Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-24 11:40 -0500 (Tue, 24 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" | 4373 |
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: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:seqsetvis.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings seqsetvis_1.27.2.tar.gz |
StartedAt: 2024-12-24 02:10:35 -0500 (Tue, 24 Dec 2024) |
EndedAt: 2024-12-24 02:20:39 -0500 (Tue, 24 Dec 2024) |
EllapsedTime: 604.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: seqsetvis.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:seqsetvis.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings seqsetvis_1.27.2.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/seqsetvis.Rcheck’ * using R Under development (unstable) (2024-10-21 r87258) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 * running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * 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 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 data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed ssvFeatureBinaryHeatmap 7.342 0.437 7.781 ssvFetchBam 5.974 0.020 5.960 * 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 re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: OK
seqsetvis.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL seqsetvis ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-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) (2024-10-21 r87258) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu 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 258.634 1.513 255.679
seqsetvis.Rcheck/seqsetvis-Ex.timings
name | user | system | elapsed | |
add_cluster_annotation | 2.775 | 0.185 | 2.926 | |
append_ynorm | 0.074 | 0.003 | 0.052 | |
applyMovingAverage | 0.668 | 0.002 | 0.663 | |
applySpline | 0.345 | 0.010 | 0.320 | |
assemble_heatmap_cluster_bars | 0.719 | 0.008 | 0.695 | |
calc_norm_factors | 0.033 | 0.001 | 0.024 | |
centerAtMax | 0.328 | 0.009 | 0.270 | |
centerFixedSizeGRanges | 0.151 | 0.005 | 0.157 | |
centerGRangesAtMax | 0.510 | 0.005 | 0.459 | |
clusteringKmeans | 0.038 | 0.000 | 0.026 | |
clusteringKmeansNestedHclust | 0.038 | 0.003 | 0.031 | |
col2hex | 0.000 | 0.001 | 0.001 | |
collapse_gr | 0.612 | 0.011 | 0.623 | |
convert_collapsed_coord | 0.173 | 0.006 | 0.179 | |
copy_clust_info | 1.581 | 0.016 | 1.515 | |
crossCorrByRle | 0.285 | 0.002 | 0.288 | |
easyLoad_FUN | 0.046 | 0.001 | 0.047 | |
easyLoad_IDRmerged | 0.036 | 0.003 | 0.039 | |
easyLoad_bed | 0.112 | 0.002 | 0.114 | |
easyLoad_broadPeak | 0.035 | 0.001 | 0.035 | |
easyLoad_narrowPeak | 0.035 | 0.001 | 0.036 | |
easyLoad_seacr | 0.039 | 0.001 | 0.040 | |
expandCigar | 0.170 | 0.003 | 0.156 | |
findMaxPos | 0.041 | 0.004 | 0.036 | |
fragLen_calcStranded | 1.510 | 0.007 | 1.510 | |
fragLen_fromMacs2Xls | 0.002 | 0.000 | 0.003 | |
getReadLength | 0.049 | 0.001 | 0.050 | |
get_mapped_reads | 0.008 | 0.000 | 0.008 | |
ggellipse | 0.499 | 0.000 | 0.499 | |
harmonize_seqlengths | 0.099 | 0.000 | 0.099 | |
make_clustering_matrix | 0.078 | 0.003 | 0.070 | |
merge_clusters | 3.251 | 0.009 | 3.133 | |
prepare_fetch_GRanges | 0.026 | 0.002 | 0.028 | |
prepare_fetch_GRanges_names | 0.073 | 0.001 | 0.073 | |
prepare_fetch_GRanges_width | 0.025 | 0.003 | 0.028 | |
quantileGRangesWidth | 0.003 | 0.000 | 0.003 | |
reorder_clusters_hclust | 1.825 | 0.002 | 1.784 | |
reorder_clusters_manual | 0.940 | 0.003 | 0.907 | |
reorder_clusters_stepdown | 1.821 | 0.006 | 1.743 | |
reverse_clusters | 2.164 | 0.015 | 2.013 | |
safeBrew | 0.021 | 0.001 | 0.023 | |
split_cluster | 1.838 | 0.017 | 1.678 | |
ssvAnnotateSubjectGRanges | 0.933 | 0.016 | 0.949 | |
ssvConsensusIntervalSets | 0.322 | 0.004 | 0.326 | |
ssvFactorizeMembTable | 0.015 | 0.002 | 0.017 | |
ssvFeatureBars | 0.503 | 0.001 | 0.505 | |
ssvFeatureBinaryHeatmap | 7.342 | 0.437 | 7.781 | |
ssvFeatureEuler | 0.468 | 0.002 | 0.470 | |
ssvFeaturePie | 0.438 | 0.002 | 0.440 | |
ssvFeatureUpset | 2.247 | 0.006 | 2.253 | |
ssvFeatureVenn | 0.872 | 0.005 | 0.877 | |
ssvFetchBam | 5.974 | 0.020 | 5.960 | |
ssvFetchBamPE | 1.866 | 0.021 | 1.888 | |
ssvFetchBamPE.RNA | 1.509 | 0.008 | 1.432 | |
ssvFetchBigwig | 1.335 | 0.004 | 1.332 | |
ssvFetchGRanges | 0.680 | 0.015 | 0.696 | |
ssvFetchSignal | 1.381 | 0.012 | 1.393 | |
ssvMakeMembTable-methods | 0.473 | 0.003 | 0.476 | |
ssvOverlapIntervalSets | 0.205 | 0.005 | 0.210 | |
ssvSignalBandedQuantiles | 3.547 | 0.039 | 3.414 | |
ssvSignalClustering | 2.684 | 0.024 | 2.567 | |
ssvSignalHeatmap.ClusterBars | 3.121 | 0.066 | 3.010 | |
ssvSignalHeatmap | 3.784 | 0.061 | 3.609 | |
ssvSignalLineplot | 2.049 | 0.029 | 2.071 | |
ssvSignalLineplotAgg | 0.732 | 0.004 | 0.717 | |
ssvSignalScatterplot | 0.822 | 0.004 | 0.758 | |
viewGRangesWinSample_dt | 1.156 | 0.005 | 1.148 | |
viewGRangesWinSummary_dt | 1.141 | 0.004 | 1.113 | |
within_clust_sort | 1.481 | 0.004 | 1.402 | |