add.transparency: no visible global function definition for ‘col2rgb’
add.transparency: no visible global function definition for ‘rgb’
as.phylocom: no visible global function definition for ‘write.table’
as.picante: no visible global function definition for ‘write.table’
as.spacodi: no visible global function definition for ‘write.table’
cophen: no visible global function definition for ‘Ntip’
get.descendants.of.node: no visible global function definition for
  ‘Ntip’
phy.deresolve: no visible global function definition for
  ‘branching.times’
phy.deresolve: no visible global function definition for ‘Ntip’
phy.dotplot: no visible global function definition for ‘par’
phy.dotplot: no visible global function definition for ‘pdf’
phy.dotplot: no visible global function definition for ‘layout’
phy.dotplot: no visible global function definition for ‘plot’
phy.dotplot: no visible global function definition for ‘tiplabels’
phy.dotplot: no visible global function definition for ‘legend’
phy.dotplot: no visible global function definition for ‘dev.off’
phy.dotplot: no visible global function definition for ‘dev.new’
phy.nodetimes: no visible global function definition for ‘Ntip’
phy.nodetimes: no visible global function definition for
  ‘branching.times’
reorderspacodiobj: no visible global function definition for ‘drop.tip’
resamp.1a: no visible global function definition for ‘runif’
resamp.3t: no visible global function definition for ‘runif’
resamp.phy: no visible global function definition for ‘Ntip’
resamp.phy: no visible global function definition for ‘branching.times’
spacodi.all.nodes: no visible global function definition for ‘subtrees’
spacodi.all.nodes: no visible global function definition for
  ‘branching.times’
spacodi.calc: no visible global function definition for ‘dist’
spacodi.calc : <anonymous>: no visible global function definition for
  ‘dist’
spacodi.exp.nodes: no visible global function definition for ‘subtrees’
spacodi.permutplot: no visible global function definition for ‘pdf’
spacodi.permutplot: no visible global function definition for ‘plot’
spacodi.permutplot: no visible global function definition for ‘points’
spacodi.permutplot: no visible global function definition for ‘lines’
spacodi.permutplot: no visible global function definition for
  ‘smooth.spline’
spacodi.permutplot: no visible global function definition for ‘legend’
spacodi.permutplot: no visible global function definition for ‘dev.off’
spacodi.treeplot: no visible global function definition for ‘pdf’
spacodi.treeplot: no visible global function definition for
  ‘diverge_hcl’
spacodi.treeplot: no visible global function definition for ‘plot’
spacodi.treeplot: no visible global function definition for
  ‘nodelabels’
spacodi.treeplot: no visible global function definition for ‘legend’
spacodi.treeplot: no visible global function definition for ‘title’
spacodi.treeplot: no visible global function definition for ‘dev.off’
textxy: no visible global function definition for ‘text’
write.spacodi.data: no visible global function definition for
  ‘write.table’
Undefined global functions or variables:
  Ntip branching.times col2rgb dev.new dev.off dist diverge_hcl
  drop.tip layout legend lines nodelabels par pdf plot points rgb runif
  smooth.spline subtrees text tiplabels title write.table
Consider adding
  importFrom("grDevices", "col2rgb", "dev.new", "dev.off", "pdf", "rgb")
  importFrom("graphics", "layout", "legend", "lines", "par", "plot",
             "points", "text", "title")
  importFrom("stats", "dist", "runif", "smooth.spline")
  importFrom("utils", "write.table")
to your NAMESPACE file.