description
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software version
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sbatch example
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performance tests
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local storage All computing nodes use central NFS shared directores ( /home, /workspace ). When running computation which require frequent storage access it maybe beneficial first to copy your input data to local disk on node ( to i.e /tmp ) and running computation on local files. Bellow few comparation : mp5 compare In this test each node was occupied only by one job. Times bellow are only computation time ( time to copy file to local storage is not included). As shown bellow using local storage is not beneficial. node name cores NFS storage local storage (/tmp) diff as (avg1-avg2)/avg1 result1 [s] result2 [s] result3 [s] avg1 [s] result1 [s] result2 [s] result3 [s] avg2 [s] ant002 1 1673.58 1716.28 1711.93 1700.60 1687.68 1719.62 1717.18 1708.16 -0.44% ant003 1 1848.30 1848.91 1827.97 1841.73 1830.78 1852.40 1855.98 1846.39 -0.25% ant004 1 1846.87 1838.31 1842.67 1842.62 1853.66 1856.75 1839.10 1849.84 -0.39% ant005 1 1485.39 1459.13 1473.07 1472.53 1464.80 1527.85 1483.56 1492.07 -1.33% ant006 1 1455.87 1451.47 1463.92 1457.09 1486.53 1498.34 1482.28 1489.05 -2.19% ant007 1 743.93 735.69 745.45 741.69 740.62 738.93 737.61 739.05 0.36% ant008 1 731.84 731.60 733.38 732.27 730.60 731.14 731.11 730.95 0.18% ant009 1 803.87 804.79 805.43 804.70 810.02 809.43 806.13 808.53 -0.48% ant011 1 610.29 613.10 611.29 611.56 611.03 611.57 612.51 611.70 -0.02% ant012 1 601.49 601.05 599.79 600.78 600.63 599.77 600.92 600.44 0.06% cdhit compare In this test each node was occupied only by one job. Times bellow are only computation time ( time to copy file to local storage is not included). File : uniprot_sprot.fasta . Memory allocated for each job : 2048 MB. node name cores NFS storage local storage (/tmp) diff as (avg1-avg2)/avg1 result1 [s] result2 [s] result3 [s] avg1 [s] result1 [s] result2 [s] result3 [s] avg2 [s] ant001 1 365.94 371.68 367.26 368.29 - - - - - ant001 2 244.42 240.67 242.41 242.50 - - - - - ant002 1 409.78 369.57 368.46 382.60 396.02 386.15 392.98 391.72 -2.38% ant002 2 243.23 238.74 244.39 242.12 248.04 243.36 245.42 245.61 -1.44% ant003 1 360.88 361.21 365.22 362.44 367.28 404.73 395.84 389.28 -7.41% ant003 2 245.87 251.52 245.33 247.57 244.08 254.47 252.73 250.43 -1.15% ant003 4 202.77 205.50 203.77 204.01 199.02 203.76 202.36 201.71 1.13% ant004 1 357.43 364.11 372.73 364.76 390.87 379.48 391.56 387.30 -6.18% ant004 2 239.34 239.92 236.58 238.61 245.38 243.99 236.85 242.07 -1.45% ant004 4 189.77 194.00 194.24 192.67 190.79 194.33 188.09 191.07 0.83% ant005 1 334.39 331.71 318.99 328.36 317.27 318.02 317.50 317.60 3.28% ant005 2 238.52 234.26 239.69 237.49 238.53 237.55 234.73 236.94 0.23% ant005 4 196.94 199.28 198.59 198.27 190.92 195.83 194.65 193.80 2.25% ant005 8 175.24 178.24 173.24 175.57 152.13 176.71 154.17 161.00 8.30% ant006 1 318.60 330.38 330.18 326.39 331.14 331.60 318.12 326.95 -0.17% ant006 2 239.27 238.46 240.01 239.25 231.82 238.91 240.22 236.98 0.95% ant006 4 192.16 191.58 196.91 193.55 198.30 194.13 198.21 196.88 -1.72% ant006 8 156.69 176.7 178.24 170.54 179.06 175.82 169.99 174.96 -2.59% ant007 1 149.80 140.85 147.45 146.03 138.59 148.81 143.30 143.57 1.69% ant007 2 114.65 112.76 118.23 115.21 115.10 115.38 117.53 116.00 -0.69% ant007 4 98.15 96.56 98.67 97.79 92.23 95.88 93.78 93.96 3.91% ant007 8 90.63 89.64 88.38 89.55 80.74 80.45 90.72 83.97 6.23% ant007 14 85.28 87.12 83.37 85.26 75.94 87.64 86.04 83.21 2.41% ant007 16 82.46 86.69 86.67 85.27 86.34 82.84 76.55 81.91 3.94% ant007 28 75.35 87.45 85.33 82.71 83.88 81.89 88.64 84.80 -2.53% ant008 1 140.42 147.09 142.25 143.25 145.01 140.70 140.92 142.21 0.73% ant008 2 113.35 116.83 118.27 116.15 117.19 117.35 113.49 116.01 0.12% ant008 4 99.10 91.73 90.12 93.65 97.40 96.11 95.96 96.49 -3.03% ant008 8 88.89 80.20 89.31 86.13 87.13 88.33 88.83 88.10 -2.28% ant008 14 76.03 85.79 86.91 82.91 85.26 73.94 84.47 81.22 2.03% ant008 16 86.97 82.77 85.11 84.95 73.62 84.37 85.96 81.32 4.28% ant008 28 83.19 89.83 89.45 87.49 73.10 73.12 85.27 77.16 11.80% ant009 1 135.40 135.35 140.31 137.02 133.06 134.52 134.26 133.95 2.24% ant009 2 108.71 111.89 108.27 109.62 110.77 108.15 105.28 108.07 1.42% ant009 4 85.06 90.44 84.27 86.59 90.08 90.17 89.77 90.01 -3.95% ant009 8 72.98 78.29 77.61 76.29 73.05 79.16 78.6 76.94 -0.85% ant009 14 71.93 72.95 67.78 70.89 73.74 68.62 68.87 70.41 0.68% ant009 16 67.35 71.71 72.00 70.35 67.04 72.01 72.19 70.41 -0.09% ant011 1 104.71 105.06 104.5 104.76 104.6 104.64 104.29 104.51 0.24% ant011 2 89.57 90.33 89.65 89.85 89.72 89.87 90.10 89.90 -0.05% ant011 4 72.20 71.92 72.22 72.11 71.84 71.69 71.63 71.72 0.54% ant012 1 106.92 106.50 107.06 106.83 105.24 106.59 104.92 105.58 1.17% ant012 2 93.41 93.48 93.27 93.39 94.07 94.13 93.18 93.79 -0.43% ant012 4 75.24 75.16 75.23 75.21 74.82 74.82 74.83 74.82 0.51%