Package: flowQ

Version: 1.10.0

Command: /Library/Frameworks/R.framework/Versions/2.12/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch flowQ_1.10.0.tar.gz

StartedAt: 2011-03-31 05:40:34 -0700 (Thu, 31 Mar 2011)

EndedAt: 2011-03-31 05:44:31 -0700 (Thu, 31 Mar 2011)

EllapsedTime: 237.9 seconds

RetCode: 0

Status:  OK

CheckDir: flowQ.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.7-bioc/meat/flowQ.Rcheck’
* using R version 2.12.2 Patched (2011-02-25 r54591)
* 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 ‘1.10.0’
* 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
  'openVignette()'. 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	0.018	0.001	0.021
binaryAggregator-class	0.001	0.000	0.002
discreteAggregator-class	0.002	0.001	0.001
evaluateProcess	0.001	0.000	0.001
factorAggregator-class	0.002	0.000	0.002
flowQ-package	0	0	0
numericAggregator-class	0.001	0.000	0.001
outlier-class	0	0	0
outlierResult-class	0	0	0
qaAggregator-class	0.002	0.000	0.002
qaGraph-class	0.002	0.001	0.002
qaGraphList-class	0.002	0.000	0.002
qaProcess-class	0.002	0.000	0.002
qaProcess.2DStatsPlot	13.940	2.470	18.067
qaProcess.BoundaryPlot	6.861	1.282	11.215
qaProcess.DensityPlot	14.669	2.171	20.020
qaProcess.ECDFPlot	14.572	2.257	18.693
qaProcess.KLDistPlot	11.006	1.896	14.136
qaProcess.cellnumber	0.000	0.000	0.001
qaProcess.marginevents	0	0	0
qaProcess.timeflow	0	0	0
qaProcess.timeline	0.001	0.000	0.001
qaProcessFrame-class	0.001	0.001	0.003
qaReport	0.001	0.000	0.001
rangeAggregator-class	0.001	0.000	0.002
stringAggregator-class	0.001	0.000	0.002
txtFormatQAObject	3.999	1.218	5.433
writeQAReport	0.000	0.000	0.001
writeQATextReport	0.000	0.000	0.001