Back to Multiple platform build/check report for BioC 3.12
AB[C]DEFGHIJKLMNOPQRSTUVWXYZ

CHECK report for CellScore on nebbiolo1

This page was generated on 2020-10-18 12:27:47 -0400 (Sun, 18 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE CellScore PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 248/1874HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CellScore 1.9.0
Nancy Mah
Snapshot Date: 2020-10-17 14:41:49 -0400 (Sat, 17 Oct 2020)
URL: https://git.bioconductor.org/packages/CellScore
Branch: master
Last Commit: c066da8
Last Changed Date: 2020-04-27 15:13:55 -0400 (Mon, 27 Apr 2020)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
nebbiolo1 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK [ OK ]
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK  OK  OK 
merida1 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: CellScore
Version: 1.9.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:CellScore.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings CellScore_1.9.0.tar.gz
StartedAt: 2020-10-17 20:05:10 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 20:08:17 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 186.9 seconds
RetCode: 0
Status:  OK 
CheckDir: CellScore.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:CellScore.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings CellScore_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/CellScore.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CellScore/DESCRIPTION’ ... OK
* this is package ‘CellScore’ version ‘1.9.0’
* package encoding: UTF-8
* 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 ‘CellScore’ 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                 user system elapsed
CellScoreReport                22.592  0.856  23.450
RugplotCellScore               17.868  0.188  18.057
ScatterplotCellScoreComponents 17.085  0.216  17.307
extractTransitions             16.877  0.220  17.100
heatmapOnOffMarkers            16.670  0.216  16.886
PlotCosineSimHeatmap           14.894  0.136  15.031
CellScore                      10.808  0.404  11.212
PcaStandards                   10.444  0.440  10.884
CosineSimScore                 10.255  0.448  10.721
BoxplotCellScore                9.728  0.404  10.132
OnOff                           6.583  0.340   6.924
BarplotOnOff                    5.684  1.004   6.692
* 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

CellScore.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL CellScore
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘CellScore’ ...
** 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 (CellScore)

Tests output


Example timings

CellScore.Rcheck/CellScore-Ex.timings

nameusersystemelapsed
BarplotOnOff5.6841.0046.692
BoxplotCellScore 9.728 0.40410.132
CellScore10.808 0.40411.212
CellScoreReport22.592 0.85623.450
CosineSimScore10.255 0.44810.721
OnOff6.5830.3406.924
PcaStandards10.444 0.44010.884
PlotCosineSimHeatmap14.894 0.13615.031
RugplotCellScore17.868 0.18818.057
ScatterplotCellScoreComponents17.085 0.21617.307
extractTransitions16.877 0.22017.100
heatmapOnOffMarkers16.670 0.21616.886
rugplotDonorTargetTest0.0010.0000.001
scatterplotDonorTargetTest0.0000.0010.001