] Sweave windows style path (was Re: texmf error on 7 packages on devel winXP build nodes)
[A build system misconfiguration at Bioconductor lead to a discussion
about whether \usepackage{Sweave} should be included in .Rnw
documents. Leaving this line out causes a problem on Windows, as
indicated below.]
I think the problem is '~', which should, according to Donald
Arseneau's comment in this thread
http://groups.google.com/group/comp.text.tex/browse_thread/thread/640e89078d0697c4/5b6f9fc6b0da21bf?lnk=gstq=windows+file+pathrnum=4#5b6f9fc6b0da21bf
be \string~. If this is the correct change, perhaps an upstream fix
could be introduced in src/library/util/R/Sweave.R.
Martin
Gordon Smyth [EMAIL PROTECTED] writes:
PS. The line added by Sweave to a vignette in R2.4.0dev for Windows is
actually
\usepackage{C:/PROGRA~1/R/R-24~1.0DE/share/texmf/Sweave}
Even though this DOS version of the file path doesn't contain a space
character, it is still invalid syntax for LaTeX.
Gordon
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