Package: imageHTS

Version: 1.34.0

Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe --arch i386 CMD check --no-multiarch --install=check:imageHTS.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings imageHTS_1.34.0.tar.gz

StartedAt: 2019-10-16 04:33:16 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 04:36:54 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 218.2 seconds

RetCode: 0

Status:  OK

CheckDir: imageHTS.Rcheck

Warnings: 0

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### Running command:
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###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe --arch i386 CMD check --no-multiarch --install=check:imageHTS.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings imageHTS_1.34.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/imageHTS.Rcheck'
* using R version 3.6.1 (2019-07-05)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'imageHTS/DESCRIPTION' ... OK
* this is package 'imageHTS' version '1.34.0'
* 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 whether package 'imageHTS' can be installed ... 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 files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
extractFeatures 15.24   1.02   23.67
countObjects     7.51   0.35    9.16
* 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
  'C:/Users/biocbuild/bbs-3.9-bioc/meat/imageHTS.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe --arch i386 CMD INSTALL --no-multiarch imageHTS
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* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
* installing *source* package 'imageHTS' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'imageHTS'
    finding HTML links ... done
    collectCellFeatures                     html  
    countObjects                            html  
    extractFeatures                         html  
    fileHTS                                 html  
    getImageConf                            html  
    getUnames                               html  
    getWellFeatures                         html  
    finding level-2 HTML links ... done

    highlightSegmentation                   html  
    imageHTS                                html  
    installCellPicker                       html  
    makeCellHTS                             html  
    parseDCF                                html  
    parseImageConf                          html  
    popCellPicker                           html  
    prw2uname                               html  
    readLearnTS                             html  
    segmentATH                              html  
    segmentWells                            html  
    segmentYeastBF                          html  
    summarizeWells                          html  
    zprime                                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (imageHTS)
Making 'packages.html' ... done

name	user	system	elapsed
collectCellFeatures	0	0	0
countObjects	7.51	0.35	9.16
extractFeatures	15.24	1.02	23.67
fileHTS	2.12	0.06	4.57
getImageConf	1.08	0.00	1.08
getUnames	3.55	0.00	3.87
getWellFeatures	2.87	0.00	3.69
highlightSegmentation	0	0	0
installCellPicker	1.44	0.03	4.14
makeCellHTS	0	0	0
parseDCF	0	0	0
parseImageConf	1	0	1
popCellPicker	0.88	0.00	0.87
prw2uname	0	0	0
readLearnTS	0	0	0
segmentATH	0	0	0
segmentWells	4.53	0.46	4.99
segmentYeastBF	3.02	1.31	4.50
summarizeWells	0	0	0
zprime	2.30	0.00	2.99