Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-10-04 12:05 -0400 (Sat, 04 Oct 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4853 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4640 |
kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4585 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4576 |
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 1184/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
maser 1.27.1 (landing page) Diogo F.T. Veiga
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the maser package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/maser.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: maser |
Version: 1.27.1 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:maser.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings maser_1.27.1.tar.gz |
StartedAt: 2025-10-03 22:34:55 -0400 (Fri, 03 Oct 2025) |
EndedAt: 2025-10-03 22:42:30 -0400 (Fri, 03 Oct 2025) |
EllapsedTime: 455.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: maser.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:maser.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings maser_1.27.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/maser.Rcheck’ * using R version 4.5.1 Patched (2025-09-10 r88807) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 14.2.0 * running under: macOS Monterey 12.7.6 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘maser/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘maser’ version ‘1.27.1’ * 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 ‘maser’ 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 whether startup messages can be suppressed ... 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 ... NOTE availableFeaturesUniprotKB: no visible global function definition for 'read.csv' availableFeaturesUniprotKB: no visible binding for global variable 'Category' availableFeaturesUniprotKB: no visible binding for global variable 'Name' filterByIds: no visible binding for global variable 'ID' mapTranscriptsA3SSevent: no visible global function definition for 'subjectHits' mapTranscriptsA5SSevent: no visible global function definition for 'subjectHits' mapTranscriptsMXEevent: no visible global function definition for 'subjectHits' mapTranscriptsRIevent: no visible global function definition for 'subjectHits' mapTranscriptsSEevent: no visible global function definition for 'subjectHits' overlappingFeatures: no visible global function definition for 'subjectHits' urlTracksUniprotKB: no visible global function definition for 'read.csv' Undefined global functions or variables: Category ID Name read.csv subjectHits Consider adding importFrom("utils", "read.csv") to your NAMESPACE file. * 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 R/sysdata.rda ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed plotTranscripts 8.065 0.106 8.238 plotUniprotKBFeatures 7.415 0.174 8.655 mapProteinFeaturesToEvents 5.392 0.233 6.716 * 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: 1 NOTE See ‘/Users/biocbuild/bbs-3.22-bioc/meat/maser.Rcheck/00check.log’ for details.
maser.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL maser ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’ * installing *source* package ‘maser’ ... ** this is package ‘maser’ version ‘1.27.1’ ** 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 (maser)
maser.Rcheck/maser-Ex.timings
name | user | system | elapsed | |
PSI-Maser-character-method | 0.856 | 0.043 | 0.928 | |
PSI | 0.765 | 0.064 | 0.849 | |
annotation-Maser-method | 0.710 | 0.010 | 0.727 | |
availableFeaturesUniprotKB | 0.039 | 0.005 | 0.143 | |
boxplot_PSI_levels | 3.439 | 0.046 | 3.508 | |
counts-Maser-method | 0.661 | 0.014 | 0.679 | |
display | 1.889 | 0.139 | 2.058 | |
dotplot | 1.805 | 0.063 | 1.891 | |
filterByCoverage | 1.083 | 0.009 | 1.099 | |
filterByEventId | 1.072 | 0.012 | 1.089 | |
geneEvents | 1.007 | 0.009 | 1.024 | |
granges-Maser-method | 0.718 | 0.009 | 0.731 | |
mapProteinFeaturesToEvents | 5.392 | 0.233 | 6.716 | |
mapTranscriptsToEvents | 1.909 | 0.028 | 1.963 | |
maser | 0.698 | 0.018 | 0.723 | |
pca | 1.426 | 0.018 | 1.458 | |
plotGenePSI | 2.140 | 0.026 | 2.180 | |
plotTranscripts | 8.065 | 0.106 | 8.238 | |
plotUniprotKBFeatures | 7.415 | 0.174 | 8.655 | |
splicingDistribution | 1.435 | 0.014 | 1.460 | |
summary-Maser-method | 0.879 | 0.014 | 0.904 | |
topEvents | 1.093 | 0.011 | 1.119 | |
volcano | 1.487 | 0.023 | 1.560 | |