Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-12-23 12:05 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
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 1154/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
maser 1.24.0 (landing page) Diogo F.T. Veiga
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | TIMEOUT | |||||||||
palomino8 | 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: 1.24.0 |
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:maser.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings maser_1.24.0.tar.gz |
StartedAt: 2024-12-20 03:04:20 -0500 (Fri, 20 Dec 2024) |
EndedAt: 2024-12-20 03:13:32 -0500 (Fri, 20 Dec 2024) |
EllapsedTime: 551.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: maser.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:maser.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings maser_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/maser.Rcheck' * using R version 4.4.2 (2024-10-31 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.3.0 GNU Fortran (GCC) 13.3.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'maser/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'maser' version '1.24.0' * 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 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 9.33 0.06 9.40 plotUniprotKBFeatures 6.51 0.05 55.25 mapProteinFeaturesToEvents 4.53 0.06 58.28 * 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 'F:/biocbuild/bbs-3.20-bioc/meat/maser.Rcheck/00check.log' for details.
maser.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL maser ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/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 | 0.95 | 0.05 | 1.00 | |
PSI | 0.76 | 0.08 | 0.84 | |
annotation-Maser-method | 0.75 | 0.00 | 0.75 | |
availableFeaturesUniprotKB | 0.06 | 0.01 | 0.27 | |
boxplot_PSI_levels | 2.27 | 0.07 | 2.33 | |
counts-Maser-method | 1.96 | 0.00 | 1.97 | |
display | 1.94 | 0.14 | 3.61 | |
dotplot | 3.24 | 0.08 | 3.31 | |
filterByCoverage | 1.26 | 0.00 | 1.26 | |
filterByEventId | 1.13 | 0.01 | 1.15 | |
geneEvents | 1.15 | 0.00 | 1.15 | |
granges-Maser-method | 0.88 | 0.02 | 0.89 | |
mapProteinFeaturesToEvents | 4.53 | 0.06 | 58.28 | |
mapTranscriptsToEvents | 2.33 | 0.06 | 2.39 | |
maser | 0.75 | 0.00 | 0.75 | |
pca | 1.5 | 0.0 | 1.5 | |
plotGenePSI | 2.08 | 0.05 | 2.12 | |
plotTranscripts | 9.33 | 0.06 | 9.40 | |
plotUniprotKBFeatures | 6.51 | 0.05 | 55.25 | |
splicingDistribution | 1.16 | 0.00 | 1.15 | |
summary-Maser-method | 0.97 | 0.01 | 0.98 | |
topEvents | 0.98 | 0.02 | 1.00 | |
volcano | 1.42 | 0.00 | 1.42 | |