Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-27 11:44 -0400 (Tue, 27 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4415 |
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 2141/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
trackViewer 1.41.5 (landing page) Jianhong Ou
| nebbiolo2 | Linux (Ubuntu 22.04.3 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 trackViewer package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/trackViewer.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: trackViewer |
Version: 1.41.5 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:trackViewer.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings trackViewer_1.41.5.tar.gz |
StartedAt: 2024-08-26 23:56:15 -0400 (Mon, 26 Aug 2024) |
EndedAt: 2024-08-27 00:05:32 -0400 (Tue, 27 Aug 2024) |
EllapsedTime: 556.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: trackViewer.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:trackViewer.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings trackViewer_1.41.5.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/trackViewer.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-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 Monterey 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘trackViewer/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘trackViewer’ version ‘1.41.5’ * 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 ‘trackViewer’ 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed trackViewer-package 26.287 0.268 26.780 browseTracks 18.556 0.158 18.846 viewTracks 17.866 0.154 18.123 parseWIG 17.792 0.189 18.101 geneModelFromTxdb 7.662 0.274 8.002 viewGene 6.865 0.129 7.031 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.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
trackViewer.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL trackViewer ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘trackViewer’ ... ** using staged installation ** R ** 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 (trackViewer)
trackViewer.Rcheck/tests/runTests.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-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. > require("trackViewer") || stop("unable to load Package:trackViewer") Loading required package: trackViewer Loading required package: GenomicRanges Loading required package: stats4 Loading required package: BiocGenerics Attaching package: 'BiocGenerics' The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, table, tapply, union, unique, unsplit, which.max, which.min Loading required package: S4Vectors Attaching package: 'S4Vectors' The following object is masked from 'package:utils': findMatches The following objects are masked from 'package:base': I, expand.grid, unname Loading required package: IRanges Loading required package: GenomeInfoDb Loading required package: grid [1] TRUE > require("RUnit") || stop("unable to load Package:RUnit") Loading required package: RUnit [1] TRUE > BiocGenerics:::testPackage("trackViewer") RUNIT TEST PROTOCOL -- Tue Aug 27 00:05:22 2024 *********************************************** Number of test functions: 2 Number of errors: 0 Number of failures: 0 1 Test Suite : trackViewer RUnit Tests - 2 test functions, 0 errors, 0 failures Number of test functions: 2 Number of errors: 0 Number of failures: 0 > > proc.time() user system elapsed 19.531 1.087 20.747
trackViewer.Rcheck/trackViewer-Ex.timings
name | user | system | elapsed | |
ARA | 1.754 | 0.085 | 1.853 | |
GIoperator | 0.481 | 0.010 | 0.494 | |
GRoperator | 2.226 | 0.017 | 2.257 | |
addArrowMark | 0.013 | 0.001 | 0.014 | |
addGuideLine | 0.004 | 0.001 | 0.005 | |
addInteractionAnnotation | 0.992 | 0.019 | 1.020 | |
browseTracks | 18.556 | 0.158 | 18.846 | |
coverageGR | 0.267 | 0.008 | 0.277 | |
dandelion.plot | 2.711 | 0.021 | 2.749 | |
geneModelFromTxdb | 7.662 | 0.274 | 8.002 | |
geneTrack | 3.580 | 0.104 | 3.706 | |
getCurTrackViewport | 0.003 | 0.000 | 0.003 | |
getGeneIDsFromTxDb | 1.006 | 0.054 | 1.069 | |
getLocation | 1.903 | 0.136 | 2.060 | |
gi2track | 0.053 | 0.001 | 0.055 | |
gieStain | 0.006 | 0.001 | 0.007 | |
ideogramPlot | 0.001 | 0.000 | 0.001 | |
importBam | 0.346 | 0.003 | 0.349 | |
importData | 2.935 | 0.047 | 2.998 | |
importGInteractions | 0.631 | 0.017 | 0.661 | |
importScSeqScore | 0.000 | 0.000 | 0.001 | |
importScore | 0.757 | 0.025 | 0.786 | |
listChromosomes | 0.533 | 0.035 | 0.574 | |
listResolutions | 0.004 | 0.001 | 0.006 | |
loadIdeogram | 0 | 0 | 0 | |
lolliplot | 1.095 | 0.008 | 1.107 | |
optimizeStyle | 0.695 | 0.018 | 0.719 | |
parse2GRanges | 0.014 | 0.000 | 0.014 | |
parseWIG | 17.792 | 0.189 | 18.101 | |
plotGRanges | 1.771 | 0.026 | 1.809 | |
plotIdeo | 0.000 | 0.000 | 0.001 | |
plotOneIdeo | 0.000 | 0.001 | 0.001 | |
reduce-GInteractions-method | 0.000 | 0.000 | 0.001 | |
trackStyle-class | 0.059 | 0.003 | 0.062 | |
trackViewer-package | 26.287 | 0.268 | 26.780 | |
trackViewerStyle-class | 0.000 | 0.001 | 0.001 | |
viewGene | 6.865 | 0.129 | 7.031 | |
viewTracks | 17.866 | 0.154 | 18.123 | |