Found the following significant warnings:
  Rd warning: abouheif.Rd:19: missing link ‘phylo4d-class’
  Rd warning: abouheif.Rd:59: missing link ‘phylo4d-class’
  Rd warning: adephylo-package.Rd:14: missing link ‘phylo4d-class’
  Rd warning: adephylo-package.Rd:17: missing link ‘phylo4-class’
  Rd warning: bullseye.Rd:29: missing link ‘phylo4-class’
  Rd warning: bullseye.Rd:30: missing link ‘phylo4d-class’
  Rd warning: bullseye.Rd:75: missing link ‘phylo4d-class’
  Rd warning: distRoot.Rd:15: missing link ‘phylo4-class’
  Rd warning: distRoot.Rd:15: missing link ‘phylo4d-class’
  Rd warning: distTips.Rd:16: missing link ‘phylo4-class’
  Rd warning: distTips.Rd:16: missing link ‘phylo4d-class’
  Rd warning: listDD.Rd:23: missing link ‘phylo4-class’
  Rd warning: listDD.Rd:23: missing link ‘phylo4d-class’
  Rd warning: listDD.Rd:11: missing link ‘phylo4-class’
  Rd warning: listDD.Rd:11: missing link ‘phylo4d-class’
  Rd warning: listTips.Rd:19: missing link ‘phylo4-class’
  Rd warning: listTips.Rd:19: missing link ‘phylo4d-class’
  Rd warning: listTips.Rd:11: missing link ‘phylo4-class’
  Rd warning: listTips.Rd:11: missing link ‘phylo4d-class’
  Rd warning: miscUtils.Rd:26: missing link ‘phylo4-class’
  Rd warning: miscUtils.Rd:10: missing link ‘phylo4-class’
  Rd warning: orthobasis.Rd:19: missing link ‘phylo4-class’
  Rd warning: orthobasis.Rd:19: missing link ‘phylo4d-class’
  Rd warning: orthogram.Rd:27: missing link ‘phylo4-class’
  Rd warning: orthogram.Rd:27: missing link ‘phylo4d-class’
  Rd warning: ppca.Rd:37: missing link ‘phylo4d-class’
  Rd warning: ppca.Rd:97: missing link ‘phylo4-class’
  Rd warning: proxTips.Rd:21: missing link ‘phylo4-class’
  Rd warning: proxTips.Rd:21: missing link ‘phylo4d-class’
  Rd warning: sp.tips.Rd:37: missing link ‘phylo4-class’
  Rd warning: sp.tips.Rd:38: missing link ‘phylo4d-class’
  Rd warning: sp.tips.Rd:11: missing link ‘phylo4-class’
  Rd warning: sp.tips.Rd:11: missing link ‘phylo4d-class’
  Rd warning: table.phylo4d.Rd:100: missing link ‘phylo4d-class’
  Rd warning: table.phylo4d.Rd:34: missing link ‘phylo4d-class’
  Rd warning: table.phylo4d.Rd:115: missing link ‘phylo4d-class’
  Rd warning: table.phylo4d.Rd:160: missing link ‘phylo4d-class’
  Rd warning: treePart.Rd:11: missing link ‘phylo4-class’
  Rd warning: treePart.Rd:11: missing link ‘phylo4d-class’
See ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/adephylo.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-14 (Debian 14.2.0-17) 14.2.0’