Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:05:35 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the BBCAnalyzer package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BBCAnalyzer.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 131/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
BBCAnalyzer 1.22.0 (landing page) Sarah Sandmann
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: BBCAnalyzer |
Version: 1.22.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:BBCAnalyzer.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings BBCAnalyzer_1.22.0.tar.gz |
StartedAt: 2021-10-14 08:57:31 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 09:01:47 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 256.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: BBCAnalyzer.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:BBCAnalyzer.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings BBCAnalyzer_1.22.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/BBCAnalyzer.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘BBCAnalyzer/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘BBCAnalyzer’ version ‘1.22.0’ * 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 ‘BBCAnalyzer’ 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 ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE analyzeBases: no visible global function definition for ‘read.table’ analyzeBasesPlotOnly: no visible global function definition for ‘read.table’ analyzeReads: no visible global function definition for ‘path’ analyzeReads: no visible global function definition for ‘write.table’ checkBamInput: no visible global function definition for ‘path’ checkVcfInput: no visible global function definition for ‘path’ frequencyAnalysis: no visible global function definition for ‘write.table’ frequencyAnalysisVcf: no visible global function definition for ‘read.table’ frequencyAnalysisVcf: no visible global function definition for ‘path’ frequencyAnalysisVcf: no visible global function definition for ‘write.table’ plotCountsPerSampleRelativeVcf_plot: no visible global function definition for ‘par’ plotCountsPerSampleRelativeVcf_plot: no visible global function definition for ‘barplot’ plotCountsPerSampleRelativeVcf_plot: no visible global function definition for ‘rect’ plotCountsPerSampleRelativeVcf_plot: no visible global function definition for ‘lines’ plotCountsPerSampleRelativeVcf_plot: no visible global function definition for ‘text’ plotCountsPerSampleRelative_plot: no visible global function definition for ‘par’ plotCountsPerSampleRelative_plot: no visible global function definition for ‘barplot’ plotCountsPerSampleRelative_plot: no visible global function definition for ‘rect’ plotCountsPerSampleRelative_plot: no visible global function definition for ‘lines’ plotCountsPerSampleRelative_plot: no visible global function definition for ‘text’ plotCountsPerSampleVcf_plot: no visible global function definition for ‘par’ plotCountsPerSampleVcf_plot: no visible global function definition for ‘barplot’ plotCountsPerSampleVcf_plot: no visible global function definition for ‘rect’ plotCountsPerSampleVcf_plot: no visible global function definition for ‘lines’ plotCountsPerSampleVcf_plot: no visible global function definition for ‘text’ plotCountsPerSample_plot: no visible global function definition for ‘par’ plotCountsPerSample_plot: no visible global function definition for ‘barplot’ plotCountsPerSample_plot: no visible global function definition for ‘rect’ plotCountsPerSample_plot: no visible global function definition for ‘lines’ plotCountsPerSample_plot: no visible global function definition for ‘text’ plotCountsPerTargetRelativeVcf_plot: no visible global function definition for ‘par’ plotCountsPerTargetRelativeVcf_plot: no visible global function definition for ‘barplot’ plotCountsPerTargetRelativeVcf_plot: no visible global function definition for ‘rect’ plotCountsPerTargetRelativeVcf_plot: no visible global function definition for ‘lines’ plotCountsPerTargetRelativeVcf_plot: no visible global function definition for ‘text’ plotCountsPerTargetRelative_plot: no visible global function definition for ‘par’ plotCountsPerTargetRelative_plot: no visible global function definition for ‘barplot’ plotCountsPerTargetRelative_plot: no visible global function definition for ‘rect’ plotCountsPerTargetRelative_plot: no visible global function definition for ‘lines’ plotCountsPerTargetRelative_plot: no visible global function definition for ‘text’ plotCountsPerTargetVcf_plot: no visible global function definition for ‘par’ plotCountsPerTargetVcf_plot: no visible global function definition for ‘barplot’ plotCountsPerTargetVcf_plot: no visible global function definition for ‘rect’ plotCountsPerTargetVcf_plot: no visible global function definition for ‘lines’ plotCountsPerTargetVcf_plot: no visible global function definition for ‘text’ plotCountsPerTarget_plot: no visible global function definition for ‘par’ plotCountsPerTarget_plot: no visible global function definition for ‘barplot’ plotCountsPerTarget_plot: no visible global function definition for ‘rect’ plotCountsPerTarget_plot: no visible global function definition for ‘lines’ plotCountsPerTarget_plot: no visible global function definition for ‘text’ processVcfFile: no visible global function definition for ‘read.table’ reportVariants: no visible global function definition for ‘write.table’ reportVariantsVcf: no visible global function definition for ‘write.table’ Undefined global functions or variables: barplot lines par path read.table rect text write.table Consider adding importFrom("graphics", "barplot", "lines", "par", "rect", "text") importFrom("utils", "read.table", "write.table") to your NAMESPACE file. * 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 analyzeBasesPlotOnly 19.466 0.527 20.006 * 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-3.13-bioc/meat/BBCAnalyzer.Rcheck/00check.log’ for details.
BBCAnalyzer.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL BBCAnalyzer ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘BBCAnalyzer’ ... ** 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 (BBCAnalyzer)
BBCAnalyzer.Rcheck/BBCAnalyzer-Ex.timings
name | user | system | elapsed | |
BBCAnalyzer-package | 0.320 | 0.024 | 0.345 | |
analyzeBases | 0.150 | 0.004 | 0.155 | |
analyzeBasesPlotOnly | 19.466 | 0.527 | 20.006 | |