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This page was generated on 2025-04-02 19:32 -0400 (Wed, 02 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4764
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4495
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4522
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4449
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4426
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 1027/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iNETgrate 1.4.0  (landing page)
Habil Zare
Snapshot Date: 2025-03-31 13:00 -0400 (Mon, 31 Mar 2025)
git_url: https://git.bioconductor.org/packages/iNETgrate
git_branch: RELEASE_3_20
git_last_commit: 83bb9a4
git_last_commit_date: 2024-10-29 11:21:42 -0400 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for iNETgrate on merida1

To the developers/maintainers of the iNETgrate package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/iNETgrate.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: iNETgrate
Version: 1.4.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:iNETgrate.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings iNETgrate_1.4.0.tar.gz
StartedAt: 2025-04-01 04:30:21 -0400 (Tue, 01 Apr 2025)
EndedAt: 2025-04-01 04:55:07 -0400 (Tue, 01 Apr 2025)
EllapsedTime: 1486.8 seconds
RetCode: 0
Status:   OK  
CheckDir: iNETgrate.Rcheck
Warnings: 0

Command output

##############################################################################
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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:iNETgrate.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings iNETgrate_1.4.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/iNETgrate.Rcheck’
* using R version 4.4.3 (2025-02-28)
* 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 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘iNETgrate/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘iNETgrate’ version ‘1.4.0’
* 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 ‘iNETgrate’ 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                     user system elapsed
iNETgrate         196.062  4.504 208.948
toyComputEloci    111.394  3.644 123.274
toyEigengenes      80.685  0.460  87.983
computEigengenes   76.239  0.428  79.725
analyzeSurvival    56.304  0.952  63.146
makeNetwork        51.447  0.212  54.688
computEigenloci    33.441  1.592  36.105
cleanAllData       17.509  1.011  20.793
accelFailAnalysis   6.978  0.675   8.455
distanceToTss       6.728  0.215   7.005
sampleData          1.806  3.124   5.297
* 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

iNETgrate.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’
* installing *source* package ‘iNETgrate’ ...
** using staged installation
** R
** data
** 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 (iNETgrate)

Tests output


Example timings

iNETgrate.Rcheck/iNETgrate-Ex.timings

nameusersystemelapsed
accelFailAnalysis6.9780.6758.455
analyzeSurvival56.304 0.95263.146
bestInetgrator0.4170.1540.760
cleanAllData17.509 1.01120.793
computEigengenes76.239 0.42879.725
computEigenloci33.441 1.59236.105
computeInetgrator0.4150.1120.538
computeUnion2.2140.0862.309
coxAnalysis2.1400.0242.203
createLocusGene0.2060.0140.222
distanceToTss6.7280.2157.005
downloaData0.0000.0000.001
electGenes3.5980.1253.756
filterLowCor1.2360.0381.292
findAliveCutoff0.1840.0180.245
findCore2.2670.0342.366
findTcgaDuplicates0.3030.0140.322
iNETgrate-package0.4150.1130.542
iNETgrate196.062 4.504208.948
inferEigengenes0.4220.1160.591
makeNetwork51.447 0.21254.688
plotKM0.3280.0430.398
plotLociNum0.3630.0270.413
plotLociTss0.0370.0100.052
prepareSurvival0.2130.0150.236
preprocessDnam1.5930.0721.768
sample2pat0.2760.0150.318
sampleData1.8063.1245.297
toyCleanedAml0.1520.0120.175
toyComputEloci111.394 3.644123.274
toyEigengenes80.685 0.46087.983
toyRawAml0.2060.0190.460