Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-10-16 12:51:57 -0400 (Wed, 16 Oct 2019).
Package 258/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
chipenrich 2.8.0 Raymond G. Cavalcante
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK |
Package: chipenrich |
Version: 2.8.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:chipenrich.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings chipenrich_2.8.0.tar.gz |
StartedAt: 2019-10-16 01:21:58 -0400 (Wed, 16 Oct 2019) |
EndedAt: 2019-10-16 01:32:39 -0400 (Wed, 16 Oct 2019) |
EllapsedTime: 640.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: chipenrich.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:chipenrich.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings chipenrich_2.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/chipenrich.Rcheck’ * using R version 3.6.1 (2019-07-05) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘chipenrich/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘chipenrich’ version ‘2.8.0’ * 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 ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘chipenrich’ 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 installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed broadenrich 9.728 1.633 11.365 polyenrich 9.039 1.453 10.494 * 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: OK
chipenrich.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL chipenrich ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘chipenrich’ ... ** 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 (chipenrich)
chipenrich.Rcheck/tests/testthat.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes" Copyright (C) 2019 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(chipenrich) > > test_check("chipenrich") ══ testthat results ═══════════════════════════════════════════════════════════ [ OK: 194 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ] > > proc.time() user system elapsed 221.916 29.246 253.424
chipenrich.Rcheck/chipenrich-Ex.timings
name | user | system | elapsed | |
assign_peak_segments | 1.334 | 0.020 | 1.360 | |
assign_peaks | 0.861 | 0.043 | 0.906 | |
broadenrich | 9.728 | 1.633 | 11.365 | |
calc_peak_gene_overlap | 0.479 | 0.033 | 0.513 | |
chipenrich | 2.070 | 0.358 | 2.430 | |
load_peaks | 0.063 | 0.001 | 0.063 | |
num_peaks_per_gene | 0.727 | 0.055 | 0.782 | |
peaks2genes | 0.590 | 0.048 | 0.638 | |
plot_chipenrich_spline | 2.093 | 0.379 | 2.474 | |
plot_dist_to_tss | 0.498 | 0.028 | 0.526 | |
plot_gene_coverage | 2.044 | 0.139 | 2.183 | |
plot_polyenrich_spline | 2.731 | 0.756 | 3.489 | |
polyenrich | 9.039 | 1.453 | 10.494 | |
read_bed | 0.361 | 0.006 | 0.368 | |
supported_genesets | 0.011 | 0.002 | 0.014 | |
supported_genomes | 0.003 | 0.001 | 0.004 | |
supported_locusdefs | 0.015 | 0.004 | 0.019 | |
supported_methods | 0.002 | 0.000 | 0.002 | |
supported_read_lengths | 0.011 | 0.003 | 0.014 | |