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This page was generated on 2024-06-28 17:40 -0400 (Fri, 28 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4760
palomino3Windows Server 2022 Datacenterx644.4.0 (2024-04-24 ucrt) -- "Puppy Cup" 4494
merida1macOS 12.7.4 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 4508
kjohnson1macOS 13.6.6 Venturaarm644.4.0 (2024-04-24) -- "Puppy Cup" 4466
palomino7Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4362
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 1034/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iNETgrate 1.2.0  (landing page)
Habil Zare
Snapshot Date: 2024-06-26 14:00 -0400 (Wed, 26 Jun 2024)
git_url: https://git.bioconductor.org/packages/iNETgrate
git_branch: RELEASE_3_19
git_last_commit: cfa5063
git_last_commit_date: 2024-04-30 11:50:02 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.4 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
palomino7Windows Server 2022 Datacenter / x64  OK    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: 1.2.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:iNETgrate.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings iNETgrate_1.2.0.tar.gz
StartedAt: 2024-06-27 00:15:43 -0400 (Thu, 27 Jun 2024)
EndedAt: 2024-06-27 00:33:40 -0400 (Thu, 27 Jun 2024)
EllapsedTime: 1076.3 seconds
RetCode: 0
Status:   OK  
CheckDir: iNETgrate.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:iNETgrate.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings iNETgrate_1.2.0.tar.gz
###
##############################################################################
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/iNETgrate.Rcheck’
* using R version 4.4.0 (2024-04-24)
* 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 ‘iNETgrate/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘iNETgrate’ version ‘1.2.0’
* 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         124.275  1.439 125.719
toyEigengenes      72.121  0.457  72.743
computEigengenes   65.908  0.545  66.453
analyzeSurvival    54.147  1.506  55.173
toyComputEloci     51.295  0.904  52.203
makeNetwork        46.362  0.286  46.653
computEigenloci    15.042  0.620  15.662
cleanAllData       13.472  0.768  14.227
accelFailAnalysis   7.808  0.736   8.438
* 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

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


* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-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
accelFailAnalysis7.8080.7368.438
analyzeSurvival54.147 1.50655.173
bestInetgrator0.2120.0200.245
cleanAllData13.472 0.76814.227
computEigengenes65.908 0.54566.453
computEigenloci15.042 0.62015.662
computeInetgrator0.1960.0470.242
computeUnion2.2140.0082.221
coxAnalysis2.0460.0082.054
createLocusGene0.1890.0040.193
distanceToTss2.8600.0722.932
downloaData0.0000.0000.001
electGenes2.6690.0242.665
filterLowCor0.6380.0080.646
findAliveCutoff0.1930.0000.193
findCore1.9490.0081.956
findTcgaDuplicates0.2470.0000.248
iNETgrate-package0.1970.0400.237
iNETgrate124.275 1.439125.719
inferEigengenes0.2180.0240.243
makeNetwork46.362 0.28646.653
plotKM0.4090.0120.421
plotLociNum0.3440.0040.348
plotLociTss0.050.000.05
prepareSurvival0.2030.0080.211
preprocessDnam0.9200.0120.931
sample2pat0.2220.0080.231
sampleData0.7901.1801.971
toyCleanedAml0.1650.0080.173
toyComputEloci51.295 0.90452.203
toyEigengenes72.121 0.45772.743
toyRawAml0.2040.0000.204