Package: plateCore

Version: 1.11.0

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch plateCore_1.11.0.tar.gz

StartedAt: 2011-07-07 05:01:32 -0700 (Thu, 07 Jul 2011)

EndedAt: 2011-07-07 05:06:45 -0700 (Thu, 07 Jul 2011)

EllapsedTime: 312.7 seconds

RetCode: 0

Status:  OK

CheckDir: plateCore.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.9-bioc/meat/plateCore.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-22 r56208)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'plateCore/DESCRIPTION' ... OK
* this is package 'plateCore' 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 'plateCore' 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 ... OK
* 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 ... NOTE
  
  Note: significantly better compression could be obtained
        by using tools::resaveRdaFiles() or R CMD build --resave-data
                old_size new_size compress
  plateCore.rda    1.8Mb    948Kb       xz
* checking sizes of PDF files under 'inst/doc' ... 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 'plateCore' ...
** R
** data
** inst
** preparing package for lazy loading
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 1.3-01)

Attaching package: 'flowCore'

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

    alias, filter

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

Attaching package: 'latticeExtra'

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

    ecdfplot

** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'plateCoreVig.Rnw' 
** testing if installed package can be loaded
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)

* DONE (plateCore)

name	user	system	elapsed
Subset-methods	5.401	0.221	5.696
applyControlGates-methods	23.193	0.420	24.467
compensate-methods	8.233	0.422	9.499
compensationSet	0.489	0.034	0.532
densityplot-methods	2.402	0.088	2.673
fixAutoFl-methods	8.684	0.615	9.595
flowPlate-class	5.099	0.225	5.388
flowPlate-method	5.218	0.226	5.518
fpbind-methods	10.840	0.530	11.535
getGroups-methods	2.203	0.097	2.330
gutterPlot-methods	2.188	0.105	2.334
mfiPlot-methods	23.504	0.400	24.577
on-methods	14.158	0.402	15.203
panel.densityplot.flowPlate	2.402	0.091	2.559
panel.xyplot.flowPlate	2.439	0.095	2.750
plateCore-package	4.997	0.224	5.484
plateSet-methods	5.099	0.228	5.461
plotPlate-methods	5.345	0.289	5.806
prepanel.densityplot.flowPlate	2.502	0.100	2.725
prepanel.xyplot.flowPlate	2.446	0.089	2.682
setControlGates-methods	5.437	0.231	6.394
summaryStats-methods	23.671	0.376	24.450
wellAnnotation-methods	2.079	0.080	2.249
xyplot-methods	2.429	0.090	2.637