Output from BPP for analysis A01 (species tree estimation). The progress indicator is negative during the burnin, and BPP goes through four rounds of automatic step-length adjustments, aiming to achieve a near-optimal acceptance proportion of 30% for the parameter-moves (Yang and Rodríguez 2013). Sampling (in mcmc.txt) starts after the burn-in is over. At the end of the MCMC run, the sample is processed to calculate the posterior probabilities of the species trees (section A), which are further summarized to calculate the posterior for splits as well as the majority-rule consensus tree.