Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-23 11:46 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4372 |
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 1919/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
seqsetvis 1.27.2 (landing page) Joseph R Boyd
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
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: 1.27.2 |
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_1.27.2.tar.gz |
StartedAt: 2024-12-22 21:25:09 -0500 (Sun, 22 Dec 2024) |
EndedAt: 2024-12-22 21:28:23 -0500 (Sun, 22 Dec 2024) |
EllapsedTime: 194.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: seqsetvis.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running 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_1.27.2.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/seqsetvis.Rcheck’ * using R Under development (unstable) (2024-11-20 r87352) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘seqsetvis/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘seqsetvis’ version ‘1.27.2’ * 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/4.5-arm64/Resources/library’ * installing *source* package ‘seqsetvis’ ... ** 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 Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" Copyright (C) 2024 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. > > ## load dependencies > library(testthat) > library(seqsetvis) Loading required package: ggplot2 > library(data.table) > > ## test package > test_check(package = "seqsetvis") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1291 ] > > proc.time() user system elapsed 74.979 1.545 76.754
seqsetvis.Rcheck/seqsetvis-Ex.timings
name | user | system | elapsed | |
add_cluster_annotation | 0.999 | 0.020 | 1.038 | |
append_ynorm | 0.017 | 0.002 | 0.018 | |
applyMovingAverage | 0.206 | 0.005 | 0.220 | |
applySpline | 0.100 | 0.003 | 0.104 | |
assemble_heatmap_cluster_bars | 0.212 | 0.003 | 0.214 | |
calc_norm_factors | 0.010 | 0.002 | 0.011 | |
centerAtMax | 0.083 | 0.002 | 0.093 | |
centerFixedSizeGRanges | 0.045 | 0.004 | 0.049 | |
centerGRangesAtMax | 0.152 | 0.004 | 0.156 | |
clusteringKmeans | 0.011 | 0.002 | 0.013 | |
clusteringKmeansNestedHclust | 0.012 | 0.002 | 0.014 | |
col2hex | 0 | 0 | 0 | |
collapse_gr | 0.212 | 0.004 | 0.218 | |
convert_collapsed_coord | 0.061 | 0.004 | 0.067 | |
copy_clust_info | 0.460 | 0.005 | 0.464 | |
crossCorrByRle | 0.116 | 0.003 | 0.119 | |
easyLoad_FUN | 0.015 | 0.000 | 0.015 | |
easyLoad_IDRmerged | 0.011 | 0.000 | 0.013 | |
easyLoad_bed | 0.035 | 0.001 | 0.035 | |
easyLoad_broadPeak | 0.011 | 0.000 | 0.011 | |
easyLoad_narrowPeak | 0.010 | 0.001 | 0.010 | |
easyLoad_seacr | 0.010 | 0.000 | 0.011 | |
expandCigar | 0.046 | 0.004 | 0.050 | |
findMaxPos | 0.013 | 0.003 | 0.016 | |
fragLen_calcStranded | 0.451 | 0.012 | 0.470 | |
fragLen_fromMacs2Xls | 0.000 | 0.001 | 0.001 | |
getReadLength | 0.017 | 0.004 | 0.023 | |
get_mapped_reads | 0.003 | 0.000 | 0.004 | |
ggellipse | 0.163 | 0.002 | 0.165 | |
harmonize_seqlengths | 0.034 | 0.003 | 0.037 | |
make_clustering_matrix | 0.026 | 0.001 | 0.026 | |
merge_clusters | 0.943 | 0.014 | 0.959 | |
prepare_fetch_GRanges | 0.008 | 0.001 | 0.010 | |
prepare_fetch_GRanges_names | 0.022 | 0.001 | 0.023 | |
prepare_fetch_GRanges_width | 0.008 | 0.000 | 0.008 | |
quantileGRangesWidth | 0.006 | 0.000 | 0.006 | |
reorder_clusters_hclust | 0.556 | 0.005 | 0.562 | |
reorder_clusters_manual | 0.292 | 0.005 | 0.296 | |
reorder_clusters_stepdown | 0.563 | 0.005 | 0.573 | |
reverse_clusters | 0.651 | 0.012 | 0.668 | |
safeBrew | 0.008 | 0.001 | 0.010 | |
split_cluster | 0.876 | 0.022 | 0.905 | |
ssvAnnotateSubjectGRanges | 0.273 | 0.009 | 0.281 | |
ssvConsensusIntervalSets | 0.101 | 0.004 | 0.106 | |
ssvFactorizeMembTable | 0.005 | 0.001 | 0.006 | |
ssvFeatureBars | 0.149 | 0.002 | 0.151 | |
ssvFeatureBinaryHeatmap | 2.661 | 0.228 | 2.973 | |
ssvFeatureEuler | 0.160 | 0.004 | 0.165 | |
ssvFeaturePie | 0.140 | 0.015 | 0.155 | |
ssvFeatureUpset | 0.711 | 0.015 | 0.726 | |
ssvFeatureVenn | 0.257 | 0.004 | 0.260 | |
ssvFetchBam | 1.591 | 0.098 | 1.690 | |
ssvFetchBamPE | 0.541 | 0.057 | 0.600 | |
ssvFetchBamPE.RNA | 0.443 | 0.023 | 0.470 | |
ssvFetchBigwig | 0.403 | 0.010 | 0.413 | |
ssvFetchGRanges | 0.211 | 0.001 | 0.212 | |
ssvFetchSignal | 0.413 | 0.011 | 0.423 | |
ssvMakeMembTable-methods | 0.148 | 0.004 | 0.174 | |
ssvOverlapIntervalSets | 0.072 | 0.003 | 0.077 | |
ssvSignalBandedQuantiles | 1.039 | 0.018 | 1.063 | |
ssvSignalClustering | 0.766 | 0.017 | 0.783 | |
ssvSignalHeatmap.ClusterBars | 0.913 | 0.010 | 0.935 | |
ssvSignalHeatmap | 1.089 | 0.023 | 1.117 | |
ssvSignalLineplot | 0.615 | 0.009 | 0.625 | |
ssvSignalLineplotAgg | 0.219 | 0.002 | 0.222 | |
ssvSignalScatterplot | 0.295 | 0.011 | 0.306 | |
viewGRangesWinSample_dt | 0.346 | 0.008 | 0.362 | |
viewGRangesWinSummary_dt | 0.337 | 0.010 | 0.348 | |
within_clust_sort | 0.429 | 0.004 | 0.436 | |