Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-11-09 21:31 -0500 (Sat, 09 Nov 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4505 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4506 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4538 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4486 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
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 1934/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
seqsetvis 1.26.0 (landing page) Joseph R Boyd
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.6.5 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: 1.26.0 |
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_1.26.0.tar.gz |
StartedAt: 2024-11-09 13:12:36 -0500 (Sat, 09 Nov 2024) |
EndedAt: 2024-11-09 13:19:18 -0500 (Sat, 09 Nov 2024) |
EllapsedTime: 401.9 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_1.26.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/seqsetvis.Rcheck’ * using R version 4.4.1 (2024-06-14) * 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 13.6.7 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘seqsetvis/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘seqsetvis’ version ‘1.26.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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/4.4-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 version 4.4.1 (2024-06-14) -- "Race for Your Life" 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 1284 ] > > proc.time() user system elapsed 71.444 1.397 72.856
seqsetvis.Rcheck/seqsetvis-Ex.timings
name | user | system | elapsed | |
add_cluster_annotation | 0.928 | 0.018 | 0.946 | |
append_ynorm | 0.016 | 0.002 | 0.018 | |
applyMovingAverage | 0.193 | 0.004 | 0.197 | |
applySpline | 0.097 | 0.003 | 0.100 | |
assemble_heatmap_cluster_bars | 0.204 | 0.003 | 0.208 | |
calc_norm_factors | 0.009 | 0.001 | 0.010 | |
centerAtMax | 0.075 | 0.002 | 0.077 | |
centerFixedSizeGRanges | 0.039 | 0.002 | 0.042 | |
centerGRangesAtMax | 0.108 | 0.005 | 0.113 | |
clusteringKmeans | 0.011 | 0.001 | 0.012 | |
clusteringKmeansNestedHclust | 0.012 | 0.002 | 0.013 | |
col2hex | 0.000 | 0.000 | 0.001 | |
collapse_gr | 0.187 | 0.003 | 0.189 | |
convert_collapsed_coord | 0.055 | 0.002 | 0.058 | |
copy_clust_info | 0.444 | 0.004 | 0.448 | |
crossCorrByRle | 0.088 | 0.002 | 0.090 | |
easyLoad_FUN | 0.015 | 0.001 | 0.015 | |
easyLoad_IDRmerged | 0.031 | 0.001 | 0.032 | |
easyLoad_bed | 0.036 | 0.000 | 0.036 | |
easyLoad_broadPeak | 0.009 | 0.000 | 0.009 | |
easyLoad_narrowPeak | 0.01 | 0.00 | 0.01 | |
easyLoad_seacr | 0.010 | 0.001 | 0.011 | |
expandCigar | 0.043 | 0.004 | 0.047 | |
findMaxPos | 0.012 | 0.002 | 0.015 | |
fragLen_calcStranded | 0.431 | 0.007 | 0.439 | |
fragLen_fromMacs2Xls | 0.001 | 0.001 | 0.002 | |
getReadLength | 0.016 | 0.001 | 0.017 | |
get_mapped_reads | 0.003 | 0.000 | 0.003 | |
ggellipse | 0.146 | 0.002 | 0.148 | |
harmonize_seqlengths | 0.029 | 0.002 | 0.032 | |
make_clustering_matrix | 0.031 | 0.002 | 0.033 | |
merge_clusters | 0.906 | 0.008 | 0.915 | |
prepare_fetch_GRanges | 0.008 | 0.001 | 0.009 | |
prepare_fetch_GRanges_names | 0.020 | 0.001 | 0.022 | |
prepare_fetch_GRanges_width | 0.008 | 0.000 | 0.008 | |
quantileGRangesWidth | 0.001 | 0.000 | 0.001 | |
reorder_clusters_hclust | 0.525 | 0.002 | 0.527 | |
reorder_clusters_manual | 0.289 | 0.003 | 0.291 | |
reorder_clusters_stepdown | 0.531 | 0.002 | 0.534 | |
reverse_clusters | 0.584 | 0.008 | 0.592 | |
safeBrew | 0.008 | 0.000 | 0.008 | |
split_cluster | 0.834 | 0.009 | 0.842 | |
ssvAnnotateSubjectGRanges | 0.248 | 0.015 | 0.264 | |
ssvConsensusIntervalSets | 0.080 | 0.002 | 0.083 | |
ssvFactorizeMembTable | 0.004 | 0.001 | 0.005 | |
ssvFeatureBars | 0.142 | 0.003 | 0.145 | |
ssvFeatureBinaryHeatmap | 2.389 | 0.230 | 2.624 | |
ssvFeatureEuler | 0.151 | 0.002 | 0.155 | |
ssvFeaturePie | 0.137 | 0.018 | 0.155 | |
ssvFeatureUpset | 0.691 | 0.013 | 0.706 | |
ssvFeatureVenn | 0.256 | 0.003 | 0.259 | |
ssvFetchBam | 1.654 | 0.060 | 1.714 | |
ssvFetchBamPE | 0.537 | 0.062 | 0.600 | |
ssvFetchBamPE.RNA | 0.396 | 0.015 | 0.414 | |
ssvFetchBigwig | 0.378 | 0.007 | 0.387 | |
ssvFetchGRanges | 0.204 | 0.001 | 0.206 | |
ssvFetchSignal | 0.410 | 0.011 | 0.422 | |
ssvMakeMembTable-methods | 0.139 | 0.002 | 0.142 | |
ssvOverlapIntervalSets | 0.066 | 0.002 | 0.070 | |
ssvSignalBandedQuantiles | 1.036 | 0.015 | 1.051 | |
ssvSignalClustering | 0.750 | 0.018 | 0.769 | |
ssvSignalHeatmap.ClusterBars | 0.856 | 0.008 | 0.866 | |
ssvSignalHeatmap | 1.056 | 0.020 | 1.077 | |
ssvSignalLineplot | 0.585 | 0.004 | 0.589 | |
ssvSignalLineplotAgg | 0.213 | 0.002 | 0.216 | |
ssvSignalScatterplot | 0.284 | 0.015 | 0.298 | |
viewGRangesWinSample_dt | 0.340 | 0.024 | 0.365 | |
viewGRangesWinSummary_dt | 0.301 | 0.011 | 0.312 | |
within_clust_sort | 0.422 | 0.009 | 0.431 | |