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This page was generated on 2024-03-04 11:37:44 -0500 (Mon, 04 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.2 Patched (2023-11-13 r85521) -- "Eye Holes" 4692
palomino4Windows Server 2022 Datacenterx644.3.2 (2023-10-31 ucrt) -- "Eye Holes" 4445
lconwaymacOS 12.7.1 Montereyx86_644.3.2 Patched (2023-11-01 r85457) -- "Eye Holes" 4466
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: 2024-03-03 14:05:05 -0500 (Sun, 03 Mar 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 -0500 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

CHECK results for RCX on lconway


To the developers/maintainers of the RCX package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RCX.git to reflect on this report. See Troubleshooting Build Report for more information.
- 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: 2024-03-03 22:51:06 -0500 (Sun, 03 Mar 2024)
EndedAt: 2024-03-03 22:52:09 -0500 (Sun, 03 Mar 2024)
EllapsedTime: 62.6 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/meat/RCX.Rcheck’
* using R version 4.3.2 Patched (2023-11-01 r85457)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.3 (clang-1403.0.22.14.1)
    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 ‘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/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-x86_64/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 4.3.2 Patched (2023-11-01 r85457) -- "Eye Holes"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-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 
  3.084   0.214   3.355 

Example timings

RCX.Rcheck/RCX-Ex.timings

nameusersystemelapsed
CartesianLayout0.0060.0030.010
Convert-Names-and-Classes0.0000.0020.004
CyGroups0.0060.0010.007
CyHiddenAttributes0.1350.0100.148
CyNetworkRelations0.0020.0000.004
CySubNetworks0.0030.0010.009
CyTableColumn0.0070.0010.008
CyVisualProperties0.0180.0030.025
CyVisualProperty0.0130.0040.017
CyVisualPropertyDependencies0.0080.0010.011
CyVisualPropertyMappings0.0050.0020.007
CyVisualPropertyProperties0.0040.0020.006
EdgeAttributes0.0190.0020.024
Edges0.0020.0000.002
Igraph3.0480.0853.181
Meta-data0.0320.0020.041
NetworkAttributes0.0120.0020.014
NodeAttributes0.0180.0030.024
Nodes0.0020.0010.004
RCX-object0.2670.0080.301
aspectClasses0.0010.0010.003
checks0.0000.0010.001
convert-data-types-and-values0.0020.0000.003
convert2json0.0010.0000.005
countElements0.0100.0010.011
custom-print0.0070.0010.008
dot-addAspectNameToJson000
dot-addAttributeData0.0000.0010.000
dot-aspectClass0.0010.0010.000
dot-convertRawList0.0000.0000.001
dot-createAttributeAspect0.0000.0000.001
dot-createCyVpPorD0.0000.0010.001
dot-filterBy0.0010.0010.002
dot-format0.0000.0010.001
dot-infer000
dot-json2RDataType0.0000.0010.002
dot-jsonL0.0010.0010.002
dot-jsonV0.0010.0010.002
dot-log0.0000.0010.001
dot-mergeAttributesAspect0.0000.0010.000
dot-mergeIdAspect0.0000.0000.001
dot-modClass0.0010.0020.002
dot-pasteC0.0000.0000.001
dot-renameDF0.0020.0010.003
dot-stop000
dot-summaryAspect0.0020.0010.003
dot-transformListLength-set0.0030.0010.004
dot-transformVLD0.0100.0010.012
getCyVisualProperty0.0120.0030.015
graphNEL3.3510.0633.451
hasIds0.0010.0000.001
idProperty0.0010.0010.002
jsonToRCX0.0030.0010.004
markAttributeColumn0.0020.0010.002
markRefColumn0.0020.0010.006
maxId0.0010.0000.002
rcxToJson0.0030.0000.003
readCX0.7160.0160.740
referredBy0.0090.0010.010
refersTo0.0010.0010.002
setExtension000
summary0.0140.0020.016
toCX0.0120.0010.014
updateCartesianLayout0.0500.0030.053
updateCyGroups0.0370.0030.045
updateCyHiddenAttributes0.0520.0030.060
updateCyNetworkRelations0.0450.0030.051
updateCySubNetworks0.0320.0030.037
updateCyTableColumn0.0560.0030.065
updateCyVisualProperties0.2930.0180.330
updateCyVisualProperty0.0850.0070.099
updateEdgeAttributes0.0560.0030.067
updateEdges0.0210.0010.022
updateMetaDataProperties0.0240.0040.035
updateNetworkAttributes0.0540.0030.058
updateNodeAttributes0.0710.0030.077
updateNodes0.0170.0020.019
validate0.3210.0110.341
visualize0.0100.0000.011
writeCX000
writeHTML0.080.120.23