Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-08-04 11:46 -0400 (Mon, 04 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4823 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4565 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4603 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4544 |
kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4579 |
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 1478/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
omicRexposome 1.30.0 (landing page) Xavier Escribà Montagut
| nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | TIMEOUT | skipped | skipped | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the omicRexposome package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/omicRexposome.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: omicRexposome |
Version: 1.30.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:omicRexposome.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings omicRexposome_1.30.0.tar.gz |
StartedAt: 2025-08-02 04:47:47 -0400 (Sat, 02 Aug 2025) |
EndedAt: 2025-08-02 04:52:52 -0400 (Sat, 02 Aug 2025) |
EllapsedTime: 304.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: omicRexposome.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:omicRexposome.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings omicRexposome_1.30.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/omicRexposome.Rcheck’ * using R version 4.5.1 Patched (2025-06-14 r88325) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 16.0.0 (clang-1600.0.26.6) GNU Fortran (GCC) 14.2.0 * running under: macOS Ventura 13.7.5 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘omicRexposome/DESCRIPTION’ ... OK * this is package ‘omicRexposome’ version ‘1.30.0’ * 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 ‘omicRexposome’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE License stub is invalid DCF. * 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 ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: add_cls-methods.Rd: ExposomeClust, MultiDataSet, add_eset, ExpressionSet add_exp-methods.Rd: ExposomeSet, MultiDataSet, add_eset, ExpressionSet association-methods.Rd: sva, ResultSet crossomics-methods.Rd: ResultSet getIntegration-methods.Rd: ResultSet plotAssociation-methods.Rd: ResultSet plotHits-methods.Rd: ResultSet plotIntegration-methods.Rd: ResultSet, mcia, MultiCCA, omicade4 plotLambda-methods.Rd: ResultSet tableHits-methods.Rd: ResultSet tableLambda-methods.Rd: ResultSet, lambdaClayton Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed association-methods 14.598 0.041 14.645 * 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: 2 NOTEs See ‘/Users/biocbuild/bbs-3.21-bioc/meat/omicRexposome.Rcheck/00check.log’ for details.
omicRexposome.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL omicRexposome ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘omicRexposome’ ... ** this is package ‘omicRexposome’ version ‘1.30.0’ ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (omicRexposome)
omicRexposome.Rcheck/omicRexposome-Ex.timings
name | user | system | elapsed | |
add_cls-methods | 0.150 | 0.006 | 0.159 | |
add_exp-methods | 0.180 | 0.007 | 0.193 | |
asr | 0.018 | 0.003 | 0.022 | |
association-methods | 14.598 | 0.041 | 14.645 | |
crossomics-methods | 0.276 | 0.008 | 0.284 | |
crs | 0.003 | 0.001 | 0.004 | |
getIntegration-methods | 0.002 | 0.001 | 0.003 | |
mds | 0.007 | 0.002 | 0.009 | |
plotAssociation-methods | 0.444 | 0.025 | 0.472 | |
plotHits-methods | 0.116 | 0.015 | 0.142 | |
plotIntegration-methods | 0.498 | 0.024 | 0.526 | |
plotLambda-methods | 0.180 | 0.006 | 0.186 | |
tableHits-methods | 0.051 | 0.007 | 0.058 | |
tableLambda-methods | 0.052 | 0.006 | 0.057 | |