R Under development (unstable) (2026-03-13 r89618 ucrt) -- "Unsuffered Consequences"
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
> 
> library(testthat)
> library(taxodist)
> 
> test_check("taxodist")

-- Lineage Comparison --

MRCA: Dinosauria at depth 3

Shared lineage (3 nodes):
  Biota
  Animalia
  Dinosauria

Tyrannosaurus only (2 nodes):
> Theropoda
> Tyrannosaurus

Triceratops only (2 nodes):
> Ornithischia
> Triceratops
x Could not retrieve lineage for Fakeosaurus
x Could not retrieve lineage for Fakeosaurus
x Could not retrieve lineage for Fakeosaurus
i Fetching 3 lineages...
v Lineages fetched.
i Using cached ID for Carnotaurus
i Searching Taxonomicon for Drosophila...
! Could not reach Taxonomicon for Drosophila
i Searching Taxonomicon for Drosophila...
! Could not reach Taxonomicon for Drosophila
i Using cached lineage for ID 99999
! Could not retrieve lineage for ID 00000
! Could not retrieve lineage for ID 99999
i Using cached lineage for ID 50841

-- Taxonomic Distance --

* Carnotaurus vs Triceratops
  Distance : 0.333333333333333
  MRCA : Dinosauria (depth 3)
  Depth A : 6
  Depth B : 5

-- Taxonomic Distance --

* Carnotaurus vs Triceratops
  Distance : 0.333333333333333
  MRCA : Dinosauria (depth 3)
  Depth A : 6
  Depth B : 5
x Could not retrieve one or both lineages

-- Lineage Comparison --

MRCA: NA at depth 0


Drosophila only (5 nodes):
> Biota
> Animalia
> Arthropoda
> Insecta
> Drosophila

Saccharomyces only (3 nodes):
> Fungi
> Ascomycota
> Saccharomyces

-- Lineage Comparison --

MRCA: Dinosauria at depth 3

Shared lineage (3 nodes):
  Biota
  Animalia
  Dinosauria

Dinosauria only (0 nodes):

Carnotaurus only (2 nodes):
> Theropoda
> Carnotaurus
i Searching Taxonomicon for Carnotaurus...
v Found Carnotaurus with ID 12345
i Searching Taxonomicon for Pterodactylus...
v Found Pterodactylus with ID 42042
i Searching Taxonomicon for Quercus...
! Quercus not found in Taxonomicon
[ FAIL 0 | WARN 0 | SKIP 26 | PASS 91 ]

══ Skipped tests (26) ══════════════════════════════════════════════════════════
• On CRAN (26): 'test-distance.R:604:3', 'test-distance.R:615:3',
  'test-distance.R:624:3', 'test-distance.R:633:3', 'test-distance.R:641:3',
  'test-distance.R:649:3', 'test-distance.R:655:3', 'test-distance.R:665:3',
  'test-distance.R:672:3', 'test-distance.R:680:3', 'test-distance.R:688:3',
  'test-distance.R:694:3', 'test-distance.R:700:3', 'test-distance.R:706:3',
  'test-distance.R:714:3', 'test-distance.R:721:3', 'test-distance.R:727:3',
  'test-distance.R:736:3', 'test-distance.R:746:3', 'test-distance.R:756:3',
  'test-distance.R:764:3', 'test-distance.R:770:3', 'test-distance.R:782:3',
  'test-distance.R:789:3', 'test-distance.R:795:3', 'test-distance.R:801:3'

[ FAIL 0 | WARN 0 | SKIP 26 | PASS 91 ]
> 
> proc.time()
   user  system elapsed 
   2.46    0.40    3.17