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refactor: Make MSM builder more explicit (#6110)
After trying to understand the MSM builder part of the ECCVM builder, I did a refactor for clarity. This is almost entirely naming (e.g we had sometimes 4+ indices `i, j, k, m, idx` in deeply nested loops that I gave more explicit names) and comments. I also made the function that computes the trace rows return a table rather than to mutate one since there was no real reason to take the latter pattern.
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