M1: Running Team Aleph's code from the DREAM challenge on disease module identification
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Community detection
input.txt -> output.txt
  Parameters
    fn_data : input.txt
    fn_out : output.txt
    is_undir : True
    des_avg_deg : 25.0
    des_avg_deg_tol : 0.2
    min_comm_size : 3
    max_comm_size : 100
    debug : True
  Preprocessing
  input.txt -> urv-input.net
    reading network
    number of nodes: 236
    number of edges: 252
    average degree : 1.0678
    normalizing network
    writting network
  Finding community structure
  urv-input.net -> output.txt
    urv-input.net
      236 nodes
      connectivity: 5 connected components
      GCC  size   : 72.88%    (172 nodes)
      SLCC size   : 24.15%    (57 nodes)
      not in GCC  : 27.12%    (64 nodes)
    urv-input-01.net
      172 nodes
      finding resolution
      res_min = -2.1975    res_max = 171.2134
      r_min
        r = 0.0000    q = 0.6992    nc = 10
        r = -1.9338    q = 0.2911    nc = 3
        r = -2.0876    q = 0.2504    nc = 2
        r = -2.1755    q = 0.0000    nc = 1
      init
        1  114  172  |  172  6  1  |  100.00%  0.00%  0.00%  |  0.0000  0.9423  1.0000  |  -2.1755  32.5023  171.2134
        1  55  114  |  172  30  6  |  100.00%  0.00%  0.00%  |  0.0000  0.8054  0.9423  |  -2.1755  4.7601  32.5023
      left
        1  8  55  |  172  67  30  |  100.00%  0.00%  0.00%  |  0.0000  0.6495  0.8054  |  -2.1755  -0.7884  4.7601
        1  3  8  |  172  89  67  |  100.00%  0.00%  0.00%  |  0.0000  0.3220  0.6495  |  -2.1755  -1.8981  -0.7884
        1  2  3  |  172  165  89  |  100.00%  95.93%  0.00%  |  0.0000  0.2791  0.3220  |  -2.1755  -2.1200  -1.8981
        2  2  3  |  165  165  89  |  95.93%  95.93%  0.00%  |  0.2791  0.2399  0.3220  |  -2.1200  -2.0756  -1.8981
        2  2  3  |  165  165  89  |  95.93%  95.93%  0.00%  |  0.2399  0.2138  0.3220  |  -2.0756  -2.0401  -1.8981
        2  2  3  |  165  165  89  |  95.93%  95.93%  0.00%  |  0.2138  0.1977  0.3220  |  -2.0401  -2.0117  -1.8981
      right
        55  88  114  |  30  14  6  |  0.00%  0.00%  0.00%  |  0.8054  0.8741  0.9423  |  4.7601  10.3085  32.5023
        55  66  88  |  30  24  14  |  0.00%  0.00%  0.00%  |  0.8054  0.8235  0.8741  |  4.7601  5.8698  10.3085
        55  57  66  |  30  29  24  |  0.00%  0.00%  0.00%  |  0.8054  0.8093  0.8235  |  4.7601  4.9820  5.8698
        57  59  66  |  29  28  24  |  0.00%  0.00%  0.00%  |  0.8093  0.8123  0.8235  |  4.9820  5.1596  5.8698
        59  60  66  |  28  27  24  |  0.00%  0.00%  0.00%  |  0.8123  0.8146  0.8235  |  5.1596  5.3016  5.8698
        60  62  66  |  27  26  24  |  0.00%  0.00%  0.00%  |  0.8146  0.8164  0.8235  |  5.3016  5.4152  5.8698
      finding modules
      Q = 0.673326    9 modules    r = -0.489942
  Saving partition
  output.txt
  Finalizing
  Elapsed time:  3.87s