Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-05-22 11:35:53 -0400 (Wed, 22 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4751 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4485 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 3444 |
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 1299/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
mixOmics 6.28.0 (landing page) Max Bladen
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | see weekly results here | ||||||||||||
To the developers/maintainers of the mixOmics package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mixOmics.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: mixOmics |
Version: 6.28.0 |
Command: F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:mixOmics.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings mixOmics_6.28.0.tar.gz |
StartedAt: 2024-05-22 04:02:42 -0400 (Wed, 22 May 2024) |
EndedAt: 2024-05-22 04:09:39 -0400 (Wed, 22 May 2024) |
EllapsedTime: 417.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: mixOmics.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:mixOmics.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings mixOmics_6.28.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.19-bioc/meat/mixOmics.Rcheck' * using R version 4.4.0 (2024-04-24 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'mixOmics/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'mixOmics' version '6.28.0' * 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 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 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 whether 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 12.29 0.14 12.44 background.predict 9.81 1.67 11.49 block.splsda 7.44 0.16 7.80 circosPlot 6.48 0.05 6.56 block.spls 6.00 0.11 6.10 tune 4.62 0.53 5.16 * 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: 1 NOTE See 'F:/biocbuild/bbs-3.19-bioc/meat/mixOmics.Rcheck/00check.log' for details.
mixOmics.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL mixOmics ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.19-bioc/R/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 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 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 6.28.0 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") [ FAIL 0 | WARN 4 | SKIP 0 | PASS 236 ] [ FAIL 0 | WARN 4 | SKIP 0 | PASS 236 ] Warning messages: 1: In for (m in seq_len(M)) { : closing unused connection 6 (<-palomino3:11215) 2: In for (m in seq_len(M)) { : closing unused connection 5 (<-palomino3:11215) > > proc.time() user system elapsed 106.51 6.35 151.76
mixOmics.Rcheck/mixOmics-Ex.timings
name | user | system | elapsed | |
S3methods-print | 0.02 | 0.02 | 0.03 | |
auroc | 1.22 | 0.11 | 1.32 | |
background.predict | 9.81 | 1.67 | 11.49 | |
biplot | 12.29 | 0.14 | 12.44 | |
block.pls | 0.77 | 0.03 | 0.79 | |
block.plsda | 0.89 | 0.03 | 0.93 | |
block.spls | 6.00 | 0.11 | 6.10 | |
block.splsda | 7.44 | 0.16 | 7.80 | |
cim | 0.03 | 0.02 | 0.05 | |
cimDiablo | 0.27 | 0.00 | 0.26 | |
circosPlot | 6.48 | 0.05 | 6.56 | |
colors | 0.03 | 0.00 | 0.03 | |
explained_variance | 0.14 | 0.01 | 0.16 | |
get.confusion_matrix | 0.24 | 0.03 | 0.27 | |
image.tune.rcc | 2.46 | 0.11 | 2.57 | |
imgCor | 0.13 | 0.02 | 0.14 | |
impute.nipals | 0.03 | 0.00 | 0.04 | |
ipca | 0.77 | 0.05 | 0.81 | |
logratio-transformations | 0.06 | 0.01 | 0.08 | |
map | 0.01 | 0.00 | 0.01 | |
mat.rank | 0 | 0 | 0 | |
mint.block.pls | 0.11 | 0.03 | 0.14 | |
mint.block.plsda | 0.10 | 0.02 | 0.11 | |
mint.block.spls | 0.15 | 0.01 | 0.17 | |
mint.block.splsda | 0.10 | 0.02 | 0.11 | |
mint.pca | 0.34 | 0.00 | 0.35 | |
mint.pls | 0.69 | 0.02 | 0.70 | |
mint.plsda | 0.59 | 0.01 | 0.61 | |
mint.spls | 0.50 | 0.03 | 0.53 | |
mint.splsda | 0.67 | 0.00 | 0.67 | |
mixOmics | 0.40 | 0.07 | 0.46 | |
nearZeroVar | 0.95 | 0.06 | 1.01 | |
network | 0.01 | 0.01 | 0.03 | |
pca | 4.75 | 0.13 | 4.88 | |
perf | 2.50 | 0.19 | 2.69 | |
plot.rcc | 0.03 | 0.00 | 0.03 | |
plot.tune | 0 | 0 | 0 | |
plotArrow | 4.22 | 0.20 | 4.42 | |
plotDiablo | 0.17 | 0.04 | 0.20 | |
plotIndiv | 0.35 | 0.01 | 0.36 | |
plotLoadings | 0.09 | 0.05 | 0.14 | |
plotMarkers | 0 | 0 | 0 | |
plotVar | 0.61 | 0.01 | 0.63 | |
pls | 0.00 | 0.02 | 0.01 | |
plsda | 0.53 | 0.02 | 0.55 | |
predict | 0.23 | 0.00 | 0.23 | |
rcc | 0.02 | 0.00 | 0.02 | |
selectVar | 0.44 | 0.07 | 0.52 | |
sipca | 0.59 | 0.02 | 0.60 | |
spca | 3.14 | 0.25 | 3.40 | |
spls | 0.18 | 0.01 | 0.20 | |
splsda | 0.33 | 0.02 | 0.35 | |
study_split | 0.02 | 0.00 | 0.01 | |
summary | 0.03 | 0.00 | 0.03 | |
tune | 4.62 | 0.53 | 5.16 | |
tune.block.splsda | 0 | 0 | 0 | |
tune.mint.splsda | 2.79 | 0.25 | 3.03 | |
tune.pca | 0.14 | 0.03 | 0.17 | |
tune.rcc | 2.29 | 0.08 | 2.38 | |
tune.spca | 0.61 | 0.03 | 0.64 | |
tune.spls | 0 | 0 | 0 | |
tune.splsda | 4.00 | 0.38 | 4.37 | |
tune.splslevel | 1.00 | 0.06 | 1.07 | |
unmap | 0 | 0 | 0 | |
vip | 0.01 | 0.00 | 0.02 | |
withinVariation | 0.88 | 0.03 | 0.92 | |
wrapper.rgcca | 0.06 | 0.02 | 0.08 | |
wrapper.sgcca | 0.11 | 0.00 | 0.11 | |