Mac ARM64 build report for BioC 3.17 - CHECK results for cellbaseR on kjohnson2

Hostname	OS	Arch (*)	R version	Installed pkgs
kjohnson2	macOS 12.6.1 Monterey	arm64	4.3.1 (2023-06-16) -- "Beagle Scouts"	4346
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*

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cellbaseR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cellbaseR_1.24.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/cellbaseR.Rcheck’
* using R version 4.3.1 (2023-06-16)
* 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 Monterey 12.6.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cellbaseR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cellbaseR’ version ‘1.24.0’
* 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 ‘cellbaseR’ 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                              user system elapsed
AnnotateVcf-CellBaseR-method 4.446  0.787  17.529
* 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

Installation output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL cellbaseR
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘cellbaseR’ ...
** 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 (cellbaseR)

Tests output

Example timings

name	user	system	elapsed
AnnotateVcf-CellBaseR-method	4.446	0.787	17.529
CellBaseParam	0.002	0.002	0.005
CellBaseR	0.029	0.006	0.275
createGeneModel	0.129	0.016	0.483
getCaddScores	0.036	0.003	0.304
getCellBase-CellBaseR-method	0.041	0.003	0.311
getCellBaseResourceHelp	0.180	0.026	2.196
getChromosomeInfo-CellBaseR-method	0.037	0.003	0.390
getClinical-CellBaseR-method	0.548	0.041	1.308
getClinicalByRegion	1.047	0.032	2.755
getConservationByRegion	0.056	0.004	0.537
getGene-CellBaseR-method	0.087	0.004	0.404
getGeneInfo	0.042	0.002	0.305
getMeta-CellBaseR-method	0.043	0.003	0.306
getProtein-CellBaseR-method	0.098	0.003	0.403
getProteinInfo	0.085	0.002	0.382
getRegion-CellBaseR-method	0.089	0.002	0.407
getRegulatoryByRegion	0.110	0.004	0.596
getSnp-CellBaseR-method	0.043	0.002	0.309
getSnpByGene	0.053	0.002	0.335
getTf-CellBaseR-method	0.038	0.002	2.633
getTfbsByRegion	0.053	0.002	0.429
getTranscript-CellBaseR-method	0.038	0.001	0.308
getTranscriptByGene	0.038	0.002	0.306
getVariant-CellBaseR-method	0.096	0.004	0.428
getVariantAnnotation	0.111	0.004	0.459
getXref-CellBaseR-method	0.036	0.002	0.300

CHECK results for cellbaseR on kjohnson2

Summary

Command output

Installation output

Tests output

Example timings