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This page was generated on 2022-10-19 13:20:25 -0400 (Wed, 19 Oct 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4386
palomino3Windows Server 2022 Datacenterx644.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" 4138
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4205
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

CHECK results for IntEREst on nebbiolo1


To the developers/maintainers of the IntEREst package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/IntEREst.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 970/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
IntEREst 1.20.0  (landing page)
Ali Oghabian , Mikko Frilander
Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022)
git_url: https://git.bioconductor.org/packages/IntEREst
git_branch: RELEASE_3_15
git_last_commit: 0a7909c
git_last_commit_date: 2022-04-26 11:39:28 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.5 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 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: IntEREst
Version: 1.20.0
Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:IntEREst.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings IntEREst_1.20.0.tar.gz
StartedAt: 2022-10-18 20:13:46 -0400 (Tue, 18 Oct 2022)
EndedAt: 2022-10-18 20:18:40 -0400 (Tue, 18 Oct 2022)
EllapsedTime: 294.9 seconds
RetCode: 0
Status:   OK  
CheckDir: IntEREst.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:IntEREst.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings IntEREst_1.20.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.15-bioc/meat/IntEREst.Rcheck’
* using R version 4.2.1 (2022-06-23)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘IntEREst/DESCRIPTION’ ... OK
* this is package ‘IntEREst’ version ‘1.20.0’
* 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 ‘IntEREst’ 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 LazyData ... 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
DEXSeqIntEREst 20.295  0.483  20.779
deseqInterest   5.473  0.207   5.680
* 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

IntEREst.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD INSTALL IntEREst
###
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* installing to library ‘/home/biocbuild/bbs-3.15-bioc/R/library’
* installing *source* package ‘IntEREst’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (IntEREst)

Tests output


Example timings

IntEREst.Rcheck/IntEREst-Ex.timings

nameusersystemelapsed
DEXSeqIntEREst20.295 0.48320.779
addAnnotation0.0270.0000.028
annotateU122.3990.1432.542
applyOverlap0.1590.0080.167
attributes0.0350.0010.035
boxplot-method0.0460.0000.047
buildSsTypePwms0.0010.0000.000
counts-method0.0290.0040.032
deseqInterest5.4730.2075.680
exactTestInterest0.0900.0010.089
getRepeatTable0.0010.0000.000
glmInterest0.0960.0040.100
interest1.7200.0231.744
interest.sequential1.5020.0001.502
interestResult0.0120.0030.016
interestResultIntEx0.1470.0000.147
intexIndex0.0030.0000.003
lfc0.1740.0120.186
mergeInterestResult0.0580.0040.061
plot-method0.2980.0040.302
psi0.5890.0040.592
qlfInterest0.1260.0080.134
readInterestResults0.0230.0080.031
referencePrepare1.0790.0161.095
subInterestResult0.0290.0010.029
treatInterest0.0950.0030.100
u12Boxplot0.0490.0000.050
u12BoxplotNb0.0640.0000.065
u12DensityPlot0.2130.0120.225
u12Index0.0010.0030.004
u12NbIndex0.0360.0000.037
unionRefTr0.0110.0000.012
updateRowDataCol0.0400.0040.044