This approach is like trying to reach the top of a mountain range by only ever walking up hill. At each temperature, enough changes are considered that either 'maxaccept' new trees are accepted or 'maxpropose' changes are considered, whichever occurs sooner. If less than 'maxaccept' new trees are accepted in each of 'maxfail' successive temperatures, the system is considered frozen, and the run stops. It is possible to tell LVB that some biological character states are equivalent to others, in which case those states will be treated as if they were the same. Sometimes, only the first row of the matrix is given in full.
Possible values are the title of any row in the matrix,or none.
The number of times you wish to apply the search method. Each run starts with a different random tree, and produces different statistics and tree files.