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This page was generated on 2025-10-16 11:41 -0400 (Thu, 16 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4833
merida1macOS 12.7.6 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4614
kjohnson1macOS 13.7.5 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4555
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4586
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 343/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ChIPpeakAnno 3.42.0  (landing page)
Jianhong Ou
Snapshot Date: 2025-10-13 13:40 -0400 (Mon, 13 Oct 2025)
git_url: https://git.bioconductor.org/packages/ChIPpeakAnno
git_branch: RELEASE_3_21
git_last_commit: 6a1e893
git_last_commit_date: 2025-04-15 09:45:26 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.7.5 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    TIMEOUT  


CHECK results for ChIPpeakAnno on kunpeng2

To the developers/maintainers of the ChIPpeakAnno package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ChIPpeakAnno.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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: ChIPpeakAnno
Version: 3.42.0
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:ChIPpeakAnno.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings ChIPpeakAnno_3.42.0.tar.gz
StartedAt: 2025-10-14 07:25:26 -0000 (Tue, 14 Oct 2025)
EndedAt: 2025-10-14 08:05:26 -0000 (Tue, 14 Oct 2025)
EllapsedTime: 2400.6 seconds
RetCode: None
Status:   TIMEOUT  
CheckDir: ChIPpeakAnno.Rcheck
Warnings: NA

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:ChIPpeakAnno.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings ChIPpeakAnno_3.42.0.tar.gz
###
##############################################################################
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/ChIPpeakAnno.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ChIPpeakAnno/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ChIPpeakAnno’ version ‘3.42.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Imports includes 29 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 ‘ChIPpeakAnno’ can be installed ... OK
* checking installed package size ... INFO
  installed size is 21.1Mb
  sub-directories of 1Mb or more:
    R         1.0Mb
    data     12.6Mb
    extdata   7.2Mb
* 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ...

Installation output

ChIPpeakAnno.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL ChIPpeakAnno
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’
* installing *source* package ‘ChIPpeakAnno’ ...
** this is package ‘ChIPpeakAnno’ version ‘3.42.0’
** 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 (ChIPpeakAnno)

Tests output


Example timings

ChIPpeakAnno.Rcheck/ChIPpeakAnno-Ex.timings

nameusersystemelapsed
ChIPpeakAnno-package000
ExonPlusUtr.human.GRCh374.0130.0964.118
HOT.spots0.1170.0000.117
IDRfilter000
Peaks.Ste12.Replicate10.0720.0000.072
Peaks.Ste12.Replicate20.0180.0000.019
Peaks.Ste12.Replicate30.0180.0000.019
TSS.human.GRCh370.0960.0040.101
TSS.human.GRCh380.2290.0000.230
TSS.human.NCBI360.0930.0080.101
TSS.mouse.GRCm380.0970.0000.098
TSS.mouse.NCBIM370.0870.0000.088
TSS.rat.RGSC3.40.0660.0080.074
TSS.rat.Rnor_5.00.0590.0040.063
TSS.zebrafish.Zv80.0630.0040.067
TSS.zebrafish.Zv90.0830.0000.083
addAncestors1.2150.0321.255
addGeneIDs0.9030.0560.965
addMetadata1.7890.0441.838
annoGR000
annoPeaks 3.485 0.33910.307
annotatePeakInBatch17.280 1.22018.554
annotatedPeak0.0590.0000.059
assignChromosomeRegion0.0010.0000.001
bdp000
binOverFeature1.0290.0161.048
binOverGene0.0000.0000.001
binOverRegions0.0000.0000.001
condenseMatrixByColnames0.0140.0000.014
convert2EntrezID0.4510.0040.456
countPatternInSeqs0.2100.0080.219
cumulativePercentage000
downstreams0.0360.0000.037
egOrgMap0.0010.0000.000
enrichedGO0.0020.0000.002
enrichmentPlot1.1180.0401.161
estFragmentLength0.0010.0000.000
estLibSize0.0010.0000.000
featureAlignedDistribution0.3100.0040.315
featureAlignedExtendSignal0.0010.0000.001
featureAlignedHeatmap0.4550.0120.468
featureAlignedSignal0.2410.0280.271
findEnhancers34.912 0.73435.752
findMotifsInPromoterSeqs20.142 0.20121.060
findOverlappingPeaks0.0010.0000.001
findOverlapsOfPeaks2.5920.0242.624
genomicElementDistribution0.0010.0000.000
genomicElementUpSetR0.0000.0000.001
getAllPeakSequence0.6920.0270.734
getAnnotation0.0010.0000.000
getEnrichedGO0.0120.0000.012
getEnrichedPATH0.0010.0000.001
getGO0.0000.0000.001
getGeneSeq0.0000.0010.001
getUniqueGOidCount0.0000.0000.001
getVennCounts0.0010.0000.001
hyperGtest0.0010.0000.001
makeVennDiagram0.0030.0000.002
mergePlusMinusPeaks0.0010.0000.000
metagenePlot3.3430.0563.413
myPeakList0.0160.0000.016
oligoFrequency0.1290.0000.128
oligoSummary000
peakPermTest0.0010.0000.001
peaks10.0120.0000.011
peaks20.0120.0000.012
peaks30.010.000.01
peaksNearBDP0.0010.0000.000
pie10.0070.0000.007
plotBinOverRegions0.0010.0000.001
preparePool0.0010.0000.001
reCenterPeaks0.0360.0000.036
summarizeOverlapsByBins6.8430.5267.022
summarizePatternInPeaks1.9670.5262.505