Table 1 Average execution time (ms) per sequence, and speedup (Sp) for four groups of sequences when different performance tuning method is adopted gradually on CPU
From: CPU-GPU hybrid accelerating the Zuker algorithm for RNA secondary structure prediction applications
Opt. methods | A (L = 68) | B (L = 120) | C (L = 154) | D (L = 221) | ||||
|---|---|---|---|---|---|---|---|---|
Time | Sp. | Time | Sp. | Time | Sp. | Time | Sp. | |
None | 7.449 | 1 | 35.282 | 1 | 66.270 | 1 | 155.954 | 1 |
O2 | 3.930 | 1.90 | 18.631 | 1.89 | 34.795 | 1.90 | 82.266 | 1.90 |
SSE2 | 4.052 | 1.84 | 19.164 | 1.84 | 34.901 | 1.90 | 80.177 | 1.95 |
Multi-thread | 1.081 | 6.89 | 4.737 | 7.45 | 8.424 | 7.87 | 19.059 | 8.18 |