.plot.eafdiff.side: no visible global function definition for ‘par’
.plot.eafdiff.side: no visible global function definition for ‘plot’
.plot.eafdiff.side: no visible global function definition for ‘axTicks’
.plot.eafdiff.side: no visible global function definition for ‘axis’
.plot.eafdiff.side: no visible global function definition for ‘mtext’
.plot.eafdiff.side: no visible global function definition for ‘polygon’
.plot.eafdiff.side: no visible global function definition for ‘points’
.plot.eafdiff.side: no visible global function definition for ‘lines’
.plot.eafdiff.side: no visible global function definition for ‘box’
compute.eaf: no visible global function definition for ‘aggregate’
compute.eafdiff: no visible global function definition for ‘aggregate’
compute.eafdiff.polygon: no visible global function definition for
  ‘aggregate’
eafdiffplot: no visible global function definition for ‘par’
eafdiffplot: no visible global function definition for ‘layout’
eafdiffplot: no visible global function definition for ‘legend’
eafplot.default: no visible global function definition for ‘par’
eafplot.default: no visible global function definition for ‘plot’
eafplot.default: no visible global function definition for ‘axTicks’
eafplot.default: no visible global function definition for ‘axis’
eafplot.default: no visible global function definition for ‘mtext’
eafplot.default: no visible global function definition for
  ‘colorRampPalette’
eafplot.default: no visible global function definition for ‘polygon’
eafplot.default: no visible global function definition for ‘points’
eafplot.default: no visible global function definition for ‘abline’
eafplot.default: no visible global function definition for ‘legend’
eafplot.default: no visible global function definition for ‘box’
eafplot.formula: no visible global function definition for ‘par’
Undefined global functions or variables:
  abline aggregate axTicks axis box colorRampPalette layout legend
  lines mtext par plot points polygon
Consider adding
  importFrom("grDevices", "colorRampPalette")
  importFrom("graphics", "abline", "axTicks", "axis", "box", "layout",
             "legend", "lines", "mtext", "par", "plot", "points",
             "polygon")
  importFrom("stats", "aggregate")
to your NAMESPACE file.