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This page was generated on 2025-10-02 11:38 -0400 (Thu, 02 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4831
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4612
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4553
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4584
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 1046/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iNETgrate 1.6.0  (landing page)
Habil Zare
Snapshot Date: 2025-09-29 13:40 -0400 (Mon, 29 Sep 2025)
git_url: https://git.bioconductor.org/packages/iNETgrate
git_branch: RELEASE_3_21
git_last_commit: 299831c
git_last_commit_date: 2025-04-15 13:16:57 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  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
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for iNETgrate on nebbiolo1

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: 1.6.0
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:iNETgrate.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings iNETgrate_1.6.0.tar.gz
StartedAt: 2025-10-02 00:14:32 -0400 (Thu, 02 Oct 2025)
EndedAt: 2025-10-02 00:32:01 -0400 (Thu, 02 Oct 2025)
EllapsedTime: 1049.4 seconds
RetCode: 0
Status:   OK  
CheckDir: iNETgrate.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:iNETgrate.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings iNETgrate_1.6.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/iNETgrate.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘iNETgrate/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘iNETgrate’ version ‘1.6.0’
* 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         118.089  1.269 119.379
toyEigengenes      65.148  0.538  65.688
computEigengenes   61.272  0.539  61.820
analyzeSurvival    51.100  0.582  51.509
toyComputEloci     49.385  0.968  50.356
makeNetwork        43.002  0.173  43.177
computEigenloci    14.573  0.573  15.148
cleanAllData       14.176  0.767  14.935
accelFailAnalysis   7.464  0.154   7.581
* 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

iNETgrate.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL iNETgrate
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’
* installing *source* package ‘iNETgrate’ ...
** this is package ‘iNETgrate’ version ‘1.6.0’
** 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
accelFailAnalysis7.4640.1547.581
analyzeSurvival51.100 0.58251.509
bestInetgrator0.2250.0260.264
cleanAllData14.176 0.76714.935
computEigengenes61.272 0.53961.820
computEigenloci14.573 0.57315.148
computeInetgrator0.2190.0230.243
computeUnion1.8520.0311.883
coxAnalysis1.7370.0061.745
createLocusGene0.1930.0000.193
distanceToTss2.8190.0562.879
downloaData0.0000.0000.001
electGenes2.3220.0312.338
filterLowCor0.5020.0060.509
findAliveCutoff0.1940.0020.196
findCore1.8430.0031.846
findTcgaDuplicates0.2720.0060.279
iNETgrate-package0.2140.0220.235
iNETgrate118.089 1.269119.379
inferEigengenes0.2220.0220.245
makeNetwork43.002 0.17343.177
plotKM0.4180.0110.429
plotLociNum0.3410.0050.347
plotLociTss0.0510.0000.050
prepareSurvival0.2070.0030.210
preprocessDnam0.8540.0300.884
sample2pat0.2250.0040.228
sampleData0.7721.1611.932
toyCleanedAml0.1720.0010.173
toyComputEloci49.385 0.96850.356
toyEigengenes65.148 0.53865.688
toyRawAml0.1980.0080.205