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This page was generated on 2025-08-04 12:12 -0400 (Mon, 04 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.2 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4796
palomino8Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4536
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4578
kjohnson3macOS 13.7.1 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4519
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4517
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 1036/2313HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iNETgrate 1.7.0  (landing page)
Habil Zare
Snapshot Date: 2025-08-03 13:25 -0400 (Sun, 03 Aug 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 24.04.2 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
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 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 taishan

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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: iNETgrate
Version: 1.7.0
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:iNETgrate.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings iNETgrate_1.7.0.tar.gz
StartedAt: 2025-08-01 07:38:50 -0000 (Fri, 01 Aug 2025)
EndedAt: 2025-08-01 07:55:05 -0000 (Fri, 01 Aug 2025)
EllapsedTime: 975.3 seconds
RetCode: 0
Status:   OK  
CheckDir: iNETgrate.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:iNETgrate.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings iNETgrate_1.7.0.tar.gz
###
##############################################################################
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* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/iNETgrate.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* 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 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
Examples with CPU (user + system) or elapsed time > 5s
                     user system elapsed
iNETgrate         139.199  1.196 140.778
toyEigengenes      65.499  0.485  66.218
computEigengenes   63.009  0.300  63.443
toyComputEloci     60.513  0.801  61.487
analyzeSurvival    47.703  0.333  48.155
makeNetwork        42.242  0.195  42.563
computEigenloci    18.993  0.486  19.530
cleanAllData       15.443  0.335  15.813
accelFailAnalysis   7.508  0.119   7.645
* 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:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL iNETgrate
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.5.0/site-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
accelFailAnalysis7.5080.1197.645
analyzeSurvival47.703 0.33348.155
bestInetgrator0.2730.0470.499
cleanAllData15.443 0.33515.813
computEigengenes63.009 0.30063.443
computEigenloci18.993 0.48619.530
computeInetgrator0.2800.0320.315
computeUnion2.0820.0282.116
coxAnalysis1.9200.0001.925
createLocusGene0.1500.0080.158
distanceToTss3.7410.0403.791
downloaData0.0010.0000.001
electGenes2.6810.0202.710
filterLowCor0.6300.0040.635
findAliveCutoff0.1580.0000.158
findCore2.0580.0002.063
findTcgaDuplicates0.2280.0000.229
iNETgrate-package0.2640.0220.288
iNETgrate139.199 1.196140.778
inferEigengenes0.2850.0080.294
makeNetwork42.242 0.19542.563
plotKM0.3730.0040.379
plotLociNum0.3100.0040.315
plotLociTss0.0530.0000.054
prepareSurvival0.1690.0040.174
preprocessDnam1.1530.0201.177
sample2pat0.2010.0040.206
sampleData0.7070.1870.897
toyCleanedAml0.1200.0120.132
toyComputEloci60.513 0.80161.487
toyEigengenes65.499 0.48566.218
toyRawAml0.1570.0040.162