[R] Adding an Sweave Vignette to a package

[Doran, Harold]

Jim 

First thanks for your patience. I use MikTex as well. I do have both
(texti2dvi and pdflatex) on my local machine. I copied and pasted the
code below and stepped through it. I think this break down with the
following error. Indeed, I think there is a path problem. 

However, I don't see a resolution in either Writing R Extensions or the
Leisch paper. So, I'm not quite sure what path to modify and/or how.

Error in texi2dvi("TheVignette.tex", pdf = TRUE) : 
  unable to run pdflatex on 'TheVignette.tex'
In addition: Warning message:
In system(paste(shQuote(latex), "-interaction=nonstopmode", texfile)) :
  "pdflatex" not found 

> -----Original Message-----
> From: James W. MacDonald [mailto:jmacdon at med.umich.edu] 
> Sent: Monday, January 21, 2008 4:53 PM
> To: Doran, Harold
> Cc: R Help
> Subject: Re: [R] Adding an Sweave Vignette to a package
> 
> What TeX variant are you using? If texi2dvi() can't find 
> texi2dvi, it tries to fall back on pdflatex which has to be 
> in the path.
> 
> I have always had good luck with MikTeX, which does have texi2dvi.
> 
> You could always try
> 
> library(tools)
> Sweave("TheVignette.Rnw")
> debug(texi2dvi)
> texi2dvi("TheVignette.tex", pdf=TRUE)
> 
> and step through to see where it fails, although on the 
> surface it looks like a path problem.
> 
> Best,
> 
> Jim
> 
> 
> 
> Doran, Harold wrote:
> > There is now and it looks like I got through the first 
> phase. But, now 
> > I get the error below.
> > 
> > * DONE (MiscPsycho)
> > * creating vignettes ... ERROR
> > Loading required package: statmod
> > Below is what alpha *would be* if the item were removed
> > 
> > Error in texi2dvi(file = bft, pdf = TRUE, clean = FALSE, quiet = 
> > quiet)
> > :
> >   unable to run pdflatex on 'MP.tex'
> > Calls: buildVignettes -> texi2dvi
> > In addition: Warning messages:
> > 1: In readLines(f[1]) : incomplete final line found on 'MP.Rnw'
> > 2: In system(paste(shQuote(latex), "-interaction=nonstopmode", 
> > texfile))
> > :
> >   "pdflatex" not found
> > Execution halted
> > 
> > I do have pdflatex, it's what I use all of the time. 
> However, how do I 
> > point to it for this build process?
> > 
> >> -----Original Message-----
> >> From: James W. MacDonald [mailto:jmacdon at med.umich.edu]
> >> Sent: Monday, January 21, 2008 4:09 PM
> >> To: Doran, Harold
> >> Cc: R Help
> >> Subject: Re: [R] Adding an Sweave Vignette to a package
> >>
> >> Hi Harold,
> >>
> >> Doran, Harold wrote:
> >>> I'm finalizing development of a package that will include a
> >> vignette.
> >>> Without the vignette, the package builds fine with no
> >> warnings and is
> >>> ready for distribution. Now, I am following the directions for 
> >>> developing vignettes "Sweave, Part II: Package Vignettes"
> >> by Friedrich
> >>> Leisch.
> >>>
> >>> I am using a windows XP machine (other session info 
> below). Here is 
> >>> what I have done.
> >>>
> >>> 1) I add the 'inst/doc' directory to the package source tree.
> >>> 2) I have added the following information in the preamble
> >> of the .Rnw
> >>> file
> >>>
> >>> % \VignetteIndexEntry{An \texttt{R} Package for Miscellaneous 
> >>> Psychometric Analyses} % \VignetteDepends{MiscPsycho, statmod} % 
> >>> \VignetteKeyword{misc}
> >>>
> >>> 3) I then copy the file "MP.Rnw" to the 'inst/doc' directory.
> >>> 4) I then run Rcmd build g:\MiscPsycho
> >>>
> >>> The process begins as usual and it even tries to create the
> >> vignette.
> >>> However, it runs into an error at code chunk 1 
> complaining that it 
> >>> cannot find the function called simRasch(). This simRasch
> >> function is
> >>> one of the functions developed for this package and one that will 
> >>> exist only when the package is built. The build process is halted.
> >>>
> >>> I'm not sure how to handle this. Any advice is appreciated.
> >> Is there a library(MiscPsycho) at the beginning of that code chunk?
> >>
> >> Best,
> >>
> >> Jim
> >>
> >>
> >>> Harold
> >>>
> >>>> sessionInfo()
> >>> R version 2.6.1 (2007-11-26)
> >>> i386-pc-mingw32
> >>>
> >>> locale:
> >>> LC_COLLATE=English_United States.1252;LC_CTYPE=English_United
> >>> States.1252;LC_MONETARY=English_United
> >>> States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252
> >>>
> >>> attached base packages:
> >>> [1] stats     graphics  grDevices utils     datasets  
> methods   base
> >>>
> >>>
> >>> other attached packages:
> >>> [1] statmod_1.3.3
> >>>
> >>> loaded via a namespace (and not attached):
> >>> [1] tools_2.6.1
> >>>
> >>> ______________________________________________
> >>> R-help at r-project.org mailing list
> >>> https://stat.ethz.ch/mailman/listinfo/r-help
> >>> PLEASE do read the posting guide
> >>> http://www.R-project.org/posting-guide.html
> >>> and provide commented, minimal, self-contained, reproducible code.
> >> --
> >> James W. MacDonald, M.S.
> >> Biostatistician
> >> Affymetrix and cDNA Microarray Core
> >> University of Michigan Cancer Center
> >> 1500 E. Medical Center Drive
> >> 7410 CCGC
> >> Ann Arbor MI 48109
> >> 734-647-5623
> >>
> 
> --
> James W. MacDonald, M.S.
> Biostatistician
> Affymetrix and cDNA Microarray Core
> University of Michigan Cancer Center
> 1500 E. Medical Center Drive
> 7410 CCGC
> Ann Arbor MI 48109
> 734-647-5623
>