Re: Sweave manual pdf compilation fails

2012-02-02 Thread Jean-Pierre Chrétien
Le 01/02/2012 20:16, Yihui Xie a écrit : The patch is pretty simple: http://www.lyx.org/trac/ticket/8019 I removed Sweave.sty from texmf-local, so that LyX cannot find it that way, applied the patch, and the Sweave manual compiles now fine from the Help menu. No failure because of write permis

Re: Sweave manual pdf compilation fails

2012-02-02 Thread Richard Heck
On 02/01/2012 05:47 PM, Yihui Xie wrote: I'm pretty confident with this one. It does not have specific requirements on R versions, and users do not have to upgrade R. If you and JMarc agree, it can go into 2.0.3. I know nothing about this stuff. Richard Regards, Yihui -- Yihui Xie Phone: 515

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Yihui Xie
Yes, that would be ideal. I will update the patch to reflect this issue. I do not remember in which version R moved Sweave.sty from texmf to texmf/tex/latex, so let's search both places. Regards, Yihui -- Yihui Xie Phone: 515-294-2465 Web: http://yihui.name Department of Statistics, Iowa State Un

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Yihui Xie
I'm pretty confident with this one. It does not have specific requirements on R versions, and users do not have to upgrade R. Regards, Yihui -- Yihui Xie Phone: 515-294-2465 Web: http://yihui.name Department of Statistics, Iowa State University 2215 Snedecor Hall, Ames, IA On Wed, Feb 1, 2012

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Jean-Marc Lasgouttes
Le 01/02/12 18:20, Yihui Xie a écrit : That seems like a bug of Debian; R should be able to find Sweave.sty with file.path(R.home("share"), "texmf", "tex", "latex", "Sweave.sty") [1] "/usr/share/R/share/texmf/tex/latex/Sweave.sty" I'm using Ubuntu and R can find Sweave.sty correctly. If poss

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Jean-Marc Lasgouttes
Le 01/02/12 20:16, Yihui Xie a écrit : The patch is pretty simple: http://www.lyx.org/trac/ticket/8019 It looks like a reasnable thing to do, if it does what I think it does. How confident are you with this patch? Does it rely only on documented behaviour, assumed to be present in earlier R v

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Yihui Xie
The patch is pretty simple: http://www.lyx.org/trac/ticket/8019 Regards, Yihui -- Yihui Xie Phone: 515-294-2465 Web: http://yihui.name Department of Statistics, Iowa State University 2215 Snedecor Hall, Ames, IA On Wed, Feb 1, 2012 at 12:53 PM, Liviu Andronic wrote: > On Wed, Feb 1, 2012 at 5

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Liviu Andronic
On Wed, Feb 1, 2012 at 5:29 PM, Yihui Xie wrote: > You are right (ideally), but this is a long-lasting annoying problem > with R's default graphical device which is pdf() in the > non-interactive session. Unfortunately it has to create a file under > the current working directory (usually named Rp

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Jean-Pierre Chrétien
Le 01/02/2012 18:20, Yihui Xie a écrit : If possible, I strongly recommend you update R to the latest 2.14.1 (it is pretty easy to update if you set a CRAN mirror; see instructions at http://cran.r-project.org/bin/linux/debian/). There have been many changes in Sweave since 2.11. Sure, I can m

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Yihui Xie
I think so. If you add a CRAN mirror to your software repository, Debian knows how to solve the dependencies. There is a Debian maintainer who has been working on compiling R and some R packages to Debian packages. The versions of LyX and TeXLive often have a long time lag in Debian/Ubuntu, but R

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Yihui Xie
That seems like a bug of Debian; R should be able to find Sweave.sty with > file.path(R.home("share"), "texmf", "tex", "latex", "Sweave.sty") [1] "/usr/share/R/share/texmf/tex/latex/Sweave.sty" I'm using Ubuntu and R can find Sweave.sty correctly. If possible, I strongly recommend you update R t

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Jean-Pierre Chrétien
Le 01/02/2012 17:15, Yihui Xie a écrit : I guess you compiled the document under /usr/local/share/lyx-2.0.3svn/examples/, right? I believe the problem is that R has no write privilege to that directory, so the default pdf() device cannot be started there. You can copy sweave.lyx to a directory w

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Yihui Xie
No, I do not think that is your problem :) See my second reply above. Regards, Yihui -- Yihui Xie Phone: 515-294-2465 Web: http://yihui.name Department of Statistics, Iowa State University 2215 Snedecor Hall, Ames, IA 2012/2/1 Jean-Pierre Chrétien : > Le 01/02/2012 17:15, Yihui Xie a écrit : >

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Jean-Pierre Chrétien
Le 01/02/2012 17:15, Yihui Xie a écrit : I guess you compiled the document under /usr/local/share/lyx-2.0.3svn/examples/, right? I believe the problem is that R has no write privilege to that directory, so the default pdf() device cannot be started there. You can copy sweave.lyx to a directory w

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Yihui Xie
You are right (ideally), but this is a long-lasting annoying problem with R's default graphical device which is pdf() in the non-interactive session. Unfortunately it has to create a file under the current working directory (usually named Rplots.pdf). I requested a true null device which does not w

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Liviu Andronic
On Wed, Feb 1, 2012 at 5:15 PM, Yihui Xie wrote: > I guess you compiled the document under > /usr/local/share/lyx-2.0.3svn/examples/, right? > > I believe the problem is that R has no write privilege to that > directory, so the default pdf() device cannot be started there. You > can copy sweave.ly

Re: Sweave manual pdf compilation fails

2012-02-01 Thread Yihui Xie
I guess you compiled the document under /usr/local/share/lyx-2.0.3svn/examples/, right? I believe the problem is that R has no write privilege to that directory, so the default pdf() device cannot be started there. You can copy sweave.lyx to a directory where you have write privilege, and see if i

Sweave manual pdf compilation fails

2012-02-01 Thread Jean-Pierre Chrétien
Hello, I took a look to the new specific manual describing sweave with the latest 2.0.3svn. The pdf export fails on an Rscript error: Running: Rscript --verbose --no-save --no-restore "/usr/local/share/lyx-2.0.3svn/scripts/lyxsweave.R" "/tmp/lyx_tmpdir.T21839/lyx_tmpbuf2/""sweave.Rnw" "/tm