Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:44 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the NBSplice package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/NBSplice.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 1250/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
NBSplice 1.10.0 (landing page) Gabriela Merino
| nebbiolo1 | Linux (Ubuntu 20.04.2 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: NBSplice |
Version: 1.10.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:NBSplice.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings NBSplice_1.10.0.tar.gz |
StartedAt: 2021-10-14 21:41:15 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 21:43:50 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 154.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: NBSplice.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:NBSplice.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings NBSplice_1.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/NBSplice.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘NBSplice/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘NBSplice’ version ‘1.10.0’ * 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 ... NOTE Found the following hidden files and directories: .git_fetch_output.txt .git_merge_output.txt These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘NBSplice’ 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 ... 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 IsoDataSet-class 36.501 4.118 10.609 IsoDataSet-core 33.400 3.232 9.729 IsoDataSet-NBTest 32.813 2.462 9.724 IsoDataSet-buildLowExpIdx 19.693 0.952 5.372 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.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-3.13-bioc/meat/NBSplice.Rcheck/00check.log’ for details.
NBSplice.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL NBSplice ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘NBSplice’ ... ** 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 (NBSplice)
NBSplice.Rcheck/tests/runTests.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 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("NBSplice") Loading required package: BiocParallel Loading required package: ggplot2 RUNIT TEST PROTOCOL -- Thu Oct 14 21:43:42 2021 *********************************************** Number of test functions: 20 Number of errors: 0 Number of failures: 0 1 Test Suite : NBSplice RUnit Tests - 20 test functions, 0 errors, 0 failures Number of test functions: 20 Number of errors: 0 Number of failures: 0 > > > proc.time() user system elapsed 39.807 0.343 40.165
NBSplice.Rcheck/NBSplice-Ex.timings
name | user | system | elapsed | |
IsoDataSet-NBTest | 32.813 | 2.462 | 9.724 | |
IsoDataSet-buildLowExpIdx | 19.693 | 0.952 | 5.372 | |
IsoDataSet-class | 36.501 | 4.118 | 10.609 | |
IsoDataSet-constructor | 3.276 | 1.008 | 1.203 | |
IsoDataSet-core | 33.400 | 3.232 | 9.729 | |
IsoDataSet-getters | 0.407 | 0.024 | 0.431 | |
IsoDataSet-initialize | 3.166 | 1.003 | 1.168 | |
IsoDataSet-print | 0.213 | 0.035 | 0.247 | |
IsoDataSet-show | 0.196 | 0.020 | 0.217 | |
NBSpliceRes-GetDSGenes | 0.016 | 0.001 | 0.017 | |
NBSpliceRes-GetDSResults | 0.016 | 0.001 | 0.017 | |
NBSpliceRes-GetGeneResults | 0.019 | 0.001 | 0.019 | |
NBSpliceRes-class | 0.025 | 0.002 | 0.027 | |
NBSpliceRes-constructor | 0.015 | 0.001 | 0.016 | |
NBSpliceRes-getters | 0.017 | 0.002 | 0.019 | |
NBSpliceRes-initialize | 0.018 | 0.001 | 0.019 | |
NBSpliceRes-plotGeneResults | 0.052 | 0.008 | 0.087 | |
NBSpliceRes-plotRatiosDisp | 0.037 | 0.003 | 0.039 | |
NBSpliceRes-plotVolcano | 0.026 | 0.001 | 0.027 | |
NBSpliceRes-print | 0.023 | 0.002 | 0.026 | |
NBSpliceRes-show | 0.028 | 0.002 | 0.030 | |
totalGeneCounts | 2.661 | 0.811 | 1.241 | |