Back to Mac ARM64 build report for BioC 3.18 |
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This page was generated on 2024-03-28 11:32:28 -0400 (Thu, 28 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
kjohnson1 | macOS 13.6.1 Ventura | arm64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4376 |
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 1674/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RCAS 1.28.3 (landing page) Bora Uyar
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | OK | OK | OK | OK | ||||||||
To the developers/maintainers of the RCAS package: - 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: 1.28.3 |
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_1.28.3.tar.gz |
StartedAt: 2024-03-27 23:42:58 -0400 (Wed, 27 Mar 2024) |
EndedAt: 2024-03-27 23:53:59 -0400 (Wed, 27 Mar 2024) |
EllapsedTime: 660.8 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_1.28.3.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/RCAS.Rcheck’ * using R version 4.3.3 (2024-02-29) * using platform: aarch64-apple-darwin20 (64-bit) * 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 13.6.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RCAS/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RCAS’ version ‘1.28.3’ * 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 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 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 54.027 0.748 44.284 getMotifSummaryTable 18.876 0.590 65.940 getFeatureBoundaryCoverageMulti 14.512 1.069 15.715 calculateCoverageProfileList 14.510 0.809 15.382 calculateCoverageProfile 11.371 0.358 11.758 getTxdbFeaturesFromGRanges 11.013 0.615 11.753 findDifferentialMotifs 11.157 0.313 9.726 summarizeQueryRegionsMulti 10.216 0.607 28.599 summarizeQueryRegions 9.916 0.704 10.639 getTargetedGenesTable 9.236 0.406 9.772 getFeatureBoundaryCoverageBin 5.051 0.276 5.365 plotFeatureBoundaryCoverage 4.958 0.201 5.180 createDB 3.038 0.137 21.373 * 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: 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/4.3-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 4.3.3 (2024-02-29) -- "Angel Food Cake" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 (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(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 11 | SKIP 0 | PASS 48 ] [ FAIL 0 | WARN 11 | SKIP 0 | PASS 48 ] > > proc.time() user system elapsed 46.028 2.050 46.562
RCAS.Rcheck/RCAS-Ex.timings
name | user | system | elapsed | |
calculateCoverageProfile | 11.371 | 0.358 | 11.758 | |
calculateCoverageProfileList | 14.510 | 0.809 | 15.382 | |
checkSeqDb | 0.355 | 0.032 | 0.541 | |
createControlRegions | 0.334 | 0.029 | 0.363 | |
createDB | 3.038 | 0.137 | 21.373 | |
discoverFeatureSpecificMotifs | 0.000 | 0.000 | 0.001 | |
extractSequences | 1.591 | 0.199 | 1.798 | |
findDifferentialMotifs | 11.157 | 0.313 | 9.726 | |
findEnrichedFunctions | 0.613 | 0.031 | 2.955 | |
generateKmers | 0.000 | 0.001 | 0.001 | |
getFeatureBoundaryCoverage | 4.624 | 0.181 | 4.815 | |
getFeatureBoundaryCoverageBin | 5.051 | 0.276 | 5.365 | |
getFeatureBoundaryCoverageMulti | 14.512 | 1.069 | 15.715 | |
getIntervalOverlapMatrix | 1.334 | 0.076 | 1.751 | |
getMotifSummaryTable | 18.876 | 0.590 | 65.940 | |
getPWM | 0.001 | 0.001 | 0.001 | |
getTargetedGenesTable | 9.236 | 0.406 | 9.772 | |
getTxdbFeaturesFromGRanges | 11.013 | 0.615 | 11.753 | |
importBed | 0.240 | 0.019 | 0.261 | |
importBedFiles | 0.988 | 0.083 | 1.081 | |
importGtf | 0 | 0 | 0 | |
plotFeatureBoundaryCoverage | 4.958 | 0.201 | 5.180 | |
queryGff | 0.973 | 0.084 | 1.059 | |
runMotifDiscovery | 54.027 | 0.748 | 44.284 | |
runReport | 0.000 | 0.001 | 0.001 | |
runReportMetaAnalysis | 1.037 | 0.349 | 1.549 | |
summarizeQueryRegions | 9.916 | 0.704 | 10.639 | |
summarizeQueryRegionsMulti | 10.216 | 0.607 | 28.599 | |