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 12:04 -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 885/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
goProfiles 1.68.0 (landing page) Alex Sanchez
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
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 goProfiles package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/goProfiles.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: goProfiles |
Version: 1.68.0 |
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:goProfiles.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings goProfiles_1.68.0.tar.gz |
StartedAt: 2024-12-20 00:36:43 -0500 (Fri, 20 Dec 2024) |
EndedAt: 2024-12-20 00:42:59 -0500 (Fri, 20 Dec 2024) |
EllapsedTime: 376.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: goProfiles.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:goProfiles.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings goProfiles_1.68.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/goProfiles.Rcheck’ * using R version 4.4.2 (2024-10-31) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 * running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * checking for file ‘goProfiles/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘goProfiles’ version ‘1.68.0’ * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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 ‘goProfiles’ 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 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 ... NOTE checkRd: (-1) compareGeneLists.Rd:6: Escaped LaTeX specials: \~ checkRd: (-1) compareProfilesLists.Rd:7: Escaped LaTeX specials: \~ * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed compareGeneLists 14.496 0.248 14.746 equivalentGOProfiles 8.917 0.091 9.009 * 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-3.20-bioc/meat/goProfiles.Rcheck/00check.log’ for details.
goProfiles.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL goProfiles ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’ * installing *source* package ‘goProfiles’ ... ** using staged installation ** R ** data ** 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 (goProfiles)
goProfiles.Rcheck/goProfiles-Ex.timings
name | user | system | elapsed | |
CD4ids | 0.002 | 0.000 | 0.002 | |
GOTermsList | 0 | 0 | 0 | |
basicProfile | 2.541 | 0.073 | 2.623 | |
compSummary | 0 | 0 | 0 | |
compareGOProfiles | 3.079 | 0.053 | 3.137 | |
compareGeneLists | 14.496 | 0.248 | 14.746 | |
compareProfilesLists | 0.001 | 0.000 | 0.000 | |
contractedProfile | 1.287 | 0.019 | 1.306 | |
conversionFunctions | 0.029 | 0.005 | 0.034 | |
drosophila | 0.002 | 0.000 | 0.002 | |
equivClust | 0 | 0 | 0 | |
equivClust2pdf | 0.014 | 0.004 | 0.018 | |
equivSummary | 0.000 | 0.001 | 0.000 | |
equivalentGOProfiles | 8.917 | 0.091 | 9.009 | |
expandedLevel | 1.065 | 0.094 | 1.159 | |
expandedProfile | 0.572 | 0.001 | 0.574 | |
fisherGOProfiles | 3.813 | 0.043 | 3.856 | |
fitGOProfile | 0 | 0 | 0 | |
hugoIds | 0.012 | 0.000 | 0.012 | |
iterEquivClust | 0 | 0 | 0 | |
mergeProfilesLists | 3.232 | 0.010 | 3.241 | |
ngenes | 1.308 | 0.005 | 1.314 | |
omimIds | 0.004 | 0.000 | 0.004 | |
plotProfiles | 3.324 | 0.011 | 3.335 | |
printProfiles | 3.636 | 0.025 | 3.661 | |
prostateIds | 0.003 | 0.001 | 0.004 | |