* using log directory ‘/srv/hornik/tmp/CRAN/HierDpart.Rcheck’
* using R Under development (unstable) (2024-07-08 r86886)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 18.1.8 (1+b1)
    Debian flang-new version 18.1.8 (1+b1)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘HierDpart/DESCRIPTION’ ... OK
* this is package ‘HierDpart’ version ‘2.1.0’
* checking CRAN incoming feasibility ... [3s/4s] NOTE
Maintainer: ‘Xinghu Qin <qin.xinghu@163.com>’

New submission

Package was archived on CRAN

Possibly misspelled words in DESCRIPTION:
  Fst (6:294)
  Gaggiotti (6:338)
  Jaccard (6:262)
  Jost's (6:302)
  Mol (6:361)
  Qin (6:328)
  Resour (6:372)
  heterozygosity (6:189)

CRAN repository db overrides:
  X-CRAN-Comment: Archived on 2023-01-23 as requires archived package
    'diveRsity'.

The Date field is over a month old.
* 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 ‘HierDpart’ can be installed ... [7s/7s] NOTE
Found the following notes/warnings:
  Non-staged installation was used
See ‘/srv/hornik/tmp/CRAN/HierDpart.Rcheck/00install.out’ 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 ... [1s/1s] OK
* checking whether the package can be unloaded cleanly ... [1s/1s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the namespace can be unloaded cleanly ... [2s/2s] OK
* checking loading without being on the library search path ... [2s/2s] OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... NOTE
Mismatches for apparent methods not registered:
plot:
  function(x, ...)
plot.aggregates:
  function(disper, hull, ellipse)
See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
manual.
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [18s/18s] OK
* checking Rd files ... [0s/0s] OK
* 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 ... NOTE
S3 methods shown with full name in Rd file 'plot.aggregates.Rd':
  ‘plot.aggregates’

The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking Rd contents ... NOTE
Argument items with no description in Rd file 'boot.ppDeltaD.Rd':
  ‘\dots’
Argument items with no description in Rd file 'print.boot.ppDeltaD.Rd':
  ‘\dots’
* checking for unstated dependencies in examples ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [16s/16s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [5s/5s] OK
* checking PDF version of manual ... [3s/3s] OK
* checking HTML version of manual ... [0s/0s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 5 NOTEs