* using log directory ‘/home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/basket.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc-14 (Debian 14.2.0-16) 14.2.0
    GNU Fortran (Debian 14.2.0-16) 14.2.0
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘basket/DESCRIPTION’ ... OK
* this is package ‘basket’ version ‘0.10.11’
* 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 ‘basket’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-release-linux-x86_64/basket-00install.html' for details.
* checking package directory ... OK
* checking for future file timestamps ... 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 ... [2s/2s] OK
* checking whether the package can be loaded with stated dependencies ... [2s/2s] OK
* checking whether the package can be unloaded cleanly ... [2s/2s] OK
* checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK
* checking whether the namespace can be unloaded cleanly ... [2s/2s] OK
* checking loading without being on the library search path ... [2s/3s] OK
* checking use of S3 registration ... 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 ... [14s/17s] OK
* checking Rd files ... [0s/1s] NOTE
checkRd: (-1) basket-package.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:23-24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:25-26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:27-28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:29-30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:31-32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:36-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) basket-package.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_map.Rd:26-30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_map.Rd:31-32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_map.Rd:33-34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_map.Rd:35-36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_map.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_map.Rd:38-39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_map.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_map.Rd:41-42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_map.Rd:43-44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_pep.Rd:26-35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_pep.Rd:31: Lost braces
    31 |  \item{[text_color]}{A text string setting the color of the exchangeability
       |       ^
checkRd: (-1) plot_pep.Rd:31-32: Lost braces
    31 |  \item{[text_color]}{A text string setting the color of the exchangeability
       |                     ^
checkRd: (-1) plot_pep.Rd:33: Lost braces
    33 |  \item{[tile_color]}{A text string setting the color of the edges of the
       |       ^
checkRd: (-1) plot_pep.Rd:33-34: Lost braces
    33 |  \item{[tile_color]}{A text string setting the color of the edges of the
       |                     ^
checkRd: (-1) plot_pep.Rd:36-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_pep.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_pep.Rd:39-40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_pep.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_pep.Rd:42-43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot_pep.Rd:44-45: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vemu.Rd:20: Lost braces; missing escapes or markup?
    20 | concluded that nonmelanoma tumor types harboring $BRAF^{V600}$ mutations
       |                                                        ^
* checking Rd metadata ... OK
* checking Rd line widths ... 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 ... [0s/1s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [2s/2s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [93s/128s] OK
  Running ‘testthat.R’ [93s/128s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [8s/9s] OK
* checking PDF version of manual ... [4s/6s] OK
* checking HTML version of manual ... [1s/1s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 NOTE