trace_bb2 is run at the command prompt.
The program reads MATCH.DAT, which contains the size of the matrix and the actual matrix, e.g. a 4 x 4 matrix might read
4
2 4 7 3
4 5 8 4
7 4 6 2
9 2 5 3
Therefore, copy your matrix into the file
Results of the program will be stored in a file, MATCH.OUT
As it is written, the program can handle a matrix up to size 20 x 20. However, we note that smaller p-values allow for larger matrices to be run in a reasonable amount of time. that is, only run larger matrices if you are confident that your p-value will be small.