Actually, I'm running 2.6.1. The old version is in the path, but I am working with the most recent version. I am working in DOS and am at the prompt c:\program files\r\r-2.6.1\bin. From here I do all of the work in building the package (build, check, install).
> -----Original Message----- > From: Uwe Ligges [mailto:[EMAIL PROTECTED] > Sent: Tuesday, January 22, 2008 9:02 AM > To: Doran, Harold > Cc: R Help > Subject: Re: [R] Adding an Sweave Vignette to a package > > > > Doran, Harold wrote: > > Thanks, Uwe. Before I modify this path, I want to make sure of one > > thing. My path is set according to the specifications in > the document > > prescribed by Duncan Murdoch (at link below). Indeed, my > path includes > > the proper location of my MikTex and pdflatex.exe files. Here is my > > path from the command you gave below: > > > > > "c:\\Rtools\\bin;C:\\Perl\\bin\\;c:\\Rtools\\MinGW\\bin;c:\\texmf\\mik > > te > > > k\\bin;c:\\cygwin;C:\\WINDOWS\\system32;C:\\WINDOWS;C:\\WINDOWS\\Syste > > m3 2\\Wbem;C:\\subversion\\Subversion\\bin;C:\\Program > > Files\\R\\R-2.2.0\\bin; " > > > > > http://cran.r-project.org/doc/manuals/R-admin.html#The-Windows-toolset > > > > AFAIK, the path indeed is set according to the Murdoch prescription > > for building R packages, my pdflatex.exe lives in the directory > > pointed to in this path, yet R cannot see it when doing Rcmd build. > > > > I can successfully build and use the package at this point > (again as > > my other problem now solved). However, I am not sure what I should > > work on to resolve the issue of building the vignette. > > > > There are so many steps in building a package, I may have missed > > something somewhere. So, if you see an error I appreciate > any advice. > > Hmm, hard to tell, although I think it might make sense to > upgrade your version of R, given I am correct that you are > running R-2.2.0 (from the output you gave above). > > Uwe > > > > Harold > > > > > >> -----Original Message----- > >> From: Uwe Ligges [mailto:[EMAIL PROTECTED] > >> Sent: Tuesday, January 22, 2008 4:15 AM > >> To: Doran, Harold > >> Cc: James W. MacDonald; R Help > >> Subject: Re: [R] Adding an Sweave Vignette to a package > >> > >> In R, type > >> Sys.getenv("PATH") > >> and you will probably find that the PATH does not include > the path of > >> the pdflatex executable of the mikTeX distribution. > >> > >> Uwe > >> > >> > >> Doran, Harold wrote: > >>> 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:[EMAIL PROTECTED] > >>>> 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:[EMAIL PROTECTED] > >>>>>> 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@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 > >>>> > >>> ______________________________________________ > >>> R-help@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. > > > > ______________________________________________ > > R-help@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. > ______________________________________________ R-help@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.
