Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-10-16 12:57:26 -0400 (Wed, 16 Oct 2019).
Package 97/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
bacon 1.12.0 Maarten van Iterson
| 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: bacon |
Version: 1.12.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:bacon.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings bacon_1.12.0.tar.gz |
StartedAt: 2019-10-16 00:41:38 -0400 (Wed, 16 Oct 2019) |
EndedAt: 2019-10-16 00:42:53 -0400 (Wed, 16 Oct 2019) |
EllapsedTime: 74.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: bacon.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:bacon.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings bacon_1.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/bacon.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 ‘bacon/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘bacon’ version ‘1.12.0’ * 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 ‘bacon’ 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 .hist: no visible binding for global variable ‘..density..’ .qq: no visible binding for global variable ‘column’ Undefined global functions or variables: ..density.. column * 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 line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed bacon 12.524 0.501 5.431 topTable-methods 7.457 0.359 2.820 se-methods 7.297 0.345 2.713 meta-methods 7.193 0.341 2.712 es-methods 7.065 0.358 2.777 * 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: 2 NOTEs See ‘/Users/biocbuild/bbs-3.9-bioc/meat/bacon.Rcheck/00check.log’ for details.
bacon.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL bacon ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘bacon’ ... ** using staged installation ** libs clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c Rinit.c -o Rinit.o Rinit.c:11:3: warning: suggest braces around initialization of subobject [-Wmissing-braces] NULL ^~~~ { } /usr/local/clang4/bin/../lib/clang/4.0.0/include/stddef.h:105:16: note: expanded from macro 'NULL' # define NULL ((void*)0) ^~~~~~~~~~ 1 warning generated. clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c bacon.c -o bacon.o clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o bacon.so Rinit.o bacon.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/3.6/Resources/library/00LOCK-bacon/00new/bacon/libs ** 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 ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bacon)
bacon.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(bacon) Loading required package: ggplot2 Loading required package: BiocParallel Loading required package: ellipse Attaching package: 'ellipse' The following object is masked from 'package:graphics': pairs > test_check("bacon") [1] 0.914158192 -0.009646065 0.997805988 ══ testthat results ═══════════════════════════════════════════════════════════ [ OK: 3 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ] > > proc.time() user system elapsed 2.640 0.320 2.911
bacon.Rcheck/bacon-Ex.timings
name | user | system | elapsed | |
bacon | 12.524 | 0.501 | 5.431 | |
bias-methods | 0.172 | 0.005 | 0.177 | |
dnormmix | 0.005 | 0.002 | 0.008 | |
es-methods | 7.065 | 0.358 | 2.777 | |
estimates-methods | 0.154 | 0.005 | 0.159 | |
fit-methods | 0.148 | 0.006 | 0.155 | |
inflation-methods | 0.150 | 0.004 | 0.154 | |
meta-methods | 7.193 | 0.341 | 2.712 | |
plotnormmix | 0.005 | 0.003 | 0.009 | |
posteriors-methods | 0.143 | 0.008 | 0.150 | |
pval-methods | 0.178 | 0.005 | 0.182 | |
rnormmix | 0.001 | 0.001 | 0.002 | |
se-methods | 7.297 | 0.345 | 2.713 | |
topTable-methods | 7.457 | 0.359 | 2.820 | |
traces-methods | 0.192 | 0.020 | 0.212 | |
tstat-methods | 0.176 | 0.005 | 0.181 | |