Package: quantsmooth

Version: 1.19.0

Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch quantsmooth_1.19.0.tar.gz

StartedAt: 2011-07-07 03:14:12 -0700 (Thu, 07 Jul 2011)

EndedAt: 2011-07-07 03:14:42 -0700 (Thu, 07 Jul 2011)

EllapsedTime: 29.4 seconds

RetCode: 0

Status:  OK

CheckDir: quantsmooth.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/quantsmooth.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56036)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'quantsmooth/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'quantsmooth' version '1.19.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'quantsmooth' 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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
grid.chromosome: no visible binding for global variable 'chrom.bands'
lengthChromosome: no visible binding for global variable 'chrom.bands'
paintCytobands: no visible binding for global variable 'chrom.bands'
position2Cytoband: no visible binding for global variable 'chrom.bands'
* 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 'quantsmooth' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: SparseM
Package SparseM (0.89) loaded.
	   To cite, see citation("SparseM")


Attaching package: 'SparseM'

The following object(s) are masked from 'package:base':

    backsolve

Loading required package: grid
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'quantsmooth.Rnw' 
** testing if installed package can be loaded

* DONE (quantsmooth)

name	user	system	elapsed
drawSimpleChrom	0.01	0.00	0.02
getChangedRegions	0.18	0.00	0.19
getLambdaMin	0.78	0.00	0.79
grid.chromosome	0.07	0.00	0.14
lengthChromosome	0.11	0.02	0.13
numericCHR	0	0	0
paintCytobands	0.07	0.01	0.09
plotSmoothed	0.12	0.00	0.13
position2Cytoband	0.08	0.00	0.08
quantsmooth	0.01	0.00	0.02
quantsmooth.cv	0.05	0.00	0.04
quantsmooth.seg	0	0	0