Package: PANR

Version: 1.5.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch PANR_1.5.1.tar.gz

StartedAt: 2013-03-24 08:32:40 -0700 (Sun, 24 Mar 2013)

EndedAt: 2013-03-24 08:34:25 -0700 (Sun, 24 Mar 2013)

EllapsedTime: 105.7 seconds

RetCode: 0

Status:  OK

CheckDir: PANR.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/PANR.Rcheck'
* using R version 3.0.0 beta (2013-03-21 r62346)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'PANR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PANR' version '1.5.1'
* 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 'PANR' can be installed ... [3s/4s] 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 ... [43s/50s] OK
Examples with CPU or elapsed time > 5s
          user system elapsed
fitNULL 38.008  0.415  44.816
* 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 'PANR' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'PANR-Vignette.Rnw' 
** testing if installed package can be loaded
* DONE (PANR)

name	user	system	elapsed
BetaMixture-class	0.011	0.002	0.012
PAN-class	0.012	0.002	0.021
SNR2p	0.011	0.002	0.015
assoScore	0.036	0.004	0.041
buildPAN	1.591	0.063	2.128
cosineSim	0.014	0.006	0.019
data-Bakal2007	0.033	0.009	0.059
exportPAN	0.009	0.003	0.012
fitBM	0.012	0.001	0.014
fitNULL	38.008	0.415	44.816
infer	1.089	0.044	1.143
p2SNR	0.009	0.003	0.012
permNULL	0.098	0.007	0.111
pvclustModule	0.009	0.007	0.015
sigModules	0.008	0.006	0.013
summarize	0.029	0.007	0.037
view	0.384	0.051	0.439
viewLegend	0.007	0.001	0.008
viewNestedModules	0.008	0.005	0.013
viewPAN	0.008	0.005	0.012