This page was generated on 2025-12-15 12:08 -0500 (Mon, 15 Dec 2025).
CHECK results for mBPCR on kjohnson1
To the developers/maintainers of the mBPCR package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mBPCR.git to reflect on this report. SeeTroubleshooting Build Report for more information. - Use the followingRenviron 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. SeeRenviron.bioc for more information.
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raw results
Summary
| Package: mBPCR |
| Version: 1.64.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:mBPCR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings mBPCR_1.64.0.tar.gz |
| StartedAt: 2025-12-13 10:34:55 -0500 (Sat, 13 Dec 2025) |
| EndedAt: 2025-12-13 10:41:01 -0500 (Sat, 13 Dec 2025) |
| EllapsedTime: 366.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: mBPCR.Rcheck |
| Warnings: 0 |
Command output
################################################################################################################################################################## Running command:###### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:mBPCR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings mBPCR_1.64.0.tar.gz###############################################################################################################################################################* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/mBPCR.Rcheck’* using R version 4.5.2 Patched (2025-11-04 r88984)* using platform: aarch64-apple-darwin20* R was compiled by Apple clang version 16.0.0 (clang-1600.0.26.6) GNU Fortran (GCC) 14.2.0* running under: macOS Ventura 13.7.8* using session charset: UTF-8* using option ‘--no-vignettes’* checking for file ‘mBPCR/DESCRIPTION’ ... OK* this is package ‘mBPCR’ version ‘1.64.0’* 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 ‘mBPCR’ 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 sizes of PDF files under ‘inst/doc’ ... OK* checking files in ‘vignettes’ ... OK* checking examples ... OKExamples with CPU (user + system) or elapsed time > 5s user system elapsedplotEstProfile 8.361 0.345 11.949writeEstProfile 4.458 0.116 6.343computeMBPCR 3.748 0.129 5.312estProfileWithMBPCR 3.608 0.206 5.180* 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* DONEStatus: OK
Installation output
mBPCR.Rcheck/00install.out
################################################################################################################################################################## Running command:###### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL mBPCR###############################################################################################################################################################* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’* installing *source* package ‘mBPCR’ ...** this is package ‘mBPCR’ version ‘1.64.0’** using staged installation** R** data*** moving datasets to lazyload DB** 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 (mBPCR)
Tests output
Example timings
mBPCR.Rcheck/mBPCR-Ex.timings
| name | user | system | elapsed |
|
| centromere | 0.003 | 0.000 | 0.004 | |
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| computeMBPCR | 3.748 | 0.129 | 5.312 | |
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| estGlobParam | 0.010 | 0.002 | 0.012 | |
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| estProfileWithMBPCR | 3.608 | 0.206 | 5.180 | |
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| estProfileWithMBPCRforOligoSnpSet | 0.000 | 0.001 | 0.001 | |
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| importCNData | 0.071 | 0.004 | 0.103 | |
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| logAdd | 0.000 | 0.001 | 0.001 | |
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| plotEstProfile | 8.361 | 0.345 | 11.949 | |
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| writeEstProfile | 4.458 | 0.116 | 6.343 | |
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