Package: cellHTS2

Version: 2.16.0

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch cellHTS2_2.16.0.tar.gz

StartedAt: 2011-10-20 14:00:43 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 14:06:55 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 372.3 seconds

RetCode: 0

Status:  OK

CheckDir: cellHTS2.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/cellHTS2.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'cellHTS2/DESCRIPTION' ... OK
* this is package 'cellHTS2' version '2.16.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'cellHTS2' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  6.7Mb
  sub-directories of 1Mb or more:
    data     1.2Mb
    doc      1.9Mb
    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 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 ... 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 ... OK
* checking sizes of PDF files under inst/doc ... NOTE
  'qpdf' made some significant size reductions:
     compacted 'cellhts2.pdf' from 596Kb to 445Kb
     compacted 'twoChannels.pdf' from 520Kb to 254Kb
  consider running tools::compactPDF() on these files
* checking examples ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'test.R'
 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 'cellHTS2' ...
** R
** data
** inst
** preparing package for lazy loading
locfit 1.5-6 	 2010-01-20 
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)
Creating a new generic function for "lines" in "cellHTS2"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
locfit 1.5-6 	 2010-01-20 
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)

* DONE (cellHTS2)

name	user	system	elapsed
Bscore	2.702	0.027	2.981
ROC-class	0.451	0.008	0.461
ROC	1.914	0.016	1.953
annotate	1.290	0.011	1.312
bdgpbiomart	0.276	0.007	0.290
buildCellHTS2	0.505	0.002	0.509
cellHTS-class	1.257	0.022	1.289
configurationAsScreenPlot	0.748	0.023	0.789
configure	0.981	0.013	1.011
convertOldCellHTS	1.710	0.007	1.730
convertWellCoordinates	0.000	0.000	0.001
data-KcViab	0.186	0.003	0.189
data-KcViabSmall	0.014	0.001	0.015
data-dualCh	0.015	0.001	0.016
data-oldKcViabSmall	0.012	0.001	0.014
getDynamicRange	0.855	0.008	0.866
getEnVisionRawData	0.033	0.002	0.036
getMeasureRepAgreement	0.919	0.009	0.936
getTopTable	1.835	0.016	1.856
getZfactor	0.600	0.006	0.612
imageScreen	1.572	0.010	1.596
normalizePlates	2.268	0.014	2.297
oneRowPerId	0.006	0.000	0.005
plotSpatialEffects	1.926	0.011	1.949
readHTAnalystData	1.725	0.009	1.764
readPlateList	1.140	0.010	1.159
scoreReplicates	1.584	0.010	1.629
scores2calls	1.664	0.010	1.692
setSettings	0.007	0.005	0.011
spatialNormalization	2.051	0.034	2.110
summarizeChannels	2.477	0.020	2.511
summarizeReplicates	1.411	0.007	1.444
templateDescriptionFile	0.001	0.001	0.002
updateCellHTS	0.030	0.002	0.031
write.tabdel	0.032	0.003	0.036
writeReport	0.014	0.002	0.015
writeTab	0.026	0.003	0.029