BioC 2.13: CHECK report for codelink on zin1

* using log directory ‘/home/biocbuild/bbs-2.13-bioc/meat/codelink.Rcheck’
* using R version 3.0.3 (2014-03-06)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘codelink/DESCRIPTION’ ... OK
* this is package ‘codelink’ version ‘1.30.9’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘codelink’ can be installed ... [15s/15s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking 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 metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [8s/8s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘codelink’ ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
in method for ‘createWeights’ with signature ‘"CodelinkSet"’: no definition for class “CodelinkSet”
in method for ‘createFlagWeights’ with signature ‘"CodelinkSet"’: no definition for class “CodelinkSet”
in method for ‘createTypeWeights’ with signature ‘"CodelinkSet"’: no definition for class “CodelinkSet”
Creating a generic function for ‘summary’ from package ‘base’ in package ‘codelink’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (codelink)

name	user	system	elapsed
Codelink-class	0.000	0.004	0.017
CodelinkSet-class	0.004	0.004	0.016
CodelinkSetUnique-class	0.000	0.004	0.017
arrayNew	0.000	0.004	0.004
as.matrix.Codelink	0.004	0.000	0.003
averageProbes	0.004	0.004	0.006
bkgdCorrect	1.064	0.008	1.117
createWeights	0.612	0.000	0.616
cutCV	0.008	0.000	0.006
dim.Codelink	0.008	0.000	0.007
imageCodelink	0.000	0.000	0.003
logCodelink	0.004	0.000	0.004
mergeArray	0.008	0.000	0.007
na2false	0.004	0.000	0.003
normalize	1.260	0.008	1.271
plotCorrelation	0.000	0.000	0.003
plotDensities	0.004	0.000	0.004
plotMA	0.004	0.000	0.003
readCodelink	0.008	0.000	0.007
readHeader	0.004	0.000	0.004
readHeaderXLS	0.004	0.000	0.003
writeCodelink	0.000	0.000	0.001

BioC 2.13: CHECK report for codelink on zin1

Summary

Command output