Benchmarks for CNS 1.1 test suite
A comparison of the times for the standard CNS input files from CNS 1.1
Opteron data from station05 over NFS at IRIC
Data for SGI, 1.8 GHz Athlon and 2.8 GHz Xeon taken from NIH site
All jobs were ran on 1 CPU
Click here for some graphical representations
Bottom line: Opteron outperforms other CPU's. Sometimes twice as fast as the next fastest CPU, e.g nmr_calc/ensemble_cv_1.inp
Times given in seconds
Test suite program |
SGI 600 MHz |
|
1.8 GHz Athlon |
2.8 GHz Xeon |
---|---|---|---|---|
general/alternate.inp |
0.4 |
0.06 |
0.1 |
0.1 |
general/bfactor_plot.inp |
0.4 |
0.14 |
0.4 |
0.3 |
general/buried_surface.inp |
5.5 |
2.34 |
4.9 |
4.4 |
general/cis_peptide.inp |
30.3 |
11.48 |
64.7 |
55.6 |
general/cns_to_o.inp |
1.0 |
0.38 |
0.7 |
0.7 |
general/contact.inp |
105.6 |
39.17 |
219.6 |
189.4 |
general/delete_atoms.inp |
0.3 |
0.05 |
0.1 |
0.1 |
general/delta_phipsi.inp |
2.7 |
0.94 |
4.9 |
4.0 |
general/difference_distance.inp |
25.3 |
8 |
27.0 |
22.2 |
general/fractional_transform.inp |
0.7 |
0.28 |
0.7 |
0.6 |
general/generate.inp |
2.5 |
0.89 |
3.9 |
3.3 |
general/generate_easy.inp |
42.8 |
15.61 |
84.3 |
71.3 |
general/generate_seq.inp |
1.0 |
0.3 |
0.9 |
0.8 |
general/get_ncs_matrices.inp |
0.6 |
0.22 |
0.4 |
0.3 |
general/hydrogen_bonds.inp |
20.4 |
7.63 |
39.2 |
33.1 |
general/merge_structures.inp |
1.5 |
0.42 |
1.4 |
1.1 |
general/model_anneal.inp |
38.4 |
17.69 |
29.5 |
24.2 |
general/model_mask.inp |
1.0 |
0.41 |
0.8 |
0.8 |
general/model_minimize.inp |
8.5 |
3.84 |
6.6 |
5.4 |
general/model_rigid.inp |
2.0 |
0.86 |
1.8 |
1.4 |
general/molecule_extent.inp |
0.7 |
0.27 |
1.1 |
0.9 |
general/mtf_to_psf.inp |
0.1 |
0.01 |
0.0 |
0.0 |
general/neighbours.inp |
10.6 |
3.9 |
20.1 |
17.5 |
general/psf_to_mtf.inp |
0.3 |
0.03 |
0.1 |
0.0 |
general/ramachandran.inp |
2.3 |
0.82 |
4.5 |
3.7 |
general/realspace_transform.inp |
1.3 |
0.51 |
1.1 |
1.0 |
general/rename_segid.inp |
2.1 |
0.32 |
0.7 |
0.6 |
general/rms_fit.inp |
0.1 |
0.04 |
0.1 |
0.0 |
general/rmsd.inp |
0.5 |
0.15 |
0.5 |
0.4 |
general/shift_molecules.inp |
92.1 |
34.38 |
162.0 |
139.7 |
general/split_structure.inp |
7.2 |
1.98 |
2.8 |
2.4 |
general/surface_plot.inp |
0.7 |
0.25 |
0.8 |
0.6 |
nmr_calc/accept.inp |
411.0 |
181.60 |
275.6 |
381.7 |
nmr_calc/anneal.inp |
3972.3 |
1520.820 |
2563.7 |
2216.4 |
nmr_calc/anneal_1.inp |
1881.7 |
635.28 |
1208.4 |
982.9 |
nmr_calc/anneal_2.inp |
2765.2 |
1032.07 |
2004.5 |
1482.3 |
nmr_calc/anneal_3.inp |
1110.3 |
450.29 |
870.0 |
686.0 |
nmr_calc/anneal_cv.inp |
10758.3 |
3911.98 |
7117.1 |
5429.7 |
nmr_calc/dg_sa.inp |
1886.7 |
627.41 |
1259.0 |
947.5 |
nmr_calc/dg_sa_1.inp |
334.7 |
171.42 |
680.2 |
333.0 |
nmr_calc/ensemble.inp |
1289.0 |
457.7 |
917.6 |
818.8 |
nmr_calc/ensemble_1.inp |
860.2 |
267.75 |
