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 12:06 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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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 732/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
flowDensity 1.40.0 (landing page) Mehrnoush Malek
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | |||||||||
To the developers/maintainers of the flowDensity package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowDensity.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: flowDensity |
Version: 1.40.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:flowDensity.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings flowDensity_1.40.0.tar.gz |
StartedAt: 2024-12-20 03:30:58 -0500 (Fri, 20 Dec 2024) |
EndedAt: 2024-12-20 03:33:01 -0500 (Fri, 20 Dec 2024) |
EllapsedTime: 123.2 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: flowDensity.Rcheck |
Warnings: 3 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:flowDensity.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings flowDensity_1.40.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/flowDensity.Rcheck’ * using R version 4.4.2 (2024-10-31) * using platform: x86_64-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 Monterey 12.7.6 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘flowDensity/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘flowDensity’ version ‘1.40.0’ * 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 ‘flowDensity’ can be installed ... OK * checking installed package size ... OK * checking package 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 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 ... WARNING checkRd: (7) deGate.Rd:126: Invalid email address: <mmalekes@bccrc.ca> checkRd: (7) getPeaks.Rd:55: Invalid email address: <mmalekes@bccrc.ca> checkRd: (7) getflowFrame.Rd:23: Invalid email address: <jtaghiyar@bccrc.ca> checkRd: (7) nmRemove.Rd:37: Invalid email address: <jtaghiyar@bccrc.ca> checkRd: (7) nmRemove.Rd:38: Invalid email address: <mmalekes@bccrc.ca> checkRd: (7) notSubFrame.Rd:41: Invalid email address: <mmalekes@bccrc.ca> checkRd: (7) plotDens.Rd:89: Invalid email address: <mmalekes@bccrc.ca> checkRd: (7) plotDens.Rd:90: Invalid email address: <jtaghiyar@bccrc.ca> * checking Rd metadata ... OK * checking Rd cross-references ... WARNING Missing link or links in Rd file 'deGate.Rd': ‘flowDensity’ Missing link or links in Rd file 'getPeaks.Rd': ‘flowDensity’ See section 'Cross-references' in the 'Writing R Extensions' manual. * checking for missing documentation entries ... WARNING Undocumented code objects: ‘flowDensity’ Undocumented S4 methods: generic 'flowDensity' and siglist 'CellPopulation,ANY,logical' generic 'flowDensity' and siglist 'flowFrame,ANY,logical' All user-level objects in a package (including S4 classes and methods) should have documentation entries. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual. * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... NOTE Files named as vignettes but with no recognized vignette engine: ‘vignettes/flowDensity.Rmd’ (Is a VignetteBuilder field missing?) * checking examples ... OK * checking package vignettes ... NOTE Package has ‘vignettes’ subdirectory but apparently no vignettes. Perhaps the ‘VignetteBuilder’ information is missing from the DESCRIPTION file? * checking PDF version of manual ... OK * DONE Status: 3 WARNINGs, 2 NOTEs See ‘/Users/biocbuild/bbs-3.20-bioc/meat/flowDensity.Rcheck/00check.log’ for details.
flowDensity.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL flowDensity ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’ * installing *source* package ‘flowDensity’ ... ** 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 (flowDensity)
flowDensity.Rcheck/flowDensity-Ex.timings
name | user | system | elapsed | |
CellPopulation-class | 0.001 | 0.001 | 0.003 | |
deGate | 0.199 | 0.038 | 0.240 | |
getPeaks | 0.042 | 0.010 | 0.054 | |
getflowFrame | 0.103 | 0.008 | 0.113 | |
nmRemove | 0.302 | 0.036 | 0.344 | |
notSubFrame | 0.116 | 0.013 | 0.132 | |
plotDens | 0.181 | 0.031 | 0.215 | |