Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:47 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the proDA package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/proDA.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1437/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
proDA 1.6.0 (landing page) Constantin Ahlmann-Eltze
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: proDA |
Version: 1.6.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:proDA.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings proDA_1.6.0.tar.gz |
StartedAt: 2021-10-14 22:33:00 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 22:40:14 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 434.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: proDA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:proDA.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings proDA_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/proDA.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘proDA/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘proDA’ version ‘1.6.0’ * 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 ... NOTE Found the following hidden files and directories: .git_fetch_output.txt .git_merge_output.txt 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 ‘proDA’ 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed test_diff 6.271 0.025 6.300 pd_row_t_test 5.184 0.018 5.205 * 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 ‘/Users/biocbuild/bbs-3.13-bioc/meat/proDA.Rcheck/00check.log’ for details.
proDA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL proDA ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘proDA’ ... ** 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 (proDA)
proDA.Rcheck/tests/testthat.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin17.0 (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(proDA) > > test_check("proDA") ══ Skipped tests ═══════════════════════════════════════════════════════════════ • Very slow (1) [ FAIL 0 | WARN 0 | SKIP 1 | PASS 126 ] > > proc.time() user system elapsed 237.737 0.982 238.861
proDA.Rcheck/proDA-Ex.timings
name | user | system | elapsed | |
abundances | 2.045 | 0.109 | 2.158 | |
as_replicate | 0.001 | 0.000 | 0.000 | |
cash-proDAFit-method | 1.603 | 0.013 | 1.617 | |
coefficient_variance_matrices | 1.290 | 0.003 | 1.294 | |
coefficients | 1.199 | 0.002 | 1.202 | |
convergence | 0.967 | 0.002 | 0.969 | |
dist_approx | 2.621 | 0.013 | 2.639 | |
dist_approx_impl | 2.669 | 0.006 | 2.677 | |
feature_parameters | 1.100 | 0.003 | 1.105 | |
generate_synthetic_data | 0.045 | 0.001 | 0.047 | |
hyper_parameters | 1.237 | 0.005 | 1.243 | |
invprobit | 0.005 | 0.001 | 0.006 | |
median_normalization | 0.005 | 0.000 | 0.006 | |
mply_dbl | 0.009 | 0.002 | 0.011 | |
pd_lm | 0.018 | 0.002 | 0.019 | |
pd_row_t_test | 5.184 | 0.018 | 5.205 | |
proDA | 3.362 | 0.022 | 3.387 | |
reference_level | 1.266 | 0.001 | 1.267 | |
result_names | 1.356 | 0.002 | 1.358 | |
test_diff | 6.271 | 0.025 | 6.300 | |