| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-04-30 11:36 -0400 (Thu, 30 Apr 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4988 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 Patched (2026-04-24 r89963) -- "Because it was There" | 4718 |
| 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 2033/2418 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| seqsetvis 1.32.0 (landing page) Joseph R Boyd
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | OK | OK | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | |||||||||
| See other builds for seqsetvis in R Universe. | ||||||||||||||
|
To the developers/maintainers of the seqsetvis package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/seqsetvis.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. |
| Package: seqsetvis |
| Version: 1.32.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:seqsetvis.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings seqsetvis_1.32.0.tar.gz |
| StartedAt: 2026-04-29 22:09:03 -0400 (Wed, 29 Apr 2026) |
| EndedAt: 2026-04-29 22:12:32 -0400 (Wed, 29 Apr 2026) |
| EllapsedTime: 208.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: seqsetvis.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:seqsetvis.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings seqsetvis_1.32.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/seqsetvis.Rcheck’
* using R version 4.6.0 Patched (2026-04-24 r89963)
* 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: 2026-04-30 02:09:03 UTC
* using option ‘--no-vignettes’
* checking for file ‘seqsetvis/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘seqsetvis’ version ‘1.32.0’
* package encoding: UTF-8
* 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 ‘seqsetvis’ 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 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 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
seqsetvis.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL seqsetvis ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.6/Resources/library’ * installing *source* package ‘seqsetvis’ ... ** this is package ‘seqsetvis’ version ‘1.32.0’ ** 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 (seqsetvis)
seqsetvis.Rcheck/tests/testthat.Rout
R version 4.6.0 Patched (2026-04-24 r89963) -- "Because it was There"
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.
>
> ## load dependencies
> library(testthat)
> library(seqsetvis)
Loading required package: ggplot2
> library(data.table)
Attaching package: 'data.table'
The following object is masked from 'package:base':
%notin%
>
> ## test package
> test_check(package = "seqsetvis")
[ FAIL 0 | WARN 3 | SKIP 0 | PASS 1291 ]
[ FAIL 0 | WARN 3 | SKIP 0 | PASS 1291 ]
>
> proc.time()
user system elapsed
81.681 0.769 82.726
seqsetvis.Rcheck/seqsetvis-Ex.timings
| name | user | system | elapsed | |
| add_cluster_annotation | 1.101 | 0.017 | 1.124 | |
| append_ynorm | 0.019 | 0.001 | 0.020 | |
| applyMovingAverage | 0.290 | 0.003 | 0.295 | |
| applySpline | 0.138 | 0.003 | 0.140 | |
| assemble_heatmap_cluster_bars | 0.278 | 0.002 | 0.280 | |
