Write a batch file that will start several text compares automatically
The example code in the following .bat file is hard coded to do three specific pairs of files, but with a little imagination you could add variables and a loop so that this will work for n number of files.
The gist of the process is:
Write a script for Beyond Compare that will run a Beyond Compare session.
Write a single batch/shell script that repeatedly calls the script you wrote in (1)
Give a command in the terminal to start (2)
To make your Beyond Compare script, find one in Scooter Software's list of examples and then adapt it with Scooter's syntax guide. Wherever convenient, instead of fixed paths use %1, %2, et al as variables for arguments that can be entered later at the command-line.
My script here just compares one text file to another (%1 vs %2) and outputs the result to a location (%3).