Back to Multiple platform build/check report for BioC 3.19:   simplified   long
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This page was generated on 2024-05-01 11:35:51 -0400 (Wed, 01 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" 4753
lconwaymacOS 12.7.1 Montereyx86_644.4.0 beta (2024-04-14 r86421) -- "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: 2024-04-30 20:18:44 -0400 (Tue, 30 Apr 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  YES
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  YES
kjohnson3macOS 13.6.5 Ventura / arm64see weekly results here

CHECK results for enrichViewNet on nebbiolo1


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: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:enrichViewNet.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings enrichViewNet_1.2.0.tar.gz
StartedAt: 2024-05-01 05:09:05 -0400 (Wed, 01 May 2024)
EndedAt: 2024-05-01 05:13:07 -0400 (Wed, 01 May 2024)
EllapsedTime: 242.3 seconds
RetCode: 0
Status:   OK  
CheckDir: enrichViewNet.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:enrichViewNet.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings enrichViewNet_1.2.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/enrichViewNet.Rcheck’
* using R version 4.4.0 beta (2024-04-15 r86425)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* 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 loading without being on the library search path ... 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’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

enrichViewNet.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL enrichViewNet
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-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 beta (2024-04-15 r86425) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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 
 11.046   0.712  16.695 

Example timings

enrichViewNet.Rcheck/enrichViewNet-Ex.timings

nameusersystemelapsed
createBasicEmap1.4310.0601.491
createCXJSONForCytoscape0.0920.0000.093
createEnrichMap1.1740.0241.198
createEnrichMapMultiBasic0.7800.0720.851
createEnrichMapMultiComplex2.1150.0402.155
createMetaDataSectionCXJSON0.0020.0000.002
createMultiEmap1.340.001.34
createNetwork0.0520.0000.051
createNetworkForCytoscape0.0260.0000.027
demoGOST0.0300.0043.667
extractInformationWhenIntersection0.0250.0000.025
extractInformationWhenNoIntersection0.2590.0284.441
extractNodesAndEdgesInformation0.0240.0000.024
filterResults0.0020.0000.002
formatInformationForCXJSON0.0320.0000.032
isCytoscapeRunning0.0030.0000.002
manageNameDuplicationInEmap0.0010.0020.003
manageQueryDuplicationInEmap0.0000.0010.000
parentalNapaVsDMSODEG0.2000.0123.145
parentalNapaVsDMSOEnrichment0.5830.0120.596
removeRootTerm0.0040.0000.005
rosaNapaVsDMSODEG0.1400.0043.667
rosaNapaVsDMSOEnrichment0.5270.0000.526
validateCreateEnrichMapArguments0.0000.0020.002
validateCreateEnrichMapMultiArguments0.0060.0020.009
validateCreateEnrichMapMultiComplexArg0.0050.0040.010
validateCreateEnrichMapSubSectionArguments000
validateCreateNetworkArguments0.0020.0000.002