Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-24 11:40 -0500 (Tue, 24 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" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
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 671/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
esetVis 1.33.0 (landing page) Laure Cougnaud
| 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 | OK | OK | OK | ||||||||||
To the developers/maintainers of the esetVis package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/esetVis.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: esetVis |
Version: 1.33.0 |
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:esetVis.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings esetVis_1.33.0.tar.gz |
StartedAt: 2024-12-23 21:53:53 -0500 (Mon, 23 Dec 2024) |
EndedAt: 2024-12-23 21:57:49 -0500 (Mon, 23 Dec 2024) |
EllapsedTime: 235.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: esetVis.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:esetVis.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings esetVis_1.33.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/esetVis.Rcheck’ * using R Under development (unstable) (2024-10-21 r87258) * 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 ‘esetVis/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘esetVis’ version ‘1.33.0’ * 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 ‘esetVis’ 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 ... NOTE ggvisPlotEset: no visible global function definition for ‘:=’ ggvisPlotEset: no visible binding for global variable ‘fill’ ggvisPlotEset: no visible binding for global variable ‘shape’ ggvisPlotEset: no visible binding for global variable ‘size’ ggvisPlotEset: no visible binding for global variable ‘opacity’ Undefined global functions or variables: := fill opacity shape size * checking Rd files ... NOTE checkRd: (-1) esetLda.Rd:122: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetLda.Rd:123: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetLda.Rd:124: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetLda.Rd:242: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetLda.Rd:243: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetLda.Rd:264-265: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetLda.Rd:267: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetLda.Rd:268: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetLda.Rd:269: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetLda.Rd:271: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetLda.Rd:272: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetPlot-class.Rd:79: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetPlot-class.Rd:80: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetPlot-class.Rd:81: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetPlotWrapper.Rd:127: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetPlotWrapper.Rd:128: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetPlotWrapper.Rd:129: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetPlotWrapper.Rd:243: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetPlotWrapper.Rd:244: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetPlotWrapper.Rd:272: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetPlotWrapper.Rd:273: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetPlotWrapper.Rd:277-278: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetSpectralMap.Rd:131: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetSpectralMap.Rd:132: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetSpectralMap.Rd:133: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetSpectralMap.Rd:251: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetSpectralMap.Rd:252: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetSpectralMap.Rd:273: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetSpectralMap.Rd:275: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetSpectralMap.Rd:276: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetSpectralMap.Rd:277: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetSpectralMap.Rd:278: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetSpectralMap.Rd:281: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetSpectralMap.Rd:282: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetTsne.Rd:111: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetTsne.Rd:112: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetTsne.Rd:113: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetTsne.Rd:157: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetTsne.Rd:158: Lost braces in \itemize; meant \describe ? checkRd: (-1) esetTsne.Rd:179-180: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetTsne.Rd:182: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetTsne.Rd:183: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetTsne.Rd:185: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) esetTsne.Rd:186: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) getGeneSetsForPlot.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) getGeneSetsForPlot.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) getMethodsInputObjectEsetVis.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) getMethodsInputObjectEsetVis.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) getMethodsInputObjectEsetVis.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) getMethodsInputObjectEsetVis.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) getMethodsInputObjectEsetVis.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) getMethodsInputObjectEsetVis.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) getMethodsInputObjectEsetVis.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) plotTopElements.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) plotTopElements.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) plotTopElements.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly checkRd: (-1) plotTopElements.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly * checking Rd metadata ... OK * checking Rd cross-references ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: esetLda.Rd: eSet-class esetPlotWrapper.Rd: eSet-class esetSpectralMap.Rd: eSet-class esetTsne.Rd: eSet-class getGeneSetsForPlot.Rd: eSet-class 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 ... NOTE Documented arguments not in \usage in Rd file 'getCoordGeneSets.Rd': ‘...’ Documented arguments not in \usage in Rd file 'getTopElements.Rd': ‘returnTopElements’ Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. * 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 getGeneSetsForPlot 45.537 1.722 47.779 esetLda 6.244 0.238 6.483 * 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: 4 NOTEs See ‘/home/biocbuild/bbs-3.21-bioc/meat/esetVis.Rcheck/00check.log’ for details.
esetVis.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL esetVis ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’ * installing *source* package ‘esetVis’ ... ** 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 (esetVis)
esetVis.Rcheck/esetVis-Ex.timings
name | user | system | elapsed | |
esetLda | 6.244 | 0.238 | 6.483 | |
esetPlotWrapper | 4.731 | 0.254 | 4.988 | |
esetSpectralMap | 3.954 | 0.127 | 4.082 | |
esetTsne | 3.309 | 0.079 | 3.389 | |
getGeneSetsForPlot | 45.537 | 1.722 | 47.779 | |