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This page was generated on 2022-11-09 13:20:44 -0500 (Wed, 09 Nov 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_64R Under development (unstable) (2022-10-25 r83175) -- "Unsuffered Consequences" 4449
merida1macOS 10.14.6 Mojavex86_644.2.2 (2022-10-31) -- "Innocent and Trusting" 3992
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for imageHTS on merida1


To the developers/maintainers of the imageHTS package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/imageHTS.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 946/2151HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
imageHTS 1.49.0  (landing page)
Joseph Barry
Snapshot Date: 2022-11-08 13:55:08 -0500 (Tue, 08 Nov 2022)
git_url: https://git.bioconductor.org/packages/imageHTS
git_branch: master
git_last_commit: 68eec43
git_last_commit_date: 2022-11-01 11:05:13 -0500 (Tue, 01 Nov 2022)
nebbiolo1Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    ERROR  skipped
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  NO, package depends on 'cellHTS2' which is not available

Summary

Package: imageHTS
Version: 1.49.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:imageHTS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings imageHTS_1.49.0.tar.gz
StartedAt: 2022-11-09 03:47:07 -0500 (Wed, 09 Nov 2022)
EndedAt: 2022-11-09 03:55:45 -0500 (Wed, 09 Nov 2022)
EllapsedTime: 517.6 seconds
RetCode: 0
Status:   OK  
CheckDir: imageHTS.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:imageHTS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings imageHTS_1.49.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.17-bioc/meat/imageHTS.Rcheck’
* using R version 4.2.2 (2022-10-31)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘imageHTS/DESCRIPTION’ ... OK
* this is package ‘imageHTS’ version ‘1.49.0’
* 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 ‘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 sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                  user system elapsed
extractFeatures 20.614  0.686  28.766
countObjects    10.522  0.569  14.930
segmentWells     7.842  0.218  11.074
getWellFeatures  5.924  0.022   8.153
getUnames        5.051  0.017   6.964
zprime           4.958  0.044   6.973
fileHTS          3.874  0.034   5.258
* 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: OK


Installation output

imageHTS.Rcheck/00install.out

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL imageHTS
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’
* installing *source* package ‘imageHTS’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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)

Tests output


Example timings

imageHTS.Rcheck/imageHTS-Ex.timings

nameusersystemelapsed
collectCellFeatures000
countObjects10.522 0.56914.930
extractFeatures20.614 0.68628.766
fileHTS3.8740.0345.258
getImageConf1.9450.0062.616
getUnames5.0510.0176.964
getWellFeatures5.9240.0228.153
highlightSegmentation000
installCellPicker2.9660.0204.084
makeCellHTS0.0010.0010.000
parseDCF0.0030.0010.008
parseImageConf1.9440.0102.674
popCellPicker1.9300.0062.707
prw2uname0.0050.0010.006
readLearnTS0.0010.0000.000
segmentATH0.0000.0000.001
segmentWells 7.842 0.21811.074
segmentYeastBF0.0120.0010.024
summarizeWells0.0000.0000.001
zprime4.9580.0446.973