Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-03-18 11:36:10 -0400 (Mon, 18 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-06 r86056) -- "Unsuffered Consequences" | 4685 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-06 r86056 ucrt) -- "Unsuffered Consequences" | 4423 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-04 r86048) -- "Unsuffered Consequences" | 4450 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-06 r86056) -- "Unsuffered Consequences" | 4361 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 76/2257 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
annotatr 1.29.0 (landing page) Raymond G. Cavalcante
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the annotatr package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/annotatr.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: annotatr |
Version: 1.29.0 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:annotatr.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings annotatr_1.29.0.tar.gz |
StartedAt: 2024-03-17 20:08:51 -0400 (Sun, 17 Mar 2024) |
EndedAt: 2024-03-17 20:15:43 -0400 (Sun, 17 Mar 2024) |
EllapsedTime: 412.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: annotatr.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:annotatr.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings annotatr_1.29.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/annotatr.Rcheck’ * using R Under development (unstable) (2024-03-06 r86056) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 * running under: Ubuntu 22.04.4 LTS * using session charset: UTF-8 * checking for file ‘annotatr/DESCRIPTION’ ... OK * this is package ‘annotatr’ version ‘1.29.0’ * 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 loading without being on the library search path ... 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 LazyData ... 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_annotations 4.718 0.336 5.054 build_ah_annots 3.788 0.591 5.615 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.19-bioc/meat/annotatr.Rcheck/00check.log’ for details.
annotatr.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL annotatr ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-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 Under development (unstable) (2024-03-06 r86056) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu 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 241 | SKIP 0 | PASS 72 ] [ FAIL 0 | WARN 241 | SKIP 0 | PASS 72 ] > > proc.time() user system elapsed 33.369 2.871 40.210
annotatr.Rcheck/annotatr-Ex.timings
name | user | system | elapsed | |
annotate_regions | 0.328 | 0.032 | 0.360 | |
annotatr_cache | 0.953 | 0.029 | 2.485 | |
build_ah_annots | 3.788 | 0.591 | 5.615 | |
build_annotations | 4.718 | 0.336 | 5.054 | |
builtin_annotations | 0.004 | 0.004 | 0.009 | |
builtin_genomes | 0 | 0 | 0 | |
plot_annotation | 2.032 | 0.124 | 2.782 | |
plot_categorical | 2.044 | 0.004 | 2.545 | |
plot_coannotations | 0.745 | 0.000 | 0.744 | |
plot_numerical | 0.387 | 0.004 | 0.391 | |
plot_numerical_coannotations | 0.482 | 0.016 | 0.497 | |
randomize_regions | 1.547 | 0.044 | 2.074 | |
read_annotations | 0.274 | 0.008 | 0.774 | |
read_regions | 0.275 | 0.005 | 0.762 | |
summarize_annotations | 1.745 | 0.024 | 2.248 | |
summarize_categorical | 0.331 | 0.012 | 0.823 | |
summarize_numerical | 0.516 | 0.016 | 1.020 | |