Back to Multiple platform build/check report for BioC 3.23:   simplified   long
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This page was generated on 2026-03-06 11:35 -0500 (Fri, 06 Mar 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" 4891
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" 4593
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 690/2357HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
epiSeeker 0.99.15  (landing page)
Guangchuang Yu
Snapshot Date: 2026-03-05 13:40 -0500 (Thu, 05 Mar 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 -0500 (Thu, 05 Mar 2026)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  YES
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  YES
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: 2026-03-05 19:46:28 -0500 (Thu, 05 Mar 2026)
EndedAt: 2026-03-05 19:50:44 -0500 (Thu, 05 Mar 2026)
EllapsedTime: 256.1 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 Under development (unstable) (2026-01-15 r89304)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Sonoma 14.8.3
* using session charset: UTF-8
* 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-arm64/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 Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences"
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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 
 51.728   2.351  56.072 

Example timings

epiSeeker.Rcheck/epiSeeker-Ex.timings

nameusersystemelapsed
annotateSeq0.0050.0000.005
arrange.GRanges0.0490.0020.054
as.GRanges0.0060.0010.008
bmData0.0010.0010.000
combine_csAnno0.0290.0020.038
dotFun0.0000.0010.000
downloadGEObedFiles0.0010.0000.000
downloadGSMbedFiles000
dropAnno0.0420.0020.049
enrichAnnoOverlap0.0000.0000.001
enrichPeakOverlap1.2170.0171.343
filter.GRanges0.0310.0000.032
getAnnoStat0.0030.0000.003
getBioRegion2.4000.0782.598
getBmMatrix-methods0.3100.0200.361
getGEOInfo1.1240.0201.244
getGEOgenomeVersion1.0220.0181.048
getGEOspecies1.0400.0231.069
getMotifMatrix1.0680.0531.173
getPromoters0.0900.0080.113
getSampleFiles0.0010.0010.001
getTagMatrix000
grange2mt0.0100.0040.015
makeBmDataFromData-methods0.0380.0010.041
makeBmDataFromFiles0.0310.0020.034
mutate.GRanges0.0210.0020.024
parse_peak0.0010.0000.001
plotAnnoBar-methods0.1990.0100.222
plotAnnoPie-methods0.0090.0030.012
plotAnnoPie0.0020.0020.006
plotBmProf0.5450.0230.611
plotCov0.6310.0080.682
plotDistToTSS-methods0.1220.0010.132
plotGeneTrack1.3770.0631.877
plotMotifProf0.3210.0150.348
plotPeakHeatmap2.0590.1112.284
plotPeakProf0.2520.0040.278
readPeakFile0.0130.0000.014
reexports0.0010.0000.000
rename.GRanges0.0270.0010.028
seq2gene0.0000.0040.005
show-methods0.0000.0010.000
shuffle0.0940.0060.100
upsetplot-methods0.2820.0180.301
vennpie-methods0.0100.0020.012
vennplot0.2700.0110.282
vennplot.peakfile0.1200.0020.129