* using log directory ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/vcvComp.Rcheck’
* using R Under development (unstable) (2024-04-29 r86495)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 18.1.4 (1)
    Debian flang-new version 18.1.4 (1)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘vcvComp/DESCRIPTION’ ... OK
* this is package ‘vcvComp’ version ‘1.0.2’
* 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 ‘vcvComp’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-clang/vcvComp-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 ... [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/1s] OK
* checking loading without being on the library search path ... [0s/1s] 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 ... [6s/8s] OK
* checking Rd files ... [1s/1s] NOTE
checkRd: (-1) Tropheus.IK.coord.Rd:23: Lost braces; missing escapes or markup?
    23 | \item \strong{List_TropheusData_ID} {Specimen ID}
       |                                     ^
checkRd: (-1) Tropheus.IK.coord.Rd:24: Lost braces; missing escapes or markup?
    24 | \item \strong{Extractionnr.} {Extraction number for genomic DNA}
       |                              ^
checkRd: (-1) Tropheus.IK.coord.Rd:25: Lost braces; missing escapes or markup?
    25 | \item \strong{G} {Group number}
       |                  ^
checkRd: (-1) Tropheus.IK.coord.Rd:26: Lost braces; missing escapes or markup?
    26 | \item \strong{POP.ID} {Population Id}
       |                       ^
checkRd: (-1) Tropheus.IK.coord.Rd:27: Lost braces; missing escapes or markup?
    27 | \item \strong{Sex} {Sex}
       |                    ^
checkRd: (-1) Tropheus.IK.coord.Rd:28: Lost braces; missing escapes or markup?
    28 | \item \strong{Allo.Symp} {Allopatric or sympatric population}
       |                          ^
checkRd: (-1) Tropheus.IK.coord.Rd:29: Lost braces; missing escapes or markup?
    29 | \item \strong{X1 ... Y19} {Procrustes coordinates of 19 landmarks}
       |                           ^
checkRd: (-1) Tropheus.IK.coord.Rd:30: Lost braces; missing escapes or markup?
    30 | \item \strong{Pzep3_1 ... UME003_2} {Genotype for 6 microsatellite markers}
       |                                     ^
checkRd: (-1) Tropheus.Rd:25: Lost braces; missing escapes or markup?
    25 | \item \strong{List_TropheusData_ID} {Specimen ID}
       |                                     ^
checkRd: (-1) Tropheus.Rd:26: Lost braces; missing escapes or markup?
    26 | \item \strong{Extractionnr.} {Extraction number for genomic DNA}
       |                              ^
checkRd: (-1) Tropheus.Rd:27: Lost braces; missing escapes or markup?
    27 | \item \strong{G} {Group number}
       |                  ^
checkRd: (-1) Tropheus.Rd:28: Lost braces; missing escapes or markup?
    28 | \item \strong{POP.ID} {Population Id}
       |                       ^
checkRd: (-1) Tropheus.Rd:29: Lost braces; missing escapes or markup?
    29 | \item \strong{Sex} {Sex}
       |                    ^
checkRd: (-1) Tropheus.Rd:30: Lost braces; missing escapes or markup?
    30 | \item \strong{Allo.Symp} {Allopatric or sympatric population}
       |                          ^
checkRd: (-1) Tropheus.Rd:31: Lost braces; missing escapes or markup?
    31 | \item \strong{X1 ... Y19} {Cartesian coordinates of 19 landmarks}
       |                           ^
checkRd: (-1) Tropheus.Rd:32: Lost braces; missing escapes or markup?
    32 | \item \strong{Pzep3_1 ... UME003_2} {Genotype for 6 microsatellite markers}
       |                                     ^
* 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/0s] 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 ... [1s/2s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [13s/17s] OK
* checking PDF version of manual ... [6s/7s] OK
* checking HTML version of manual ... [1s/1s] OK
* checking for non-standard things in the check directory ... OK
* DONE
Status: 1 NOTE