Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:06:49 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the recountmethylation package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/recountmethylation.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 1543/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
recountmethylation 1.2.3 (landing page) Sean K Maden
| 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: recountmethylation |
Version: 1.2.3 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:recountmethylation.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings recountmethylation_1.2.3.tar.gz |
StartedAt: 2021-10-14 22:58:42 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 23:00:35 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 112.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: recountmethylation.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:recountmethylation.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings recountmethylation_1.2.3.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/recountmethylation.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 ‘recountmethylation/DESCRIPTION’ ... OK * this is package ‘recountmethylation’ version ‘1.2.3’ * 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 ‘recountmethylation’ 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 gds_idat2rg 22.298 1.256 36.557 gds_idatquery 1.556 0.477 10.261 get_rmdl 0.295 0.027 7.643 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘test-servermatrix.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/recountmethylation.Rcheck/00check.log’ for details.
recountmethylation.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL recountmethylation ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘recountmethylation’ ... ** 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 (recountmethylation)
recountmethylation.Rcheck/tests/test-servermatrix.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. > testthat::context("Test the server matrix properties") > > testthat::test_that("Properties of server matrix returned from get_rmdl + and servermatrix", { + sm <- recountmethylation::get_servermatrix() + testthat::expect_true(is(sm, "matrix")) + testthat::expect_equal(ncol(sm), 4) + testthat::expect_true(is(sm[,1], "character")) + }) Test passed 🥳 > > proc.time() user system elapsed 1.844 0.151 9.474
recountmethylation.Rcheck/recountmethylation-Ex.timings
name | user | system | elapsed | |
data_mdpost | 0.064 | 0.007 | 0.072 | |
gds_idat2rg | 22.298 | 1.256 | 36.557 | |
gds_idatquery | 1.556 | 0.477 | 10.261 | |
get_rmdl | 0.295 | 0.027 | 7.643 | |
get_servermatrix | 0.005 | 0.001 | 0.006 | |
getdb | 0 | 0 | 0 | |
getrg | 0.144 | 0.014 | 0.158 | |
hread | 0.007 | 0.000 | 0.008 | |
matchds_1to2 | 0.001 | 0.000 | 0.001 | |
rgse | 0.093 | 0.015 | 0.107 | |
servermatrix | 0.017 | 0.002 | 0.528 | |
smfilt | 0.002 | 0.000 | 0.003 | |