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Table 3 Compression execution time

From: Compressing DNA sequence databases with coil

      coil
Dataset bz2 nrdb+ bz2 7z PPMdi find_edges encode tar+bz other total
ems1 5.6 7.7 43.3 5.6 3.5 9.3 1.2 10.8 24.8
  5.5 9.2 48.2 4.7 3.6 8.1 1.0 10.4 23.1
  5.7 10.2 43.5 4.3 3.6 8.2 1.2 12.5 25.5
ems2 10.3 15.1 96.5 9.9 9.5 20.0 1.0 19.1 49.5
  10.3 17.7 101.4 8.5 9.7 20.2 1.0 19.0 49.8
  10.1 16.8 95.6 8.3 9.7 20.3 1.1 20.8 51.9
ems3 15.2 22.6 154.8 14.7 17.0 36.5 1.9 27.7 83.1
  16.7 24.6 162.9 12.7 17.3 35.4 2.2 28.0 82.9
  15.4 22.4 154.2 12.8 17.3 34.5 3.1 29.2 84.2
ems4 20.3 32.0 216.5 20.0 25.8 50.6 3.6 34.3 114.3
  20.5 33.4 221.1 17.4 26.7 50.3 3.0 37.1 117.1
  20.0 31.1 215.0 17.0 26.0 49.1 3.3 39.3 117.7
ems5 30.3 39.1 276.7 25.3 35.5 65.4 4.2 42.7 147.7
  25.5 43.5 280.4 21.5 35.7 65.5 4.1 45.2 150.5
  25.3 38.7 275.9 21.4 35.8 64.6 4.1 46.2 150.7
ems10 62.5 85.1 573.8 49.8 100.5 179.3 8.4 100.4 388.6
  60.7 88.0 580.8 45.5 102.1 176.0 9.0 84.4 371.4
  50.6 80.1 575.4 43.5 100.5 160.8 9.4 87.7 358.4
ems15 94.3 117.8 871.1 69.0 197.9 271.8 12.6 118.2 600.6
  76.7 136.5 876.5 64.7 198.5 276.9 13.7 130.5 619.5
  89.8 119.6 869.5 64.5 196.1 275.8 13.8 133.4 619.1
ems20 101.5 169.9 1163.0 92.8 317.1 393.5 16.7 176.0 903.5
  101.7 179.7 1169.3 86.9 321.6 393.5 18.5 212.2 945.8
  120.5 158.8 1161.3 84.9 319.6 399.7 16.9 215.6 951.8
ems25 133.0 207.7 1482.2 116.0 471.7 503.2 22.5 280.8 1278.1
  152.3 220.7 1438.9 105.9 470.9 467.2 22.3 218.4 1178.8
  171.0 196.3 1456.4 106.0 468.0 504.4 23.4 248.0 1243.8
ems50 306.2 411.2 2882.0 215.4 1657.4 1172.3 105.4 716.3 3651.4
  340.0 452.4 2893.3 209.2 1658.2 1170.7 104.5 583.7 3517.1
  291.1 411.6 2888.3 207.2 1655.5 1174.7 107.9 671.8 3609.9
ems75 500.7 712.4 4328.8 314.4 3517.1 1814.9 167.8 1173.4 6673.2
  506.8 618.1 4304.5 311.9 3502.1 1810.2 164.7 992.9 6469.8
  508.7 593.5 4298.9 317.7 3490.7 1798.6 165.0 1116.4 6570.6
ems100 668.6   5760.8 408.5 6064.4 2552.4 223.9 1421.8 10262.6
  634.1   5707.5 404.1 6042.3 2524.8 219.3 1429.0 10215.3
  689.2   5773.6 403.3 6114.1 2496.4 217.5 1546.2 10374.1
ems100*      6446.3 2515.4 218.6 1505.8 10686.1
rfam_full 32.8   75.8 7.9 114.8 12.8 4.0 40.7 172.3
  29.6   75.3 7.9 113.9 12.3 4.3 38.2 168.7
  29.6   75.5 7.8 114.5 12.4 4.2 36.0 167.1
  1. All durations are in seconds. The rightmost five columns break down the execution of coil by its main component programs; the "other" column includes the time needed for the programs extract_seqs, make_index and select_lines.
  2. *This row shows the result of using the Pentium 4-optimised version of find_edges – surprisingly, this version of find_edges is actually about 6% slower than the original version on this CPU.