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This page was generated on 2024-05-04 11:36:42 -0400 (Sat, 04 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" 4753
palomino3Windows Server 2022 Datacenterx644.4.0 beta (2024-04-15 r86425 ucrt) -- "Puppy Cup" 4486
lconwaymacOS 12.7.1 Montereyx86_644.4.0 beta (2024-04-14 r86421) -- "Puppy Cup" 4519
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" 4479
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: 2024-05-03 14:00:19 -0400 (Fri, 03 May 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
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    OK  
kjohnson3macOS 13.6.5 Ventura / arm64see weekly results here

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: 2024-05-04 00:15:54 -0400 (Sat, 04 May 2024)
EndedAt: 2024-05-04 00:33:10 -0400 (Sat, 04 May 2024)
EllapsedTime: 1035.8 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 beta (2024-04-15 r86425)
* 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         116.225  1.297 117.528
toyEigengenes      65.812  3.064  68.877
computEigengenes   58.672  0.485  59.157
toyComputEloci     49.672  0.920  50.595
analyzeSurvival    48.860  0.589  48.960
makeNetwork        41.603  0.309  41.912
computEigenloci    15.030  0.552  15.583
cleanAllData       12.518  0.656  13.199
accelFailAnalysis   7.146  0.239   7.280
* 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-3.19-bioc/R/bin/R CMD INSTALL iNETgrate
###
##############################################################################
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* 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
accelFailAnalysis7.1460.2397.280
analyzeSurvival48.860 0.58948.960
bestInetgrator0.2050.0290.249
cleanAllData12.518 0.65613.199
computEigengenes58.672 0.48559.157
computEigenloci15.030 0.55215.583
computeInetgrator0.1990.0340.234
computeUnion1.7800.0081.787
coxAnalysis1.7180.0001.718
createLocusGene0.1820.0080.191
distanceToTss2.8350.0402.875
downloaData000
electGenes2.4600.0042.432
filterLowCor0.6180.0160.633
findAliveCutoff0.1840.0070.191
findCore1.7100.0311.742
findTcgaDuplicates0.2480.0040.252
iNETgrate-package0.2000.0340.235
iNETgrate116.225 1.297117.528
inferEigengenes0.1830.0480.230
makeNetwork41.603 0.30941.912
plotKM0.3980.0160.413
plotLociNum0.3380.0040.343
plotLociTss0.0490.0000.049
prepareSurvival0.2030.0040.207
preprocessDnam0.8760.0200.897
sample2pat0.2290.0000.228
sampleData0.8701.1161.985
toyCleanedAml0.1710.0000.172
toyComputEloci49.672 0.92050.595
toyEigengenes65.812 3.06468.877
toyRawAml0.2010.0040.204