548.5 |
550.2 |
nmr_calc/ensemble_cv.inp |
3827.9 |
1365.79 |
2783.8 |
2475.1 |
nmr_calc/ensemble_cv_1.inp |
8660.1 |
2513.48 |
5309.9 |
5512.9 |
nmr_calc/generate_extended.inp |
115.8 |
19.01 |
37.6 |
49.3 |
nmr_calc/generate_extended_1.inp |
71.4 |
21.68 |
25.1 |
20.5 |
nmr_calc/pmrefine.inp |
875.9 |
441.89 |
770.0 |
809.2 |
nmr_calc/pmrefine_1.inp |
598.3 |
285.54 |
444.6 |
474.9 |
nmr_calc/rmsd_pm.inp |
8.2 |
2.990 |
12.2 |
10.6 |
nmr_calc/rmsd_pm_1.inp |
8.5 |
3.17 |
11.7 |
10.3 |
xtal_mr/cross_rotation.inp |
1737.6 |
871.04 |
1434.2 |
1643.0 |
xtal_mr/cross_rotation_1.inp |
541.0 |
175.13 |
544.3 |
393.1 |
xtal_mr/self_rotation.inp |
65.5 |
21.2 |
67.2 |
50.6 |
xtal_mr/translation.inp |
224.8 |
106.31 |
219.9 |
234.6 |
xtal_mr/translation_1.inp |
971.4 |
493.4 |
868.2 |
983.3 |
xtal_mr/translation_2.inp |
202.7 |
94.23 |
206.0 |
212.2 |
xtal_patterson/heavy_search.inp |
413.3 |
|
283.6 |
364.3 |
xtal_patterson/patterson_map.inp |
17.6 |
|
18.7 |
16.7 |
xtal_patterson/patterson_map_1.inp |
20.5 |
|
20.7 |
18.5 |
xtal_patterson/patterson_refine.inp |
22.7 |
|
20.7 |
20.6 |
xtal_patterson/predict_patterson.inp |
1.7 |
|
1.7 |
1.6 |
xtal_phase/cns_to_sdb.inp |
0.1 |
|
0.0 |
0.0 |
xtal_phase/delete_sites.inp |
0.1 |
|
0.1 |
0.1 |
xtal_phase/density_modify.inp |
36.2 |
|
29.6 |
26.8 |
xtal_phase/density_modify_1.inp |
430.4 |
|
319.4 |
250.2 |
xtal_phase/flip_sites.inp |
0.7 |
|
0.8 |
0.7 |
xtal_phase/generate_sdb.inp |
0.1 |
|
0.1 |
0.1 |
xtal_phase/ir_phase.inp |
97.1 |
|
68.2 |
81.8 |
xtal_phase/ir_phase_1.inp |
334.2 |
|
375.6 |
290.1 |
xtal_phase/ir_phase_2.inp |
175.9 |
|
120.6 |
151.8 |
xtal_phase/ir_phase_3.inp |
312.6 |
|
365.1 |
281.4 |
xtal_phase/mad_bijvoet_ave.inp |
15.8 |
|
16.7 |
15.0 |
xtal_phase/mad_phase.inp |
2331.5 |
|
1305.0 |
1814.2 |
xtal_phase/mad_phase_1.inp |
227.0 |
|
155.6 |
199.7 |
xtal_phase/mad_phase_2.inp |
207.7 |
|
145.2 |
182.8 |
xtal_phase/optimize_ncsop.inp |
380.5 |
|
243.6 |
176.0 |
xtal_phase/pdb_to_sdb.inp |
0.1 |
|
0.1 |
0.1 |
xtal_phase/sdb_manipulate.inp |
0.5 |
|
0.6 |
0.5 |
xtal_phase/sdb_split.inp |
0.4 |
|
0.5 |
0.3 |
xtal_phase/sdb_to_pdb.inp |
0.2 |
|
0.2 |
0.2 |
xtal_phase/sdb_to_sdb.inp |
0.2 |
|
0.2 |
0.2 |
xtal_phase/shift_sites.inp |
3.6 |
|
4.0 |
3.5 |
xtal_phase/solvent_mask.inp |
6.8 |
|
5.6 |
4.8 |
xtal_phase/solvent_mask_1.inp |
6.8 |
|
6.0 |
5.0 |
xtal_refine/anneal.inp |
177.6 |
|
155.3 |
160.1 |
xtal_refine/anneal_1.inp |
102.0 |
|
102.4 |
80.5 |
xtal_refine/anneal_2.inp |
27.6 |
|
25.5 |
24.1 |
xtal_refine/bdomain.inp |
10.3 |
|
8.6 |
9.9 |
xtal_refine/bgroup.inp |
11.3 |
|
9.3 |
10.7 |
xtal_refine/bindividual.inp |
11.1 |
|
9.2 |
10.5 |
xtal_refine/composite_omit_map.inp |
1543.5 |
|
1423.7 |
1430.4 |
xtal_refine/fo-fo_map.inp |
5.8 |
|
5.2 |
4.8 |
xtal_refine/fp_fdp_group.inp |
