search for: buildvignettes

I am currently writing a (private) package in which I produce pdf files from within R using LaTeX. To do so I mainly copied some lines from the buildVignettes() function in the tools package. This uses the texi2dvi which is included in R's bin directory: system(paste(file.path(R.home(), "bin", "texi2dvi"), "--quiet --pdf", bft)) This runs fine on Linux and I assumed that as it is included in buildVig...

Dear All, I have been checking the metafor package against R-devel. R CMD check --as-cran metafor yields one note: FOSS licence with BuildVignettes: false Yes, I have 'BuildVignettes: FALSE' in my DESCRIPTION file. I see at http://developer.r-project.org/blosxom.cgi/R-devel/NEWS: Tue, 25 Jun 2013 CHANGES IN R-devel UTILITIES 'R CMD check --as-cran' warns about a false value of the 'DESCRIPTION' field 'BuildVi...

I have packages where I know CRAN and other test platforms do not have all the resources to build the vignettes, for example, access to databases. Previously I think putting BuildVignettes: false in the DESCRIPTION file resolved this, by preventing CRAN checks from attempting to run the vignette code. (If it was not this, then there was some other magic I don't understand.) Now, when I specify --as-cran, the checks fail when attempting to check R code from vignettes, even th...

...Sys.getenv("TEXINPUTS") | R\bin\R.exe --slave TEXINPUTS ".;;E:/biocbld/bbs-2.7-bioc/R/share/texmf/tex/latex;" So on Linux if I cd to the inst/doc folder of a package source tree that has a Makefile and run echo "tools:::buildVignettes('pkgname', '.')" | R --slave it fails with error: ! LaTeX Error: File `Sweave.sty' not found. while doing the same thing on Windows works. Is there any reason for not setting the environments variables that are defined in ${R_HOME}/bin/Rcmd (the shell script wrapper...

Dear all, When running function 'testQAReport()', which uses function 'buildVignettes()' to create a pdf-file I get the following error: > source("testQAReport.R") > testQAReport() Error in .get_package_metadata(pkgdir) : Files 'DESCRIPTION' and 'DESCRIPTION.in' are missing. Since I did not get this error in earlier versions of R, could you...

...ions" document step by step, but went I run "Rcmd build", an error occurs. It goes like this: " * creating vignettes ... ERROR . . . . :7: Emergency stop L7L ==> Fatal error occurred, no output PDF file produced!texify: pdflatex failed for some reason <see log file>. buildVignettes<dir ='. '> Error in texi2dvi<fil =bft,pdf =TRUE, clean =FALSE, quiet = quiest > : running 'texi2dvi' on "test.tex' failed Calls : buildVignettes -> texi2dvi Execution halted " Thank you for your help! Francois Aucoin [[alternative HTML version delet...

...UN = f, ..., SIMPLIFY = FALSE) : invalid primitive operation given for dispatch Execution halted I have not been able to reproduce this on other systems, but the basic approach to a simpler reproducible example is to install the DirichletMultinomial Bioconductor package and then > tools::buildVignettes(dir="DirichletMultinomial") where the 'dir' argument points to the uncompressed tarball. There is C code in the package, but not reached by this code chunk. Attempts to simplify the code generally results in the error disappearing. R -d valgrind -e "tools::buildVignettes(...

In a package 'vig' R CMD build vig (or tools::buildVignettes(dir="vig") with $ cat vig/vignettes/vig1.Rnw \documentclass{article} \begin{document} <<>>= x <- 1 @ \end{document} $ cat vig/vignettes/vig2.Rnw \documentclass{article} \begin{document} <<>>= x @ \end{document} produces vig2.pdf where x is defined with value...

...mkdir -pv /usr/lib/R/library/$PK/html # copy description (which contains version number) and CONTENTS (for index) cp $PK/DESCRIPTION /usr/lib/R/library/$PK # build and move vignettes if present if [ -d $PK/inst/doc ]; then mkdir -pv /usr/lib/R/library/$PK/doc R CMD buildVignettes\($PK,$PK\) cp $PK/inst/doc/* /usr/lib/R/library/$PK/doc fi # make html files R CMD perl /usr/share/R/perl/build-help.pl --html /home/baron/$PK /usr/lib/R/library rm -rf $PK done # rebuild indices (doesn't work) R CMD make.packages.html

...> * cleaning src > * installing the package to process help pages > * saving partial Rd database > * creating vignettes ...sh: line 1: 16259 Segmentation fault (core dumped) '/u/maechler/R/D/r-devel/inst/bin/Rscript' --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)" > '/tmp/RtmpV1grVw/xshell3e793c7d5258' 2>&1 > ERROR > > *** caught segfault *** > address 0x1, cause 'memory not mapped' > > Traceback: > 1: .Call(C_stri_locate_all_regex, str, pattern, omit_n...

