Back to Multiple platform build/check report for BioC 3.19:   simplified   long
ABCD[E]FGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2024-05-30 11:35:33 -0400 (Thu, 30 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4753
lconwaymacOS 12.7.1 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 4518
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 654/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
enrichViewNet 1.2.0  (landing page)
Astrid Deschênes
Snapshot Date: 2024-05-29 14:00:10 -0400 (Wed, 29 May 2024)
git_url: https://git.bioconductor.org/packages/enrichViewNet
git_branch: RELEASE_3_19
git_last_commit: 3d0a43f
git_last_commit_date: 2024-04-30 11:52:32 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  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
kjohnson3macOS 13.6.5 Ventura / arm64see weekly results here

CHECK results for enrichViewNet on lconway


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: 1.2.0
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_1.2.0.tar.gz
StartedAt: 2024-05-29 20:36:46 -0400 (Wed, 29 May 2024)
EndedAt: 2024-05-29 20:40:58 -0400 (Wed, 29 May 2024)
EllapsedTime: 251.7 seconds
RetCode: 0
Status:   OK  
CheckDir: enrichViewNet.Rcheck
Warnings: 0

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_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/enrichViewNet.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: x86_64-apple-darwin20
* 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 ‘enrichViewNet/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘enrichViewNet’ version ‘1.2.0’
* 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 ‘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
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
demoGOST 0.037  0.006   8.319
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* 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: OK


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/4.4-x86_64/Resources/library’
* installing *source* package ‘enrichViewNet’ ...
** 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


R version 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-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 0 | WARN 0 | SKIP 0 | PASS 107 ]
> 
> proc.time()
   user  system elapsed 
 12.308   0.921  17.131 

Example timings

enrichViewNet.Rcheck/enrichViewNet-Ex.timings

nameusersystemelapsed
createBasicEmap2.2200.0852.330
createCXJSONForCytoscape0.1080.0040.112
createEnrichMap0.7970.0220.828
createEnrichMapMultiBasic0.9340.0270.969
createEnrichMapMultiComplex2.3730.0702.467
createMetaDataSectionCXJSON0.0020.0010.001
createMultiEmap1.5680.0421.629
createNetwork0.0600.0090.071
createNetworkForCytoscape0.0310.0020.033
demoGOST0.0370.0068.319
extractInformationWhenIntersection0.0250.0010.025
extractInformationWhenNoIntersection0.2160.0253.990
extractNodesAndEdgesInformation0.0650.0060.072
filterResults0.0030.0010.004
formatInformationForCXJSON0.0370.0020.039
isCytoscapeRunning0.0040.0010.005
manageNameDuplicationInEmap0.0050.0000.005
manageQueryDuplicationInEmap0.0000.0000.001
parentalNapaVsDMSODEG0.1990.0113.467
parentalNapaVsDMSOEnrichment0.7250.0160.747
removeRootTerm0.0040.0020.005
rosaNapaVsDMSODEG0.1580.0073.807
rosaNapaVsDMSOEnrichment0.6110.0120.628
validateCreateEnrichMapArguments0.0010.0010.002
validateCreateEnrichMapMultiArguments0.0090.0030.012
validateCreateEnrichMapMultiComplexArg0.0100.0030.013
validateCreateEnrichMapSubSectionArguments0.0010.0010.000
validateCreateNetworkArguments0.0020.0010.004