4.4 |
|
3.8 |
4.1 |
xtal_refine/map_cover.inp |
2.6 |
|
2.6 |
2.3 |
xtal_refine/minimize.inp |
60.0 |
|
49.1 |
58.8 |
xtal_refine/model_map.inp |
4.7 |
|
4.0 |
3.4 |
xtal_refine/model_map_1.inp |
4.4 |
|
3.9 |
3.3 |
xtal_refine/model_stats.inp |
18.6 |
|
24.3 |
21.9 |
xtal_refine/ncs_average_map.inp |
245.3 |
|
218.7 |
199.0 |
xtal_refine/ncs_average_map_1.inp |
131.7 |
|
118.0 |
100.8 |
xtal_refine/optimize_average.inp |
2.1 |
|
2.0 |
1.7 |
xtal_refine/optimize_rweight.inp |
43.0 |
|
34.4 |
41.0 |
xtal_refine/optimize_wa.inp |
641.6 |
|
552.4 |
594.9 |
xtal_refine/qgroup.inp |
4.5 |
|
3.9 |
4.1 |
xtal_refine/qindividual.inp |
10.6 |
|
8.7 |
10.0 |
xtal_refine/refine.inp |
52.5 |
|
50.4 |
46.3 |
xtal_refine/rigid.inp |
8.2 |
|
6.9 |
7.8 |
xtal_refine/sa_omit_map.inp |
49.8 |
|
44.3 |
43.7 |
xtal_refine/shift_solvent.inp |
11.8 |
|
13.2 |
11.0 |
xtal_refine/water_delete.inp |
5.8 |
|
4.5 |
4.0 |
xtal_refine/water_pick.inp |
49.7 |
|
37.0 |
43.1 |
xtal_twin/anneal_twin.inp |
3252.3 |
|
2855.5 |
2414.2 |
xtal_twin/bdomain_twin.inp |
148.7 |
|
130.8 |
112.1 |
xtal_twin/bgroup_twin.inp |
152.7 |
|
133.6 |
116.9 |
xtal_twin/bindividual_twin.inp |
153.0 |
|
136.0 |
117.6 |
xtal_twin/detect_twinning.inp |
10.2 |
|
6.8 |
5.8 |
xtal_twin/detwin_partial.inp |
9.3 |
|
6.3 |
5.6 |
xtal_twin/detwin_perfect.inp |
20.7 |
|
16.5 |
14.0 |
xtal_twin/make_cv_twin.inp |
4.5 |
|
3.8 |
3.4 |
xtal_twin/minimize_twin.inp |
921.6 |
|
822.9 |
703.3 |
xtal_twin/model_map_twin.inp |
57.9 |
|
41.1 |
32.8 |
xtal_twin/model_stats_twin.inp |
109.0 |
|
134.6 |
119.0 |
xtal_twin/rigid_twin.inp |
109.0 |
|
97.1 |
84.2 |
xtal_twin/twin_fraction.inp |
16.7 |
|
13.9 |
12.0 |
xtal_twin/water_pick_twin.inp |
626.6 |
|
580.4 |
483.3 |
xtal_util/analyse.inp |
53.2 |
|
40.9 |
35.0 |
xtal_util/analyse_1.inp |
15.4 |
|
12.2 |
10.7 |
xtal_util/average_friedels.inp |
12.7 |
|
12.9 |
11.7 |
xtal_util/average_map.inp |
9.5 |
|
6.7 |
5.1 |
xtal_util/combine.inp |
5.5 |
|
5.8 |
5.2 |
xtal_util/flip_friedels.inp |
17.4 |
|
17.3 |
15.5 |
xtal_util/fourier_map.inp |
28.7 |
|
30.9 |
27.9 |
xtal_util/fourier_map_1.inp |
38.3 |
|
36.5 |
34.1 |
xtal_util/hlcoeff_blur.inp |
2.1 |
|
2.1 |
2.0 |
xtal_util/make_cv.inp |
1.3 |
|
1.3 |
1.2 |
xtal_util/make_hlcoeff.inp |
2.1 |
|
2.1 |
2.0 |
xtal_util/manipulate.inp |
13.6 |
|
13.3 |
11.9 |
xtal_util/manipulate_1.inp |
15.7 |
|
14.1 |
12.7 |
xtal_util/mask_map.inp |
3.6 |
|
2.8 |
2.3 |
xtal_util/matthews_coef.inp |
0.5 |
|
0.5 |
0.5 |
xtal_util/merge.inp |
23.0 |
|
21.6 |
19.2 |
xtal_util/merge_1.inp |
23.0 |
|
21.7 |
19.2 |
xtal_util/merge_2.inp |
13.5 |
|
13.5 |
12.0 |
xtal_util/model_fcalc.inp |
1.1 |
|
0.9 |
0.8 |
xtal_util/model_phase.inp |
2.6 |
|
2.3 |
2.0 |
xtal_util/scale.inp |
25.8 |
|
21.9 |
21.0 |
xtal_util/transform_map.inp |
5.9 |
|
4.0 |
3.0 |