Movatterモバイル変換

################################################################################################################################################################## Running command:######   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:nucleR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings nucleR_2.42.0.tar.gz###############################################################################################################################################################* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/nucleR.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 ‘nucleR/DESCRIPTION’ ... OK* checking extension type ... Package* this is package ‘nucleR’ version ‘2.42.0’* 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 ‘nucleR’ 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 ... NOTEUnknown package ‘Starr’ in Rd xrefs* checking for missing documentation entries ... OK* checking for code/documentation mismatches ... OK* checking Rd \usage sections ... WARNINGUndocumented arguments in Rd file 'dot-fftRegion.Rd'  ‘data2’ ‘pcKeepComp’Undocumented arguments in Rd file 'dot-loadFiles.Rd'  ‘singleLoad’ ‘pairedLoad’Undocumented arguments in Rd file 'dot-loadPairedBam.Rd'  ‘file’Undocumented arguments in Rd file 'dot-loadSingleBam.Rd'  ‘exp’Undocumented arguments in Rd file 'dot-mid.Rd'  ‘x’Undocumented arguments in Rd file 'dot-unlist_as_integer.Rd'  ‘x’Undocumented arguments in Rd file 'dot-xlapply.Rd'  ‘X’ ‘FUN’ ‘...’ ‘mc.cores’Documented arguments not in \usage in Rd file 'pcKeepCompDetect.Rd':  ‘...’Functions with \usage entries need to have the appropriate \aliasentries, and all their arguments documented.The \usage entries must correspond to syntactically valid R code.See chapter ‘Writing R documentation files’ in the ‘Writing RExtensions’ manual.* 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 data for ASCII and uncompressed saves ... OK* checking files in ‘vignettes’ ... OK* checking examples ... OKExamples with CPU (user + system) or elapsed time > 5s                 user system elapsedsyntheticNucMap 9.423  0.212  13.285* 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* DONEStatus: 1 WARNING, 1 NOTESee  ‘/Users/biocbuild/bbs-3.22-bioc/meat/nucleR.Rcheck/00check.log’for details.

################################################################################################################################################################## Running command:######   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL nucleR###############################################################################################################################################################* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’* installing *source* package ‘nucleR’ ...** this is package ‘nucleR’ version ‘2.42.0’** using staged installation** R** data** inst** byte-compile and prepare package for lazy loadingLoading required package: usethisWelcome at Thu Dec 11 18:03:13 2025 Goodbye at  Thu Dec 11 18:03:26 2025 ** help*** installing help indices** building package indicesLoading required package: usethisWelcome at Thu Dec 11 18:03:28 2025 Goodbye at  Thu Dec 11 18:03:28 2025 ** installing vignettes** testing if installed package can be loaded from temporary locationLoading required package: usethisWelcome at Thu Dec 11 18:03:29 2025 Goodbye at  Thu Dec 11 18:03:41 2025 ** testing if installed package can be loaded from final locationLoading required package: usethisWelcome at Thu Dec 11 18:03:42 2025 Goodbye at  Thu Dec 11 18:03:53 2025 ** testing if installed package keeps a record of temporary installation path* DONE (nucleR)

R version 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"Copyright (C) 2025 The R Foundation for Statistical ComputingPlatform: aarch64-apple-darwin20R 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(nucleR)> > test_check("nucleR")[ FAIL 0 | WARN 0 | SKIP 0 | PASS 2 ]> > proc.time()   user  system elapsed  13.510   0.556  19.254