Package: pRoloc

Version: 1.0.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch pRoloc_1.0.0.tar.gz

StartedAt: 2013-05-01 09:33:41 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 09:45:00 -0700 (Wed, 01 May 2013)

EllapsedTime: 679.3 seconds

RetCode: 0

Status:  OK

CheckDir: pRoloc.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/pRoloc.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'pRoloc/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'pRoloc' version '1.0.0'
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'pRoloc' can be installed ... [41s/43s] 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 installed files from 'inst/doc' ... OK
* checking examples ... [80s/80s] OK
Examples with CPU or elapsed time > 5s
                         user system elapsed
perTurboClassification 17.950  0.133  18.217
rfClassification        8.121  0.234   8.415
nnetClassification      8.182  0.049   8.273
svmClassification       7.747  0.084   7.942
nbClassification        5.696  0.054   5.795
ksvmClassification      5.367  0.134   5.560
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'test-all.R' [212s/216s]
 [213s/216s] 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 'pRoloc' ...
** R
** inst
** preparing package for lazy loading
Warning: replacing previous import 'alpha' when loading 'scales'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import 'alpha' when loading 'scales'
* DONE (pRoloc)

name	user	system	elapsed
GenRegRes-class	0.023	0.007	0.030
chi2-methods	0.033	0.012	0.044
empPvalues	0.318	0.025	0.345
exprsToRatios-methods	0.558	0.025	0.603
getMarkers	0.068	0.011	0.078
getStockcol	0.134	0.021	0.155
knnClassification	1.886	0.040	1.949
ksvmClassification	5.367	0.134	5.560
makeNaData	2.438	0.039	2.494
minClassScore	0.132	0.015	0.149
minMarkers	0.113	0.015	0.129
nbClassification	5.696	0.054	5.795
nnetClassification	8.182	0.049	8.273
perTurboClassification	17.950	0.133	18.217
phenoDisco	0.007	0.004	0.012
plot2D	0.108	0.013	0.126
plotDist	0.175	0.018	0.233
plsdaClassification	0.009	0.006	0.015
rfClassification	8.121	0.234	8.415
svmClassification	7.747	0.084	7.942