alpha=0.85 temp=0.1 gamma=2.7 seed=25062025
Initialization ...
Here is the filename: graph.txt
grab
N = 516
gamma = 2.7
avg_kp = 2.42857
T = 0.1
idum = 25062025
q = 1
num avg = 20
grid size multiplier coefficient = 1
A. Extract GCC of the network
Saving temporary largest connected component to: /tmp/1758231402_graph.txt_tmp_gcc.net
save temp 
 ctr = 516
grab
num_nodes
grab
B. Infer all model parameters except gamma, T and q
inferred N = 545.58
inferred kp_max = 24.949
inferred avg_k = 5.43935
inferred mu = 0.453573
inferred Rh = 11.8954
C. Infer radial coordinates
D. Infer angular core coordinates
total nodes for the core = 426
initializing angles
Replica 1
**********************
size = 68
iter = 0
best_iter = 0
L = -328.764
Lmax = -328.764
Replica 2
**********************
size = 68
iter = 1
best_iter = 0
L = -346.964
Lmax = -328.764
Replica 3
**********************
size = 68
iter = 2
best_iter = 0
L = -336.706
Lmax = -328.764
Replica 4
**********************
size = 68
iter = 3
best_iter = 0
L = -340.543
Lmax = -328.764
Replica 5
**********************
size = 68
iter = 4
best_iter = 0
L = -341.552
Lmax = -328.764
Replica 6
**********************
size = 68
iter = 5
best_iter = 0
L = -358.708
Lmax = -328.764
Replica 7
**********************
size = 68
iter = 6
best_iter = 0
L = -330.615
Lmax = -328.764
Replica 8
**********************
size = 68
iter = 7
best_iter = 7
L = -306.451
Lmax = -306.451
Replica 9
**********************
size = 68
iter = 8
best_iter = 7
L = -399.342
Lmax = -306.451
Replica 10
**********************
size = 68
iter = 9
best_iter = 7
L = -330.378
Lmax = -306.451
Replica 11
**********************
size = 68
iter = 10
best_iter = 7
L = -344.599
Lmax = -306.451
Replica 12
**********************
size = 68
iter = 11
best_iter = 7
L = -369.735
Lmax = -306.451
Replica 13
**********************
size = 68
iter = 12
best_iter = 7
L = -359.644
Lmax = -306.451
Replica 14
**********************
size = 68
iter = 13
best_iter = 7
L = -337.776
Lmax = -306.451
Replica 15
**********************
size = 68
iter = 14
best_iter = 7
L = -344.744
Lmax = -306.451
Replica 16
**********************
size = 68
iter = 15
best_iter = 7
L = -349.233
Lmax = -306.451
Replica 17
**********************
size = 68
iter = 16
best_iter = 7
L = -408.71
Lmax = -306.451
Replica 18
**********************
size = 68
iter = 17
best_iter = 7
L = -356.252
Lmax = -306.451
Replica 19
**********************
size = 68
iter = 18
best_iter = 7
L = -393.757
Lmax = -306.451
Replica 20
**********************
size = 68
iter = 19
best_iter = 7
L = -391.984
Lmax = -306.451
Loptimal = -306.451
resuming the rest of the calculations
iter = 10
noise = 0.397699;    iter= 10/20; L = -403.648
i = 10
mult = 1.16525
min = 79.2138
max = 92.3038
iter = 11
noise = 0.358929;    iter= 11/20; L = -635.651
i = 11
mult = 1.16525
min = 92.3038
max = 107.557
iter = 12
noise = 0.320159;    iter= 12/20; L = -765.045
i = 12
mult = 1.16525
min = 107.557
max = 125.331
iter = 13
noise = 0.281389;    iter= 13/20; L = -848.675
i = 13
mult = 1.16525
min = 125.331
max = 146.042
iter = 14
noise = 0.242619;    iter= 14/20; L = -990.065
i = 14
mult = 1.16525
min = 146.042
max = 170.175
iter = 15
noise = 0.20385;    iter= 15/20; L = -1091.39
i = 15
mult = 1.16525
min = 170.175
max = 198.296
iter = 16
noise = 0.16508;    iter= 16/20; L = -1208.98
i = 16
mult = 1.16525
min = 198.296
max = 231.065
iter = 17
noise = 0.12631;    iter= 17/20; L = -1438.39
i = 17
mult = 1.16525
min = 231.065
max = 269.248
iter = 18
noise = 0.0875398;    iter= 18/20; L = -1634.67
i = 18
mult = 1.16525
min = 269.248
max = 313.741
iter = 19
noise = 0.0487699;    iter= 19/20; L = -2116.81
i = 19
mult = 1.16525
min = 313.741
max = 365.587
iter = 20
noise = 0.01;    iter= 20/20; L = -2577.11
i = 20
mult = 1.16525
min = 365.587
max = 426
iter = 21
noise = -0.0287699;    iter= 21/20; L = -3031.96
i = 21
mult = 1.16525
min = 426
max = 496.396
Control sum = 426
E. Infer remaining node coordinates
embed remaining nodes
embed list compiled
embed list size = 90
remaining num to embed = 0
output resulting angles
output filename = results/diseasome//kvk-coordinates.txt
E2. Massage All
error value = 0.0001
core size = 516
start core massaging...
max_error = 1.04333
iter = 0; L = -3366.51
max_error = 2.80149
iter = 1; L = -3428.33
max_error = 1.02606
iter = 2; L = -3519.21
max_error = 0.311277
iter = 3; L = -3525.66
max_error = 0.299748
iter = 4; L = -3659.53
max_error = 2.78996
iter = 5; L = -3751.25
max_error = 2.80149
iter = 6; L = -3569.92
max_error = 2.64009
iter = 7; L = -3757.29
max_error = 2.76691
iter = 8; L = -3644.76
max_error = 0.553381
iter = 9; L = -3642.2
max_error = 2.84761
iter = 10; L = -3775.68
max_error = 1.10676
iter = 11; L = -3684.77
max_error = 1.003
iter = 12; L = -3508.18
max_error = 2.90525
iter = 13; L = -3558.48
max_error = 2.80149
iter = 14; L = -3550.19
max_error = 1.06065
iter = 15; L = -3578.77
max_error = 0.783957
iter = 16; L = -3624.25
max_error = 1.10676
iter = 17; L = -3599.26
max_error = 1.06065
iter = 18; L = -3534.29
max_error = 2.90525
iter = 19; L = -3619.13
Add small noise to angular coordinates
output coordinates
