Back to Multiple platform build/check report for BioC 3.22:   simplified   long
ABCDEFGH[I]JKLMNOPQRSTUVWXYZ

This page was generated on 2025-10-18 12:05 -0400 (Sat, 18 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4887
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4677
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4622
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4632
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 1053/2353HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iNETgrate 1.7.0  (landing page)
Habil Zare
Snapshot Date: 2025-10-17 13:45 -0400 (Fri, 17 Oct 2025)
git_url: https://git.bioconductor.org/packages/iNETgrate
git_branch: devel
git_last_commit: 9b0b9a7
git_last_commit_date: 2025-04-15 13:16:57 -0400 (Tue, 15 Apr 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  NO, package depends on 'Pigengene' which is not available
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  NO, package depends on 'Pigengene' which is not available
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  NO, package depends on 'Pigengene' which is not available
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for iNETgrate on lconway

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: 1.7.0
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_1.7.0.tar.gz
StartedAt: 2025-10-17 23:00:43 -0400 (Fri, 17 Oct 2025)
EndedAt: 2025-10-17 23:17:12 -0400 (Fri, 17 Oct 2025)
EllapsedTime: 989.0 seconds
RetCode: 0
Status:   OK  
CheckDir: iNETgrate.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### 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_1.7.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/iNETgrate.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* 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 ‘1.7.0’
* 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         137.865  3.785 144.613
computEigengenes   71.483  0.470  72.379
toyEigengenes      67.495  0.449  68.431
toyComputEloci     60.392  2.841  65.556
analyzeSurvival    51.112  0.763  52.325
makeNetwork        45.710  0.270  46.284
computEigenloci    19.405  1.074  22.129
cleanAllData       15.138  0.753  16.023
accelFailAnalysis   5.132  0.499   5.859
* 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/4.5-x86_64/Resources/library’
* installing *source* package ‘iNETgrate’ ...
** this is package ‘iNETgrate’ version ‘1.7.0’
** 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
accelFailAnalysis5.1320.4995.859
analyzeSurvival51.112 0.76352.325
bestInetgrator0.2520.1510.535
cleanAllData15.138 0.75316.023
computEigengenes71.483 0.47072.379
computEigenloci19.405 1.07422.129
computeInetgrator0.2550.1370.520
computeUnion2.0960.0772.190
coxAnalysis2.0100.0262.047
createLocusGene0.1370.0600.356
distanceToTss3.7050.2254.116
downloaData000
electGenes2.2750.0762.369
filterLowCor0.3240.0260.352
findAliveCutoff0.0980.0130.114
findCore1.8970.0351.947
findTcgaDuplicates0.1830.0160.201
iNETgrate-package0.2490.1040.380
iNETgrate137.865 3.785144.613
inferEigengenes0.2630.1380.560
makeNetwork45.710 0.27046.284
plotKM0.2200.0410.267
plotLociNum0.2240.0240.255
plotLociTss0.0260.0060.033
prepareSurvival0.1460.0220.201
preprocessDnam1.1290.0701.225
sample2pat0.1640.0130.185
sampleData0.8071.3312.231
toyCleanedAml0.0970.0100.108
toyComputEloci60.392 2.84165.556
toyEigengenes67.495 0.44968.431
toyRawAml0.1350.0080.146