Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-12 11:46 -0500 (Thu, 12 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4752 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4464 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4415 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4370 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4279 |
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 1727/2273 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
rgsepd 1.39.0 (landing page) Karl Stamm
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | ERROR | ERROR | skipped | ||||||||||
To the developers/maintainers of the rgsepd package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rgsepd.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: rgsepd |
Version: 1.39.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:rgsepd.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings rgsepd_1.39.0.tar.gz |
StartedAt: 2024-12-12 03:45:43 -0500 (Thu, 12 Dec 2024) |
EndedAt: 2024-12-12 03:52:01 -0500 (Thu, 12 Dec 2024) |
EllapsedTime: 377.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: rgsepd.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:rgsepd.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings rgsepd_1.39.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/rgsepd.Rcheck’ * using R Under development (unstable) (2024-11-20 r87352) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘rgsepd/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘rgsepd’ version ‘1.39.0’ * 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 ‘rgsepd’ 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 ... NOTE Problems with news in ‘NEWS’: Cannot process chunk/lines: Rebuilt for R 3.2.2 * 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 ... NOTE 'select()' returned 1:1 mapping between keys and columns 'select()' returned 1:1 mapping between keys and columns It looks like this package (or a package it requires) has a startup message which cannot be suppressed: see ?packageStartupMessage. * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed ExtractProjection 23.538 1.226 25.082 * 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/rgsepd.Rcheck/00check.log’ for details.
rgsepd.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL rgsepd ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘rgsepd’ ... ** 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 'select()' returned 1:1 mapping between keys and columns 'select()' returned 1:1 mapping between keys and columns ** testing if installed package can be loaded from final location 'select()' returned 1:1 mapping between keys and columns 'select()' returned 1:1 mapping between keys and columns ** testing if installed package keeps a record of temporary installation path * DONE (rgsepd)
rgsepd.Rcheck/rgsepd-Ex.timings
name | user | system | elapsed | |
DisplayName | 0.000 | 0.000 | 0.001 | |
ExtractProjection | 23.538 | 1.226 | 25.082 | |
GSEPD_ChangeConditions | 0.099 | 0.003 | 0.103 | |
GSEPD_ChangeOutput | 0.095 | 0.004 | 0.099 | |
GSEPD_DEGHeatmap | 0.819 | 0.013 | 0.832 | |
GSEPD_Export_DESeq | 0.207 | 0.005 | 0.212 | |
GSEPD_Heatmap | 0.506 | 0.007 | 0.513 | |
GSEPD_INIT | 0.100 | 0.003 | 0.104 | |
GSEPD_PCA_Plot | 0.554 | 0.009 | 0.563 | |
GSEPD_PCA_Spec | 0.497 | 0.010 | 0.506 | |
GSEPD_Process | 0.088 | 0.003 | 0.091 | |
GSEPD_ProcessAll | 0.085 | 0.004 | 0.089 | |
GSEPD_PullDEG | 1.085 | 0.026 | 1.111 | |
IlluminaBodymap | 0.084 | 0.003 | 0.086 | |
IlluminaBodymapMeta | 0.003 | 0.001 | 0.004 | |
Name_to_RefSeq | 0 | 0 | 0 | |
rgsepd-package | 0.083 | 0.004 | 0.086 | |