Package: LMGene

Version: 2.15.0

Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings LMGene_2.15.0.tar.gz

StartedAt: 2013-01-16 03:58:28 -0800 (Wed, 16 Jan 2013)

EndedAt: 2013-01-16 04:01:15 -0800 (Wed, 16 Jan 2013)

EllapsedTime: 166.9 seconds

RetCode: 0

Status:  OK

CheckDir: LMGene.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/LMGene.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘LMGene/DESCRIPTION’ ... OK
* this is package ‘LMGene’ version ‘2.15.0’
* 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 ... 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 ... OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
tranestAffyProbeLevel 88.362  0.432  89.480
tranest               14.409  0.004  14.415
* 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	3.240	0.024	3.271
genediff	2.776	0.000	2.779
glog	0.020	0.000	0.023
lnorm	0.140	0.000	0.142
lnormeS	0.092	0.000	0.093
neweS	0.196	0.008	0.204
norm	0.072	0.004	0.078
plotMeanSD	0.120	0.008	0.132
psmeans	0.136	0.008	0.144
rowaov	2.812	0.008	2.819
sample.eS	0.076	0.008	0.085
sample.ind	0.128	0.008	0.143
sample.mat	0.084	0.000	0.087
tranest	14.409	0.004	14.415
tranestAffyProbeLevel	88.362	0.432	89.480
transeS	0.012	0.000	0.013
vlist	0.008	0.000	0.009