Package: PAN

Version: 1.1.1

Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings PAN_1.1.1.tar.gz

StartedAt: 2012-03-20 03:09:11 -0700 (Tue, 20 Mar 2012)

EndedAt: 2012-03-20 03:10:12 -0700 (Tue, 20 Mar 2012)

EllapsedTime: 60.9 seconds

RetCode: 0

Status:  OK

CheckDir: PAN.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/PAN.Rcheck’
* using R version 2.15.0 beta (2012-03-16 r58769)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PAN/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PAN’ version ‘1.1.1’
* 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 whether package ‘PAN’ 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 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
* 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 ‘PAN’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘PAN-Vignette.Rnw’ 
** testing if installed package can be loaded

* DONE (PAN)

name	user	system	elapsed
BetaMixture-class	0	0	0
PAN-class	0	0	0
assoScore	0.072	0.000	0.074
buildPAN	1.576	0.024	1.618
cosineSim	0.004	0.000	0.004
data-Bakal2007	0.024	0.000	0.021
exportPAN	0	0	0
fitBM	0	0	0
fitNULL	28.833	0.004	29.050
infer	0.848	0.012	0.882
permNULL	0.080	0.000	0.083
pvclustModule	0	0	0
sigModules	0	0	0
summarize	0.008	0.008	0.015
view	0.265	0.004	0.270
viewLegend	0	0	0
viewNestedModules	0	0	0
viewPAN	0	0	0