Package: globaltest

Version: 5.8.1

Command: D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch globaltest_5.8.1.tar.gz

StartedAt: 2012-01-09 03:22:20 -0800 (Mon, 09 Jan 2012)

EndedAt: 2012-01-09 03:25:25 -0800 (Mon, 09 Jan 2012)

EllapsedTime: 184.6 seconds

RetCode: 0

Status:  OK

CheckDir: globaltest.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/globaltest.Rcheck'
* using R version 2.14.1 (2011-12-22)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'globaltest/DESCRIPTION' ... OK
* this is package 'globaltest' version '5.8.1'
* 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 'globaltest' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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 'globaltest' ...
** R
** data
** inst
** preparing package for lazy loading
Warning in .simpleDuplicateClass(def, prev) :
  A specification for class "data.frameOrNULL" in package 'globaltest' seems equivalent to one from package 'Biobase' and is not turning on duplicate class definitions for this class
Creating a generic function for 'sort' from package 'base' in package 'globaltest'
Creating a generic function for 'model.matrix' from package 'stats' in package 'globaltest'
Creating a generic function for 'coefficients' from package 'stats' in package 'globaltest'
Creating a generic function for 'fitted.values' from package 'stats' in package 'globaltest'
Creating a generic function for 'residuals' from package 'stats' in package 'globaltest'
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'GlobalTest.Rnw' 
   'GlobalTest_deprecated.Rnw' 
** testing if installed package can be loaded

* DONE (globaltest)

name	user	system	elapsed
comparative	2.75	0.02	2.78
diagnostics	0.83	0.01	0.97
genesettesting	0	0	0
goodnessoffit	0.90	0.00	0.92
gt	0.88	0.00	0.87
gt.object-class	0.51	0.02	0.54
gtoptions	0	0	0
mlogit	0.02	0.01	0.03
multtest	0.4	0.0	0.4
v4_checkerboard	0.07	0.00	0.07
v4_geneplot	0.53	0.02	0.54
v4_globaltest	5.36	0.01	5.42
v4_multtest	0.53	0.02	0.55
v4_permutations	2.06	0.05	2.11
v4_regressionplot	1.44	0.03	1.47
v4_sampleplot	0.52	0.00	0.52
v4_sampling	36.64	0.00	36.64