* using log directory 'd:/RCompile/CRANincoming/R-devel/ARGHelpR.Rcheck'
* using R Under development (unstable) (2026-10-14 r90673 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.3.0
    GNU Fortran (GCC) 14.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* current time: 2026-10-15 19:44:22 UTC
* checking for file 'ARGHelpR/DESCRIPTION' ... OK
* this is package 'ARGHelpR' version '1.0.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Keaka Farleigh <keakafarleigh@gmail.com>'

New submission

Possibly misspelled words in DESCRIPTION:
  ARG (13:139)
  ARGHelpR (13:263)
  ARGs (13:303)
  introgression (4:43)

The Title field should be in title case. Current version is:
  'Summarize and visualize ancestral recombination graphs to identify genomic regions that may be influenced by different forms of selection or involved in introgression'
In title case that is:
  'Summarize and Visualize Ancestral Recombination Graphs to Identify Genomic Regions that may be Influenced by Different Forms of Selection or Involved in Introgression'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'ARGHelpR' can be installed ... OK
* checking installed package size ... OK
* 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 ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... 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 ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... NOTE
Rd file 'argplot.Rd':
  \examples lines wider than 100 characters:
     test_plot <- argplot(arg = rattlesnake_args[[1]][1,4], pop1 = pop1$sample, pop2 = pop2$sample, col = c("#71BED6","#EDAF49"))

Rd file 'argstats.Rd':
  \examples lines wider than 100 characters:
     Test <- argstats(arg.dat = rattlesnake_args, pop1 = pop1$sample, pop2 = pop2$sample, pop1.name = "pop1", pop2.name = "pop2")

Rd file 'argstats_helper.Rd':
  \examples lines wider than 100 characters:
     Test <- argstats(arg.dat = rattlesnake_args, pop1 = pop1$sample, pop2 = pop2$sample, pop1.name = "pop1", pop2.name = "pop2")

Rd file 'identify_argcandidates_divergence.Rd':
  \examples lines wider than 100 characters:
     stat_res <- argstats(arg.dat = rattlesnake_args, pop1 = pop1$sample, pop2 = pop2$sample, pop1.name = "pop1", pop2.name = "pop2")

Rd file 'identify_argcandidates_shared.Rd':
  \examples lines wider than 100 characters:
     stat_res <- argstats(arg.dat = rattlesnake_args, pop1 = pop1$sample, pop2 = pop2$sample, pop1.name = "pop1", pop2.name = "pop2")

Rd file 'rattlesnake_args.Rd':
  \examples lines wider than 100 characters:
     Test <- argstats(arg.dat = rattlesnake_args, pop1 = pop1$sample, pop2 = pop2$sample, pop1.name = "pop1", pop2.name = "pop2")

These lines will be truncated in the PDF manual.
* 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 ... 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 ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... OK
  Running 'testthat.R'
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [149s] OK
* checking PDF version of manual ... [19s] OK
* checking HTML version of manual ... OK
* DONE
Status: 2 NOTEs