similar to: Error during R CMD check

R CMD check --use-valgrind <packagename> used to run valgrind on the tests in the tests directory of the package. But it seems to have stopped. R-2.9.1 doesn't -- at least on my box -- and neither does R-2.10.0 (devel). I am not sure when this stopped. I think 2.8.x did this. The only old R I have around is 2.6.0 and it certainly does. R CMD check --help for 2.9.1 says (among other

Background: OS: Linux Mandrake 10.1 release: R 2.1.1 editor: GNU Emacs 21.3.2 front-end: ESS 5.2.3 Colleagues Since I upgraded to R 2.1.1, I am getting a an error message from R CMD INSTALL packagename that says R_HOME ('/usr/local/lib/R') not found. That's not too surprising, since R is now in /usr/lib/R, but what is confusing me is that R CMD INSTALL -l /path/to/library

Hi all, I have a package that contains a function foo that calls a function .fooInternal via match.fun('.fooInternal'). This step is necessary because I want to give the user an option to override .fooInternal with a custom function. The .fooInternal function name is not exported. The function foo runs perfectly well when used in a normal R session. However, the function fails the R CMD

Hi, I have a problem in renaming R object and saving them within a loop. For ex: for (i in 1:length(all_files)) { uncov_GR <- "variable created in loop" filename <- paste0(sample_name[[i]],"_uncov", ".Rdata")) save(uncov_GR,file=filename) } Within the above short code (out of a long program), I want to

Hi, I've seen that some packages use .packageName internally to infer their own name. Is that officially supported? I could not find it documented anywhere. There's utils::packageName(), which internally looks for .packageName. However, if the latter is not found, it may return NULL whereas an error would be more appropriate if a package name is expected. Using .packageName would give

Hi, i want to use Puppet to install all packages from a webserver (no repository) . Therefore I wrote following Script: class install_package { case "$operatingsystem" { SLES: { notify {"${operatingsystem} ${operatingsystemrelease} detected":} notify {"Installing $packagename now:":}

> Am 16.12.2018 um 00:07 schrieb Gordon Messmer <gordon.messmer at gmail.com>: > > On 12/15/18 1:05 PM, Frank Cox wrote: >> Ultimately it would be very useful to have some kind of a tool that would generate a report from the rpms installed on a system and tell you exactly what depends on what else. Among other things you could use that report to remove stuff that's not

Dear R Core Team, I'm wondering whether it is useful that every package should allow for help(PackageName), giving some general information about the package (more/nicer than library(help=PackageName)). This man page may include some mathematical or statistical background, or contain a guideline for the package. Cheers, Martin -- Martin Schlather email:

Dear list memmbers, I would like to load a R library from a specified folder with library() and need help on how to call the command. The reason is that I am loading this library on a remote machine where I have no admin rights. Furthermore a library with the same name is already installed on that machine. I have modified this library slightly by modifying the source code and created a

Dear list memmbers, I would like to load a R library from a specified folder with library() and need help on how to call the command. The reason is that I am loading this library on a remote machine where I have no admin rights. Furthermore a library with the same name is already installed on that machine. I have modified this library slightly by modifying the source code and created a

Hi, in 'Writing R Extensions" of R v2.10.0, under Section 'Cross-references' (2009-09-07) it says: 1. "The markup \link{foo} (usually in the combination \code{\link{foo}}) produces a hyperlink to the help for foo. Here foo is a topic, that is the argument of \alias markup in another Rd file (possibly in another package)." 2. "You can specify a link to a different

I would like to have packages installed either in the early morning or whenever I manually choose to do so on a particular machine. I am trying to convert my existing configuration from cfengine so in that tool I had something like: packages: Hr03|ManualRun:: <package installation commands> This basically says to install packages if it''s either 3:00-3:59am or if

Dear all, Is there an elegant way to add citations of packages when using Sweave? Ideally I'd like a function which creates a Bibtex-file with the packagenames as keys. The idea is to use \cite{packagename} or \cite{R} in LaTeX. I know you can get the Bibtex entry with toBibtex(citation("packagename")). But after updating R or a package one needs to update the bib-file too. When

Background: OS: Linux Mandrake 10.1 release: R 2.1.1 editor: GNU Emacs 21.3.2 front-end: ESS 5.2.3 --------------------------------- Colleagues The environment variables checked with Sys.getenv() all appeared to be in the right place. The easy fix was to copy /usr/lib/R into /usr/local/lib/R then run the R CMD INSTALL packagename then just copy the package subdirectory back to

> On 12/17/18 3:50 AM, Leon Fauster via CentOS wrote: >> >> or this one :-) >> rpm -ev --test PACKAGENAME >> will list all packages that require PACKAGENAME > > > True.? I considered that, and then decided that I could never recommend > using "rpm -e" as a test, even with the --test flag, due to the risk of > operator error.? Though if you put it

... and also all objects that actually live in the .GenericArgsEnv environment. > all( sapply( ls( .GenericArgsEnv ), function(.) is.null(environment(.)) ) ) [1] TRUE This has the consequence preventing argsAnywhere to get the args of seq.int. > argsAnywhere( seq.int ) Error in exists(".packageName", envir = envir, inherits = FALSE) : use of NULL environment is defunct

Hi, I sent this to the Bioconductor mailing list (q.v.), replies recommended this forum. Here it is: A suggestion. Typically a package provides documentation of two types, one or more vignettes and a reference manual; and they have the same file name, PackageName.pdf. When downloaded some file name manipulation is required, or accept PackageName(1).pdf. I suggest the documents be given

Using R CMD INSTALL packagename.tar.gz on platform i686-pc-linux-gnu arch i686 os linux-gnu system i686, linux-gnu status major 1 minor 6.1 year 2002 month 11 day 01 language R I used to get html and latex files recreated only when the source .Rd file changed. Now I am getting html and latex (and text and example) recreated whenever I run R CMD INSTALL when I do

Using R CMD INSTALL packagename.tar.gz on platform i686-pc-linux-gnu arch i686 os linux-gnu system i686, linux-gnu status major 1 minor 6.1 year 2002 month 11 day 01 language R I used to get html and latex files recreated only when the source .Rd file changed. Now I am getting html and latex (and text and example) recreated whenever I run R CMD INSTALL when I do

Hello fellow CentOS'ers- I'm trying to install a package from a not-to-be-named repository (privately operated for some proprietary software). They currently have a package I need but offer multiple versions. However, if I simply 'yum install packagename' it defaults to pulling down the most recent package. I would like to pull down the older version of the package but I'm