Package: CMA

Version: 1.10.0

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings CMA_1.10.0.tar.gz

StartedAt: 2011-10-20 12:18:59 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 12:20:12 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 72.4 seconds

RetCode: 0

Status:  OK

CheckDir: CMA.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/CMA.Rcheck’
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CMA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CMA’ version ‘1.10.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘CMA’ 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 ... NOTE
ROCinternal: no visible binding for global variable ‘xlab’
ROCinternal: no visible binding for global variable ‘ylab’
ROCinternal: no visible binding for global variable ‘main’
ROCinternal: no visible binding for global variable ‘lwd’
rfe: no visible binding for global variable ‘cost’
* 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 ‘CMA’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (CMA)

name	user	system	elapsed
ElasticNetCMA	4.324	0.088	4.421
GeneSelection	0.352	0.012	0.377
GenerateLearningsets	0.012	0.004	0.018
LassoCMA	0.624	0.012	0.636
Planarplot	0.292	0.000	0.294
classification	0.000	0.000	0.001
compBoostCMA	1.660	0.004	2.017
compare	0	0	0
dldaCMA	0.256	0.004	0.274
evaluation	0.180	0.008	0.188
fdaCMA	0.092	0.000	0.091
flexdaCMA	0.216	0.016	0.231
gbmCMA	4.572	0.052	4.660
golub	0.036	0.000	0.043
khan	0.032	0.000	0.033
knnCMA	0.484	0.008	0.491
ldaCMA	0.112	0.004	0.143
nnetCMA	0.080	0.004	0.090
pknnCMA	0.18	0.00	0.18
plrCMA	0.736	0.000	0.734
pls_ldaCMA	0.388	0.000	0.447
pls_lrCMA	0.185	0.004	0.260
pls_rfCMA	0.100	0.004	0.118
pnnCMA	0.036	0.000	0.036
prediction	0.000	0.000	0.001
qdaCMA	0.104	0.004	0.109
rfCMA	0.092	0.000	0.094
scdaCMA	0.132	0.004	0.144
shrinkldaCMA	0.168	0.004	0.202
svmCMA	1.384	0.004	1.449
tune	0	0	0