• using R Under development (unstable) (2024-11-20 r87352)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     Debian clang version 19.1.3 (2)     Debian flang-new version 19.1.3 (2)
• running under: Debian GNU/Linux trixie/sid
• using session charset: UTF-8
• checking for file ‘PopGenReport/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘PopGenReport’ version ‘3.1’
• 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 serialization versions ... OK
• checking whether package ‘PopGenReport’ can be installed ... OK See the install log 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 ... [13s/16s] OK
• checking whether the package can be loaded with stated dependencies ... [14s/17s] OK
• checking whether the package can be unloaded cleanly ... [14s/15s] OK
• checking whether the namespace can be loaded with stated dependencies ... [13s/16s] OK
• checking whether the namespace can be unloaded cleanly ... [13s/16s] OK
• checking loading without being on the library search path ... [14s/16s] 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 ... [62s/73s] OK
• checking Rd files ... [0s/1s] OK
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors:   allel.rich.Rd: genind   allele.dist.Rd: genind   bilby.Rd: genind   gd.kosman.Rd: genind   gd.smouse.Rd: genind   genleastcost.Rd: gdistance, rSPDistance   landgenreport.Rd: gdistance, rSPDistance   null.all.Rd: genind   popgenreport.Rd: genind, import2genind, df2genind, read.fstat,     read.structure, read.genetix, read.genepop, Mercator, dismo, knitr,     adegenet, pegas, mmod   read.genetable.Rd: genind-class, adegenet, import2genind, df2genind,     read.fstat, read.structure, read.genetix, read.genepop Please provide package anchors for all Rd \link{} targets not in the package 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 ... [3s/4s] OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [14s/17s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [16s/22s] OK
• checking PDF version of manual ... [5s/7s] OK
• checking HTML version of manual ... [1s/2s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 NOTE