Running examples in ‘motmot-Ex.R’ failed
The error most likely occurred in:

> ### Name: ML.RatePhylo
> ### Title: Maximum likelihood rate estimation for traits and phylogenies
> ### Aliases: ML.RatePhylo
> 
> ### ** Examples
> 
> ## Read in phylogeny and data from Thomas et al. (2009)
> data(anolis.tree)
> data(anolis.data)
> ## Convert data to class rateData with a rateMatrix object as input
> anolis.rateMatrix <- as.rateMatrix(phy=anolis.tree, x="geo_ecomorph",
+ data=anolis.data)
Dropping species due to mismatch between tree and data: 
Warning in drop.tip(phy, nmch[[1]]) :
  drop all tips of the tree: returning NULL
Dropped tips from tree:  A_acutus A_ahli A_alayoni A_alfaroi A_aliniger A_allisoni A_allogus A_altae A_altitudi A_alumina A_alutaceu A_angustic A_annecten A_aquaticu A_argenteo A_argillac A_armouri A_auratus A_bahoruco A_baleatus A_baracoae A_barahona A_barbatus A_barbouri A_bartschi A_bimacula A_biporcat A_bitectus A_bremeri A_breslini A_breviros A_brunnneu A_capito A_caroline A_carpente A_caudalis A_centrali A_chamaele A_chlorocy A_christop A_clivicol A_coelesti A_confusus A_conspers A_cooki A_crassulu A_cristate A_cupeyale A_cupreus A_cuvieri A_cyanople A_cybotes A_darlingt A_desechen A_distichu A_dolichoc A_equestri A_ernestwi A_etheridg A_eugenegr A_evermann A_ferreus A_fowleri A_fuscoaur A_garmani A_garridoi A_gingivin A_grahami A_guafe A_guamuhay A_guazuma A_gundlach A_haetianu A_henderso A_homolech A_humilis A_imias A_inexpect A_insolitu A_intermed A_isthmicu A_jubar A_krugi A_laeviven A_leachi A_lemurinu A_limifron A_lineatop A_lionotus A_lividus A_longicep A_longitib A_loveridg A_loysiana A_lucius A_luteogul A_macilent A_marcanoi A_marmorat A_marron A_maynardi A_meridion A_mestrei A_monensis A_monticol A_nebuloid A_nitens A_noblei A_nubilus A_occultus A_oculatus A_olssoni A_onca A_opalinus A_ophiolep A_oporinus A_ortonii A_oscellos A_oxylophu A_pachypus A_pandoens A_paternus A_placidus A_poecilop A_pogus A_polylepi A_polyrhac A_poncensi A_porcatus A_porcus A_pulchell A_pumilis A_purpurgu A_quadrioc A_quercoru A_recondit A_rejectus A_ricordii A_rubribar A_sabanus A_sagrei A_schwartz A_scriptus A_semiline A_sericeus A_sheplani A_shrevei A_singular A_smallwoo A_smaragdi A_sminthus A_strahmi A_stratulu A_trachyde A_tropidog A_tropidon A_uniformi A_valencie A_vanidicu A_vermicul A_wattsi A_websteri A_whiteman A_woodi A_zeus 
Dropped rows from data:  Female_SVL Island_type Male_SVL Species ecomorph geo_ecomorph 

Tree has no node labels. Reconstructing using discrete equal rates model with ace. 
You are strongly advised to consider whether this model is suitable for your data. 
Error in ace(xanc, phy, type = "discrete", CI = TRUE) : 
  object "phy" is not of class "phylo"
Calls: as.rateMatrix -> ace
Execution halted