Found the following significant warnings:
  Rd warning: AdditionTree.Rd:27: missing link ‘ImposeConstraint’
  Rd warning: AllSPR.Rd:11: missing link ‘phylo’
  Rd warning: AllSPR.Rd:14: missing link ‘phylo’
  Rd warning: AllSPR.Rd:16: missing link ‘phylo’
  Rd warning: CharacterLength.Rd:16: missing link ‘phylo’
  Rd warning: ConcordantInformation.Rd:16: missing link ‘phylo’
  Rd warning: Consistency.Rd:13: missing link ‘phylo’
  Rd warning: DoubleNNI.Rd:11: missing link ‘phylo’
  Rd warning: DoubleNNI.Rd:14: missing link ‘phylo’
  Rd warning: JackLabels.Rd:20: missing link ‘phylo’
  Rd warning: Jackknife.Rd:23: missing link ‘phylo’
  Rd warning: MaximizeParsimony.Rd:52: missing link ‘phylo’
  Rd warning: MaximizeParsimony.Rd:112: missing link ‘ImposeConstraint’
  Rd warning: MorphyTreeLength.Rd:26: missing link ‘RenumberTips’
  Rd warning: MorphyTreeLength.Rd:33: missing link ‘phylo’
  Rd warning: MorphyTreeLength.Rd:36: missing link ‘phylo’
  Rd warning: NNI.Rd:27: missing link ‘phylo’
  Rd warning: NNI.Rd:40: missing link ‘phylo’
  Rd warning: NNI.Rd:43: missing link ‘phylo’
  Rd warning: PlotCharacter.Rd:25: missing link ‘phylo’
  Rd warning: Ratchet.Rd:106: missing link ‘phylo’
  Rd warning: RearrangeEdges.Rd:22: missing link ‘phylo’
  Rd warning: RearrangeEdges.Rd:25: missing link ‘phylo’
  Rd warning: SPR.Rd:42: missing link ‘phylo’
  Rd warning: SPR.Rd:49: missing link ‘phylo’
  Rd warning: SPR.Rd:52: missing link ‘phylo’
  Rd warning: SPR.Rd:55: missing link ‘phylo’
  Rd warning: SiteConcordance.Rd:23: missing link ‘phylo’
  Rd warning: StopUnlessBifurcating.Rd:11: missing link ‘phylo’
  Rd warning: SuccessiveApproximations.Rd:25: missing link ‘phylo’
  Rd warning: TBR.Rd:40: missing link ‘phylo’
  Rd warning: TBR.Rd:54: missing link ‘phylo’
  Rd warning: TBR.Rd:57: missing link ‘phylo’
  Rd warning: TBRWarning.Rd:15: missing link ‘phylo’
  Rd warning: TBRWarning.Rd:18: missing link ‘phylo’
  Rd warning: TaxonInfluence.Rd:29: missing link ‘ClusteringInfoDistance’
  Rd warning: TaxonInfluence.Rd:35: missing link ‘write.nexus’
  Rd warning: TaxonInfluence.Rd:39: missing link ‘path_sanitize’
  Rd warning: TreeSearch.Rd:86: missing link ‘phylo’
  Rd warning: cSPR.Rd:10: missing link ‘phylo’
  Rd warning: dot-NonDuplicateRoot.Rd:11: missing link ‘phylo’
  Rd warning: dot-NonDuplicateRoot.Rd:14: missing link ‘phylo’
  Rd warning: dot-NonDuplicateRoot.Rd:17: missing link ‘phylo’
  Rd warning: inapplicable.datasets.Rd:149: missing link ‘read.nexus.data’
See ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/TreeSearch.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-14 (Debian 14.2.0-17) 14.2.0’
* used C++ compiler: ‘g++-14 (Debian 14.2.0-17) 14.2.0’