Back to Multiple platform build/check report for BioC 3.21:   simplified   long
ABCD[E]FGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2025-09-18 11:39 -0400 (Thu, 18 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4827
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4608
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4549
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4581
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 664/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
enrichViewNet 1.6.1  (landing page)
Astrid Deschênes
Snapshot Date: 2025-09-15 13:40 -0400 (Mon, 15 Sep 2025)
git_url: https://git.bioconductor.org/packages/enrichViewNet
git_branch: RELEASE_3_21
git_last_commit: c0d38d1
git_last_commit_date: 2025-08-11 12:26:44 -0400 (Mon, 11 Aug 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    ERROR  
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    ERROR    OK  
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    ERROR    OK  
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    NA  


CHECK results for enrichViewNet on kjohnson1

To the developers/maintainers of the enrichViewNet package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/enrichViewNet.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: enrichViewNet
Version: 1.6.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:enrichViewNet.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings enrichViewNet_1.6.1.tar.gz
StartedAt: 2025-09-16 20:20:56 -0400 (Tue, 16 Sep 2025)
EndedAt: 2025-09-16 20:24:37 -0400 (Tue, 16 Sep 2025)
EllapsedTime: 221.2 seconds
RetCode: 1
Status:   ERROR  
CheckDir: enrichViewNet.Rcheck
Warnings: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:enrichViewNet.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings enrichViewNet_1.6.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/enrichViewNet.Rcheck’
* using R version 4.5.1 Patched (2025-06-14 r88325)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘enrichViewNet/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘enrichViewNet’ version ‘1.6.1’
* 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 ‘enrichViewNet’ 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 code 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 data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
  > ## Run all unit tests
  > test_check("enrichViewNet")
  [ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-methodsEmapInternal.R:207:5'): createMultiEmap() must return expected result when 2 different enrichment analyses ──
  graphRes$labels$fill not identical to "Cluster".
  target is NULL, current is character
  ── Failure ('test-methodsEmapInternal.R:252:5'): createMultiEmap() must return expected result when same different enrichment analysis ──
  graphRes$labels$fill not identical to "Cluster".
  target is NULL, current is character
  
  [ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR
See
  ‘/Users/biocbuild/bbs-3.21-bioc/meat/enrichViewNet.Rcheck/00check.log’
for details.


Installation output

enrichViewNet.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘enrichViewNet’ ...
** this is package ‘enrichViewNet’ version ‘1.6.1’
** using staged installation
** R
** data
** 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 (enrichViewNet)

Tests output

enrichViewNet.Rcheck/tests/testthat.Rout.fail


R version 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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(enrichViewNet)

> 
> ## Run all unit tests
> test_check("enrichViewNet")
[ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-methodsEmapInternal.R:207:5'): createMultiEmap() must return expected result when 2 different enrichment analyses ──
graphRes$labels$fill not identical to "Cluster".
target is NULL, current is character
── Failure ('test-methodsEmapInternal.R:252:5'): createMultiEmap() must return expected result when same different enrichment analysis ──
graphRes$labels$fill not identical to "Cluster".
target is NULL, current is character

[ FAIL 2 | WARN 1 | SKIP 0 | PASS 101 ]
Error: Test failures
Execution halted

Example timings

enrichViewNet.Rcheck/enrichViewNet-Ex.timings

nameusersystemelapsed
createBasicEmap2.1100.0482.161
createCXJSONForCytoscape0.0980.0120.111
createEnrichMap0.5910.0660.707
createEnrichMapMultiBasic0.6560.0380.760
createEnrichMapMultiComplex0.9310.0220.955
createMetaDataSectionCXJSON0.0010.0000.001
createMultiEmap0.9090.0140.934
createNetwork0.0660.0110.082
createNetworkForCytoscape0.0300.0040.037
demoGOST0.0340.0070.334
extractInformationWhenIntersection0.0250.0030.027
extractInformationWhenNoIntersection0.1470.0180.783
extractNodesAndEdgesInformation0.0110.0020.014
filterResults0.0020.0020.003
formatInformationForCXJSON0.0140.0010.016
isCytoscapeRunning0.0020.0000.002
manageNameDuplicationInEmap0.0030.0010.003
manageQueryDuplicationInEmap0.0010.0000.001
parentalNapaVsDMSODEG0.2580.0202.293
parentalNapaVsDMSOEnrichment0.4830.0070.491
removeRootTerm0.0040.0030.008
rosaNapaVsDMSODEG0.1640.0123.253
rosaNapaVsDMSOEnrichment0.4570.0260.484
validateCreateEnrichMapArguments0.0020.0030.005
validateCreateEnrichMapMultiArguments0.0130.0050.018
validateCreateEnrichMapMultiComplexArg0.0130.0050.019
validateCreateEnrichMapSubSectionArguments0.0000.0000.001
validateCreateNetworkArguments0.0020.0030.005