Back to Multiple platform build/check report for BioC 3.10 |
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This page was generated on 2020-04-15 12:48:20 -0400 (Wed, 15 Apr 2020).
Package 1066/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
mixOmics 6.10.9 Kim-Anh Le Cao
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK |
Package: mixOmics |
Version: 6.10.9 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:mixOmics.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings mixOmics_6.10.9.tar.gz |
StartedAt: 2020-04-15 03:58:35 -0400 (Wed, 15 Apr 2020) |
EndedAt: 2020-04-15 04:03:56 -0400 (Wed, 15 Apr 2020) |
EllapsedTime: 321.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: mixOmics.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:mixOmics.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings mixOmics_6.10.9.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.10-bioc/meat/mixOmics.Rcheck’ * using R version 3.6.3 (2020-02-29) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘mixOmics/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘mixOmics’ version ‘6.10.9’ * 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 ... 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 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 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed background.predict 9.130 2.390 11.653 tune.splsda 7.999 1.065 9.130 tune 7.798 1.054 8.944 * 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: OK
mixOmics.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL mixOmics ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/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 3.6.3 (2020-02-29) -- "Holding the Windsock" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin15.6.0 (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 6.10.9 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") $Comp1 AUC p-value AF vs BE 0.863 2.473e-05 $Comp2 AUC p-value AF vs BE 0.9981 7.124e-09 Performing repeated cross-validation... | | | 0% | |======================= | 33% | |=============================================== | 67% | |======================================================================| 100% Performing repeated cross-validation... | | | 0%══ testthat results ═══════════════════════════════════════════════════════════ [ OK: 88 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ] > > proc.time() user system elapsed 86.962 5.414 88.212
mixOmics.Rcheck/mixOmics-Ex.timings
name | user | system | elapsed | |
auroc | 0.707 | 0.024 | 0.736 | |
background.predict | 9.130 | 2.390 | 11.653 | |
block.pls | 0.682 | 0.017 | 0.708 | |
block.plsda | 1.231 | 0.009 | 1.255 | |
block.spls | 0.729 | 0.011 | 0.746 | |
block.splsda | 0.751 | 0.011 | 0.770 | |
cim | 0.031 | 0.004 | 0.040 | |
cimDiablo | 0.231 | 0.004 | 0.238 | |
circosPlot | 0.468 | 0.007 | 0.491 | |
colors | 0.039 | 0.001 | 0.043 | |
explained_variance | 0.174 | 0.013 | 0.205 | |
get.confusion_matrix | 0.310 | 0.010 | 0.326 | |
image.tune.rcc | 3.218 | 0.040 | 3.306 | |
imgCor | 0.107 | 0.006 | 0.114 | |
ipca | 1.183 | 0.038 | 1.238 | |
logratio.transfo | 0.080 | 0.012 | 0.094 | |
map | 0.004 | 0.001 | 0.006 | |
mat.rank | 0.001 | 0.000 | 0.002 | |
mint.block.pls | 0.154 | 0.013 | 0.171 | |
mint.block.plsda | 0.114 | 0.013 | 0.128 | |
mint.block.spls | 0.152 | 0.016 | 0.169 | |
mint.block.splsda | 0.348 | 0.010 | 0.360 | |
mint.pca | 0.657 | 0.012 | 0.672 | |
mint.pls | 1.002 | 0.010 | 1.019 | |
mint.plsda | 1.019 | 0.014 | 1.042 | |
mint.spls | 0.831 | 0.010 | 0.852 | |
mint.splsda | 0.970 | 0.010 | 0.999 | |
mixOmics | 0.405 | 0.029 | 0.438 | |
nearZeroVar | 1.196 | 0.038 | 1.244 | |
network | 0.031 | 0.004 | 0.035 | |
nipals | 0.004 | 0.001 | 0.004 | |
pca | 0.179 | 0.016 | 0.196 | |
perf | 2.582 | 0.162 | 2.763 | |
plot.perf | 2.769 | 0.104 | 2.907 | |
plot.rcc | 0.016 | 0.002 | 0.017 | |
plot.tune | 0.001 | 0.001 | 0.001 | |
plotArrow | 0.091 | 0.004 | 0.096 | |
plotDiablo | 0.153 | 0.009 | 0.163 | |
plotIndiv | 0.492 | 0.007 | 0.505 | |
plotLoadings | 0.177 | 0.014 | 0.196 | |
plotVar | 0.800 | 0.005 | 0.816 | |
pls | 0.007 | 0.001 | 0.008 | |
plsda | 0.545 | 0.016 | 0.572 | |
predict | 0.264 | 0.013 | 0.280 | |
print.methods | 0.021 | 0.002 | 0.024 | |
rcc | 0.004 | 0.002 | 0.006 | |
selectVar | 0.550 | 0.026 | 0.583 | |
sipca | 0.659 | 0.013 | 0.678 | |
spca | 1.268 | 0.037 | 1.311 | |
spls | 0.279 | 0.012 | 0.291 | |
splsda | 0.794 | 0.032 | 0.829 | |
study_split | 0.038 | 0.005 | 0.043 | |
summary | 0.027 | 0.002 | 0.029 | |
tune | 7.798 | 1.054 | 8.944 | |
tune.block.splsda | 0.071 | 0.004 | 0.075 | |
tune.mint.splsda | 3.789 | 0.139 | 3.961 | |
tune.pca | 0.318 | 0.030 | 0.356 | |
tune.rcc | 2.952 | 0.037 | 3.030 | |
tune.spls | 0.080 | 0.006 | 0.089 | |
tune.splsda | 7.999 | 1.065 | 9.130 | |
tune.splslevel | 1.345 | 0.034 | 1.389 | |
unmap | 0.006 | 0.002 | 0.009 | |
vip | 0.015 | 0.001 | 0.017 | |
withinVariation | 1.287 | 0.018 | 1.317 | |
wrapper.rgcca | 0.104 | 0.002 | 0.106 | |
wrapper.sgcca | 0.223 | 0.004 | 0.227 | |