Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:12 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the mixOmics package: - Please 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 How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1161/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
mixOmics 6.16.3 (landing page) Al J Abadi
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: mixOmics |
Version: 6.16.3 |
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:mixOmics.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings mixOmics_6.16.3.tar.gz |
StartedAt: 2021-10-15 02:06:43 -0400 (Fri, 15 Oct 2021) |
EndedAt: 2021-10-15 02:14:08 -0400 (Fri, 15 Oct 2021) |
EllapsedTime: 445.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: mixOmics.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:mixOmics.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings mixOmics_6.16.3.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/mixOmics.Rcheck' * using R version 4.1.1 (2021-08-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'mixOmics/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'mixOmics' version '6.16.3' * 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 6.5Mb sub-directories of 1Mb or more: R 1.3Mb data 3.3Mb * checking package directory ... OK * checking 'build' directory ... OK * checking DESCRIPTION meta-information ...It is recommended to use 'given' instead of 'middle'. 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 ... ** running examples for arch 'i386' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed biplot 14.78 0.01 14.80 background.predict 7.74 0.36 8.09 tune 5.37 0.07 5.44 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed biplot 11.95 0.01 11.97 background.predict 7.72 0.05 7.76 * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'testthat.R' OK ** running tests for arch 'x64' ... 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 'C:/Users/biocbuild/bbs-3.13-bioc/meat/mixOmics.Rcheck/00check.log' for details.
mixOmics.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/mixOmics_6.16.3.tar.gz && rm -rf mixOmics.buildbin-libdir && mkdir mixOmics.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=mixOmics.buildbin-libdir mixOmics_6.16.3.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL mixOmics_6.16.3.zip && rm mixOmics_6.16.3.tar.gz mixOmics_6.16.3.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 46 4339k 46 2038k 0 0 3031k 0 0:00:01 --:--:-- 0:00:01 3033k 100 4339k 100 4339k 0 0 3870k 0 0:00:01 0:00:01 --:--:-- 3874k install for i386 * installing *source* package 'mixOmics' ... ** using staged installation It is recommended to use 'given' instead of 'middle'. It is recommended to use 'given' instead of 'middle'. ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'mixOmics' finding HTML links ... done Koren.16S html S3methods-print html auroc html background.predict html biplot html block.pls html block.plsda html block.spls html block.splsda html breast.TCGA html breast.tumors html cim html cimDiablo html circosPlot html colors html diverse.16S html explained_variance html get.confusion_matrix html image.tune.rcc html imgCor html impute.nipals html ipca html linnerud html liver.toxicity html logratio-transformations html map html mat.rank html mint.block.pls html mint.block.plsda html mint.block.spls html mint.block.splsda html mint.pca html mint.pls html mint.plsda html mint.spls html mint.splsda html mixOmics-package html mixOmics html multidrug html nearZeroVar html network html nipals html nutrimouse html pca html perf html plot.pca html plot.perf html plot.perf.pls html plot.rcc html plot.tune html plotArrow html plotDiablo html plotIndiv html plotLoadings html plotVar html pls html plsda html predict html rcc html finding level-2 HTML links ... done selectVar html sipca html spca html spls html splsda html srbct html stemcells html study_split html summary html tune html tune.block.splsda html tune.mint.splsda html tune.pca html tune.rcc html tune.spca html tune.spls html tune.splsda html tune.splslevel html unmap html vac18 html vac18.simulated html vip html withinVariation html wrapper.rgcca html wrapper.sgcca html yeast html zz-defunct html ** 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 install for x64 * installing *source* package 'mixOmics' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'mixOmics' as mixOmics_6.16.3.zip * DONE (mixOmics) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'mixOmics' successfully unpacked and MD5 sums checked
mixOmics.Rcheck/tests_i386/testthat.Rout R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: i386-w64-mingw32/i386 (32-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 6.16.3 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 with nrepeat = 3... | | | 0% | |======================= | 33% | |=============================================== | 67% | |======================================================================| 100% Performing repeated cross-validation with nrepeat = 3... | | | 0%[ FAIL 0 | WARN 2 | SKIP 0 | PASS 136 ] > > proc.time() user system elapsed 38.06 1.23 64.93 |
mixOmics.Rcheck/tests_x64/testthat.Rout R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 (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 6.16.3 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 with nrepeat = 3... | | | 0% | |======================= | 33% | |=============================================== | 67% | |======================================================================| 100% Performing repeated cross-validation with nrepeat = 3... | | | 0%[ FAIL 0 | WARN 2 | SKIP 0 | PASS 136 ] > > proc.time() user system elapsed 40.21 1.04 68.26 |
mixOmics.Rcheck/examples_i386/mixOmics-Ex.timings
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mixOmics.Rcheck/examples_x64/mixOmics-Ex.timings
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