Package: PAN

Version: 1.0.2

Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings PAN_1.0.2.tar.gz

StartedAt: 2012-03-20 01:50:41 -0700 (Tue, 20 Mar 2012)

EndedAt: 2012-03-20 01:51:42 -0700 (Tue, 20 Mar 2012)

EllapsedTime: 61.1 seconds

RetCode: 0

Status:  OK

CheckDir: PAN.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/PAN.Rcheck’
* using R version 2.14.2 (2012-02-29)
* 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 ‘1.0.2’
* 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 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 ...
*** tangling vignette sources ...
   ‘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	0.02	0.00	0.02
buildPAN	1.672	0.032	1.712
cosineSim	0.004	0.000	0.004
data-Bakal2007	0.044	0.000	0.047
exportPAN	0	0	0
fitBM	0	0	0
fitNULL	28.733	0.052	29.838
infer	0.888	0.004	0.948
permNULL	0.112	0.000	0.113
pvclustModule	0.000	0.000	0.001
sigModules	0	0	0
summarize	0.040	0.000	0.043
view	0.361	0.004	0.372
viewLegend	0	0	0
viewNestedModules	0	0	0
viewPAN	0	0	0