Movatterモバイル変換

################################################################################################################################################################## Running command:######   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:TCseq.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings TCseq_1.34.0.tar.gz###############################################################################################################################################################* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/TCseq.Rcheck’* using R version 4.5.2 (2025-10-31)* using platform: x86_64-apple-darwin20* R was compiled by    Apple clang version 14.0.0 (clang-1400.0.29.202)    GNU Fortran (GCC) 14.2.0* running under: macOS Monterey 12.7.6* using session charset: UTF-8* using option ‘--no-vignettes’* checking for file ‘TCseq/DESCRIPTION’ ... OK* checking extension type ... Package* this is package ‘TCseq’ version ‘1.34.0’* 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 ‘TCseq’ can be installed ... WARNINGFound the following significant warnings:  Warning: replacing previous import ‘e1071::element’ by ‘ggplot2::element’ when loading ‘TCseq’See ‘/Users/biocbuild/bbs-3.22-bioc/meat/TCseq.Rcheck/00install.out’ for details.* 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 ... NOTEcountReads: no visible global function definition for  ‘createAnnotationFile’countReads: no visible global function definition for ‘featureCounts’timeclustplot: no visible binding for global variable ‘group’Undefined global functions or variables:  createAnnotationFile featureCounts group* checking Rd files ... OK* checking Rd metadata ... OK* checking Rd cross-references ... WARNINGMissing link(s) in Rd file 'countReads.Rd':  ‘featureCounts’See section 'Cross-references' in the 'Writing R Extensions' manual.Found the following Rd file(s) with Rd \link{} targets missing packageanchors:  DBanalysis.Rd: glmFit  DBresult.Rd: glmLRT  countReads.Rd: summarizeOverlaps, featureCounts  counts.Rd: cpm, rpkm, addPriorCount  timeclust.Rd: pam, cmeans  timeclustplot.Rd: print.ggplot  timecourseTable.Rd: rpkm, cpmPlease provide package anchors for all Rd \link{} targets not in thepackage itself and the base packages.* 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 ... OK* 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: 2 WARNINGs, 1 NOTESee  ‘/Users/biocbuild/bbs-3.22-bioc/meat/TCseq.Rcheck/00check.log’for details.

################################################################################################################################################################## Running command:######   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL TCseq###############################################################################################################################################################* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’* installing *source* package ‘TCseq’ ...** this is package ‘TCseq’ version ‘1.34.0’** using staged installation** R** data*** moving datasets to lazyload DB** byte-compile and prepare package for lazy loadingWarning: replacing previous import ‘e1071::element’ by ‘ggplot2::element’ when loading ‘TCseq’** help*** installing help indices** building package indices** installing vignettes** testing if installed package can be loaded from temporary locationWarning: replacing previous import ‘e1071::element’ by ‘ggplot2::element’ when loading ‘TCseq’** testing if installed package can be loaded from final locationWarning: replacing previous import ‘e1071::element’ by ‘ggplot2::element’ when loading ‘TCseq’** testing if installed package keeps a record of temporary installation path* DONE (TCseq)

R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"Copyright (C) 2025 The R Foundation for Statistical ComputingPlatform: x86_64-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(TCseq)Warning message:replacing previous import 'e1071::element' by 'ggplot2::element' when loading 'TCseq' > > test_check("TCseq")[ FAIL 0 | WARN 0 | SKIP 0 | PASS 7 ]> > proc.time()   user  system elapsed  20.131   0.968  21.347