similar to: Recent and upcoming changes to R-devel

Hi All, I posted this on the bioconductor list and didn't get a response there, so I'm hoping someone here can help. I don't know a heck of a lot about R, so I apologize if this seems like a trivial issue. This error comes up when trying to install the bioconductor globaltest package. Any clues? Thanks! Rusty -----Original Message----- From: bioconductor-bounces at r-project.org

Hello, This question popped up on the bioc-devel list, I'm forwarding it here. I know that sources for R-2.14 alpha can be found here: http://cran.r-project.org/src/base-prerelease/ But the OP (below) is asking about Windows binaries. Dan ---------- Forwarded message ---------- From: Stefan McKinnon H?j-Edwards <Stefan.Hoj-Edwards at agrsci.dk> Date: 2011/10/4 Subject: Re:

Hi, I just stumbled on the following apparent oddity: the package "datasets" does not appear to export anything out of its namespace: > ns_datasets <- getNamespace('datasets') > getNamespaceExports(ns_datasets) character(0) Not the case with other packages (example here with "utils"): > ns_utils <- getNamespace('utils') >

Hi, Why isn't 'R CMD check --force-multiarch' installing the package for all the architectures that are going to be checked? For some packages, it only installs for the default arch ('i386'). Then testing the package for 'x64' fails. For example, Output of R CMD check --force-multiarch fabia_1.5.0.tar.gz: ----------------------------------------------------------- *

I am the maintainer of a Bioconductor package (affylmGUI) which uses tcltk. It freezes inconsistently on MS Windows, but not Mac or Unix. see details below. After considerable testing I have reduced the problem from a few thousand lines of code to 30 lines! If you paste the following lines of code into an R window: testGUI <- function(){ require(tcltk) MainWindow <-

I'm using R version 2.13.0 (2011-04-13) on Mac OS X and I get the following error message with library(arules): Loading required package: Matrix Loading required package: lattice Attaching package: 'Matrix' The following object(s) are masked from 'package:base': det Error in dyn.load(file, DLLpath = DLLpath, ...) : unable to load shared object

Dear all, finally decided to do an Ubuntu upgrade and a new clean R install from http://cran.r-project.org/bin/linux/ubuntu/. However, while trying to install a package from R-forge I encountered problems, involving error messages saying "Rscript execution error: No such file or directory" (see below). The same procedure works on Ubuntu 11.04 running R 2.12.1-1 from the Ubuntu

Hi, Recently added to doc/NEWS.Rd: 'R CMD check' now gives a warning rather than a note if it finds inefficiently compressed datasets. With 'bzip2' and 'xz' compression having been available since R 2.10.0, there is no excuse for not using them. Why isn't a note enough for this? Generally speaking, warnings are for things that are dangerous, or unsafe,

Hi Kasper FWIW, the package development and maintenance support in 'mvbutils' makes it trivial to work with namespaced packages, even at the earliest stages of development. It's completely easy to add and remove functions to/from the namespace (and the exported visible bit) while the package is loaded. Debugging is seamless (via the 'debug' package, anyway). There is no need

HI, I would like to update my DESeq package version on R-2-14 using bioclite() and get this message, could somebody help please? > biocLite("DESeq") BioC_mirror: 'http://www.bioconductor.org' Using R version 2.14, BiocInstaller version 1.2.1. Installing package(s) 'DESeq' Installing package(s) into ?/nfs/team82/nac/R-modules? (as ?lib? is unspecified) trying URL

Following 7 patches are for PCIE AER (Advanced Error Reporting) support for XEN. --------------------------------------------------------------------------- Patches 1~4 back port from Linux Kernel which enables kernel support to AER. Those patches enable DOM0 PCIE error handling capability. When a device sends a PCIE error message to the root port, it will trigger an interrupt. The irq handler

When I did install.packages("sqldf") on Windows and Mac OSX, it installed fine. However, when I did it on my Debian Squeeze box under R 2.14.0, it failed. I discovered that three of the dependent packages, chron, proto, and gsubfn, do not include a NAMESPACE file in their distribution tar.gz files. I contacted the developer, who told me that, for packages without a NAMESPACE file, R 2.14

He tratado de usar la opcion demo() en R studio: > require("AER") Loading required package: AER Loading required package: Formula Loading required package: lmtest Loading required package: zoo Attaching package: ''zoo'' The following object(s) are masked from ''package:base'': as.Date, as.Date.numeric Loading required package: sandwich Loading

Disculpen se me escapó el portugués. 2011/11/30 Carlos J. Gil Bellosta <cgb@datanalytics.com> > El problema es que si tienes R instalado en tu $HOME, dependiendo de > la variable de entorno $PATH, uno de los ejecutables se llama primero > al llamar a R. > > Lo más natural sería eliminar R de $HOME ya que tienes instalada la > versión actual "como Dios manda".

Dear all, I seem to have many problems as I run R on my ubuntu system. want to set a mirror so that anytime I use the command "install.packages", it does not ask me for which mirror to use but go direct. This is because of the error I keep on getting below and I dont know how to solve it. Please help. Kind regards, Lazarus > library(epicalc) Loading required package: foreign

After upgrading my servers to 2.14, log files were filled warnings that 'mem.limits' has been deprecated and to use gc instead. After reading the NEWS for R 2.14.0 and PR#14795 I learned that it is actually deprecated without replacement. Hereby I just want to voice that this function was actually in use by at least several users. Among other things, it is a useful to limit per-session

I have a box set up with Kubuntu as the OS.? I didn't perform the R install but was told the version of R available via the apt-get command was 2.13.1.? Is there any way to get 2.14.0 in that same manner?

Hi folks, library(AER) data() I found the datasets of AER package. But I couldn't remove AER with: either detach("package:AER") or detach("package:AER", unload = TRUE) data() still found "car" there. What will be the correct way to remove it? TIA Besides:- I couldn't find EcDat > library(EcDat) Error in library(EcDat) : there is no package

Hi, After the recent r-base and r-base-core alpha releases in sid, some packages fail to load, e.g. r-cran-bitops: R> library(bitops) Error in library(bitops) : package ?bitops? does not have a NAMESPACE and should be re-installed I suppose these errors will get fixed after 2.14.0 is released. In the meantime, should we just downgrade r-base and r-base-core to the testing versions?

R Community, I often am in need of viewing the reference manuals of packages and do not have Internet access. I have used the code: path <- find.package('tm') system(paste(shQuote(file.path(R.home("bin"), "R")),"CMD", "Rd2pdf",shQuote(path))) someone kindly provided from this help list to generate the manuals from the latex files. This