Back to Build/check report for BioC 3.17 |
|
This page was generated on 2023-02-08 01:14:53 -0000 (Wed, 08 Feb 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4164 |
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 191/2164 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BioMM 1.15.0 (landing page) Junfang Chen
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
Package: BioMM |
Version: 1.15.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:BioMM.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings BioMM_1.15.0.tar.gz |
StartedAt: 2023-02-06 19:04:26 -0000 (Mon, 06 Feb 2023) |
EndedAt: 2023-02-06 19:10:04 -0000 (Mon, 06 Feb 2023) |
EllapsedTime: 337.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: BioMM.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:BioMM.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings BioMM_1.15.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/BioMM.Rcheck’ * using R Under development (unstable) (2023-01-14 r83615) * using platform: aarch64-unknown-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 * running under: Ubuntu 22.04.1 LTS * using session charset: UTF-8 * checking for file ‘BioMM/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘BioMM’ version ‘1.15.0’ * 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 54.273 1.139 19.271 reconByUnsupervised 28.292 0.896 21.572 reconBySupervised 18.094 0.149 18.246 predByBS 9.008 0.953 5.902 predByCV 5.460 0.994 2.239 * 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 ... ‘BioMMtutorial.Rmd’ using ‘UTF-8’... OK NONE * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.17-bioc/meat/BioMM.Rcheck/00check.log’ for details.
BioMM.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL BioMM ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/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 Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu (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 -- Mon Feb 6 19:07:04 2023 *********************************************** 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 4.325 0.155 4.482
BioMM.Rcheck/BioMM-Ex.timings
name | user | system | elapsed | |
BioMM | 0.870 | 0.008 | 0.882 | |
baseGLMnet | 0.656 | 0.020 | 0.677 | |
baseModel | 0.368 | 0.012 | 0.384 | |
baseRandForest | 0.366 | 0.016 | 0.387 | |
baseSVM | 1.425 | 0.020 | 1.446 | |
classifiACC | 1.550 | 0.532 | 1.621 | |
getDataByFilter | 54.273 | 1.139 | 19.271 | |
getMetrics | 2.139 | 0.766 | 1.935 | |
omics2pathlist | 0.298 | 0.024 | 0.323 | |
predByBS | 9.008 | 0.953 | 5.902 | |
predByCV | 5.460 | 0.994 | 2.239 | |
predByFS | 1.457 | 0.551 | 0.693 | |
reconBySupervised | 18.094 | 0.149 | 18.246 | |
reconByUnsupervised | 28.292 | 0.896 | 21.572 | |