Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:26:52 -0400 (Thu, 06 May 2021).
To the developers/maintainers of the annotatr package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 69/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
annotatr 1.16.0 (landing page) Raymond G. Cavalcante
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: annotatr |
Version: 1.16.0 |
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:annotatr.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings annotatr_1.16.0.tar.gz |
StartedAt: 2021-05-05 23:01:14 -0400 (Wed, 05 May 2021) |
EndedAt: 2021-05-05 23:08:20 -0400 (Wed, 05 May 2021) |
EllapsedTime: 426.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: annotatr.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:annotatr.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings annotatr_1.16.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/annotatr.Rcheck’ * using R version 4.0.5 (2021-03-31) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘annotatr/DESCRIPTION’ ... OK * this is package ‘annotatr’ version ‘1.16.0’ * 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 ‘annotatr’ 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 plot_coannotations: no visible binding for global variable ‘.’ plot_numerical_coannotations: no visible binding for global variable ‘.’ Undefined global functions or variables: . * 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 (user + system) or elapsed time > 5s user system elapsed build_ah_annots 7.492 0.16 8.925 build_annotations 6.064 0.08 6.214 * 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 ‘/home/biocbuild/bbs-3.12-bioc/meat/annotatr.Rcheck/00check.log’ for details.
annotatr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL annotatr ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’ * installing *source* package ‘annotatr’ ... ** 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 (annotatr)
annotatr.Rcheck/tests/testthat.Rout
R version 4.0.5 (2021-03-31) -- "Shake and Throw" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (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(annotatr) > > test_check("annotatr") [ FAIL 0 | WARN 3 | SKIP 0 | PASS 72 ] > > proc.time() user system elapsed 50.596 0.944 79.193
annotatr.Rcheck/annotatr-Ex.timings
name | user | system | elapsed | |
annotate_regions | 1.408 | 0.004 | 1.428 | |
annotatr_cache | 2.024 | 0.228 | 2.270 | |
build_ah_annots | 7.492 | 0.160 | 8.925 | |
build_annotations | 6.064 | 0.080 | 6.214 | |
builtin_annotations | 0.008 | 0.000 | 0.008 | |
builtin_genomes | 0 | 0 | 0 | |
plot_annotation | 3.892 | 0.060 | 4.169 | |
plot_categorical | 3.268 | 0.020 | 3.324 | |
plot_coannotations | 1.004 | 0.008 | 1.010 | |
plot_numerical | 0.584 | 0.000 | 0.584 | |
plot_numerical_coannotations | 0.632 | 0.000 | 0.635 | |
randomize_regions | 3.852 | 0.032 | 3.907 | |
read_annotations | 0.560 | 0.004 | 0.566 | |
read_regions | 0.564 | 0.000 | 0.565 | |
summarize_annotations | 4.016 | 0.016 | 4.037 | |
summarize_categorical | 0.568 | 0.004 | 0.574 | |
summarize_numerical | 0.744 | 0.000 | 0.747 | |