Back to Mac ARM64 build report for BioC 3.19 |
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This page was generated on 2024-05-07 11:32:42 -0400 (Tue, 07 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4461 |
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 1694/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RCAS 1.30.0 (landing page) Bora Uyar
| kjohnson3 | macOS 13.6.5 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: 1.30.0 |
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_1.30.0.tar.gz |
StartedAt: 2024-05-07 00:11:42 -0400 (Tue, 07 May 2024) |
EndedAt: 2024-05-07 00:15:09 -0400 (Tue, 07 May 2024) |
EllapsedTime: 207.6 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_1.30.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/RCAS.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 13.6.5 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘RCAS/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘RCAS’ version ‘1.30.0’ * 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 20.540 0.153 14.616 getMotifSummaryTable 7.500 0.166 18.759 summarizeQueryRegionsMulti 2.739 0.136 8.495 createDB 0.872 0.043 6.180 findEnrichedFunctions 0.254 0.014 5.797 * 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 4.4.0 (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(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 14.830 0.641 14.759
RCAS.Rcheck/RCAS-Ex.timings
name | user | system | elapsed | |
calculateCoverageProfile | 3.461 | 0.101 | 3.563 | |
calculateCoverageProfileList | 4.443 | 0.221 | 4.673 | |
checkSeqDb | 0.093 | 0.010 | 0.252 | |
createControlRegions | 0.083 | 0.001 | 0.084 | |
createDB | 0.872 | 0.043 | 6.180 | |
discoverFeatureSpecificMotifs | 0 | 0 | 0 | |
extractSequences | 0.427 | 0.065 | 0.492 | |
findDifferentialMotifs | 4.172 | 0.088 | 2.783 | |
findEnrichedFunctions | 0.254 | 0.014 | 5.797 | |
generateKmers | 0 | 0 | 0 | |
getFeatureBoundaryCoverage | 1.785 | 0.071 | 1.859 | |
getFeatureBoundaryCoverageBin | 1.476 | 0.066 | 1.553 | |
getFeatureBoundaryCoverageMulti | 4.374 | 0.352 | 4.741 | |
getIntervalOverlapMatrix | 0.344 | 0.016 | 0.463 | |
getMotifSummaryTable | 7.500 | 0.166 | 18.759 | |
getPWM | 0.000 | 0.000 | 0.001 | |
getTargetedGenesTable | 2.611 | 0.111 | 2.722 | |
getTxdbFeaturesFromGRanges | 2.517 | 0.097 | 2.616 | |
importBed | 0.064 | 0.007 | 0.071 | |
importBedFiles | 0.273 | 0.021 | 0.294 | |
importGtf | 0.001 | 0.000 | 0.001 | |
plotFeatureBoundaryCoverage | 1.963 | 0.112 | 2.079 | |
queryGff | 0.194 | 0.004 | 0.198 | |
runMotifDiscovery | 20.540 | 0.153 | 14.616 | |
runReport | 0 | 0 | 0 | |
runReportMetaAnalysis | 0.371 | 0.098 | 0.515 | |
summarizeQueryRegions | 2.769 | 0.131 | 2.902 | |
summarizeQueryRegionsMulti | 2.739 | 0.136 | 8.495 | |