Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-07-24 11:42 -0400 (Wed, 24 Jul 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4688 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4284 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4455 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4404 |
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 1652/2248 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RCAS 1.31.0 (landing page) Bora Uyar
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
To the developers/maintainers of the RCAS package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RCAS.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: RCAS |
Version: 1.31.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RCAS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RCAS_1.31.0.tar.gz |
StartedAt: 2024-07-24 00:11:32 -0400 (Wed, 24 Jul 2024) |
EndedAt: 2024-07-24 00:15:15 -0400 (Wed, 24 Jul 2024) |
EllapsedTime: 222.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: RCAS.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:RCAS.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings RCAS_1.31.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/RCAS.Rcheck’ * using R version 4.4.1 (2024-06-14) * 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 13.6.7 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RCAS/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RCAS’ version ‘1.31.0’ * 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 ‘RCAS’ 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 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 runMotifDiscovery 20.744 0.158 14.807 getMotifSummaryTable 7.612 0.176 19.525 calculateCoverageProfileList 4.971 0.270 5.244 summarizeQueryRegionsMulti 3.197 0.170 8.887 createDB 0.906 0.058 6.495 * 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
RCAS.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL RCAS ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘RCAS’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading Warning: replacing previous import ‘Biostrings::pattern’ by ‘grid::pattern’ when loading ‘genomation’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning: replacing previous import ‘Biostrings::pattern’ by ‘grid::pattern’ when loading ‘genomation’ ** testing if installed package can be loaded from final location Warning: replacing previous import ‘Biostrings::pattern’ by ‘grid::pattern’ when loading ‘genomation’ ** testing if installed package keeps a record of temporary installation path * DONE (RCAS)
RCAS.Rcheck/tests/testthat.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life" 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(RCAS) Loading required package: plotly Loading required package: ggplot2 Attaching package: 'plotly' The following object is masked from 'package:ggplot2': last_plot The following object is masked from 'package:stats': filter The following object is masked from 'package:graphics': layout Loading required package: DT Loading required package: data.table Warning message: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'genomation' > > test_check("RCAS") [ FAIL 0 | WARN 9938 | SKIP 0 | PASS 48 ] [ FAIL 0 | WARN 9938 | SKIP 0 | PASS 48 ] > > proc.time() user system elapsed 28.025 0.921 28.155
RCAS.Rcheck/RCAS-Ex.timings
name | user | system | elapsed | |
calculateCoverageProfile | 4.062 | 0.142 | 4.205 | |
calculateCoverageProfileList | 4.971 | 0.270 | 5.244 | |
checkSeqDb | 0.097 | 0.013 | 0.270 | |
createControlRegions | 0.084 | 0.002 | 0.086 | |
createDB | 0.906 | 0.058 | 6.495 | |
discoverFeatureSpecificMotifs | 0 | 0 | 0 | |
extractSequences | 0.427 | 0.064 | 0.490 | |
findDifferentialMotifs | 4.089 | 0.098 | 2.709 | |
findEnrichedFunctions | 0.246 | 0.008 | 3.678 | |
generateKmers | 0 | 0 | 0 | |
getFeatureBoundaryCoverage | 1.384 | 0.067 | 1.451 | |
getFeatureBoundaryCoverageBin | 1.876 | 0.098 | 1.977 | |
getFeatureBoundaryCoverageMulti | 4.167 | 0.392 | 4.568 | |
getIntervalOverlapMatrix | 0.780 | 0.059 | 0.944 | |
getMotifSummaryTable | 7.612 | 0.176 | 19.525 | |
getPWM | 0.001 | 0.000 | 0.001 | |
getTargetedGenesTable | 2.543 | 0.119 | 2.663 | |
getTxdbFeaturesFromGRanges | 2.646 | 0.117 | 2.764 | |
importBed | 0.074 | 0.013 | 0.088 | |
importBedFiles | 0.261 | 0.021 | 0.282 | |
importGtf | 0 | 0 | 0 | |
plotFeatureBoundaryCoverage | 1.520 | 0.079 | 1.600 | |
queryGff | 0.651 | 0.047 | 0.699 | |
runMotifDiscovery | 20.744 | 0.158 | 14.807 | |
runReport | 0.000 | 0.001 | 0.000 | |
runReportMetaAnalysis | 0.355 | 0.093 | 0.493 | |
summarizeQueryRegions | 2.726 | 0.132 | 2.860 | |
summarizeQueryRegionsMulti | 3.197 | 0.170 | 8.887 | |