Package: cellHTS

Version: 1.23.0

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch cellHTS_1.23.0.tar.gz

StartedAt: 2011-05-09 13:44:37 -0700 (Mon, 09 May 2011)

EndedAt: 2011-05-09 13:46:55 -0700 (Mon, 09 May 2011)

EllapsedTime: 138.8 seconds

RetCode: 0

Status:  OK

CheckDir: cellHTS.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/cellHTS.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 ‘cellHTS/DESCRIPTION’ ... OK
* this is package ‘cellHTS’ version ‘1.23.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘cellHTS’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  8.6Mb
  sub-directories of 1Mb or more:
    data     1.4Mb
    doc      4.8Mb
    KcViab   2.0Mb
* 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 ... NOTE
prepare_Rd: oneRowPerId.Rd:19: Dropping empty section \details
* 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 ‘cellhts.pdf’ from 3279Kb to 612Kb
     compacted ‘twoChannels.pdf’ from 450Kb to 165Kb
  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

* installing *source* package ‘cellHTS’ ...
** 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: RColorBrewer
Loading required package: grid
Loading required package: rrcov
Loading required package: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm
Scalable Robust Estimators with High Breakdown Point (version 1.3-00)
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘cellhts.Rnw’ 
   ‘twoChannels.Rnw’ 
   ‘twoWay.Rnw’ 
** testing if installed package can be loaded
Scalable Robust Estimators with High Breakdown Point (version 1.3-00)

* DONE (cellHTS)

name	user	system	elapsed
Bscore	0.842	0.012	0.967
ROC	0.013	0.001	0.014
annotate	0.001	0.000	0.001
bdgpbiomart	0.383	0.008	0.455
configure	0	0	0
data-KcViab	0.330	0.009	0.407
data-KcViabSmall	0.014	0.001	0.060
getEnVisionRawData	0.097	0.004	0.161
getLibraryPlate	0.019	0.002	0.021
getMatrix	0.014	0.001	0.015
imageScreen	0.124	0.006	0.131
normalizeChannels	0.000	0.001	0.001
normalizePlates	0.036	0.002	0.038
oneRowPerId	0.009	0.000	0.009
plotPlateLibrary	1.539	0.014	1.558
plotSpatialEffects	0.704	0.007	0.988
print.cellHTS	0.018	0.001	0.020
readPlateData	0.353	0.014	0.419
screenMatch	0.366	0.008	0.375
summarizeChannels	0.000	0.000	0.001
summarizeReplicates	0.088	0.002	0.170
write.tabdel	0.032	0.002	0.064
writeReport	0.013	0.002	0.021
writeTab	0.032	0.002	0.035