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This page was generated on 2024-04-18 11:32:16 -0400 (Thu, 18 Apr 2024).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson1macOS 13.6.1 Venturaarm644.3.3 (2024-02-29) -- "Angel Food Cake" 4388
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

Package 1685/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RCX 1.6.0  (landing page)
Florian Auer
Snapshot Date: 2024-04-16 09:00:03 -0400 (Tue, 16 Apr 2024)
git_url: https://git.bioconductor.org/packages/RCX
git_branch: RELEASE_3_18
git_last_commit: 9be7528
git_last_commit_date: 2023-10-24 11:39:07 -0400 (Tue, 24 Oct 2023)
kjohnson1macOS 13.6.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for RCX on kjohnson1


To the developers/maintainers of the RCX package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: RCX
Version: 1.6.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RCX.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RCX_1.6.0.tar.gz
StartedAt: 2024-04-18 00:35:51 -0400 (Thu, 18 Apr 2024)
EndedAt: 2024-04-18 00:36:44 -0400 (Thu, 18 Apr 2024)
EllapsedTime: 53.2 seconds
RetCode: 0
Status:   OK  
CheckDir: RCX.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RCX.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RCX_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/RCX.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: aarch64-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 Ventura 13.6.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RCX/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RCX’ version ‘1.6.0’
* 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 ‘RCX’ 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 ... NOTE
Problems with news in ‘NEWS.md’:
No news entries found.
* 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 R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* 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 ... 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-mac-arm64/meat/RCX.Rcheck/00check.log’
for details.



Installation output

RCX.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘RCX’ ...
** 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 (RCX)

Tests output

RCX.Rcheck/tests/testthat.Rout


R version 4.3.3 (2024-02-29) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20 (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(RCX)
> 
> test_check("RCX")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 60 ]
> 
> proc.time()
   user  system elapsed 
  2.643   0.147   2.792 

Example timings

RCX.Rcheck/RCX-Ex.timings

nameusersystemelapsed
CartesianLayout0.0050.0010.006
Convert-Names-and-Classes0.0010.0000.001
CyGroups0.0050.0010.006
CyHiddenAttributes0.1360.0060.142
CyNetworkRelations0.0010.0000.001
CySubNetworks0.0030.0000.003
CyTableColumn0.0040.0010.005
CyVisualProperties0.0140.0010.015
CyVisualProperty0.0090.0010.010
CyVisualPropertyDependencies0.0060.0000.006
CyVisualPropertyMappings0.0030.0010.004
CyVisualPropertyProperties0.0020.0000.002
EdgeAttributes0.0120.0000.013
Edges0.0010.0000.001
Igraph2.5340.0532.862
Meta-data0.0300.0010.075
NetworkAttributes0.0100.0010.011
NodeAttributes0.0170.0010.037
Nodes0.0020.0000.002
RCX-object0.2310.0050.431
aspectClasses0.0010.0010.002
checks000
convert-data-types-and-values0.0010.0000.002
convert2json0.0000.0010.001
countElements0.0080.0000.008
custom-print0.0050.0000.005
dot-addAspectNameToJson0.0010.0000.000
dot-addAttributeData000
dot-aspectClass000
dot-convertRawList0.0000.0010.001
dot-createAttributeAspect000
dot-createCyVpPorD0.0000.0010.000
dot-filterBy0.0010.0000.001
dot-format0.0000.0010.001
dot-infer0.0000.0000.001
dot-json2RDataType0.0000.0010.001
dot-jsonL0.0000.0000.001
dot-jsonV0.0010.0010.001
dot-log000
dot-mergeAttributesAspect0.0000.0010.000
dot-mergeIdAspect000
dot-modClass000
dot-pasteC000
dot-renameDF0.0020.0000.002
dot-stop000
dot-summaryAspect0.0020.0000.003
dot-transformListLength-set0.0040.0000.028
dot-transformVLD0.0110.0010.015
getCyVisualProperty0.0100.0010.016
graphNEL2.7930.0303.322
hasIds0.0000.0000.001
idProperty0.0000.0000.001
jsonToRCX0.0020.0000.002
markAttributeColumn0.0020.0000.001
markRefColumn0.0010.0000.001
maxId0.0010.0000.001
rcxToJson0.0020.0000.002
readCX0.6000.0090.609
referredBy0.0070.0000.007
refersTo0.0000.0010.001
setExtension000
summary0.0100.0010.011
toCX0.0100.0010.010
updateCartesianLayout0.0360.0010.037
updateCyGroups0.0300.0030.033
updateCyHiddenAttributes0.0390.0010.040
updateCyNetworkRelations0.0320.0010.033
updateCySubNetworks0.0230.0010.023
updateCyTableColumn0.0410.0010.042
updateCyVisualProperties0.1950.0060.202
updateCyVisualProperty0.0560.0030.059
updateEdgeAttributes0.0400.0010.041
updateEdges0.0170.0000.017
updateMetaDataProperties0.0180.0010.019
updateNetworkAttributes0.0390.0010.040
updateNodeAttributes0.0540.0020.055
updateNodes0.0120.0010.013
validate0.2480.0040.252
visualize0.0070.0000.007
writeCX000
writeHTML0.0800.0230.103