Package: CRImage

Version: 1.8.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch CRImage_1.8.0.tar.gz

StartedAt: 2013-05-01 04:13:41 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 04:16:31 -0700 (Wed, 01 May 2013)

EllapsedTime: 169.8 seconds

RetCode: 0

Status:  OK

CheckDir: CRImage.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/CRImage.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'CRImage/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CRImage' version '1.8.0'
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'CRImage' can be installed ... [8s/8s] OK
* checking installed package size ... NOTE
  installed size is  7.6Mb
  sub-directories of 1Mb or more:
    doc       2.1Mb
    extdata   5.4Mb
* 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 installed files from 'inst/doc' ... OK
* checking examples ... [78s/81s] OK
Examples with CPU or elapsed time > 5s
                         user system elapsed
calculateCellularity   15.799  2.526  19.037
classifyCells          13.234  2.368  15.855
convertRGBToHSV        10.221  0.421  10.895
createBinaryImage       6.118  1.118   8.403
calculateMeanStdTarget  4.133  1.569   5.779
colorCorrection         3.746  1.697   5.556
* 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/CRImage.Rcheck/00check.log'
for details.

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

name	user	system	elapsed
CRImage-package	0.781	0.023	1.020
SauvolaThreshold	2.175	0.214	2.457
calculateCellularity	15.799	2.526	19.037
calculateMeanStdTarget	4.133	1.569	5.779
calculateOtsu	0.751	0.363	1.125
classifyCells	13.234	2.368	15.855
colorCorrection	3.746	1.697	5.556
convertHSVToRGB	1.595	0.521	2.138
convertLABToRGB	1.429	0.349	1.809
convertRGBToHSV	10.221	0.421	10.895
convertRGBToLAB	1.532	0.335	1.871
correctCopyNumber	0.170	0.022	0.192
createBinaryImage	6.118	1.118	8.403
createClassifier	0.417	0.019	0.443
labelCells	0.009	0.006	0.016
plotCorrectedCN	0.199	0.014	0.217
processAperio	0.038	0.018	0.056
segmentImage	0.004	0.006	0.009