Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-10-11 20:39 -0400 (Fri, 11 Oct 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4763 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4500 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4529 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4479 |
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 1163/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
maser 1.22.0 (landing page) Diogo F.T. Veiga
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | 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: 1.22.0 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:maser.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings maser_1.22.0.tar.gz |
StartedAt: 2024-10-10 00:56:27 -0400 (Thu, 10 Oct 2024) |
EndedAt: 2024-10-10 01:05:28 -0400 (Thu, 10 Oct 2024) |
EllapsedTime: 540.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: maser.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:maser.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings maser_1.22.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/maser.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 * running under: Ubuntu 22.04.5 LTS * using session charset: UTF-8 * checking for file ‘maser/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘maser’ version ‘1.22.0’ * 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 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 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 6.123 0.568 6.692 plotUniprotKBFeatures 5.481 0.239 9.069 mapProteinFeaturesToEvents 3.463 0.172 7.079 * 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: 1 NOTE See ‘/home/biocbuild/bbs-3.19-bioc/meat/maser.Rcheck/00check.log’ for details.
maser.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL maser ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-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 | 0.550 | 0.009 | 0.562 | |
PSI | 0.457 | 0.032 | 0.489 | |
annotation-Maser-method | 0.445 | 0.000 | 0.445 | |
availableFeaturesUniprotKB | 0.098 | 0.008 | 0.442 | |
boxplot_PSI_levels | 1.452 | 0.044 | 1.496 | |
counts-Maser-method | 1.595 | 0.072 | 1.666 | |
display | 1.301 | 0.092 | 1.394 | |
dotplot | 1.085 | 0.136 | 1.221 | |
filterByCoverage | 0.758 | 0.024 | 0.782 | |
filterByEventId | 0.739 | 0.020 | 0.759 | |
geneEvents | 0.741 | 0.012 | 0.753 | |
granges-Maser-method | 0.540 | 0.016 | 0.556 | |
mapProteinFeaturesToEvents | 3.463 | 0.172 | 7.079 | |
mapTranscriptsToEvents | 1.462 | 0.112 | 1.574 | |
maser | 0.487 | 0.028 | 0.515 | |
pca | 0.956 | 0.108 | 1.064 | |
plotGenePSI | 1.403 | 0.144 | 1.547 | |
plotTranscripts | 6.123 | 0.568 | 6.692 | |
plotUniprotKBFeatures | 5.481 | 0.239 | 9.069 | |
splicingDistribution | 0.967 | 0.048 | 1.015 | |
summary-Maser-method | 0.591 | 0.004 | 0.595 | |
topEvents | 0.788 | 0.032 | 0.819 | |
volcano | 0.902 | 0.004 | 0.906 | |