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

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: nodelabel.phylo
> ### Title: Blending information from taxonomies and trees
> ### Aliases: nodelabel.phylo lookup.phylo phylo.lookup phylo.clades
> ###   glomogram.phylo
> ### Keywords: data graphs manip
> 
> ### ** Examples
> 
> sal=get(data(caudata))
> print(head(sal$tax))
                             genus            subfamily family            
Andrias_davidianus           "Andrias"        ""        "Cryptobranchidae"
Andrias_japonicus            "Andrias"        ""        "Cryptobranchidae"
Cryptobranchus_alleganiensis "Cryptobranchus" ""        "Cryptobranchidae"
Batrachuperus_karlschmidti   "Batrachuperus"  ""        "Hynobiidae"      
Batrachuperus_taibaiensis    "Batrachuperus"  ""        "Hynobiidae"      
Batrachuperus_londongensis   "Batrachuperus"  ""        "Hynobiidae"      
                             suborder           
Andrias_davidianus           "Cryptobranchoidea"
Andrias_japonicus            "Cryptobranchoidea"
Cryptobranchus_alleganiensis "Cryptobranchoidea"
Batrachuperus_karlschmidti   "Cryptobranchoidea"
Batrachuperus_taibaiensis    "Cryptobranchoidea"
Batrachuperus_londongensis   "Cryptobranchoidea"
> 
> ## TREE from TABLE: phylo.lookup()
> tax=cbind(sal$tax[,c("subfamily", "family", "suborder")], order="Caudata")
> tphy=phylo.lookup(tax, ncores=2)
> print(tphy)

Phylogenetic tree with 618 tips and 19 internal nodes.

Tip labels:
	Batrachoseps_aridus, Batrachoseps_attenuatus, Batrachoseps_campi, Batrachoseps_diabolicus, Batrachoseps_gabrieli, Batrachoseps_gavilanensis, ...
Node labels:
	Caudata, Salamandroidea, Plethodontidae, Bolitoglossinae, Plethodontinae, Spelerpinae, ...

Rooted; no branch lengths.
> head(tphy$node.label)
[1] "Caudata"         "Salamandroidea"  "Plethodontidae"  "Bolitoglossinae"
[5] "Plethodontinae"  "Spelerpinae"    
> 
> ## TABLE from TREE: lookup.phylo()
> tax=sal$tax[,c("genus", "family")]
> cld=list(
+ 	Sirenoidea=c("Siren", "Pseudobranchus"), 
+ 	Salamandroidea=c("Ambystomatidae", "Plethodontidae"), 
+ 	Cryptobranchoidea=c("Hynobius_naevius", "Cryptobranchus_alleganiensis"),
+ 	CAUDATA=c("Sirenoidea","Salamandroidea","Cryptobranchoidea")
+ )
> lkp=lookup.phylo(sal$phy, taxonomy=tax, clades=cld, ncores=2)
Error in sendMaster(try(lapply(X = S, FUN = FUN, ...), silent = TRUE)) : 
  write error, closing pipe to the master
Calls: lookup.phylo ... unlist -> f -> <Anonymous> -> lapply -> FUN -> sendMaster
Warning in phylo.clades(clades, ncores = ncores) :
  The following not encountered:
	 Salamandroidea
	CAUDATA
Error in nd[xx - N] <- names(ss) : 
  only 0's may be mixed with negative subscripts
Calls: lookup.phylo -> phylo.clades
Execution halted