Package: flowQ

Version: 1.11.0

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch flowQ_1.11.0.tar.gz

StartedAt: 2011-02-24 19:12:25 -0800 (Thu, 24 Feb 2011)

EndedAt: 2011-02-24 19:15:59 -0800 (Thu, 24 Feb 2011)

EllapsedTime: 213.9 seconds

RetCode: 0

Status:  OK

CheckDir: flowQ.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.8-bioc/meat/flowQ.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowQ/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowQ’ version ‘1.11.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘flowQ’ can be installed ... 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
evaluateProcess: multiple local function definitions for ‘efun’ with
  different formal arguments
normalizeSets : <anonymous>: no visible global function definition for
  ‘warpSet’
qaProcess.2DStatsPlot: no visible binding for global variable ‘Aliquot’
qaProcess.DensityPlot: no visible binding for global variable ‘Aliquot’
qaProcess.ECDFPlot: no visible binding for global variable ‘Aliquot’
* checking Rd files ... NOTE
prepare_Rd: normalizeSets.Rd:44-51: Dropping empty section \examples
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘flowQ’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: flowCore
Loading required package: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: rrcov
Loading required package: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm
Scalable Robust Estimators with High Breakdown Point (version 1.1-00)

Attaching package: 'flowCore'

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

    alias, filter

KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009
Loading required package: KernSmooth
Loading required package: tools

Attaching package: 'latticeExtra'

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

    ecdfplot

** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
Using ImageMagic library at /usr/local/lib/ImageMagick-6.3.3
(version 6.3.3)

* DONE (flowQ)

name	user	system	elapsed
aggregatorList-class	0.013	0.001	0.014
binaryAggregator-class	0.001	0.000	0.001
discreteAggregator-class	0.001	0.001	0.001
evaluateProcess	0.000	0.000	0.001
factorAggregator-class	0.001	0.001	0.001
flowQ-package	0	0	0
numericAggregator-class	0.001	0.000	0.002
outlier-class	0.001	0.000	0.000
outlierResult-class	0.001	0.000	0.001
qaAggregator-class	0.002	0.001	0.002
qaGraph-class	0.001	0.000	0.001
qaGraphList-class	0.001	0.001	0.002
qaProcess-class	0.001	0.001	0.002
qaProcess.2DStatsPlot	14.652	2.615	17.998
qaProcess.BoundaryPlot	7.188	1.332	8.953
qaProcess.DensityPlot	14.697	2.192	17.560
qaProcess.ECDFPlot	14.852	2.298	17.538
qaProcess.KLDistPlot	11.125	1.944	13.468
qaProcess.cellnumber	0.001	0.000	0.000
qaProcess.marginevents	0.001	0.000	0.000
qaProcess.timeflow	0.000	0.000	0.001
qaProcess.timeline	0	0	0
qaProcessFrame-class	0.002	0.000	0.002
qaReport	0.000	0.000	0.001
rangeAggregator-class	0.002	0.001	0.002
stringAggregator-class	0.001	0.001	0.002
txtFormatQAObject	4.033	1.250	5.374
writeQAReport	0.001	0.000	0.001
writeQATextReport	0.001	0.000	0.001