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This page was generated on 2023-03-01 07:38:53 -0000 (Wed, 01 Mar 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4266
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CHECK results for twoddpcr on kunpeng1


To the developers/maintainers of the twoddpcr package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/twoddpcr.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 2102/2171HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
twoddpcr 1.23.0  (landing page)
Anthony Chiu
Snapshot Date: 2023-02-27 07:53:22 -0000 (Mon, 27 Feb 2023)
git_url: https://git.bioconductor.org/packages/twoddpcr
git_branch: master
git_last_commit: 2c97ec8
git_last_commit_date: 2022-11-01 15:15:14 -0000 (Tue, 01 Nov 2022)
kunpeng1Linux (Ubuntu 22.04.1 LTS) / aarch64  OK    OK    OK  

Summary

Package: twoddpcr
Version: 1.23.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:twoddpcr.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings twoddpcr_1.23.0.tar.gz
StartedAt: 2023-02-28 18:12:01 -0000 (Tue, 28 Feb 2023)
EndedAt: 2023-02-28 18:17:54 -0000 (Tue, 28 Feb 2023)
EllapsedTime: 352.5 seconds
RetCode: 0
Status:   OK  
CheckDir: twoddpcr.Rcheck
Warnings: 0

Command output

##############################################################################
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### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:twoddpcr.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings twoddpcr_1.23.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/twoddpcr.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘twoddpcr/DESCRIPTION’ ... OK
* this is package ‘twoddpcr’ version ‘1.23.0’
* 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 ‘twoddpcr’ 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
               user system elapsed
knnClassify  18.755  0.144  18.899
ggplot.well   6.910  0.136   7.046
gridClassify  5.340  0.088   5.429
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘twoddpcr.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

twoddpcr.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL twoddpcr
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’
* installing *source* package ‘twoddpcr’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (twoddpcr)

Tests output

twoddpcr.Rcheck/tests/testthat.Rout


R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(twoddpcr)
> 
> test_check("twoddpcr")
[ FAIL 0 | WARN 2 | SKIP 0 | PASS 155 ]

[ FAIL 0 | WARN 2 | SKIP 0 | PASS 155 ]
> 
> proc.time()
   user  system elapsed 
  7.600   0.305   7.891 

Example timings

twoddpcr.Rcheck/twoddpcr-Ex.timings

nameusersystemelapsed
amplitudes0.3760.0320.409
basicsSummary0.0070.0000.007
castSummary0.0200.0040.025
classCov0.0750.0000.075
classMeans0.0780.0080.085
classStats0.0940.0040.098
clusterCentres0.9360.0120.947
copiesSummary0.0080.0000.007
ddpcrPlate-class0.3370.0000.339
ddpcrWell-class0.0280.0000.029
ddpcrWell-methods0.3210.0000.322
dropletPlot4.6090.0754.686
exportTable0.1910.0060.201
extractPlateName0.0010.0000.000
extractWellNames0.0010.0000.001
facetPlot2.7030.0442.747
flatPlot4.7540.0764.832
fullCopiesSummary0.0060.0040.010
fullCountsSummary0.0290.0110.040
ggplot.well6.9100.1367.046
gridClassify5.3400.0885.429
heatPlot1.9830.0362.019
kmeansClassify1.3850.0001.386
knnClassify18.755 0.14418.899
mahalanobisRain1.0560.0081.064
mutantCopiesSummary0.0020.0040.005
numDroplets0.320.000.32
parseClusterCounts0.0160.0000.016
plateClassification1.3960.0001.397
plateClassificationMethod0.4700.0010.471
plateSummary2.0260.0062.032
positiveCounts0.0310.0000.030
readCSVDataFrame0.0160.0000.016
relabelClasses0.0940.0000.094
removeDropletClasses0.9280.0080.935
renormalisePlate4.2040.0084.212
sdRain3.3190.0403.359
setChannelNames0.0010.0010.002
setDropletVolume0.0000.0010.001
sortDataFrame0.0010.0020.003
sortWells0.3240.0000.324
thresholdClassify2.1060.0202.126
wellClassification0.0230.0000.022
wellClassificationMethod0.0240.0000.024
whiteTheme1.5270.0241.551
wildTypeCopiesSummary0.0050.0000.006