stepNorm 1.11.0
Yuanyuan Xiao
| Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/stepNorm | | Last Changed Rev: 27716 / Revision: 29143 | | Last Changed Date: 2007-10-02 18:16:39 -0700 (Tue, 02 Oct 2007) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | ERROR | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | [ ERROR ] | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | ERROR | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | ERROR | OK |
| lemming | Windows Server 2003 (32-bit) / x64 | OK | ERROR | OK |
* checking for working latex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.2-bioc/meat/stepNorm.Rcheck'
* using R version 2.7.0 Under development (unstable) (2007-12-06 r43609)
* checking for file 'stepNorm/DESCRIPTION' ... OK
* this is package 'stepNorm' version '1.11.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'stepNorm' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating stepNorm-Ex.R ... OK
* checking examples ... ERROR
Running examples in 'stepNorm-Ex.R' failed.
The error most likely occurred in:
> ### * calcAIC
>
> flush(stderr()); flush(stdout())
>
> ### Name: calcAIC
> ### Title: Extract AIC from a Fitted Model
> ### Aliases: calcAIC
> ### Keywords: manip
>
> ### ** Examples
>
> ## load in swirl data
> data(swirl)
>
> ## fit a model
> fit <- fitWithin(fun="medfit")
> ## res is an object of class marrayFit
> res <- fit(swirl[,1])
>
> ## calculate AIC
> calcAIC(res)
Dev enp penalty Criterion
-10147.90 1.00 2.00 -10145.90
> ## or could pass in the residual vector, but then argument "enp" needs to be specified
> calcAIC(res$residual, enp=1)
Error in fit$residuals : $ operator is invalid for atomic vectors
Calls: calcAIC
Execution halted
/loc/home/biocbuild/bbs-2.2-bioc/meat/stepNorm.Rcheck
* Installing *source* package 'stepNorm' ...
** R
** inst
** help
Note: unmatched right brace in 'marrayFitClass' on or after line 63
Note: unmatched right brace in 'withinNorm' on or after line 12
>>> Building/Updating help pages for package 'stepNorm'
Formats: text html latex example
calcAIC text html latex example
calcBIC text html latex example
fit2DWithin text html latex example
fitWithin text html latex example
maCompPlate2 text html latex example
makeStepList text html latex example
marrayFitClass text html latex example
seqWithinNorm text html latex example
stepNorm-internal text html latex
stepWithinNorm text html latex example
withinNorm text html latex example
** building package indices ...
* DONE (stepNorm)