[general] datafname = DATAFILE ofprefix = OUTPUT_PREFIX streefname = stepwise attachmentspertaxon = 10 constraintfile = none searchreps = 2 outgroup = 1 outputeachbettertopology = 1 outputcurrentbesttree = 1 enforcetermconditions = 1 genthreshfortopoterm = 5000 scorethreshforterm = 0.05 significanttopochange = 0.01 writecheckpoints = 0 restart = 0 datatype = dna ratematrix = 6rate statefrequencies = estimate ratehetmodel = gamma numratecats = 4 invariantsites = estimate randseed = -1 availablememory = 512 logevery = 10 saveevery = 100 refinestart = 1 outputphyliptree = 0 outputmostlyuselessfiles = 0 collapsebranches = 1 [master] bootstrapreps = 0 nindivs = 4 holdover = 1 selectionintensity = .5 holdoverpenalty = 0 stopgen = 5000000 stoptime = 5000000 startoptprec = .5 minoptprec = .01 numberofprecreductions = 2 treerejectionthreshold = 20.0 topoweight = 1.0 modweight = .05 brlenweight = 0.2 randnniweight = 0.1 randsprweight = 0.3 limsprweight = 0.6 intervallength = 100 intervalstostore = 5 limsprrange = 6 meanbrlenmuts = 5 gammashapebrlen = 1000 gammashapemodel = 1000 uniqueswapbias = 0.1 distanceswapbias = 1.0 inferinternalstateprobs = 0