Back to Multiple platform build/check report for BioC 3.23:   simplified   long
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This page was generated on 2026-04-25 11:36 -0400 (Sat, 25 Apr 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.4 LTS)x86_644.6.0 RC (2026-04-17 r89917) -- "Because it was There" 4978
kjohnson3macOS 13.7.7 Venturaarm644.6.0 alpha (2026-04-08 r89818) 4722
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 699/2415HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
epiSeeker 0.99.15  (landing page)
Guangchuang Yu
Snapshot Date: 2026-04-24 13:40 -0400 (Fri, 24 Apr 2026)
git_url: https://git.bioconductor.org/packages/epiSeeker
git_branch: devel
git_last_commit: c37c108
git_last_commit_date: 2026-03-05 09:51:16 -0400 (Thu, 05 Mar 2026)
nebbiolo1Linux (Ubuntu 24.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
See other builds for epiSeeker in R Universe.


CHECK results for epiSeeker on kjohnson3

To the developers/maintainers of the epiSeeker package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/epiSeeker.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: epiSeeker
Version: 0.99.15
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:epiSeeker.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings epiSeeker_0.99.15.tar.gz
StartedAt: 2026-04-24 19:40:26 -0400 (Fri, 24 Apr 2026)
EndedAt: 2026-04-24 19:44:16 -0400 (Fri, 24 Apr 2026)
EllapsedTime: 229.6 seconds
RetCode: 0
Status:   OK  
CheckDir: epiSeeker.Rcheck
Warnings: 0

Command output

##############################################################################
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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:epiSeeker.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings epiSeeker_0.99.15.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/epiSeeker.Rcheck’
* using R version 4.6.0 alpha (2026-04-08 r89818)
* using platform: aarch64-apple-darwin23
* R was compiled by
    Apple clang version 17.0.0 (clang-1700.3.19.1)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Tahoe 26.3.1
* using session charset: UTF-8
* current time: 2026-04-24 23:40:27 UTC
* using option ‘--no-vignettes’
* checking for file ‘epiSeeker/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘epiSeeker’ version ‘0.99.15’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Imports includes 26 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.
* 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 ‘epiSeeker’ can be installed ... OK
* checking installed package size ... INFO
  installed size is  6.5Mb
  sub-directories of 1Mb or more:
    data   4.9Mb
* 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 whether startup messages can be suppressed ... 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
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... 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

epiSeeker.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.6/Resources/library’
* installing *source* package ‘epiSeeker’ ...
** this is package ‘epiSeeker’ version ‘0.99.15’
** 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 (epiSeeker)

Tests output

epiSeeker.Rcheck/tests/testthat.Rout


R version 4.6.0 alpha (2026-04-08 r89818)
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin23

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(epiSeeker)

epiSeeker v0.99.15 Learn more at https://yulab-smu.top/


> 
> test_check("epiSeeker")
[ FAIL 0 | WARN 6 | SKIP 0 | PASS 134 ]

[ FAIL 0 | WARN 6 | SKIP 0 | PASS 134 ]
> 
> proc.time()
   user  system elapsed 
 47.283   1.673  49.656 

Example timings

epiSeeker.Rcheck/epiSeeker-Ex.timings

nameusersystemelapsed
annotateSeq0.0070.0020.010
arrange.GRanges0.0610.0040.067
as.GRanges0.0060.0010.007
bmData0.0000.0010.000
combine_csAnno0.0290.0020.031
dotFun000
downloadGEObedFiles000
downloadGSMbedFiles000
dropAnno0.0470.0010.050
enrichAnnoOverlap000
enrichPeakOverlap1.2730.0401.346
filter.GRanges0.0270.0010.028
getAnnoStat0.0020.0010.003
getBioRegion2.0650.0532.156
getBmMatrix-methods0.3030.0190.322
getGEOInfo1.0980.0301.155
getGEOgenomeVersion0.8700.0080.882
getGEOspecies0.8760.0220.927
getMotifMatrix1.0020.0601.078
getPromoters0.0810.0070.088
getSampleFiles0.0000.0010.001
getTagMatrix0.0010.0000.000
grange2mt0.0100.0020.012
makeBmDataFromData-methods0.0480.0040.054
makeBmDataFromFiles0.0320.0030.035
mutate.GRanges0.0220.0020.024
parse_peak0.0000.0000.001
plotAnnoBar-methods0.1910.0070.200
plotAnnoPie-methods0.0070.0000.009
plotAnnoPie0.0020.0000.003
plotBmProf0.5630.0300.601
plotCov0.6440.0100.657
plotDistToTSS-methods0.1280.0030.133
plotGeneTrack1.1620.0411.222
plotMotifProf0.3230.0140.340
plotPeakHeatmap1.3390.0291.383
plotPeakProf0.2430.0060.253
readPeakFile0.0140.0010.014
reexports000
rename.GRanges0.0190.0010.020
seq2gene0.0010.0020.002
show-methods0.0010.0000.001
shuffle0.0780.0050.083
upsetplot-methods0.2470.0040.253
vennpie-methods0.0110.0010.011
vennplot0.7930.0170.818
vennplot.peakfile0.1140.0020.116