Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-03-04 11:39:26 -0500 (Mon, 04 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" | 4676 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-01-14 r85805 ucrt) -- "Unsuffered Consequences" | 4414 |
merida1 | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" | 4441 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-01-16 r85812) -- "Unsuffered Consequences" | 4417 |
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 1139/2251 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
maser 1.21.0 (landing page) Diogo F.T. Veiga
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / 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: 1.21.0 |
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_1.21.0.tar.gz |
StartedAt: 2024-03-02 06:12:50 -0500 (Sat, 02 Mar 2024) |
EndedAt: 2024-03-02 06:26:59 -0500 (Sat, 02 Mar 2024) |
EllapsedTime: 848.2 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_1.21.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/maser.Rcheck’ * using R Under development (unstable) (2024-01-16 r85808) * 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 ‘maser/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘maser’ version ‘1.21.0’ * 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 R 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 plotUniprotKBFeatures 13.403 0.241 16.072 plotTranscripts 12.553 0.146 14.634 mapProteinFeaturesToEvents 8.449 0.196 10.521 boxplot_PSI_levels 4.391 0.079 5.438 * 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-3.19-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/4.4-x86_64/Resources/library’ * installing *source* package ‘maser’ ... ** 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 | 1.512 | 0.104 | 1.892 | |
PSI | 1.123 | 0.016 | 1.318 | |
annotation-Maser-method | 1.319 | 0.083 | 1.601 | |
availableFeaturesUniprotKB | 0.067 | 0.009 | 0.196 | |
boxplot_PSI_levels | 4.391 | 0.079 | 5.438 | |
counts-Maser-method | 1.146 | 0.042 | 1.373 | |
display | 3.318 | 0.189 | 4.122 | |
dotplot | 2.847 | 0.200 | 3.464 | |
filterByCoverage | 1.874 | 0.017 | 2.124 | |
filterByEventId | 1.777 | 0.023 | 1.993 | |
geneEvents | 1.902 | 0.029 | 2.425 | |
granges-Maser-method | 1.316 | 0.026 | 1.562 | |
mapProteinFeaturesToEvents | 8.449 | 0.196 | 10.521 | |
mapTranscriptsToEvents | 3.418 | 0.045 | 3.993 | |
maser | 1.125 | 0.015 | 1.313 | |
pca | 2.210 | 0.027 | 2.569 | |
plotGenePSI | 3.549 | 0.044 | 4.052 | |
plotTranscripts | 12.553 | 0.146 | 14.634 | |
plotUniprotKBFeatures | 13.403 | 0.241 | 16.072 | |
splicingDistribution | 2.385 | 0.023 | 2.772 | |
summary-Maser-method | 1.479 | 0.018 | 1.650 | |
topEvents | 1.949 | 0.023 | 2.200 | |
volcano | 2.253 | 0.031 | 2.631 | |