[INTERNAL] Yara: cleaned up obsolete CUDA stuff
[FIX] Yara: overloaded CSA Size<>
[TEST] Yara: updated reference files
[FIX] Yara: removed a debug warning
[FIX] Yara: oveloaded StringSetLimits<> to use 32 bit sizes for contig seqs and names
[TEST] Yara: updated reference files
[NOP] Yara: cleaned up includes
Merge pull request #446 from esiragusa/fix/apps/yara

Fix Yara tests