I am resubmitting this bug report but with additional information. I am running this with windows 10: w64-mingw32 with R Under development (unstable) (2017-12-04 r73829). I build 'httk' from the command prompt using 'R CMD build httk' after installing the required packages. Then when the vignettes are being created, it crashes. Today I installed the latest versions of Rtools,

A new problem has cropped up with compiling vignettes for my package BayesFactor. I'm not sure when it started, but I can tell you it didn't occur on R 2.15.3, and it does on 3.0.0 RC (2013-03-31 r62463) (session info is at the bottom of this message). I have defined methods for which.min and which.max for a class (I've defined both S3 and S4 methods for the class

Hello, I'm trying to rebuild a package (using R version 3.3.2 (2016-10-31)) that has not seen any changes since it was last built without problems in previous R versions. It fails during vignette building with: ---<--------------------cut here---------------start------------------->--- $ R CMD build diveMove * checking for file ?diveMove/DESCRIPTION? ... OK * preparing ?diveMove?: *

...meta-information ... OK * cleaning src * installing the package to process help pages * saving partial Rd database * creating vignettes ...sh: line 1: 16259 Segmentation fault (core dumped) '/u/maechler/R/D/r-devel/inst/bin/Rscript' --vanilla --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)" > '/tmp/RtmpV1grVw/xshell3e793c7d5258' 2>&1 ERROR *** caught segfault *** address 0x1, cause 'memory not mapped' Traceback: 1: .Call(C_stri_locate_all_regex, str, pattern, omit_no_match, opts_regex) 2: stri_locate_a...

...t;> * installing the package to process help pages >> * saving partial Rd database >> * creating vignettes ...sh: line 1: 16259 Segmentation fault >> (core dumped) '/u/maechler/R/D/r-devel/inst/bin/Rscript' --vanilla >> --default-packages= -e "tools::buildVignettes(dir = '.', tangle = TRUE)" > >> '/tmp/RtmpV1grVw/xshell3e793c7d5258' 2>&1 >> ERROR >> >> *** caught segfault *** >> address 0x1, cause 'memory not mapped' >> >> Traceback: >> 1: .Call(C_stri_loc...

On 21/02/17 19:06, Sebastian P. Luque wrote: > Hello, > > I'm trying to rebuild a package (using R version 3.3.2 (2016-10-31)) > that has not seen any changes since it was last built without problems > in previous R versions. It fails during vignette building with: > > ---<--------------------cut here---------------start------------------->--- > $ R CMD build

Hi, I have the following error when building a package * creating vignettes ... ERROR Error: chunk 3 Error in pmatch(x, table, duplicates.ok) : argument is not of mode character Error in buildVignettes(dir = ".") : Error: chunk 3 Error in pmatch(x, table, duplicates.ok) : argument is not of mode character Execution halted I use R-2.0.1 under debian linux 2.6.9 Thanks for any idea Philippe -- Philippe Hup? UMR 144 - Service Bioinformatique Institut Curie Laboratoire de Tr...

On Windows, > Sys.getenv("MAKE") MAKE "" when (at a DOS prompt) X:>set MAKE Environment variable MAKE not defined On linux, > Sys.getenv("MAKE") MAKE "make" even when (in a shell) % echo $MAKE returns nothing. This has consequences, e.g., in buildVignette where system(Sys.getenv("MAKE")) dutifully does nothing on

In trying to change the driver used by Sweave on the command line using R CMD Sweave --driver=foo I consistently get the "directory 'foo' does not exist' error. (For any value of 'foo', even the default 'RweaveLatex'.) Looking up the source code for function .Sweave that is called by 'R CMD Sweave', I notice that the argument 'driver', if

...ook/delia.R [...] ${R} --vanilla --verbose < ${SUITE} the output of trying to build this package includes: * creating vignettes ... ERROR E:\biocbld\BBS-2~1.8-B\R/bin/R --vanilla --verbose < ../cookbook/delia.R E:biocbldBBS-2~1.8-BR/bin/R: not found make: *** [pdf] Error 127 Error in tools::buildVignettes(dir = ".") : running 'make' failed Execution halted It seems R_HOME is not getting resolved to a valid path. That's strange because R CMD echo shows the right thing: E:\sandbox>\biocbld\bbs-2.8-bioc\R\bin\R CMD echo %R_HOME% e:/biocbld/bbs-2.8-bioc/R That's a nice pa...