| calc_norm_factors | 0.011 | 0.000 | 0.011 | |
| centerAtMax | 0.079 | 0.002 | 0.082 | |
| centerFixedSizeGRanges | 0.045 | 0.003 | 0.049 | |
| centerGRangesAtMax | 0.165 | 0.005 | 0.170 | |
| clusteringKmeans | 0.012 | 0.001 | 0.014 | |
| clusteringKmeansNestedHclust | 0.014 | 0.001 | 0.014 | |
| col2hex | 0.001 | 0.000 | 0.000 | |
| collapse_gr | 0.218 | 0.005 | 0.223 | |
| convert_collapsed_coord | 0.078 | 0.004 | 0.081 | |
| copy_clust_info | 0.533 | 0.005 | 0.538 | |
| crossCorrByRle | 0.145 | 0.003 | 0.151 | |
| easyLoad_FUN | 0.016 | 0.000 | 0.017 | |
| easyLoad_IDRmerged | 0.014 | 0.001 | 0.015 | |
| easyLoad_bed | 0.038 | 0.001 | 0.039 | |
| easyLoad_broadPeak | 0.011 | 0.000 | 0.011 | |
| easyLoad_narrowPeak | 0.011 | 0.000 | 0.011 | |
| easyLoad_seacr | 0.012 | 0.001 | 0.012 | |
| expandCigar | 0.049 | 0.002 | 0.050 | |
| findMaxPos | 0.014 | 0.002 | 0.016 | |
| fragLen_calcStranded | 0.478 | 0.004 | 0.481 | |
| fragLen_fromMacs2Xls | 0.001 | 0.000 | 0.001 | |
| getReadLength | 0.017 | 0.000 | 0.017 | |
| get_mapped_reads | 0.003 | 0.001 | 0.004 | |
| ggellipse | 0.271 | 0.002 | 0.272 | |
| harmonize_seqlengths | 0.039 | 0.005 | 0.044 | |
| make_clustering_matrix | 0.026 | 0.001 | 0.028 | |
| merge_clusters | 1.253 | 0.007 | 1.264 | |
| prepare_fetch_GRanges | 0.009 | 0.001 | 0.009 | |
| prepare_fetch_GRanges_names | 0.022 | 0.002 | 0.023 | |
| prepare_fetch_GRanges_width | 0.008 | 0.000 | 0.009 | |
| quantileGRangesWidth | 0.000 | 0.000 | 0.002 | |
| reorder_clusters_hclust | 0.703 | 0.004 | 0.708 | |
| reorder_clusters_manual | 0.389 | 0.004 | 0.393 | |
| reorder_clusters_stepdown | 0.732 | 0.003 | 0.734 | |
| reverse_clusters | 1.150 | 0.006 | 1.158 | |
| safeBrew | 0.008 | 0.001 | 0.010 | |
| split_cluster | 0.660 | 0.004 | 0.665 | |
| ssvAnnotateSubjectGRanges | 0.292 | 0.007 | 0.299 | |
| ssvConsensusIntervalSets | 0.095 | 0.004 | 0.099 | |
| ssvFactorizeMembTable | 0.004 | 0.001 | 0.006 | |
| ssvFeatureBars | 0.264 | 0.002 | 0.266 | |
| ssvFeatureBinaryHeatmap | 2.972 | 0.039 | 3.015 | |
| ssvFeatureEuler | 0.264 | 0.003 | 0.267 | |
| ssvFeaturePie | 0.201 | 0.002 | 0.203 | |
| ssvFeatureUpset | 0.978 | 0.005 | 0.983 | |
| ssvFeatureVenn | 0.447 | 0.003 | 0.452 | |
| ssvFetchBam | 1.753 | 0.013 | 1.766 | |
| ssvFetchBamPE | 0.570 | 0.007 | 0.578 | |
| ssvFetchBamPE.RNA | 0.480 | 0.014 | 0.494 | |
| ssvFetchBigwig | 0.419 | 0.005 | 0.424 | |
| ssvFetchGRanges | 0.228 | 0.002 | 0.230 | |
| ssvFetchSignal | 0.440 | 0.006 | 0.446 | |
| ssvMakeMembTable-methods | 0.148 | 0.003 | 0.152 | |
| ssvOverlapIntervalSets | 0.079 | 0.004 | 0.082 | |
| ssvSignalBandedQuantiles | 1.227 | 0.013 | 1.252 | |
| ssvSignalClustering | 0.999 | 0.012 | 1.023 | |
| ssvSignalHeatmap.ClusterBars | 2.040 | 0.016 | 2.070 | |
| ssvSignalHeatmap | 1.775 | 0.024 | 1.802 | |
| ssvSignalLineplot | 0.906 | 0.004 | 0.912 | |
| ssvSignalLineplotAgg | 0.352 | 0.004 | 0.356 | |
| ssvSignalScatterplot | 0.368 | 0.005 | 0.374 | |
| viewGRangesWinSample_dt | 0.382 | 0.003 | 0.390 | |
| viewGRangesWinSummary_dt | 0.337 | 0.003 | 0.341 | |
| within_clust_sort | 0.560 | 0.006 | 0.566 | |