• using R Under development (unstable) (2024-01-17 r85813)
• using platform: x86_64-apple-darwin20
• 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 13.3.1
• using session charset: UTF-8
• checking for file ‘utr.annotation/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘utr.annotation’ version ‘1.0.4’
• 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 executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘utr.annotation’ can be installed ... [35s/61s] OK See the install log 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 R files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... [11s/15s] OK
• checking whether the package can be loaded with stated dependencies ... [11s/15s] OK
• checking whether the package can be unloaded cleanly ... [11s/15s] OK
• checking whether the namespace can be loaded with stated dependencies ... [11s/15s] OK
• checking whether the namespace can be unloaded cleanly ... [11s/15s] OK
• checking loading without being on the library search path ... [11s/15s] 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 ... [24s/37s] OK
• checking Rd files ... [0s/0s] 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 ... NOTE Documented arguments not in \usage in Rd file 'countDNAPatternInAlt.Rd':   ‘trascriptsTable’ Documented arguments not in \usage in Rd file 'countDNAPatternInAltOneVariant.Rd':   ‘trascriptsTable’ Documented arguments not in \usage in Rd file 'getAltSequence.Rd':   ‘trascriptsTable’ Documented arguments not in \usage in Rd file 'getCodonInAlt.Rd':   ‘trascriptsTable’ ‘codonPositionsColumnn’ Documented arguments not in \usage in Rd file 'getCodonInAltOneVariant.Rd':   ‘trascriptsTable’ ‘codonPositionsColumnn’ Documented arguments not in \usage in Rd file 'getTSSKozakOneVariant.Rd':   ‘variantsTable’ Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter ‘Writing R documentation files’ in the ‘Writing R Extensions’ manual.
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking R/sysdata.rda ... OK
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [11s/16s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [11s/17s] OK   Running ‘testthat.R’ [11s/17s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [26s/49s] OK
• checking PDF version of manual ... [7s/10s] OK
• DONE Status: 1 NOTE
• using check arguments '--no-clean-on-error '