Package: LMGene

Version: 2.14.0

Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch LMGene_2.14.0.tar.gz

StartedAt: 2013-03-25 00:13:51 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 00:17:00 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 189.2 seconds

RetCode: 0

Status:  OK

CheckDir: LMGene.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/LMGene.Rcheck'
* using R version 2.15.3 (2013-03-01)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'LMGene/DESCRIPTION' ... OK
* this is package 'LMGene' version '2.14.0'
* 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 whether package 'LMGene' can be installed ... OK
* checking installed package size ... 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 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
tranestAffyProbeLevel 69.426 24.081 105.581
tranest               11.372  4.170  16.455
* 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
   'LMGene.Rnw' 
** testing if installed package can be loaded

* DONE (LMGene)

name	user	system	elapsed
LMGene	2.926	0.971	4.091
genediff	2.787	0.980	3.950
glog	0.005	0.002	0.007
lnorm	0.126	0.009	0.137
lnormeS	0.078	0.007	0.087
neweS	0.060	0.004	0.064
norm	0.071	0.009	0.082
plotMeanSD	0.112	0.009	0.124
psmeans	0.149	0.009	0.159
rowaov	2.746	1.015	3.933
sample.eS	0.064	0.004	0.071
sample.ind	0.125	0.007	0.134
sample.mat	0.069	0.007	0.079
tranest	11.372	4.170	16.455
tranestAffyProbeLevel	69.426	24.081	105.581
transeS	0.007	0.002	0.009
vlist	0.003	0.001	0.004