Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-12-23 12:07 -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 740/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
flowPloidy 1.32.0 (landing page) Tyler Smith
| 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 flowPloidy package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowPloidy.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: flowPloidy |
Version: 1.32.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:flowPloidy.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings flowPloidy_1.32.0.tar.gz |
StartedAt: 2024-12-20 19:43:25 -0500 (Fri, 20 Dec 2024) |
EndedAt: 2024-12-20 19:44:49 -0500 (Fri, 20 Dec 2024) |
EllapsedTime: 83.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: flowPloidy.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:flowPloidy.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings flowPloidy_1.32.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/flowPloidy.Rcheck’ * using R version 4.4.2 (2024-10-31) * 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 ‘flowPloidy/DESCRIPTION’ ... OK * this is package ‘flowPloidy’ version ‘1.32.0’ * 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 ‘flowPloidy’ 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 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 sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * 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: OK
flowPloidy.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL flowPloidy ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘flowPloidy’ ... ** 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 (flowPloidy)
flowPloidy.Rcheck/tests/testthat.Rout
R version 4.4.2 (2024-10-31) -- "Pile of Leaves" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(flowPloidy) > > test_check("flowPloidy") FlowHist object '188-15.LMD' channel: FL3.INT.LIN 2 samples bins: 256 linearity: variable debris: SC 7 model components: a1, a2, a_s, b1, b_s, SC, AG 12 parameters: a1P, a_mean, a_stddev, a2P, linearity, a_sP, b1P, b_mean, b_stddev, b_sP, SCaP, AP 5 special parameters: xx, SCvals, DBvals, TRvals, QDvals Model fit Analysis ======== Counts ------ a1_count a2_count a_s_count b1_count b_s_count 1442.99 336.58 0.00 2820.64 405.87 Peak Sizes ---------- a_mean b_mean 99.04 136.12 CVs --- a_CV b_CV 2.2 2.0 RCS: 1.589 FlowHist object '222.LMD' channel: FL3.INT.LIN 2 samples bins: 256 linearity: variable debris: SC 8 model components: a1, a2, a_s, b1, b2, b_s, SC, AG 13 parameters: a1P, a_mean, a_stddev, a2P, linearity, a_sP, b1P, b_mean, b_stddev, b2P, b_sP, SCaP, AP 5 special parameters: xx, SCvals, DBvals, TRvals, QDvals Model fitting not complete RCS: NA FlowHist object '240+S.LMD' channel: FL3.INT.LIN 2 samples bins: 256 linearity: variable debris: MC 7 model components: a1, a2, a_s, b1, b_s, MC, AG 13 parameters: a1P, a_mean, a_stddev, a2P, linearity, a_sP, b1P, b_mean, b_stddev, b_sP, MCaP, k, AP 5 special parameters: xx, MCvals, DBvals, TRvals, QDvals Model fit Analysis ======== Counts ------ a1_count a2_count a_s_count b1_count b_s_count 664.23 0.00 195.73 3269.65 0.00 Peak Sizes ---------- a_mean b_mean 77.10 160.79 CVs --- a_CV b_CV 4.8 7.7 RCS: 2.22 FlowHist object '08.328' channel: FL2.A 2 samples bins: 256 linearity: variable debris: SC 0 model components: 0 parameters: 0 special parameters: Model fitting not complete RCS: NA [ FAIL 0 | WARN 0 | SKIP 0 | PASS 26 ] > > proc.time() user system elapsed 3.562 0.296 3.854
flowPloidy.Rcheck/flowPloidy-Ex.timings
name | user | system | elapsed | |
DebrisModels | 0.001 | 0.000 | 0.001 | |
FlowHist | 2.332 | 0.156 | 2.524 | |
FlowStandards | 0.138 | 0.015 | 0.153 | |
ModelComponent | 0.001 | 0.001 | 0.003 | |
browseFlowHist | 2.185 | 0.097 | 2.340 | |
fhAccessors | 0.123 | 0.008 | 0.131 | |
fhAnalyze | 0.094 | 0.010 | 0.105 | |
findPeaks | 0 | 0 | 0 | |
pickInit | 0.078 | 0.008 | 0.087 | |
plotFH | 0.093 | 0.007 | 0.101 | |
setBins | 0.111 | 0.008 | 0.121 | |
tabulateFlowHist | 0.122 | 0.008 | 0.130 | |
updateFlowHist | 0.142 | 0.015 | 0.158 | |
viewFlowChannels | 0.017 | 0.002 | 0.019 | |