Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-09-10 17:33 -0400 (Tue, 10 Sep 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4758 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4495 |
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 1112/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
limpca 1.0.0 (landing page) Manon Martin
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
To the developers/maintainers of the limpca package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/limpca.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: limpca |
Version: 1.0.0 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:limpca.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings limpca_1.0.0.tar.gz |
StartedAt: 2024-09-09 00:26:54 -0400 (Mon, 09 Sep 2024) |
EndedAt: 2024-09-09 00:32:08 -0400 (Mon, 09 Sep 2024) |
EllapsedTime: 313.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: limpca.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:limpca.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings limpca_1.0.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/limpca.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 * running under: Ubuntu 22.04.4 LTS * using session charset: UTF-8 * checking for file ‘limpca/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘limpca’ version ‘1.0.0’ * 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 ‘limpca’ 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 loading without being on the library search path ... 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 (user + system) or elapsed time > 5s user system elapsed lmpBootstrapTests 13.403 2.512 11.333 * 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 re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: OK
limpca.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL limpca ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’ * installing *source* package ‘limpca’ ... ** 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 (limpca)
limpca.Rcheck/tests/testthat.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu 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. > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(limpca) > > test_check("limpca") | dim outcomes: 10x3 | formula: ~ factA + factB | design variables (2): * factA (factor) * factB (factor) | dim outcomes: 10x3 | formula: ~ factA + factB | design variables (2): * factA (factor) * factB (factor) | dim outcomes: 10x3 | formula: ~ factA + factB | design variables (2): * factA (factor) * factB (factor) | dim outcomes: 10x3 | formula: ~ factA + factB | design variables (2): * factA (factor) * factB (factor) | dim outcomes: 10x3 | formula: | design variables (2): * factA (factor) * factB (factor) [ FAIL 0 | WARN 0 | SKIP 0 | PASS 47 ] > > proc.time() user system elapsed 7.625 0.587 8.037
limpca.Rcheck/limpca-Ex.timings
name | user | system | elapsed | |
UCH | 0.015 | 0.000 | 0.015 | |
data2lmpDataList | 0.257 | 0.001 | 0.257 | |
lmpBootstrapTests | 13.403 | 2.512 | 11.333 | |
lmpContributions | 2.392 | 0.855 | 1.317 | |
lmpEffectMatrices | 0.773 | 0.036 | 0.810 | |
lmpEffectPlot | 1.399 | 0.049 | 1.447 | |
lmpLoading1dPlot | 3.308 | 0.148 | 3.456 | |
lmpLoading2dPlot | 2.473 | 0.056 | 2.529 | |
lmpModelMatrix | 0.002 | 0.004 | 0.006 | |
lmpPcaEffects | 0.778 | 0.028 | 0.806 | |
lmpScorePlot | 1.138 | 0.020 | 1.158 | |
lmpScoreScatterPlotM | 0.988 | 0.016 | 1.004 | |
lmpScreePlot | 0.949 | 0.028 | 0.977 | |
pcaBySvd | 0.02 | 0.00 | 0.02 | |
pcaLoading1dPlot | 0.201 | 0.004 | 0.205 | |
pcaLoading2dPlot | 1.724 | 0.000 | 1.724 | |
pcaScorePlot | 0.364 | 0.004 | 0.368 | |
pcaScreePlot | 0.143 | 0.000 | 0.143 | |
plotDesign | 3.151 | 0.059 | 3.212 | |
plotLine | 3.428 | 0.228 | 3.656 | |
plotMeans | 1.070 | 0.012 | 1.082 | |
plotScatter | 2.166 | 0.040 | 2.206 | |
plotScatterM | 0.063 | 0.004 | 0.067 | |
trout | 0.001 | 0.001 | 0.001 | |