BioC 3.3: CHECK report for imageHTS on linux2.bioconductor.org

Package: imageHTS

Version: 1.21.0

Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings imageHTS_1.21.0.tar.gz

StartedAt: 2015-10-27 04:59:16 -0400 (Tue, 27 Oct 2015)

EndedAt: 2015-10-27 05:02:23 -0400 (Tue, 27 Oct 2015)

EllapsedTime: 187.6 seconds

RetCode: 0

Status:  OK

CheckDir: imageHTS.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings imageHTS_1.21.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/imageHTS.Rcheck’
* using R Under development (unstable) (2015-09-09 r69333)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘imageHTS/DESCRIPTION’ ... OK
* this is package ‘imageHTS’ version ‘1.21.0’
* 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 ... 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 ... [15s/15s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ 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 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 files in ‘vignettes’ ... OK
* checking examples ... [64s/64s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
extractFeatures 20.325  0.083  20.439
countObjects    10.277  0.067  10.346
segmentWells     6.165  0.016   6.181
* 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.3-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
** testing if installed package can be loaded
* DONE (imageHTS)

name	user	system	elapsed
collectCellFeatures	0	0	0
countObjects	10.277	0.067	10.346
extractFeatures	20.325	0.083	20.439
fileHTS	2.669	0.000	3.099
getImageConf	1.012	0.000	1.012
getUnames	3.401	0.000	3.401
getWellFeatures	4.029	0.000	4.029
highlightSegmentation	0	0	0
installCellPicker	1.709	0.000	1.709
makeCellHTS	0.001	0.000	0.001
parseDCF	0.003	0.000	0.003
parseImageConf	1.191	0.004	1.195
popCellPicker	1.009	0.000	1.010
prw2uname	0.003	0.000	0.003
readLearnTS	0	0	0
segmentATH	0	0	0
segmentWells	6.165	0.016	6.181
segmentYeastBF	2.122	0.020	2.142
summarizeWells	0.001	0.000	0.001
zprime	2.754	0.000	2.754