Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:05:06 -0400 (Wed, 13 Apr 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
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 BiocPkgTools package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to [email protected]:packages/BiocPkgTools.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 166/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BiocPkgTools 1.12.2 (landing page) Sean Davis
| nebbiolo2 | Linux (Ubuntu 20.04.4 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: BiocPkgTools |
Version: 1.12.2 |
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:BiocPkgTools.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings BiocPkgTools_1.12.2.tar.gz |
StartedAt: 2022-04-12 06:33:30 -0400 (Tue, 12 Apr 2022) |
EndedAt: 2022-04-12 06:35:54 -0400 (Tue, 12 Apr 2022) |
EllapsedTime: 143.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: BiocPkgTools.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:BiocPkgTools.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings BiocPkgTools_1.12.2.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/BiocPkgTools.Rcheck’ * using R version 4.1.3 (2022-03-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘BiocPkgTools/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘BiocPkgTools’ version ‘1.12.2’ * 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 ‘BiocPkgTools’ 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 Unexported objects imported by ':::' calls: ‘BiocManager:::.repositories’ ‘BiocManager:::.repositories_bioc’ ‘BiocManager:::.version_bioc’ See the note in ?`:::` about the use of this operator. * 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 biocBuildReport 5.148 2.885 6.910 pkgCombDependencyGain 4.635 0.108 5.660 pkgDepMetrics 4.315 0.109 5.297 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... 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 ‘/home/biocbuild/bbs-3.14-bioc/meat/BiocPkgTools.Rcheck/00check.log’ for details.
BiocPkgTools.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL BiocPkgTools ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’ * installing *source* package ‘BiocPkgTools’ ... ** 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 (BiocPkgTools)
BiocPkgTools.Rcheck/tests/testthat.Rout
R version 4.1.3 (2022-03-10) -- "One Push-Up" Copyright (C) 2022 The R Foundation for Statistical Computing Platform: x86_64-pc-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. > library(testthat) > library(BiocPkgTools) Loading required package: htmlwidgets > > test_check("BiocPkgTools") trying URL 'https://bioconductor.org/checkResults/3.14/bioc-LATEST/report.tgz' Content type 'application/x-gzip' length 61279682 bytes (58.4 MB) ================================================== downloaded 58.4 MB trying URL 'https://bioconductor.org/packages/3.14/bioc/vignettes/a4/inst/doc/a4vignette.pdf' Content type 'application/pdf' length 1297193 bytes (1.2 MB) ================================================== downloaded 1.2 MB [ FAIL 0 | WARN 0 | SKIP 0 | PASS 27 ] > > proc.time() user system elapsed 24.619 3.683 35.405
BiocPkgTools.Rcheck/BiocPkgTools-Ex.timings
name | user | system | elapsed | |
anacondaDownloadStats | 0.782 | 0.020 | 1.361 | |
biocBuildReport | 5.148 | 2.885 | 6.910 | |
biocDownloadStats | 2.531 | 0.144 | 3.235 | |
biocMaintained | 1.133 | 0.016 | 1.424 | |
biocPkgList | 0.871 | 0.066 | 1.302 | |
biocPkgRanges | 0 | 0 | 0 | |
biocRevDepEmail | 2.074 | 0.036 | 2.545 | |
buildPkgDependencyDataFrame | 1.898 | 0.092 | 2.535 | |
buildPkgDependencyIgraph | 0.925 | 0.020 | 1.057 | |
class-dependencies | 4.796 | 0.204 | 4.999 | |
firstInBioc | 4.250 | 0.123 | 4.860 | |
generateBiocPkgDOI | 0 | 0 | 0 | |
getBiocVignette | 1.515 | 0.056 | 1.998 | |
get_bioc_data | 3.687 | 0.112 | 4.546 | |
githubDetails | 1.033 | 0.041 | 1.385 | |
githubURLParts | 0.833 | 0.049 | 1.253 | |
inducedSubgraphByPkgs | 0.915 | 0.008 | 1.243 | |
pkgCombDependencyGain | 4.635 | 0.108 | 5.660 | |
pkgDepImports | 0.176 | 0.000 | 0.176 | |
pkgDepMetrics | 4.315 | 0.109 | 5.297 | |
pkgDownloadStats | 0.038 | 0.000 | 0.182 | |
problemPage | 0 | 0 | 0 | |
subgraphByDegree | 0.953 | 0.016 | 1.274 | |