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Package 208/609HostnameOS / ArchBUILDCHECKBUILD BIN
flowQ 1.18.0
Mike Jiang
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/flowQ
Last Changed Rev: 70050 / Revision: 74773
Last Changed Date: 2012-10-01 15:16:24 -0700 (Mon, 01 Oct 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: flowQ
Version: 1.18.0
Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings flowQ_1.18.0.tar.gz
StartedAt: 2013-03-25 01:04:21 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 01:09:19 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 298.4 seconds
RetCode: 0
Status:  OK 
CheckDir: flowQ.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/flowQ.Rcheck’
* using R version 2.15.3 (2013-03-01)
* using platform: x86_64-unknown-linux-gnu (64-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 ‘1.18.0’
* 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 ‘flowQ’ 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 for left-over 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 ... NOTE
evaluateProcess: multiple local function definitions for ‘efun’ with
  different formal arguments
Found .Internal call in the following function:
  ‘sysFun’
with calls to .Internal functions
  ‘system’

Packages should not call .Internal(): it is not part of the API, for
use only by R itself and subject to change without notice.
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... NOTE
The following directories should probably not be installed:
  ‘images’

Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                         user system elapsed
qaProcess.2DStatsPlot  11.745  1.284  13.518
qaProcess.DensityPlot   9.940  0.832  11.014
qaProcess.ECDFPlot      9.873  0.776  10.877
qaProcess.KLDistPlot    9.316  0.856  10.554
qaProcess.BoundaryPlot  6.128  0.716   7.598
* 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

NOTE: There were 3 notes.
See
  ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/flowQ.Rcheck/00check.log’
for details.

flowQ.Rcheck/00install.out:

* installing *source* package ‘flowQ’ ...
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import ‘plot’ when loading ‘graphics’
Warning: replacing previous import ‘as’ when loading ‘methods’
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘DataQualityAssessment.Rnw’ 
   ‘Extending-flowQ.Rnw’ 
** testing if installed package can be loaded
Warning: replacing previous import ‘plot’ when loading ‘graphics’
Warning: replacing previous import ‘as’ when loading ‘methods’

* DONE (flowQ)

flowQ.Rcheck/flowQ-Ex.timings:

nameusersystemelapsed
aggregatorList-class0.0280.0000.025
binaryAggregator-class0.0000.0000.001
discreteAggregator-class0.0040.0000.000
evaluateProcess0.0000.0000.001
factorAggregator-class000
flowQ-package0.0000.0000.001
numericAggregator-class000
outlier-class000
outlierResult-class0.0000.0000.001
qaAggregator-class000
qaGraph-class0.0040.0000.001
qaGraphList-class0.0000.0000.001
qaProcess-class0.0000.0000.001
qaProcess.2DStatsPlot11.745 1.28413.518
qaProcess.BoundaryPlot6.1280.7167.598
qaProcess.DensityPlot 9.940 0.83211.014
qaProcess.ECDFPlot 9.873 0.77610.877
qaProcess.KLDistPlot 9.316 0.85610.554
qaProcess.cellnumber0.0000.0000.001
qaProcess.marginevents000
qaProcess.timeflow000
qaProcess.timeline000
qaProcessFrame-class0.0040.0000.001
qaReport000
rangeAggregator-class000
stringAggregator-class000
txtFormatQAObject3.0731.0124.428
writeQAReport000
writeQATextReport000