* using log directory 'd:/RCompile/CRANincoming/R-devel/TreeDist.Rcheck'
* using R Under development (unstable) (2023-08-17 r84984 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 12.2.0
    GNU Fortran (GCC) 12.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'TreeDist/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'TreeDist' version '2.6.3'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [13s] NOTE
Maintainer: 'Martin R. Smith <martin.smith@durham.ac.uk>'

Suggests or Enhances not in mainstream repositories:
  TreeDistData
Availability using Additional_repositories specification:
  TreeDistData   yes   https://ms609.github.io/packages/
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package suggested but not available for checking: 'TreeDistData'
* 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 'TreeDist' can be installed ... OK
* used C++ compiler: 'g++.exe (GCC) 12.2.0'
* checking C++ specification ... OK
  Not all R platforms support C++17
* 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 R 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 ... [21s] OK
* checking Rd files ... 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 line endings in C/C++/Fortran sources/headers ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... [10s] OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [20s] OK
  Running 'spelling.R'
  Running 'testthat.R' [19s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking re-building of vignette outputs ... [59s] ERROR
Error(s) in re-building vignettes:
--- re-building 'Generalized-RF.Rmd' using rmarkdown
--- finished re-building 'Generalized-RF.Rmd'

--- re-building 'Robinson-Foulds.Rmd' using rmarkdown
--- finished re-building 'Robinson-Foulds.Rmd'

--- re-building 'Using-TreeDist.Rmd' using rmarkdown
--- finished re-building 'Using-TreeDist.Rmd'

--- re-building 'compare-treesets.Rmd' using rmarkdown
--- finished re-building 'compare-treesets.Rmd'

--- re-building 'different-leaves.Rmd' using rmarkdown
--- finished re-building 'different-leaves.Rmd'

--- re-building 'information.Rmd' using rmarkdown
--- finished re-building 'information.Rmd'

--- re-building 'landscapes.Rmd' using rmarkdown
--- finished re-building 'landscapes.Rmd'

--- re-building 'treespace.Rmd' using rmarkdown
--- finished re-building 'treespace.Rmd'

--- re-building 'using-distances.Rmd' using rmarkdown

Quitting from lines 293-302 [unnamed-chunk-16] (using-distances.Rmd)
Error: processing vignette 'using-distances.Rmd' failed with diagnostics:
could not find function "TBR"
--- failed re-building 'using-distances.Rmd'

SUMMARY: processing the following file failed:
  'using-distances.Rmd'

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [24s] OK
* checking HTML version of manual ... OK
* DONE
Status: 1 ERROR, 2 NOTEs