similar to: checkS3methods() change

Dear all, I am trying to wrap up a package. On entering R CMD check, I get the following error messages: [...] * checking S3 generic/method consistency ... WARNING Error in .try_quietly({ : Error in library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE) : package/namespace load failed for 'resper' Execution halted See section 'Generic functions and methods'

The file src/library/base/R/print.R contains this line: x0 <- xm[okP]==0 != (as.numeric(Cf[okP])==0) I didn't know R allowed that, and I wonder if it is deliberate? In mathematics, you would expect x = y not= z to mean (x = y) and (y not= z).; In R, it is parsed as (x == y) != z. While I have to admit that the spacing around == and != in

Hello, I wrote a library which seems to work on my PC, and on different Unix systems. As it is written in the "Writing R Extensions" manual, I execute a R CMD check on my library. I have always the same errors messages: * checking S3 generic/method consistency ... WARNING Error in .try_quietly({ : Error in library(package, lib.loc = lib.loc, character .only = TRUE,

Full_Name: Edoardo Giacopuzzi Version: 2.0.1 OS: Windows XP Home Submission from: (NULL) (80.181.65.157) I have some problem with this new version of R GUI. I've used limmaGUI package with an older version of R and it works perfectlly, but now with the last version R 2.0.1.0 two error boxs appear every time I try to launch this package: 1. <<Error in list.files(path, pattern,

Dear all, I have a question about limmaGUI that is usually run in R environment. My problem is loading data into the programm. I have 6 gpr files that apparently are not compatible with limma. Everytime I'm trying to load the data (including a RNA targets file, an error appears:Error reading files. that I'm not sure,but seems to have something to do with the format of my files

After entering ?library(rpart)?, I tried to plot an existing rpart tree, and got this error message: Error: couldn't find function "plot.rpart". However, ??plot.rpart? does bring up the help for the function. The same things occur for text.rpart, although print(my.tree) does work. So, I tried to re-install rpart using Packages | Install from CRAN, but then I get this

I'm trying to update my Matrix package given the update last night. But the following error is generated. I've tried restarting R and deleting my old Matrix package. Can anyone suggest how this might be resolved? > install.packages('Matrix') trying URL 'http://www.ibiblio.org/pub/languages/R/CRAN/bin/windows/contrib/2.1/Mat rix_0.98-1.zip' Content type

Full_Name: michael cole Version: 1.9.1 OS: Windows Submission from: (NULL) (80.219.153.13) When trying to install lattice graphics... I receieve the following: trying URL `http://cran.r-project.org/bin/windows/contrib/1.9/lattice_0.9-16.zip' Content type `application/zip' length 496618 bytes opened URL downloaded 484Kb package 'lattice' successfully unpacked and MD5 sums

When trying to update (various) packages using update.packages() I get the following error message for various packages package 'fBasics' successfully unpacked and MD5 sums checked Error in unpackPkg(foundpkgs[okp, 2L], foundpkgs[okp, 1L], lib) : malformed bundle DESCRIPTION file, no Contains field > This happens with other packages besides fBasics (Matrix, as well as others) and I

When trying to update (various) packages using update.packages() I get the following error message for various packages package 'fBasics' successfully unpacked and MD5 sums checked Error in unpackPkg(foundpkgs[okp, 2L], foundpkgs[okp, 1L], lib) : malformed bundle DESCRIPTION file, no Contains field > This happens with other packages besides fBasics (Matrix, as well as others)

Hi, I have installed R 1.9.0 under Windows XP. When I used "Packages->Install Package(s) from CRAN..." to install the package 'gregmisc', I got this message: > local({a <- CRAN.packages() + install.packages(select.list(a[,1],,TRUE), .libPaths()[1], available=a)}) trying URL `http://cran.r-project.org/bin/windows/contrib/1.9/PACKAGES' Content type `text/plain;

Hello, In limmaGUI, after running a linear model for a single gene & time point (mutant vs control), the venn-diagram for differentially expressed genes with a p-value cut-off gives a different number than the top-table with the same cut-off (2600 vs. 791). I have seen the same thing happen before for multiple time points (when the venn-diagram is more relevant) Any ideas what is going on?

Hello, I am a new R user not at ease with installing and updating R package under Ubuntu (Hardy), so that I cannot run R anymore ...! I initially installed r version 2.6.2.2 (amd64) from Intrepid instead of Hardy (!), but it worked. I tried to update to version 2.9, but did not succeeded:    (1) I added to my /etc/apt/sources.list an entry :           deb

Hi I have been trawling the web, FAQs, and R manuals for help on the following issue, but have failed and was wondering if anyone has a solution to the following problem: After having installed R 2.6.2 for Windows (binary), I tried to install various packages. Every time I try loading a package (any package) via the built-in menu, I run into the following error message. >

Now I try to add some C and Fortan code to my package, so the NAMESPACE file is useDynLib(eha) importFrom(survival, Surv) export(mlreg.fit, risksets) but I get ..... * checking R files for library.dynam ... OK * checking S3 generic/method consistency ... WARNING Error in .try_quietly({ : Error in library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE) :

Dear R-helpers, I have installed the latest version of R 2.1.1 in the Tiger OSX. However, when I load up R and use the following command: > library(tcltk) I encounter the following error: Loading Tcl/Tk interface ... Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library '/Library/Frameworks/R.framework/Resources/library/tcltk/libs/tcltk.so':

Dear expeRts, I am trying to wrap up a package "utilities" (for my internal use). After adding a function datNAtreat that uses mapply, R CMD check gives WARNINGs for "S3 generic/method consistency", "checking replacement functions" and?"checking foreign function calls", all of which are accompanied by the following error message: Error in .try_quietly

Dear useRs, Lately I noticed a strange warning in the summary of a lm-object. Any idea what this warning is about? I'm using R 2.5.1 on Win XP pro. > x <- rnorm(100) > y <- rnorm(100) > summary(lm(y~x)) Call: lm(formula = y ~ x) Residuals: Min 1Q Median 3Q Max -1,77809 -0,68438 -0,04409 0,63891 2,30863 Coefficients: Estimate Std.

Hello, I am trying to install R2HTML version 1.4-3, but am getting errors when I try to use it. I am running R 1.9.1 on Redhat Linux Ent 3 AS x86_64. I installed R2HTML using the following command "R CMD INSTALL R2HTML_1.4-3.tar.gz". I did not get any errors when installing it. When I launch R and type library('R2HTML'), I get the following error: >

Hi all, I'm working on microarray and currently analyzing the microrarray data using limmaGUI. Loop design has been applied in this experiment. This is a 2X2 factorial experiment where there are control and treatment at 2 different time points, week 6 and 9. The experimental design is almost the same as the limmaGUI work example: Weaver Data set. I would like to look at the effect of