Multiple platform build/check report for BioC 3.18 - CHECK results for RedeR on merida1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.3.3 (2024-02-29) -- "Angel Food Cake"	4676
palomino4	Windows Server 2022 Datacenter	x64	4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake"	4414
merida1	macOS 12.7.1 Monterey	x86_64	4.3.3 (2024-02-29) -- "Angel Food Cake"	4437
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*

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RedeR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RedeR_2.6.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/RedeR.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RedeR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RedeR’ version ‘2.6.1’
* 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 ‘RedeR’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.6Mb
  sub-directories of 1Mb or more:
    data   3.2Mb
    java   1.8Mb
* 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 startup messages can be suppressed ... 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 data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* 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
  ‘/Users/biocbuild/bbs-3.18-bioc/meat/RedeR.Rcheck/00check.log’
for details.

Installation output

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library’
* installing *source* package ‘RedeR’ ...
** using staged installation
** R
** data
** 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 (RedeR)

Tests output

Example timings

name	user	system	elapsed
RedPort-class	0.009	0.001	0.010
RedPort	0.008	0.000	0.009
RedeR.data	0.723	0.034	0.768
addEdgeBetweenContainers	0.400	0.034	0.438
addEdges	0.015	0.002	0.018
addGraph	0.014	0.002	0.018
addLegend	0.014	0.003	0.018
addNodes	0.014	0.002	0.016
att	0.108	0.008	0.118
calld	0.004	0.001	0.004
cea	0.066	0.005	0.071
deSelectEdges	0.015	0.002	0.017
deSelectGraph	0.014	0.002	0.017
deSelectNodes	0.016	0.002	0.018
deleteEdges	0.016	0.002	0.018
deleteNodes	0.016	0.002	0.018
deleteSelectedEdges	0.015	0.002	0.018
deleteSelectedNodes	0.015	0.002	0.017
exitd	0.003	0.000	0.004
getContainerComponets	0.020	0.002	0.023
getEdgeIDs	0.014	0.002	0.016
getEdges	0.015	0.002	0.018
getGraph	0.014	0.001	0.016
getNodeIDs	0.014	0.002	0.016
getNodes	0.015	0.002	0.016
getSourceEdgeIDs	0.016	0.002	0.017
getTargetEdgeIDs	0.015	0.002	0.017
gtoy.rm	0.001	0.001	0.000
isRelaxActive	0.003	0.000	0.004
mergeNodes	0.015	0.002	0.017
mergeOutEdges	0.019	0.002	0.022
nestNodes	0.020	0.002	0.022
nesthc	2.054	0.103	2.191
new_launch_pipeline	0	0	0
ping	0.004	0.001	0.004
relax	0.016	0.002	0.018
resetd	0.004	0.001	0.004
selectAllEdges	0.015	0.002	0.017
selectAllNodes	0.014	0.002	0.016
selectEdges	0.015	0.003	0.018
selectGraph	0.016	0.002	0.018
selectNodes	0.016	0.002	0.018
setArrowDirection	0.015	0.001	0.018
subg	0.127	0.007	0.136
updateContainerSize	0.017	0.002	0.018
updateCoordXY	0.017	0.002	0.019
updateGraph	0.016	0.002	0.018
version	0.004	0.000	0.004

CHECK results for RedeR on merida1

Summary

Command output

Installation output

Tests output

Example timings