Package: phenoDist

Version: 1.6.0

Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings phenoDist_1.6.0.tar.gz

StartedAt: 2013-03-25 03:41:58 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 03:50:33 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 514.5 seconds

RetCode: 0

Status:  OK

CheckDir: phenoDist.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/phenoDist.Rcheck’
* using R version 2.15.3 (2013-03-01)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘phenoDist/DESCRIPTION’ ... OK
* this is package ‘phenoDist’ version ‘1.6.0’
* 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 ‘phenoDist’ 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 installed files from ‘inst/doc’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
distToNeg            165.539  0.544 177.357
PDMBySvmWeightVector  21.325  0.104  23.208
PDMBySvmAccuracy      10.981  0.084  12.495
PDMByKS               10.413  0.232  33.135
PDMByFactorAnalysis    4.380  0.080  16.630
* 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 ‘phenoDist’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘phenoDist.Rnw’ 
** testing if installed package can be loaded

* DONE (phenoDist)

name	user	system	elapsed
PDMByFactorAnalysis	4.38	0.08	16.63
PDMByKS	10.413	0.232	33.135
PDMBySvmAccuracy	10.981	0.084	12.495
PDMBySvmWeightVector	21.325	0.104	23.208
PDMByWellAvg	1.848	0.012	3.863
clusterDist	0.652	0.036	0.978
ctlSeparatn	0	0	0
distToNeg	165.539	0.544	177.357
enrichAnalysis	0	0	0
repCorr	0	0	0
repDistRank	0	0	0