Back to Mac ARM64 build report for BioC 3.18 |
|
This page was generated on 2024-04-18 11:32:14 -0400 (Thu, 18 Apr 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
kjohnson1 | macOS 13.6.1 Ventura | arm64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4388 |
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 1395/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
nearBynding 1.12.0 (landing page) Veronica Busa
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | OK | OK | OK | OK | ||||||||
To the developers/maintainers of the nearBynding 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: nearBynding |
Version: 1.12.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:nearBynding.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings nearBynding_1.12.0.tar.gz |
StartedAt: 2024-04-17 21:17:49 -0400 (Wed, 17 Apr 2024) |
EndedAt: 2024-04-17 21:23:37 -0400 (Wed, 17 Apr 2024) |
EllapsedTime: 348.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: nearBynding.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:nearBynding.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings nearBynding_1.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/nearBynding.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 ‘nearBynding/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘nearBynding’ version ‘1.12.0’ * 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 ‘nearBynding’ can be installed ... OK * checking installed package size ... NOTE installed size is 7.1Mb sub-directories of 1Mb or more: extdata 6.9Mb * 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 sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed processCapRout 20.439 0.692 21.204 * 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: 1 NOTE See ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/nearBynding.Rcheck/00check.log’ for details.
nearBynding.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL nearBynding ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’ * installing *source* package ‘nearBynding’ ... ** using staged installation ** R ** 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 (nearBynding)
nearBynding.Rcheck/nearBynding-Ex.timings
name | user | system | elapsed | |
CleanBAMtoBG | 0.062 | 0.015 | 0.085 | |
CleanBEDtoBG | 0.016 | 0.031 | 0.055 | |
ExtractTranscriptomeSequence | 0.000 | 0.001 | 0.000 | |
GenomeMappingToChainFile | 4.772 | 0.124 | 4.901 | |
assessGrouping | 1.053 | 0.037 | 1.093 | |
bindingContextDistance | 0.185 | 0.010 | 0.197 | |
bindingContextDistanceCapR | 0.441 | 0.018 | 0.459 | |
getChainChrSize | 3.955 | 0.027 | 3.984 | |
get_outfiles | 0.006 | 0.008 | 0.014 | |
liftOverToExomicBG | 4.488 | 0.027 | 4.518 | |
nearBynding-package | 0.000 | 0.001 | 0.000 | |
processCapRout | 20.439 | 0.692 | 21.204 | |
runCapR | 0.003 | 0.009 | 0.015 | |
runStereogene | 0.004 | 0.007 | 0.012 | |
runStereogeneOnCapR | 0.017 | 0.035 | 0.060 | |
symmetryCapR | 0.492 | 0.017 | 0.511 | |
symmetryContext | 0.066 | 0.009 | 0.085 | |
visualizeCapRStereogene | 3.600 | 0.070 | 3.687 | |
visualizeStereogene | 2.562 | 0.040 | 2.606 | |
write_config | 0.000 | 0.001 | 0.001 | |
write_fasta | 0.001 | 0.000 | 0.002 | |