verbose      = 2
CodonFreq    = 2
ncatG        = 8
cleandata    = 0
NSsites      = 0
fix_omega    = 0
clock        = 0
seqfile      = algn
runmode      = 0
fix_kappa    = 0
fix_alpha    = 1
Small_Diff   = .5e-6
method       = 0
Malpha       = 0
aaDist       = 0
RateAncestor = 0
outfile      = fb.out
icode        = 0
alpha        = 0.0
seqtype      = 1
omega        = 0.4
getSE        = 0
noisy        = 0
Mgene        = 0
kappa        = 2
treefile     = tree
model        = 1
