* using log directory ‘/srv/hornik/tmp/CRAN_pretest/holobiont.Rcheck’
* using R Under development (unstable) (2024-10-11 r87226)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 18.1.8 (9)
    Debian flang-new version 18.1.8 (9)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘holobiont/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘holobiont’ version ‘0.1.2’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [3s/5s] NOTE
Maintainer: ‘Sharon Bewick <sbewick@clemson.edu>’

New submission

Possibly misspelled words in DESCRIPTION:
  Bewick (15:942)
  Microbiome (3:8)
  UniFrac (15:218)
  microViz (15:784)
  microbiome (15:87)

Suggests or Enhances not in mainstream repositories:
  microViz
Availability using Additional_repositories specification:
  microViz   no   ?                                          
  ?           ?   https://david-barnett.r-universe.dev/builds
Additional repositories with no packages:
  https://david-barnett.r-universe.dev/builds

Found the following (possibly) invalid DOIs:
  DOI: https://doi.org/10.1101/2024.10.10.617603
    From: DESCRIPTION
    Status: 404
    Message: Not Found

The Description field contains
  <doi:https://doi.org/10.1101/2024.10.10.617603>.
Please enclose URLs in angle brackets (<...>).
The Description field contains
  <doi:https://doi.org/10.1101/2024.10.10.617603>.
Please write DOIs as <doi:prefix/suffix>.
* checking package namespace information ... OK
* checking package dependencies ... INFO
Package suggested but not available for checking: ‘microViz’
* 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 ‘holobiont’ can be installed ... [13s/13s] OK
* checking package directory ... OK
* checking for future file timestamps ... 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 ... [4s/4s] OK
* checking whether the package can be loaded with stated dependencies ... [4s/4s] OK
* checking whether the package can be unloaded cleanly ... [4s/4s] OK
* checking whether the namespace can be loaded with stated dependencies ... [4s/4s] OK
* checking whether the namespace can be unloaded cleanly ... [4s/4s] OK
* checking loading without being on the library search path ... [4s/4s] 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 ... [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 ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking examples ... [9s/9s] 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: 1 NOTE