Soha-
> Invariant set S1 is identical to invariant set S2, even though traces T2 has more non-repeated tests than traces T1.
It is possible that the additional traces in T2 do not add any more information than was in T1.
Or, maybe any new invariants implied by the new traces are not statistically justified.
Please see Section 9.1.15 of the manual, which discusses why bigger traces may lead to fewer invariants or more invariants:
http://plse.cs.washington.edu/daikon/download/doc/daikon.html#Bigger-traces-cause-invariants-to-appearThat manual section doesn't explicitly say that the set of invariants might be identical, but that is also a possibility.
Are there specific invariants you expected to see? The manual gives some strategies for investigating why they did not appear.
If you are stymied, you can shore your traces with us and we'll try to help.
-Mike