* using log directory ‘/Volumes/Builds/packages/big-sur-arm64/results/4.4/text.alignment.Rcheck’
* using R version 4.4.0 alpha (2024-03-31 r86238)
* using platform: aarch64-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 13.4
* using session charset: UTF-8
* checking for file ‘text.alignment/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘text.alignment’ version ‘0.1.4’
* 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 ‘text.alignment’ can be installed ... [6s/7s] OK
See 'https://www.r-project.org/nosvn/R.check/r-release-macos-arm64/text.alignment-00install.html' for details.
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* 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 ... [0s/0s] OK
* checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the package can be unloaded cleanly ... [0s/0s] OK
* checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
* checking loading without being on the library search path ... [0s/0s] 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 ... [1s/1s] OK
* checking Rd files ... [0s/0s] NOTE
checkRd: (-1) smith_waterman.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:68: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:70: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:75: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:76: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:77: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:78: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman.Rd:79: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman_misaligned.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) smith_waterman_misaligned.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) smith_waterman_misaligned.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) smith_waterman_misaligned.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman_misaligned.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman_misaligned.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman_misaligned.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smith_waterman_misaligned.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [1s/1s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [6s/6s] OK
* checking PDF version of manual ... [4s/4s] OK
* DONE
Status: 1 NOTE
* using check arguments '--no-clean-on-error '

* elapsed time (check, wall clock): 0:30