Back to Multiple platform build/check report for BioC 3.15 |
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This page was generated on 2022-10-19 13:22:37 -0400 (Wed, 19 Oct 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" | 4138 |
merida1 | macOS 10.14.6 Mojave | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4205 |
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 |
To the developers/maintainers of the BioMM package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BioMM.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 189/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BioMM 1.12.0 (landing page) Junfang Chen
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: BioMM |
Version: 1.12.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:BioMM.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings BioMM_1.12.0.tar.gz |
StartedAt: 2022-10-18 23:51:27 -0400 (Tue, 18 Oct 2022) |
EndedAt: 2022-10-18 23:55:54 -0400 (Tue, 18 Oct 2022) |
EllapsedTime: 266.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: BioMM.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:BioMM.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings BioMM_1.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.15-bioc/meat/BioMM.Rcheck’ * using R version 4.2.1 (2022-06-23) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘BioMM/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘BioMM’ version ‘1.12.0’ * 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 ‘BioMM’ 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 ... NOTE Namespaces in Imports field not imported from: ‘imager’ ‘topGO’ ‘xlsx’ All declared Imports should be used. * 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed getDataByFilter 459.407 9.455 62.459 reconByUnsupervised 80.335 7.352 29.470 predByBS 25.245 7.817 3.524 reconBySupervised 19.448 1.425 20.907 predByFS 8.213 4.391 1.804 predByCV 6.818 2.986 1.414 getMetrics 4.015 2.612 1.252 classifiACC 3.492 1.844 0.901 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTest.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-3.15-bioc/meat/BioMM.Rcheck/00check.log’ for details.
BioMM.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL BioMM ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’ * installing *source* package ‘BioMM’ ... ** using staged installation ** R ** 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 (BioMM)
BioMM.Rcheck/tests/runTest.Rout
R version 4.2.1 (2022-06-23) -- "Funny-Looking Kid" Copyright (C) 2022 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin17.0 (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. > BiocGenerics:::testPackage("BioMM") RUNIT TEST PROTOCOL -- Tue Oct 18 23:55:44 2022 *********************************************** Number of test functions: 2 Number of errors: 0 Number of failures: 0 1 Test Suite : BioMM RUnit Tests - 2 test functions, 0 errors, 0 failures Number of test functions: 2 Number of errors: 0 Number of failures: 0 > > proc.time() user system elapsed 6.612 0.438 7.030
BioMM.Rcheck/BioMM-Ex.timings
name | user | system | elapsed | |
BioMM | 0.477 | 0.024 | 0.503 | |
baseGLMnet | 0.885 | 0.098 | 1.031 | |
baseModel | 0.903 | 0.034 | 0.919 | |
baseRandForest | 0.539 | 0.025 | 0.548 | |
baseSVM | 1.968 | 0.055 | 2.025 | |
classifiACC | 3.492 | 1.844 | 0.901 | |
getDataByFilter | 459.407 | 9.455 | 62.459 | |
getMetrics | 4.015 | 2.612 | 1.252 | |
omics2pathlist | 0.468 | 0.031 | 0.501 | |
predByBS | 25.245 | 7.817 | 3.524 | |
predByCV | 6.818 | 2.986 | 1.414 | |
predByFS | 8.213 | 4.391 | 1.804 | |
reconBySupervised | 19.448 | 1.425 | 20.907 | |
reconByUnsupervised | 80.335 | 7.352 | 29.470 | |