Back to Multiple platform build/check report for BioC 3.7 |
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This page was generated on 2018-10-17 08:59:45 -0400 (Wed, 17 Oct 2018).
Package 1080/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
perturbatr 1.0.0 Simon Dirmeier
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK |
Package: perturbatr |
Version: 1.0.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:perturbatr.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings perturbatr_1.0.0.tar.gz |
StartedAt: 2018-10-16 23:12:27 -0400 (Tue, 16 Oct 2018) |
EndedAt: 2018-10-16 23:19:34 -0400 (Tue, 16 Oct 2018) |
EllapsedTime: 426.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: perturbatr.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:perturbatr.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings perturbatr_1.0.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/perturbatr.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 ‘perturbatr/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘perturbatr’ version ‘1.0.0’ * 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 ‘perturbatr’ 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 or elapsed time > 5s user system elapsed bootstrap 94.741 14.497 109.979 HMAnalysedPerturbationData-class 5.640 0.287 5.965 inference-methods 5.304 0.254 5.614 diffuse-methods 5.290 0.267 5.578 rnaiscreen 5.282 0.252 5.550 NetworkAnalysedPerturbationData-class 5.215 0.233 5.502 hm-methods 5.168 0.261 5.475 modelFit-methods 5.001 0.250 5.278 geneEffects-methods 4.972 0.228 5.216 graph-methods 4.936 0.260 5.214 nestedGeneEffects-methods 4.894 0.197 5.108 isBootstrapped-methods 4.810 0.231 5.089 params-methods 4.760 0.226 5.004 * 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
perturbatr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL perturbatr ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’ * installing *source* package ‘perturbatr’ ... ** 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 * DONE (perturbatr)
perturbatr.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. > # perturbatr: analysis of high-throughput gene perturbation screens > # > # Copyright (C) 2018 Simon Dirmeier > # > # This file is part of perturbatr > # > # perturbatr is free software: you can redistribute it and/or modify > # it under the terms of the GNU General Public License as published by > # the Free Software Foundation, either version 3 of the License, or > # (at your option) any later version. > # > # perturbatr is distributed in the hope that it will be useful, > # but WITHOUT ANY WARRANTY; without even the implied warranty of > # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the > # GNU General Public License for more details. > # > # You should have received a copy of the GNU General Public License > # along with perturbatr If not, see <http://www.gnu.org/licenses/>. > > > library(testthat) > library(perturbatr) Attaching package: 'perturbatr' The following object is masked from 'package:stats': filter > > test_check("perturbatr") ══ testthat results ═══════════════════════════════════════════════════════════ OK: 41 SKIPPED: 0 FAILED: 0 > > proc.time() user system elapsed 144.700 8.945 154.661
perturbatr.Rcheck/perturbatr-Ex.timings
name | user | system | elapsed | |
HMAnalysedPerturbationData-class | 5.640 | 0.287 | 5.965 | |
NetworkAnalysedPerturbationData-class | 5.215 | 0.233 | 5.502 | |
PerturbationData-class | 0.016 | 0.001 | 0.017 | |
bootstrap | 94.741 | 14.497 | 109.979 | |
dataSet-methods | 0.975 | 0.072 | 1.057 | |
diffuse-methods | 5.290 | 0.267 | 5.578 | |
filter-methods | 0.532 | 0.051 | 0.586 | |
geneEffects-methods | 4.972 | 0.228 | 5.216 | |
graph-methods | 4.936 | 0.260 | 5.214 | |
hm-methods | 5.168 | 0.261 | 5.475 | |
inference-methods | 5.304 | 0.254 | 5.614 | |
isBootstrapped-methods | 4.810 | 0.231 | 5.089 | |
modelFit-methods | 5.001 | 0.250 | 5.278 | |
nestedGeneEffects-methods | 4.894 | 0.197 | 5.108 | |
params-methods | 4.760 | 0.226 | 5.004 | |
rbind.PerturbationData | 0.771 | 0.086 | 0.859 | |
rnaiscreen | 5.282 | 0.252 | 5.550 | |