Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-06-21 17:42 -0400 (Fri, 21 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4758 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 (2024-04-24 ucrt) -- "Puppy Cup" | 4492 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4506 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4464 |
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 1735/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
regutools 1.16.0 (landing page) Joselyn Chavez
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | NA | |||||||||
To the developers/maintainers of the regutools package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/regutools.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: regutools |
Version: 1.16.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:regutools.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings regutools_1.16.0.tar.gz |
StartedAt: 2024-06-21 07:53:11 -0400 (Fri, 21 Jun 2024) |
EndedAt: 2024-06-21 08:03:23 -0400 (Fri, 21 Jun 2024) |
EllapsedTime: 611.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: regutools.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:regutools.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings regutools_1.16.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/regutools.Rcheck’ * using R version 4.4.0 (2024-04-24) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.6.6 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘regutools/DESCRIPTION’ ... OK * this is package ‘regutools’ version ‘1.16.0’ * 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 ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘regutools’ 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 code 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 plot_dna_objects 11.417 0.456 12.729 convert_to_biostrings 6.877 0.422 7.943 build_condition 6.631 0.381 8.003 convert_to_granges 5.379 0.345 6.412 get_regulatory_summary 5.258 0.352 6.253 get_regulatory_network 5.183 0.380 6.204 connect_database 5.169 0.353 6.162 get_dna_objects 5.160 0.333 6.169 get_gene_regulators 5.140 0.319 6.149 get_gene_synonyms 5.163 0.259 6.063 get_binding_sites 5.127 0.286 6.056 list_attributes 5.094 0.313 6.305 list_datasets 5.114 0.282 6.062 guess_id 5.061 0.253 5.982 regulondb 4.844 0.388 5.880 get_dataset 4.804 0.355 5.833 * 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 running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: OK
regutools.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL regutools ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘regutools’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (regutools)
regutools.Rcheck/tests/testthat.Rout
R version 4.4.0 (2024-04-24) -- "Puppy Cup" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 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("regutools") > > test_check("regutools") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 110 ] Warning message: call dbDisconnect() when finished working with a connection > > proc.time() user system elapsed 105.003 5.792 123.087
regutools.Rcheck/regutools-Ex.timings
name | user | system | elapsed | |
build_condition | 6.631 | 0.381 | 8.003 | |
connect_database | 5.169 | 0.353 | 6.162 | |
convert_to_biostrings | 6.877 | 0.422 | 7.943 | |
convert_to_granges | 5.379 | 0.345 | 6.412 | |
existing_intervals | 0.000 | 0.000 | 0.001 | |
existing_partial_match | 0.000 | 0.000 | 0.001 | |
get_binding_sites | 5.127 | 0.286 | 6.056 | |
get_dataset | 4.804 | 0.355 | 5.833 | |
get_dna_objects | 5.160 | 0.333 | 6.169 | |
get_gene_regulators | 5.140 | 0.319 | 6.149 | |
get_gene_synonyms | 5.163 | 0.259 | 6.063 | |
get_regulatory_network | 5.183 | 0.380 | 6.204 | |
get_regulatory_summary | 5.258 | 0.352 | 6.253 | |
guess_id | 5.061 | 0.253 | 5.982 | |
list_attributes | 5.094 | 0.313 | 6.305 | |
list_datasets | 5.114 | 0.282 | 6.062 | |
non_existing_intervals | 0.001 | 0.000 | 0.000 | |
plot_dna_objects | 11.417 | 0.456 | 12.729 | |
regulondb | 4.844 | 0.388 | 5.880 | |