Package: LMGene

Version: 2.16.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch LMGene_2.16.0.tar.gz

StartedAt: 2013-05-01 07:29:44 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 07:33:26 -0700 (Wed, 01 May 2013)

EllapsedTime: 222.1 seconds

RetCode: 0

Status:  OK

CheckDir: LMGene.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/LMGene.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'LMGene/DESCRIPTION' ... OK
* this is package 'LMGene' version '2.16.0'
* 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 'LMGene' can be installed ... [6s/6s] OK
* checking installed package size ... OK
* checking package 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 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 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 examples ... [145s/158s] OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
tranestAffyProbeLevel 95.507 18.928 126.622
tranest               14.047  1.483  16.055
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package 'LMGene' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (LMGene)

name	user	system	elapsed
LMGene	3.469	0.272	3.868
genediff	3.111	0.279	3.512
glog	0.027	0.003	0.032
lnorm	0.304	0.014	0.332
lnormeS	0.106	0.011	0.151
neweS	0.094	0.006	0.116
norm	0.099	0.006	0.109
plotMeanSD	0.158	0.013	0.181
psmeans	0.188	0.008	0.209
rowaov	3.366	0.310	3.830
sample.eS	0.088	0.004	0.093
sample.ind	0.169	0.007	0.176
sample.mat	0.101	0.005	0.105
tranest	14.047	1.483	16.055
tranestAffyProbeLevel	95.507	18.928	126.622
transeS	0.043	0.026	0.070
vlist	0.008	0.008	0.016