Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-10-22 12:06 -0400 (Wed, 22 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" | 4890 |
lconway | macOS 12.7.6 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4680 |
kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4625 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4642 |
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 454/2355 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
CoSIA 1.9.0 (landing page) Amanda D. Clark
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | TIMEOUT | |||||||||
lconway | macOS 12.7.6 Monterey / x86_64 | OK | OK | TIMEOUT | OK | |||||||||
kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | TIMEOUT | ||||||||||
To the developers/maintainers of the CoSIA package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CoSIA.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: CoSIA |
Version: 1.9.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:CoSIA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings CoSIA_1.9.0.tar.gz |
StartedAt: 2025-10-21 19:09:55 -0400 (Tue, 21 Oct 2025) |
EndedAt: 2025-10-21 19:36:23 -0400 (Tue, 21 Oct 2025) |
EllapsedTime: 1587.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: CoSIA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:CoSIA.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings CoSIA_1.9.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/CoSIA.Rcheck’ * using R version 4.5.1 Patched (2025-09-10 r88807) * 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 13.7.7 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘CoSIA/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘CoSIA’ version ‘1.9.0’ * 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 ‘CoSIA’ 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 ... 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed plotCVGEx-CoSIAn-method 332.902 6.811 341.790 plotCVGEx 313.198 5.864 321.948 plotDSGEx-CoSIAn-method 116.640 2.728 121.750 plotTissueGEx-CoSIAn-method 115.230 1.588 117.566 getTissues 114.577 1.395 116.422 plotSpeciesGEx-CoSIAn-method 110.156 1.891 112.992 plotSpeciesGEx 107.819 0.969 110.495 plotTissueGEx 104.825 0.980 106.303 plotDSGEx 103.195 1.003 104.718 getGEx-CoSIAn-method 22.308 0.262 22.855 getGExMetrics-CoSIAn-method 21.902 0.303 22.609 getGExMetrics 21.197 0.258 21.815 getGEx 20.359 0.286 21.033 * 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/CoSIA.Rcheck/00check.log’ for details.
CoSIA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL CoSIA ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘CoSIA’ ... ** this is package ‘CoSIA’ version ‘1.9.0’ ** 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 (CoSIA)
CoSIA.Rcheck/CoSIA-Ex.timings
name | user | system | elapsed | |
CoSIA-constructor | 0.001 | 0.001 | 0.002 | |
getConversion-CoSIAn-method | 1.839 | 0.047 | 1.907 | |
getConversion | 0.894 | 0.017 | 0.922 | |
getGEx-CoSIAn-method | 22.308 | 0.262 | 22.855 | |
getGEx | 20.359 | 0.286 | 21.033 | |
getGExMetrics-CoSIAn-method | 21.902 | 0.303 | 22.609 | |
getGExMetrics | 21.197 | 0.258 | 21.815 | |
getTissues | 114.577 | 1.395 | 116.422 | |
plotCVGEx-CoSIAn-method | 332.902 | 6.811 | 341.790 | |
plotCVGEx | 313.198 | 5.864 | 321.948 | |
plotDSGEx-CoSIAn-method | 116.640 | 2.728 | 121.750 | |
plotDSGEx | 103.195 | 1.003 | 104.718 | |
plotSpeciesGEx-CoSIAn-method | 110.156 | 1.891 | 112.992 | |
plotSpeciesGEx | 107.819 | 0.969 | 110.495 | |
plotTissueGEx-CoSIAn-method | 115.230 | 1.588 | 117.566 | |
plotTissueGEx | 104.825 | 0.980 | 106.303 | |
viewCoSIAn-CoSIAn-method | 0.000 | 0.000 | 0.001 | |
viewCoSIAn | 0.001 | 0.000 | 0.001 | |