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This page was generated on 2024-04-17 11:37:50 -0400 (Wed, 17 Apr 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4676
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4414
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4437
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 1020/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iNETgrate 1.0.0  (landing page)
Habil Zare
Snapshot Date: 2024-04-15 14:05:01 -0400 (Mon, 15 Apr 2024)
git_url: https://git.bioconductor.org/packages/iNETgrate
git_branch: RELEASE_3_18
git_last_commit: d178586
git_last_commit_date: 2023-10-24 11:49:40 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

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: 1.0.0
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_1.0.0.tar.gz
StartedAt: 2024-04-16 04:11:43 -0400 (Tue, 16 Apr 2024)
EndedAt: 2024-04-16 04:37:32 -0400 (Tue, 16 Apr 2024)
EllapsedTime: 1549.3 seconds
RetCode: 0
Status:   OK  
CheckDir: iNETgrate.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /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_1.0.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/iNETgrate.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-apple-darwin20 (64-bit)
* 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 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘iNETgrate/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘iNETgrate’ version ‘1.0.0’
* 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 R 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         195.964  5.060 224.101
toyComputEloci    110.212  3.658 123.007
toyEigengenes      80.422  0.548  89.540
computEigengenes   74.581  0.469  84.850
analyzeSurvival    55.954  0.883  64.968
makeNetwork        51.429  0.248  56.586
computEigenloci    32.756  1.517  38.123
cleanAllData       18.023  0.995  22.311
accelFailAnalysis   7.079  0.691   9.015
distanceToTss       6.723  0.214   7.598
sampleData          1.954  2.966   5.488
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... 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

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-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
accelFailAnalysis7.0790.6919.015
analyzeSurvival55.954 0.88364.968
bestInetgrator0.3930.1680.709
cleanAllData18.023 0.99522.311
computEigengenes74.581 0.46984.850
computEigenloci32.756 1.51738.123
computeInetgrator0.3910.1110.548
computeUnion2.4180.0582.690
coxAnalysis2.1670.0272.408
createLocusGene0.2840.0130.326
distanceToTss6.7230.2147.598
downloaData0.0000.0010.001
electGenes3.5080.1033.866
filterLowCor1.2520.0361.478
findAliveCutoff0.2620.0160.297
findCore2.2370.0312.470
findTcgaDuplicates0.3850.0130.434
iNETgrate-package0.3870.1120.547
iNETgrate195.964 5.060224.101
inferEigengenes0.3990.1160.584
makeNetwork51.429 0.24856.586
plotKM0.4130.0460.513
plotLociNum0.4410.0300.532
plotLociTss0.0380.0070.053
prepareSurvival0.2980.0160.386
preprocessDnam1.6090.0811.933
sample2pat0.3600.0160.407
sampleData1.9542.9665.488
toyCleanedAml0.2330.0140.265
toyComputEloci110.212 3.658123.007
toyEigengenes80.422 0.54889.540
toyRawAml0.2910.0150.329