Note that no space is allowed between -r and the number of replications. If you do not include -r option, the bootstrap test will not be performed. Bootstrapping will be done with loci as units. The number after -s is the seed number for random number generator. Any integer except zero can be used.
Any positive integer is converted to a negative integer.
The program will run, check the input file, and report the data specifications in the input file. The screen will show all the files including TRE files. You can make branch swapping according to your desire. The tree in graphic mode will appear on the screen. If your computer is connected with printer, you will get printout of the tree.