search for: vignettedepends

R CMD check gives an error when a vignette entry %\VignetteDepends{} has any extra space at the end. Maybe this is by design, but I found it confusing. Changing the function "vignetteMetaRE" in tools package could solve the problem. I.e. vignetteMetaRE <- function(tag) paste("[[:space:]]*%+[[:space:]]*\\\\Vignette", tag,"\\{([^}]*...

I have built today's R-devel without problem on a fresh installation of debian testing. However, 'make check' fails. In 'tests/Examples/tools-Ex.Rout.fail': > ### * vignetteDepends > > flush(stderr()); flush(stdout()) > > ### Name: vignetteDepends > ### Title: Retrieve Dependency Information for a Vignette > ### Aliases: vignetteDepends > ### Keywords: utilities > > ### ** Examples > > gridEx <- system.file("doc", "grid.Snw&q...

...39; * using R version 2.4.1 (2006-12-18) * checking for file 'test2/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'test' version '0.1.0' * checking package dependencies ... ERROR Vignette dependencies not required: test Vignette dependencies (\VignetteDepends{} entries) must be contained in the DESCRIPTION Depends/Suggests entries. I got the same behaviour with recent R-devel (2007-04-18 r41219). Search on R-{help,devel} and BioC mailing lists did not show any relevant info for this error. Search in R-devel sources reveals that above error string come...

...oes not refer to any vignettes. The vignette does not appear in the main page for utils in help.start(). I checked the source code for the Sweave vignette, but I don't see anything wrong. It has all of the required elements: %\VignetteIndexEntry{Sweave User Manual} %\VignettePackage{utils} %\VignetteDepends{tools} %\VignetteDepends{datasets} %\VignetteDepends{stats} Am I accessing it incorrectly, or is there something wrong in my install of R-2.15.1? > sessionInfo() R version 2.15.1 (2012-06-22) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_T...

Could someone please point me to where information about the two entries %\VignetteDepends{} and %\VignettePackage{} are documented? I'm getting an error with %\VignetteDepends{} with my package name in braces. Looking at the vignettes on my system, some include the package name and some don't. Should it be there? If so, why might I be getting an error doing so? $ R CMD check S...

Dear List, I recently stumbled over the possibility and need to specifiy % \VignetteDepends{} in my vignettes. I did not know about this, and I notice that it is not mentioned in the R-extensions manual section "Writing package vignettes". I have some questions with regards to that: - would it be possible to include into the section "Writing package vignettes" some...

I recently wrote a vignette, with the following at the top of the .Rnw file: %%\VignetteIndexEntry{How to use look up tables for h() functions} %%\VignetteDepends{sjedmin, spatstat} Using vExplorer() on this function, I got an error from this part of getVigInfo(): lines <- grep("^%[[:space:]]*\\\\Vignette", file) if (length(lines) == 0) stop("File ", vig, " does not appear to be a vignette file, ",...

...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 tha...

...mpanion for explanation. Type H <return> for immediate help. ... l.9 \begin {document} ? -------------- TEX FILE ------------------ % \VignetteIndexEntry{GeneSpring contents} % \VignetteDepends{GeneSpring} % \VignetteKeywords{Interface} % \VignettePackage{GeneSpring} \documentclass{article} \usepackage{C:/PROGRA~1/SILICO~1/GENESP~1/data/rw1081/share/texmf/Sweave} \begin{document} \author{Thon de Boer} \title{Using R with GeneSpring} \maketitle \copyright{2003 Silicon Genetics} \sec...

...R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. *************** *** 831,853 **** > ## This may not be installed > gridEx <- system.file("doc", "grid.Rnw", package = "grid") > vignetteDepends(gridEx) - $Depends - [1] "lattice" - - $Installed - [1] "lattice" - - $Found - list() - - $NotFound - character(0) - - $R - [1] "R (>= 2.14.0)" - - attr(,"class") - [1] "DependsList" "list" > > > --- 831,836 ----

>>>>> On Fri, 29 Oct 2004 12:47:46 +0200 (CEST), >>>>> S J Eglen (SJE) wrote: > I recently wrote a vignette, with the following at the top of the .Rnw > file: > %%\VignetteIndexEntry{How to use look up tables for h() functions} > %%\VignetteDepends{sjedmin, spatstat} > Using vExplorer() on this function, I got an error from this part of > getVigInfo(): > lines <- grep("^%[[:space:]]*\\\\Vignette", file) > if (length(lines) == 0) > stop("File ", vig, " does not appear to b...

