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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 [mailto:bioconductor-bounces at r-project.org] On Behalf Of Shields, Rusty (IMS) Sent: Tuesday, March 26, 2013 12:34 PM To: bioconductor at r-project.org Subject: [BioC] Error when installing...

Hello! I have some problems using Rcmd, bacause I get errors I do not understand. I will write down what I did. Perhaps you can help me? I have a small would-be package called "globaltest", containing only the files DESCRIPTION INDEX R/globaltest.R man/globaltest.Rd I say: C:\>Rcmd check C:/Goeman/globaltest In the output it first complains that 'sh', 'make', 'cp' are not recognizable commands, programs or batch files. Later it says *** Installatio...

Hi, Warnings issued at installation time are not reported by 'R CMD check'. Some of them are really important and telling something very useful to the developer. See for example this warning: http://bioconductor.org/checkResults/2.9/bioc-LATEST/globaltest/wilson2-checksrc.html Actually, there is no formal warning reported by 'R CMD check' for this package but if you scroll down the report and look at the output produced during installation (globaltest.Rcheck/00install.out), you'll see this: * installing *source* package ?globaltest?...

Sir, I want to fit a multinomial logistic regression in R.I think mlogit() is the function for doing this. mlogit () is in packege globaltest.But, I can not install this package. I use the following: install.packages("globaltest") Can you help me? Regards, Suman Dhara [[alternative HTML version deleted]]

Full_Name: Jelle Goeman Version: 1.9.0 OS: mingw32, windows 2000 Submission from: (NULL) (145.88.209.33) Hi Everyone, I get very strange results using the function hasArg with the ... function argument. In my own function: > gt <- globaltest(X,Y) > sampling(gt) works fine, but > sampling(globaltest(X,Y)) results in: Error in eval(expr, envir, enclos) : "missing" illegal use of missing I've tracked down the problem. Define the simple function: xory <- function(x, ...) if (hasArg(y)) y else x then x <-...

I use 2 packages that both implement a S4 plot method, where one package depends on the other (the bioconductor package globaltest which depends on multtest). When the plot method is used from within the package, it seems the default plot method is used, and an error is generated. When the method is invoked from the console, the plot is created correctly. I have reproduced this with 2 small packages (minipkg and minipkg2) impl...

...ss unpaired") returns this error: Error in 1:max(ngenes, na.rm = TRUE) : result would be too long a vector In addition: Warning message: In max(ngenes, na.rm = TRUE) : no non-missing arguments to max; returning -Inf Could someone explain the error? I have performed this analysis with the globaltest package without problems. SessionInfo() R version 2.9.1 (2009-06-26) i386-pc-mingw32 with thanks ---------------------------------------- David [[alternative HTML version deleted]]

...Systat, dBase, ... gcrma Background Adjustment Using Sequence Information genefilter genefilter: methods for filtering genes from microarray experiments geneplotter Grapics related functions for Bioconductor globaltest Testing Association of Groups of Genes with a Clinical Variable GO A data package containing annotation data for GO GO.db A set of annotation maps describing the entire Gene O...

I have recently upgraded to Ubuntu Gutsy and, for the first time, am using a 64-bit installation. After failing miserably to install R from source, not a problem for me in the past with a 32-bit install, I went the route of using the Debian Etch build. This went smoothly, but I am unable to update my numerous R and BioConductor packages, getting non-zero exit status errors on each package. Is