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Package 357/462HostnameOS / ArchBUILDCHECKBUILD BIN
quantsmooth 1.19.0
Jan Oosting
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/quantsmooth
Last Changed Rev: 54802 / Revision: 55359
Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: quantsmooth
Version: 1.19.0
Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch quantsmooth_1.19.0.tar.gz
StartedAt: 2011-05-09 16:27:50 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 16:28:27 -0700 (Mon, 09 May 2011)
EllapsedTime: 36.9 seconds
RetCode: 0
Status:  OK 
CheckDir: quantsmooth.Rcheck
Warnings: 0

Command output

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/quantsmooth.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-04-24 r55634)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* 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 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 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 sizes of PDF files under ‘inst/doc’ ... NOTE
  ‘qpdf’ made some significant size reductions:
     compacted ‘quantsmooth.pdf’ from 298Kb to 121Kb
  consider running tools::compactPDF() on these files
* 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

quantsmooth.Rcheck/00install.out:

* 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)

quantsmooth.Rcheck/quantsmooth-Ex.timings:

nameusersystemelapsed
drawSimpleChrom0.0110.0000.012
getChangedRegions0.2320.0250.256
getLambdaMin1.0170.1911.218
grid.chromosome0.0620.0060.069
lengthChromosome0.1140.0130.126
numericCHR0.0020.0000.002
paintCytobands0.0930.0120.107
plotSmoothed0.2360.0350.272
position2Cytoband0.0740.0090.083
quantsmooth0.0230.0060.033
quantsmooth.cv0.0640.0130.083
quantsmooth.seg0.0140.0020.016