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This page was generated on 2021-10-15 15:05:43 -0400 (Fri, 15 Oct 2021).

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? here 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 934/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
IntEREst 1.16.0  (landing page)
Ali Oghabian , Mikko Frilander
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/IntEREst
git_branch: RELEASE_3_13
git_last_commit: 4d75a7c
git_last_commit_date: 2021-05-19 12:26:24 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: IntEREst
Version: 1.16.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:IntEREst.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings IntEREst_1.16.0.tar.gz
StartedAt: 2021-10-14 10:16:51 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 10:21:59 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 308.0 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-3.13-bioc/R/bin/R CMD check --install=check:IntEREst.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings IntEREst_1.16.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/IntEREst.Rcheck’
* using R version 4.1.1 (2021-08-10)
* 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 ‘1.16.0’
* 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 28.641  0.407  29.052
deseqInterest   7.264  0.064   7.328
* 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:
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###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL IntEREst
###
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* installing to library ‘/home/biocbuild/bbs-3.13-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
DEXSeqIntEREst28.641 0.40729.052
addAnnotation0.0410.0000.042
annotateU124.0290.1924.221
applyOverlap0.1880.0040.192
attributes0.0340.0040.037
boxplot-method0.0710.0000.071
buildSsTypePwms0.0010.0000.000
counts-method0.0330.0120.044
deseqInterest7.2640.0647.328
exactTestInterest0.0980.0040.102
getRepeatTable000
glmInterest0.1040.0000.104
interest2.4470.0282.476
interest.sequential1.1830.0191.204
interestResult0.0230.0040.027
interestResultIntEx0.1930.0000.193
intexIndex0.0050.0000.005
lfc0.1850.0040.189
mergeInterestResult0.0780.0000.078
plot-method0.2820.0040.286
psi0.6860.0760.762
qlfInterest0.1450.0000.145
readInterestResults0.0430.0000.043
referencePrepare1.2580.0441.302
subInterestResult0.0450.0040.049
treatInterest0.0990.0070.108
u12Boxplot0.1080.0110.119
u12BoxplotNb0.1150.0040.119
u12DensityPlot0.2380.0120.249
u12Index0.0130.0000.013
u12NbIndex0.0930.0000.093
unionRefTr0.0140.0000.013
updateRowDataCol0.0620.0040.066