Back to Multiple platform build/check report for BioC 3.7 |
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This page was generated on 2018-10-17 08:56:32 -0400 (Wed, 17 Oct 2018).
Package 388/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
diffloop 1.8.0 Caleb Lareau
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK |
Package: diffloop |
Version: 1.8.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:diffloop.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings diffloop_1.8.0.tar.gz |
StartedAt: 2018-10-16 20:57:53 -0400 (Tue, 16 Oct 2018) |
EndedAt: 2018-10-16 21:02:19 -0400 (Tue, 16 Oct 2018) |
EllapsedTime: 266.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: diffloop.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:diffloop.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings diffloop_1.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/diffloop.Rcheck’ * using R version 3.5.1 Patched (2018-07-12 r74967) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘diffloop/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘diffloop’ version ‘1.8.0’ * 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: .travis.yml 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 ‘diffloop’ 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 files in ‘vignettes’ ... OK * checking examples ... OK * 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 ‘/Users/biocbuild/bbs-3.7-bioc/meat/diffloop.Rcheck/00check.log’ for details.
diffloop.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL diffloop ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’ * installing *source* package ‘diffloop’ ... ** 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 * DONE (diffloop)
diffloop.Rcheck/tests/testthat.Rout
R version 3.5.1 Patched (2018-07-12 r74967) -- "Feather Spray" Copyright (C) 2018 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin15.6.0 (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. > library(testthat) > library(diffloop) > > test_check("diffloop") ══ testthat results ═══════════════════════════════════════════════════════════ OK: 4 SKIPPED: 0 FAILED: 0 > > proc.time() user system elapsed 13.257 0.589 13.955
diffloop.Rcheck/diffloop-Ex.timings
name | user | system | elapsed | |
addchr | 0.257 | 0.022 | 0.284 | |
annotateAnchors | 0.208 | 0.028 | 0.239 | |
annotateAnchors.bed | 0.080 | 0.010 | 0.091 | |
annotateAnchors.bigwig | 0.082 | 0.012 | 0.094 | |
annotateLoops | 0.626 | 0.029 | 0.661 | |
annotateLoops.dge | 0.424 | 0.011 | 0.442 | |
bedToGRanges | 0.104 | 0.004 | 0.110 | |
calcLDSizeFactors | 0.004 | 0.000 | 0.004 | |
callCCDs | 0.003 | 0.000 | 0.003 | |
computeBoundaryScores | 0.003 | 0.001 | 0.004 | |
featureTest | 0.004 | 0.000 | 0.004 | |
filterLoops | 0.065 | 0.001 | 0.067 | |
filterSpanningLoops | 0.018 | 0.001 | 0.019 | |
getHumanGenes | 0.093 | 0.001 | 0.095 | |
getHumanTSS | 0.168 | 0.007 | 0.176 | |
getMouseGenes | 0.216 | 0.005 | 0.223 | |
getMouseTSS | 0.166 | 0.004 | 0.172 | |
interchromosomal | 0.024 | 0.001 | 0.025 | |
intrachromosomal | 0.023 | 0.001 | 0.023 | |
keepCTCFloops | 0.194 | 0.004 | 0.199 | |
keepEPloops | 0.359 | 0.007 | 0.376 | |
loopAssoc | 0.004 | 0.001 | 0.004 | |
loopDistancePlot | 0.024 | 0.001 | 0.024 | |
loopGenes | 0.130 | 0.001 | 0.132 | |
loopMetrics | 0.005 | 0.001 | 0.006 | |
loopPlot | 1.080 | 0.038 | 1.136 | |
loopWidth | 0.017 | 0.000 | 0.018 | |
loopsMake | 0.002 | 0.000 | 0.003 | |
loopsMake.mango | 0.002 | 0.000 | 0.002 | |
loopsSubset | 0.257 | 0.001 | 0.264 | |
mangoCorrection | 0.109 | 0.001 | 0.110 | |
manyLoopPlots | 0.096 | 0.003 | 0.098 | |
mergeAnchors | 0.182 | 0.002 | 0.186 | |
numAnchors | 0.029 | 0.002 | 0.032 | |
numLoops | 0.006 | 0.000 | 0.006 | |
padGRanges | 0.216 | 0.005 | 0.225 | |
pcaPlot | 0.023 | 0.000 | 0.023 | |
plotTopLoops | 1.207 | 0.045 | 1.265 | |
quickAssoc | 0.060 | 0.005 | 0.067 | |
quickAssocVoom | 0.055 | 0.003 | 0.060 | |
removeRegion | 0.235 | 0.021 | 0.257 | |
removeSelfLoops | 0.013 | 0.002 | 0.014 | |
rmchr | 0.218 | 0.011 | 0.234 | |
sampleNames-loops-method | 0.005 | 0.001 | 0.006 | |
slidingWindowTest | 0.003 | 0.000 | 0.004 | |
splitSamples | 0.109 | 0.001 | 0.109 | |
subsetLoops | 0.025 | 0.001 | 0.026 | |
subsetRegion | 0.624 | 0.007 | 0.636 | |
subsetRegionAB | 0.344 | 0.006 | 0.358 | |
summary-loops-method | 0.097 | 0.001 | 0.098 | |
topLoops | 0.073 | 0.001 | 0.074 | |
union-loops-loops-method | 0.191 | 0.004 | 0.198 | |
updateLDGroups | 0.003 | 0.000 | 0.003 | |