CRAN Package Check Results for Maintainer ‘Liam J. Revell <liam.revell at umb.edu>’

Last updated on 2024-12-22 13:49:15 CET.

Package	NOTE	OK
learnPopGen		13
phytools	3	10

Package learnPopGen

Current CRAN status: OK: 13

Package phytools

Current CRAN status: NOTE: 3, OK: 10

Version: 2.3-0
Check: Rd cross-references
Result: NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: add.arrow.Rd: nodelabels add.random.Rd: plot.phylo anc.Bayes.Rd: ace anc.ML.Rd: ace anc.trend.Rd: ace ancr.Rd: nodelabels bd.Rd: birthdeath bind.tip.Rd: bind.tree bind.tree.simmap.Rd: bind.tree cladelabels.Rd: nodelabels cophylo.Rd: cophyloplot describe.simmap.Rd: all.equal.phylo di2multi.simmap.Rd: di2multi, multi2di drop.tip.contMap.Rd: drop.tip, keep.tip drop.tip.multiSimmap.Rd: drop.tip, keep.tip, drop.tip.multiPhylo drop.tip.simmap.Rd: drop.tip, keep.tip, extract.clade estDiversity.Rd: ace exhaustiveMP.Rd: phyDat, parsimony, optim.parsimony, pratchet export.as.xml.Rd: read.nexus fancyTree.Rd: drop.tip, plot.phylo fastAnc.Rd: ace, pic fastMRCA.Rd: getMRCA, mrca findMRCA.Rd: mrca, vcv.phylo, getMRCA fit.bd.Rd: birthdeath fitMk.Rd: ace fitPagel.Rd: ace force.ultrametric.Rd: nnls.tree, is.ultrametric getCladesofSize.Rd: extract.clade getDescendants.Rd: Descendants getSisters.Rd: Siblings labelnodes.Rd: nodelabels ladderize.simmap.Rd: ladderize lambda.transform.Rd: vcv.phylo likMlambda.Rd: vcv.phylo linklabels.Rd: nodelabels, tiplabels make.simmap.Rd: ace map.to.singleton.Rd: plot.phylo, collapse.singles, drop.tip midpoint.root.Rd: midpoint, root modified.Grafen.Rd: compute.brlen mrp.supertree.Rd: pratchet, optim.parsimony, prop.part multiC.Rd: vcv.phylo multiRF.Rd: prop.part nodelabels.cophylo.Rd: nodelabels, edgelabels, tiplabels optim.phylo.ls.Rd: nni pbtree.Rd: bind.tree pgls.Ives.Rd: gls phyl.resid.Rd: gls phyl.vcv.Rd: vcv.phylo phylo.to.map.Rd: map phylomorphospace3d.Rd: scatterplot3d plotBranchbyTrait.Rd: plot.phylo plotSimmap.Rd: nodelabels, plot.phylo plotThresh.Rd: plot.phylo plotTree.Rd: plot.phylo ratebystate.Rd: pic ratebytree.Rd: ginv, ace read.newick.Rd: read.nexus, read.tree, collapse.singles read.simmap.Rd: read.nexus, read.tree reorder.backbonePhylo.Rd: reorder.phylo reorderSimmap.Rd: reorder.phylo rep.phylo.Rd: c.phylo reroot.Rd: root rerootingMethod.Rd: ace resolveNode.Rd: multi2di rotateNodes.Rd: rotate starTree.Rd: stree treeSlice.Rd: extract.clade untangle.Rd: plot.phylo, reorder.phylo, read.tree vcvPhylo.Rd: vcv.phylo writeAncestors.Rd: ace, write.tree writeNexus.Rd: write.nexus Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64