Caleb Lareau
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/diffloop |
| Branch: RELEASE_3_6 |
| Last Commit: bef6704 |
| Last Changed Date: 2017-10-30 12:41:16 -0400 (Mon, 30 Oct 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:14:59 -0400 (Thu, 12 Apr 2018).
| Package 367/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| diffloop 1.6.0 Caleb Lareau
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
| Package: diffloop |
| Version: 1.6.0 |
| Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings diffloop_1.6.0.tar.gz |
| StartedAt: 2018-04-11 22:57:02 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 23:00:35 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 212.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: diffloop.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings diffloop_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/diffloop.Rcheck’ * using R version 3.4.4 (2018-03-15) * using platform: x86_64-pc-linux-gnu (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 ‘1.6.0’ * 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 loading without being on the library search path ... 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 installed files from ‘inst/doc’ ... 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 ‘/home/biocbuild/bbs-3.6-bioc/meat/diffloop.Rcheck/00check.log’ for details.
diffloop.Rcheck/00install.out
* installing *source* package ‘diffloop’ ... ** R ** inst ** preparing 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 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 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(diffloop)
>
> test_check("diffloop")
══ testthat results ═══════════════════════════════════════════════════════════
OK: 4 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
9.036 0.132 9.167
diffloop.Rcheck/diffloop-Ex.timings
| name | user | system | elapsed | |
| addchr | 0.524 | 0.004 | 0.530 | |
| annotateAnchors | 0.364 | 0.000 | 0.364 | |
| annotateAnchors.bed | 0.084 | 0.000 | 0.083 | |
| annotateAnchors.bigwig | 0.044 | 0.000 | 0.043 | |
| annotateLoops | 1.748 | 0.008 | 1.757 | |
| annotateLoops.dge | 0.264 | 0.008 | 0.273 | |
| bedToGRanges | 0.072 | 0.000 | 0.071 | |
| calcLDSizeFactors | 0.004 | 0.000 | 0.002 | |
| callCCDs | 0.000 | 0.000 | 0.001 | |
| computeBoundaryScores | 0.000 | 0.000 | 0.001 | |
| featureTest | 0.000 | 0.000 | 0.001 | |
| filterLoops | 0.100 | 0.000 | 0.104 | |
| filterSpanningLoops | 0.012 | 0.000 | 0.014 | |
| getHumanGenes | 0.048 | 0.000 | 0.047 | |
| getHumanTSS | 0.144 | 0.004 | 0.145 | |
| getMouseGenes | 0.084 | 0.000 | 0.084 | |
| getMouseTSS | 0.160 | 0.004 | 0.163 | |
| interchromosomal | 0.020 | 0.000 | 0.018 | |
| intrachromosomal | 0.016 | 0.000 | 0.016 | |
| keepCTCFloops | 0.092 | 0.000 | 0.090 | |
| keepEPloops | 0.252 | 0.000 | 0.254 | |
| loopAssoc | 0.000 | 0.000 | 0.001 | |
| loopDistancePlot | 0.084 | 0.004 | 0.089 | |
| loopGenes | 0.084 | 0.000 | 0.084 | |
| loopMetrics | 0.000 | 0.000 | 0.003 | |
| loopPlot | 1.144 | 0.012 | 1.158 | |
| loopWidth | 0.012 | 0.000 | 0.015 | |
| loopsMake | 0.000 | 0.000 | 0.019 | |
| loopsMake.mango | 0.000 | 0.000 | 0.001 | |
| loopsSubset | 0.376 | 0.000 | 0.377 | |
| mangoCorrection | 0.104 | 0.000 | 0.105 | |
| manyLoopPlots | 0.26 | 0.00 | 0.26 | |
| mergeAnchors | 0.188 | 0.000 | 0.189 | |
| numAnchors | 0.008 | 0.000 | 0.008 | |
| numLoops | 0.000 | 0.000 | 0.003 | |
| padGRanges | 0.084 | 0.004 | 0.089 | |
| pcaPlot | 0.092 | 0.000 | 0.090 | |
| plotTopLoops | 1.800 | 0.000 | 1.801 | |
| quickAssoc | 0.036 | 0.000 | 0.036 | |
| quickAssocVoom | 0.224 | 0.000 | 0.225 | |
| removeRegion | 0.192 | 0.000 | 0.195 | |
| removeSelfLoops | 0.008 | 0.000 | 0.007 | |
| rmchr | 0.160 | 0.000 | 0.159 | |
| sampleNames-loops-method | 0.004 | 0.000 | 0.002 | |
| slidingWindowTest | 0.004 | 0.000 | 0.001 | |
| splitSamples | 0.076 | 0.000 | 0.075 | |
| subsetLoops | 0.020 | 0.000 | 0.021 | |
| subsetRegion | 0.360 | 0.000 | 0.359 | |
| subsetRegionAB | 0.248 | 0.000 | 0.245 | |
| summary-loops-method | 0.096 | 0.000 | 0.095 | |
| topLoops | 0.040 | 0.000 | 0.041 | |
| union-loops-loops-method | 0.112 | 0.000 | 0.109 | |
| updateLDGroups | 0.000 | 0.000 | 0.001 | |