Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 13:19:55 -0400 (Tue, 09 Apr 2019).
Package 448/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
DominoEffect 1.3.1 Marija Buljan
| 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 | ![]() | ||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: DominoEffect |
Version: 1.3.1 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:DominoEffect.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings DominoEffect_1.3.1.tar.gz |
StartedAt: 2019-04-09 01:30:10 -0400 (Tue, 09 Apr 2019) |
EndedAt: 2019-04-09 01:37:12 -0400 (Tue, 09 Apr 2019) |
EllapsedTime: 422.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: DominoEffect.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:DominoEffect.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings DominoEffect_1.3.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/DominoEffect.Rcheck’ * using R Under development (unstable) (2019-03-18 r76245) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘DominoEffect/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘DominoEffect’ version ‘1.3.1’ * package encoding: UTF-8 * 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 ‘DominoEffect’ 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 import_txdb: no visible binding for global variable ‘TXTYPE’ Undefined global functions or variables: TXTYPE * 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 or elapsed time > 5s user system elapsed DominoEffect 1.391 0.232 10.283 GPo_of_hotspots 1.461 0.154 8.214 map_to_func_elem 0.704 0.076 7.174 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘test-all.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-3.9-bioc/meat/DominoEffect.Rcheck/00check.log’ for details.
DominoEffect.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL DominoEffect ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘DominoEffect’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** 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 (DominoEffect)
DominoEffect.Rcheck/tests/test-all.Rout
R Under development (unstable) (2019-03-18 r76245) -- "Unsuffered Consequences" 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) > test_check("DominoEffect") Loading required package: DominoEffect trying URL 'http://www.uniprot.org/uniprot/P50148.fasta' Content type 'text/plain' length 483 bytes ================================================== downloaded 483 bytes trying URL 'http://www.uniprot.org/uniprot/P29992.fasta' Content type 'text/plain' length 483 bytes ================================================== downloaded 483 bytes trying URL 'http://www.uniprot.org/uniprot/O75533.fasta' Content type 'text/plain' length 1421 bytes ================================================== downloaded 1421 bytes trying URL 'http://www.uniprot.org/uniprot/Q9NR22.fasta' Content type 'text/plain' length 505 bytes ================================================== downloaded 505 bytes trying URL 'http://www.uniprot.org/uniprot/O96017.fasta' Content type 'text/plain' length 655 bytes ================================================== downloaded 655 bytes ================================================================================ trying URL 'http://www.uniprot.org/uniprot/P50148.fasta' Content type 'text/plain' length 483 bytes ================================================== downloaded 483 bytes trying URL 'http://www.uniprot.org/uniprot/P29992.fasta' Content type 'text/plain' length 483 bytes ================================================== downloaded 483 bytes trying URL 'http://www.uniprot.org/uniprot/Q9NR22.fasta' Content type 'text/plain' length 505 bytes ================================================== downloaded 505 bytes ================================================================================ trying URL 'http://www.uniprot.org/uniprot/P50148.fasta' Content type 'text/plain' length 483 bytes ================================================== downloaded 483 bytes trying URL 'http://www.uniprot.org/uniprot/P29992.fasta' Content type 'text/plain' length 483 bytes ================================================== downloaded 483 bytes ================================================================================ trying URL 'http://www.uniprot.org/uniprot/P50148.fasta' Content type 'text/plain' length 483 bytes ================================================== downloaded 483 bytes trying URL 'http://www.uniprot.org/uniprot/P29992.fasta' Content type 'text/plain' length 483 bytes ================================================== downloaded 483 bytes trying URL 'http://www.uniprot.org/uniprot/O75533.fasta' Content type 'text/plain' length 1421 bytes ================================================== downloaded 1421 bytes trying URL 'http://www.uniprot.org/uniprot/Q9NR22.fasta' Content type 'text/plain' length 505 bytes ================================================== downloaded 505 bytes trying URL 'http://www.uniprot.org/uniprot/O96017.fasta' Content type 'text/plain' length 655 bytes ================================================== downloaded 655 bytes ================================================================================ ══ testthat results ═══════════════════════════════════════════════════════════ OK: 15 SKIPPED: 0 FAILED: 0 > > proc.time() user system elapsed 22.502 1.846 51.561
DominoEffect.Rcheck/DominoEffect-Ex.timings
name | user | system | elapsed | |
DominoEffect | 1.391 | 0.232 | 10.283 | |
GPo_of_hotspots | 1.461 | 0.154 | 8.214 | |
align_to_unip | 0.337 | 0.010 | 0.349 | |
calculate_boundary | 0.001 | 0.000 | 0.002 | |
identify_hotspots | 0.298 | 0.012 | 0.310 | |
import_txdb | 0.001 | 0.001 | 0.000 | |
map_to_func_elem | 0.704 | 0.076 | 7.174 | |