PAUP_XSEDE


infile_ = infile.nex

runtime_ = Float, (default=0.5) Max run time.
paupblock_= Switch, My data set has commands in a PAUP block (default=0)

These are valid only when there is no paup block   
set_multrees_= Excl, default=no; use multrees?
paup_branchalg_ = Excl,  Branch Swapping Algorithm (swap), tbr (default), spr, NNI</prompt>
setup4_ = Switch (default=1) Treat multistate taxa as uncertain