Command line: /home/mpnelsen/bamm/build/bamm -c bamm_controlfile_25m.10nov2016_medusa.txt Git commit id: NA Random seed: 1485113254 Start time: Sun Jan 22 13:27:34 2017 Current parameter settings: acceptanceInfoFileName acceptance_info.txt acceptanceResetFreq 1000 alwaysRecomputeE0 0 autotune 0 branchRatesWriteFreq 0 chainSwapFileName chain_swap_medusa.txt checkUltrametric 1 combineExtinctionAtNodes if_different conditionOnSurvival -1 deltaT 0.01 eventDataInfile event_data_in_medusa.txt eventDataOutfile event_data_medusa.txt eventDataWriteFreq 5000 expectedNumberOfShifts 50.0 extinctionProbMax 0.9999 fastSimulatePriorExperimental 0 fastSimulatePrior_BurnIn 0.05 fastSimulatePrior_Generations 5000000 fastSimulatePrior_SampleFreq 50 globalSamplingFraction 1.0 initialNumberEvents 0 initializeModel 1 lambdaInit0 0.032 lambdaInitPrior 3.11816219625153 lambdaInitRootPrior -1.0 lambdaIsTimeVariablePrior 0 lambdaOutfile lambda_rates.txt lambdaShift0 0 lambdaShiftPrior 0.00840411309503483 lambdaShiftRootPrior -1.0 loadEventData 0 localGlobalMoveRatio 10.0 maxNumberEvents 5000 mcmcOutfile mcmc_out_medusa.txt mcmcWriteFreq 5000 minCladeSizeForShift 1 modeltype speciationextinction muInit0 0.005 muInitPrior 3.11816219625153 muInitRootPrior -1.0 muOutfile mu_rates.txt muShift0 0.0 muShiftPrior 1.0 muShiftRootPrior -1.0 numberOccurrences 0 numberOfChains 4 numberOfGenerations 25000000 observationTime -1 outName outputAcceptanceInfo 0 overwrite 0 poissonRatePrior 0.02 preservationRateInit 0 preservationRatePrior 1.0 printFreq 5000 priorOutputFileName prior_probs.txt priorSim_IntervalGenerations 5000 runInfoFilename run_info_medusa.txt runMCMC 1 sampleFromPriorOnly 0 sampleProbsFilename for.bamm.w.global.10nov2016.txt seed -1 segLength 0.02 simulatePriorShifts 1 swapPeriod 1000 treefile ML_TREE_treepl_185_outsdroppeds.ladderized.increasing.tre updateEventLocationScale 0.05 updateEventRateScale 4.0 updateLambdaInitScale 2.0 updateLambdaShiftScale 0.1 updateMuInitScale 2.0 updateMuShiftScale 0.0 updatePreservationRateScale 1.0 updateRateEventNumber 0.1 updateRateEventNumberForBranch 0.0 updateRateEventPosition 1 updateRateEventRate 1 updateRateLambda0 1 updateRateLambdaShift 0 updateRateLambdaTimeMode 0 updateRateMu0 1 updateRateMuShift 0.0 updateRatePreservationRate -1 useGlobalSamplingProbability 0 validateEventConfiguration 0 writeMeanBranchLengthTrees 0 End time: Mon Jan 23 16:44:16 2017