[R] Error in setMethod("combine"... was - Error when installing globaltest package

[Shields, Rusty (IMS)]

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 globaltest package

Hi all,

I've run into a problem when attempting to install the globaltest package from Bioconductor.  I'm using R 2.14.0 on 64bit SLES 11.  Let me know what other information you might need about my system to troubleshoot this.

Using the method described for this installation on the Bioconductor website:

    source("http://bioconductor.org/biocLite.R")
    biocLite("globaltest")

I get and the following result, which I can't find an reference to on the list archives:

> biocLite("globaltest")
BioC_mirror: 'http://www.bioconductor.org'
Using R version 2.14, BiocInstaller version 1.2.1.
Installing package(s) 'globaltest'
trying URL 'http://www.bioconductor.org/packages/2.9/bioc/src/contrib/globaltest_5.8.1.tar.gz'
Content type 'application/x-gzip' length 956376 bytes (933 Kb)
opened URL
==================================================
downloaded 933 Kb

* installing *source* package âglobaltestâ ...
** R
** data
** inst
** preparing package for lazy loading
Warning in .simpleDuplicateClass(def, prev) :
  A specification for class âdata.frameOrNULLâ
                                              Creating a generic function for âsortâ from package âbaseâ in package âglobaltestâ
Creating a generic function for âmodel.matrixâ from package âstatsâ in package âglobaltestâ
Creating a generic function for âcoefficientsâ from package âstatsâ in package âglobaltestâ
Creating a generic function for âfitted.valuesâ from package âstatsâ in package âglobaltestâ
Creating a generic function for âresidualsâ from package âstatsâ in package âglobaltestâ
Error in setMethod("combine", signature(x = "gt.result", y = "gt.result"),  :
  no existing definition for function âcombineâ
Error : unable to load R code in package âglobaltestâ
ERROR: lazy loading failed for package âglobaltestâ
* removing â/usr/local/R-2.14.0/lib64/R/library/globaltestâ

The downloaded packages are in
        â/tmp/RtmpdCwjNB/downloaded_packagesâ
Updating HTML index of packages in '.Library'
Making packages.html  ... done
Old packages: 'caret'
Update all/some/none? [a/s/n]:

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