Hi, Could someone point me to the relevant documentation that covers what should be in the DESCRIPTION file for packages that have functions imported via the NAMESPACE file? I have read the R Extensions manual, but I cannot find where it covers the DESCRIPTION file vis a vis importing from a namespace. An example: I have a package foo that uses two functions x and y from package bar. Both

...it is only used for external tar commands which increasingly for extraction auto-detect compression and ignore their zjJ flags. * var(f) and hence sd(f) now give an error for factor arguments; they gave a deprecation warning since R 3.2.3, PR#16564. * Package tools' vignetteDepends() has been deprecated (it called a function deprecated since Feb 2016), being partly replaced by newly exported vignetteInfo(). * The f77_f2c script has been removed: it no longer sufficed to compile the .f files in R. * The deprecated legacy support of make macros such...

...it is only used for external tar commands which increasingly for extraction auto-detect compression and ignore their zjJ flags. * var(f) and hence sd(f) now give an error for factor arguments; they gave a deprecation warning since R 3.2.3, PR#16564. * Package tools' vignetteDepends() has been deprecated (it called a function deprecated since Feb 2016), being partly replaced by newly exported vignetteInfo(). * The f77_f2c script has been removed: it no longer sufficed to compile the .f files in R. * The deprecated legacy support of make macros such...

...it is only used for external tar commands which increasingly for extraction auto-detect compression and ignore their zjJ flags. * var(f) and hence sd(f) now give an error for factor arguments; they gave a deprecation warning since R 3.2.3, PR#16564. * Package tools' vignetteDepends() has been deprecated (it called a function deprecated since Feb 2016), being partly replaced by newly exported vignetteInfo(). * The f77_f2c script has been removed: it no longer sufficed to compile the .f files in R. * The deprecated legacy support of make macros such...

...CMD check's 'checking compilation flags in Makevars' has been relaxed to accept the use of flags such as -std=f2008 in PKG_FFLAGS. * tools::buildVignettes() has a new argument skip, which is used by R CMD check to skip (and note) vignettes with unavailable \VignetteDepends (PR#18318). * New generic .AtNames() added to enable class-specific completions after @. The formerly internal function findMatches() is now exported, mainly for use in methods for .DollarNames() and .AtNames(). DEPRECATED AND DEFUNCT: * default.stringsAsFactors() is...

...CMD check's 'checking compilation flags in Makevars' has been relaxed to accept the use of flags such as -std=f2008 in PKG_FFLAGS. * tools::buildVignettes() has a new argument skip, which is used by R CMD check to skip (and note) vignettes with unavailable \VignetteDepends (PR#18318). * New generic .AtNames() added to enable class-specific completions after @. The formerly internal function findMatches() is now exported, mainly for use in methods for .DollarNames() and .AtNames(). DEPRECATED AND DEFUNCT: * default.stringsAsFactors() is...

...SCRIPTION file of packages may contain a 'Suggests:' field for packages that are only used in examples or vignettes. o Added an option to package.dependencies() to handle the 'Suggests' levels of dependencies. o Vignette dependencies can now be checked and obtained via vignetteDepends. o Option 'repositories' to list URLs for package repositories added. o package.description() has been replaced by packageDescription(). o R CMD INSTALL/build now skip Subversion's .svn directories as well as CVS directories. C-LEVEL FACILITIES o arraySubscript a...

...SCRIPTION file of packages may contain a 'Suggests:' field for packages that are only used in examples or vignettes. o Added an option to package.dependencies() to handle the 'Suggests' levels of dependencies. o Vignette dependencies can now be checked and obtained via vignetteDepends. o Option 'repositories' to list URLs for package repositories added. o package.description() has been replaced by packageDescription(). o R CMD INSTALL/build now skip Subversion's .svn directories as well as CVS directories. C-LEVEL FACILITIES o arraySubscript a...