* using log directory 'd:/RCompile/CRANincoming/R-devel/nichetools.Rcheck'
* using R Under development (unstable) (2024-06-03 r86679 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'nichetools/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'nichetools' version '0.2.0'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Benjamin L. Hlina <benjamin.hlina@gmail.com>'

New submission

Possibly misspelled words in DESCRIPTION:
  NicheROVER (3:33)
  SIBER (3:48, 7:74, 9:36)
  nicheROVER (7:59, 9:21)

Reading CITATION file fails with
  4:59: unexpected symbol
3:   title    = "A new probabilistic method for quantifying n-dimensional ecological niches and niche overlap.",
4:   author   = c("Heidi K. Swanson", "Martin Lysy", Michael Power
                                                             ^
when package is not installed.

Found the following (possibly) invalid URLs:
  URL: https://cran.r-project.org/web/packages/SIBER/index.html
    From: man/extract_mu.Rd
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://cran.r-project.org/web/packages/nicheROVER/index.html
    From: man/extract_mu.Rd
          inst/doc/using-nichetools-with-the-package-nicheROVER.html
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://github.com/benjaminhlina/nichetool/actions/workflows/R-CMD-check.yaml (moved to https://github.com/benjaminhlina/nichetools/actions/workflows/R-CMD-check.yaml)
    From: README.md
    Status: 301
    Message: Moved Permanently
  The canonical URL of the CRAN page for a package is 
    https://CRAN.R-project.org/package=pkgname
  For content that is 'Moved Permanently', please change http to https,
  add trailing slashes, or replace the old by the new URL.
* 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 serialization versions ... OK
* checking whether package 'nichetools' 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 ... WARNING
Invalid citation information in 'inst/CITATION':
  Error in parse(con): 4:59: unexpected symbol
  3:   title    = "A new probabilistic method for quantifying n-dimensional ecological niches and niche overlap.",
  4:   author   = c("Heidi K. Swanson", "Martin Lysy", Michael Power
                                                               ^
* 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 whether startup messages can be suppressed ... 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 ... WARNING
extract_niche_size.Rd:25: Bad \link text
extract_sigma.Rd:48: Bad \link text
problems found in 'extract_niche_size.Rd', 'extract_sigma.Rd'
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... WARNING
Missing link or links in Rd file 'extract_sigma.Rd':
  'SIBER'

See section 'Cross-references' in the 'Writing R Extensions' manual.
* 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 ... [26s] OK
  Running 'testthat.R' [25s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [15s] OK
* checking PDF version of manual ... ERROR
Rd conversion errors:
Converting parsed Rd's to LaTeX Error : extract_niche_size.Rd:25: Bad \link text
* checking HTML version of manual ...