Package: cellHTS

Version: 1.24.0

Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings cellHTS_1.24.0.tar.gz

StartedAt: 2012-03-23 23:37:28 -0700 (Fri, 23 Mar 2012)

EndedAt: 2012-03-23 23:39:42 -0700 (Fri, 23 Mar 2012)

EllapsedTime: 133.8 seconds

RetCode: 0

Status:  OK

CheckDir: cellHTS.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/cellHTS.Rcheck’
* using R version 2.14.2 (2012-02-29)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cellHTS/DESCRIPTION’ ... OK
* this is package ‘cellHTS’ version ‘1.24.0’
* 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 ‘cellHTS’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  6.0Mb
  sub-directories of 1Mb or more:
    KcViab   2.0Mb
    data     1.4Mb
    doc      2.1Mb
* 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 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
File ‘cellHTS/R/zzz.R’:
  .onAttach calls:
    message(paste("\n-------------------------------------------------------------------",     "\nA note from the 'cellHTS' package:", "\nThe package 'cellHTS2' offers better functionality for working with",     "\nmultiple screens and with multi-channel screens. Please consider",     "\nusing 'cellHTS2' for new projects. However, 'cellHTS' will be",     "\nsupported for a while to help with your existing projects.",     "\n-------------------------------------------------------------------\n\n",     sep = ""))

Package startup functions should use ‘packageStartupMessage’ to
  generate messages.
See section ‘Good practice’ in ?.onAttach.

* 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 ... NOTE
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                  old_size new_size compress
  KcViab.rda         586Kb    326Kb       xz
  KcViabSmall.rda     39Kb     22Kb       xz
  bdgpbiomart.rda    773Kb    452Kb       xz
* 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
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)
** 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 1.3-01)

* DONE (cellHTS)

name	user	system	elapsed
Bscore	0.568	0.020	0.592
ROC	0.008	0.000	0.007
annotate	0.004	0.000	0.000
bdgpbiomart	0.144	0.000	0.147
configure	0	0	0
data-KcViab	0.364	0.000	0.365
data-KcViabSmall	0.008	0.000	0.008
getEnVisionRawData	0.036	0.004	0.043
getLibraryPlate	0.012	0.000	0.012
getMatrix	0.004	0.004	0.009
imageScreen	0.084	0.000	0.082
normalizeChannels	0.000	0.000	0.001
normalizePlates	0.016	0.000	0.013
oneRowPerId	0.004	0.000	0.006
plotPlateLibrary	0.792	0.000	0.796
plotSpatialEffects	0.360	0.004	0.364
print.cellHTS	0.016	0.000	0.017
readPlateData	0.136	0.000	0.139
screenMatch	0.436	0.012	0.449
summarizeChannels	0	0	0
summarizeReplicates	0.052	0.000	0.049
write.tabdel	0.016	0.004	0.019
writeReport	0.004	0.004	0.009
writeTab	0.028	0.000	0.035