Package: imageHTS

Version: 1.9.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch imageHTS_1.9.1.tar.gz

StartedAt: 2013-03-25 03:10:37 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 03:16:56 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 378.3 seconds

RetCode: 0

Status:  OK

CheckDir: imageHTS.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/imageHTS.Rcheck'
* using R Under development (unstable) (2013-02-26 r62077)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'imageHTS/DESCRIPTION' ... OK
* this is package 'imageHTS' version '1.9.1'
* 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 for hidden files and directories ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'imageHTS' can be installed ... [21s/22s] OK
* checking installed package size ... OK
* checking package directory ... 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 ... 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [150s/152s] OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
extractFeatures   41.238  7.487  49.258
countObjects      18.830  2.600  21.506
segmentWells      11.448  2.395  13.910
segmentYeastBF     8.367  2.512  10.942
getWellFeatures    9.147  0.024   9.171
getUnames          7.497  0.025   7.525
installCellPicker  5.556  0.053   5.610
fileHTS            4.843  0.046   6.607
* 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 was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/imageHTS.Rcheck/00check.log'
for details.

* installing *source* package 'imageHTS' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'imageHTS-introduction.Rnw' 
** testing if installed package can be loaded
* DONE (imageHTS)

name	user	system	elapsed
collectCellFeatures	0.005	0.005	0.009
countObjects	18.830	2.600	21.506
extractFeatures	41.238	7.487	49.258
fileHTS	4.843	0.046	6.607
getImageConf	3.536	0.015	3.552
getUnames	7.497	0.025	7.525
getWellFeatures	9.147	0.024	9.171
highlightSegmentation	0.003	0.005	0.007
installCellPicker	5.556	0.053	5.610
makeCellHTS	0.007	0.014	0.022
parseDCF	0.009	0.009	0.020
parseImageConf	3.621	0.022	3.644
popCellPicker	3.633	0.014	3.649
prw2uname	0.013	0.013	0.027
readLearnTS	0.002	0.005	0.008
segmentATH	0.003	0.006	0.009
segmentWells	11.448	2.395	13.910
segmentYeastBF	8.367	2.512	10.942
summarizeWells	0.006	0.010	0.016
zprime	4.755	0.024	4.780