Back to Mac ARM64 build report for BioC 3.18 |
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This page was generated on 2024-03-28 11:32:24 -0400 (Thu, 28 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kjohnson1 | macOS 13.6.1 Ventura | arm64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4376 |
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 1284/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
mixOmics 6.26.0 (landing page) Max Bladen
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | OK | OK | OK | OK | ||||||||
To the developers/maintainers of the mixOmics package: - 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: mixOmics |
Version: 6.26.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:mixOmics.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings mixOmics_6.26.0.tar.gz |
StartedAt: 2024-03-27 19:31:10 -0400 (Wed, 27 Mar 2024) |
EndedAt: 2024-03-27 19:37:28 -0400 (Wed, 27 Mar 2024) |
EllapsedTime: 378.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: mixOmics.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:mixOmics.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings mixOmics_6.26.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/mixOmics.Rcheck’ * using R version 4.3.3 (2024-02-29) * using platform: aarch64-apple-darwin20 (64-bit) * 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 13.6.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘mixOmics/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘mixOmics’ version ‘6.26.0’ * 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 ‘mixOmics’ can be installed ... OK * checking installed package size ... NOTE installed size is 8.1Mb sub-directories of 1Mb or more: R 1.4Mb data 3.3Mb doc 1.9Mb * 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 R 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 startup messages can be suppressed ... 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 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 biplot 11.004 0.084 11.103 background.predict 8.303 2.120 10.424 block.splsda 6.341 0.127 6.502 circosPlot 5.605 0.084 5.696 block.spls 5.361 0.109 5.506 tune.splsda 4.655 0.499 5.175 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/mixOmics.Rcheck/00check.log’ for details.
mixOmics.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL mixOmics ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’ * installing *source* package ‘mixOmics’ ... ** 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 (mixOmics)
mixOmics.Rcheck/tests/testthat.Rout
R version 4.3.3 (2024-02-29) -- "Angel Food Cake" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 (64-bit) 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(mixOmics) Loading required package: MASS Loading required package: lattice Loading required package: ggplot2 Loaded mixOmics 6.26.0 Thank you for using mixOmics! Tutorials: http://mixomics.org Bookdown vignette: https://mixomicsteam.github.io/Bookdown Questions, issues: Follow the prompts at http://mixomics.org/contact-us Cite us: citation('mixOmics') > > test_check("mixOmics") 2024-03-27 19:34:56.314 R[8873:397661436] XType: Using static font registry. [ FAIL 0 | WARN 4 | SKIP 0 | PASS 236 ] [ FAIL 0 | WARN 4 | SKIP 0 | PASS 236 ] Warning messages: 1: In for (i in seq_len(n)) { : closing unused connection 6 (<-localhost:11783) 2: In for (i in seq_len(n)) { : closing unused connection 5 (<-localhost:11783) > > proc.time() user system elapsed 105.265 5.583 146.244
mixOmics.Rcheck/mixOmics-Ex.timings
name | user | system | elapsed | |
S3methods-print | 0.012 | 0.004 | 0.020 | |
auroc | 0.969 | 0.041 | 1.018 | |
background.predict | 8.303 | 2.120 | 10.424 | |
biplot | 11.004 | 0.084 | 11.103 | |
block.pls | 0.545 | 0.015 | 0.566 | |
block.plsda | 0.666 | 0.009 | 0.679 | |
block.spls | 5.361 | 0.109 | 5.506 | |
block.splsda | 6.341 | 0.127 | 6.502 | |
cim | 0.053 | 0.006 | 0.060 | |
cimDiablo | 0.250 | 0.009 | 0.261 | |
circosPlot | 5.605 | 0.084 | 5.696 | |
colors | 0.037 | 0.001 | 0.038 | |
explained_variance | 0.166 | 0.008 | 0.175 | |
get.confusion_matrix | 0.517 | 0.019 | 0.536 | |
image.tune.rcc | 2.185 | 0.090 | 2.275 | |
imgCor | 0.073 | 0.009 | 0.082 | |
impute.nipals | 0.012 | 0.004 | 0.015 | |
ipca | 0.777 | 0.029 | 0.807 | |
logratio-transformations | 0.087 | 0.005 | 0.092 | |
map | 0.005 | 0.002 | 0.007 | |
mat.rank | 0.002 | 0.000 | 0.002 | |
mint.block.pls | 0.518 | 0.016 | 0.534 | |
mint.block.plsda | 0.162 | 0.006 | 0.168 | |
mint.block.spls | 0.206 | 0.011 | 0.219 | |
mint.block.splsda | 0.171 | 0.008 | 0.181 | |
mint.pca | 0.367 | 0.015 | 0.381 | |
mint.pls | 0.492 | 0.013 | 0.505 | |
mint.plsda | 0.550 | 0.007 | 0.559 | |
mint.spls | 0.496 | 0.008 | 0.505 | |
mint.splsda | 0.598 | 0.009 | 0.608 | |
mixOmics | 0.387 | 0.024 | 0.410 | |
nearZeroVar | 0.687 | 0.018 | 0.707 | |
network | 0.015 | 0.003 | 0.018 | |
pca | 4.566 | 0.067 | 4.645 | |
perf | 3.051 | 0.149 | 3.212 | |
plot.rcc | 0.018 | 0.003 | 0.020 | |
plot.tune | 0.000 | 0.000 | 0.002 | |
plotArrow | 3.372 | 0.067 | 3.445 | |
plotDiablo | 0.235 | 0.012 | 0.246 | |
plotIndiv | 0.291 | 0.008 | 0.300 | |
plotLoadings | 0.139 | 0.008 | 0.148 | |
plotMarkers | 0 | 0 | 0 | |
plotVar | 0.509 | 0.009 | 0.518 | |
pls | 0.006 | 0.002 | 0.008 | |
plsda | 0.462 | 0.011 | 0.474 | |
predict | 0.176 | 0.010 | 0.187 | |
rcc | 0.003 | 0.002 | 0.005 | |
selectVar | 0.482 | 0.050 | 0.533 | |
sipca | 0.478 | 0.025 | 0.503 | |
spca | 3.622 | 0.147 | 3.770 | |
spls | 0.223 | 0.022 | 0.243 | |
splsda | 0.739 | 0.025 | 0.765 | |
study_split | 0.009 | 0.003 | 0.011 | |
summary | 0.017 | 0.008 | 0.025 | |
tune | 4.121 | 0.435 | 4.560 | |
tune.block.splsda | 0.000 | 0.000 | 0.001 | |
tune.mint.splsda | 2.264 | 0.136 | 2.402 | |
tune.pca | 0.226 | 0.011 | 0.238 | |
tune.rcc | 2.206 | 0.080 | 2.285 | |
tune.spca | 0.604 | 0.011 | 0.616 | |
tune.spls | 0.000 | 0.001 | 0.000 | |
tune.splsda | 4.655 | 0.499 | 5.175 | |
tune.splslevel | 0.888 | 0.038 | 0.928 | |
unmap | 0.006 | 0.003 | 0.008 | |
vip | 0.009 | 0.003 | 0.012 | |
withinVariation | 0.890 | 0.020 | 0.911 | |
wrapper.rgcca | 0.063 | 0.009 | 0.073 | |
wrapper.sgcca | 0.111 | 0.007 | 0.119 | |