[general]
attachmentspertaxon=50
searchreps=2
datatype = nucleotide
invariantsites = estimate
statefrequencies = estimate
numratecats = 4
ratehetmodel = gamma
streefname = stepwise
ratematrix = 6rate
numratecats=4
restart = 0
logevery = 10
outputeachbettertopology = 0
availablememory = 2560
writecheckpoints = 0
constraintfile = none
saveevery = 100
ofprefix = garli_run
enforcetermconditions = 1
genthreshfortopoterm = 20000
significanttopochange = 0.01
scorethreshforterm = 0.05
datafname = infile
outputphyliptree = 0
collapsebranches = 0
outputmostlyuselessfiles = 0
refinestart = 1
randseed = -1
[master]
holdoverpenalty = 0
stopgen = 214783646
stoptime = 214783646
resampleproportion = 1.0
selectionintensity = 0.5
nindivs = 4
holdover = 1
treerejectionthreshold = 50.0
gammashapemodel = 1000
meanbrlenmuts = 5
limsprrange= 6
uniqueswapbias = 0.1
distanceswapbias = 1.0
startoptprec = 0.5
minoptprec = 0.01
numberofprecreductions = 20
inferinternalstateprobs = 0
intervallength = 100
gammashapebrlen = 1000
bootstrapreps=1
modweight = 0.05
brlenweight = 0.2
topoweight = 1.0
randnniweight = 0.1
randsprweight = 0.3
limsprweight = 0.6
intervalstostore = 5