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Larrivhan
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NeCast-benchmark

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Tags:
population-genetics
demographic-inference
effective-population-size
benchmark
msprime
simulation
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  1. estimates/smcpp_converged/a2/Africa_1T12/K1/g0/n32/curve.npz +3 -0
  2. estimates/smcpp_converged/a2/Africa_1T12/K1/g0/n32/smcpp/data/region_0.d0.smc.gz +3 -0
  3. estimates/smcpp_converged/a2/Africa_1T12/K1/g0/n32/smcpp/data/region_0.d1.smc.gz +3 -0
  4. estimates/smcpp_converged/a2/Africa_1T12/K1/g0/n32/smcpp/data/region_0.d2.smc.gz +3 -0
  5. estimates/smcpp_converged/a2/Africa_1T12/K1/g0/n32/smcpp/data/region_0.d3.smc.gz +3 -0
  6. estimates/smcpp_converged/a2/Africa_1T12/K1/g0/n32/smcpp/plot.png +3 -0
  7. estimates/smcpp_converged/a2/Africa_1T12/K1/g1/n32/curve.npz +3 -0
  8. estimates/smcpp_converged/a2/Africa_1T12/K1/g1/n32/smcpp/data/region_1.d0.smc.gz +3 -0
  9. estimates/smcpp_converged/a2/Africa_1T12/K1/g1/n32/smcpp/data/region_1.d1.smc.gz +3 -0
  10. estimates/smcpp_converged/a2/Africa_1T12/K1/g1/n32/smcpp/data/region_1.d2.smc.gz +3 -0
  11. estimates/smcpp_converged/a2/Africa_1T12/K1/g1/n32/smcpp/data/region_1.d3.smc.gz +3 -0
  12. estimates/smcpp_converged/a2/Africa_1T12/K1/g1/n32/smcpp/plot.png +3 -0
  13. estimates/smcpp_converged/a2/Africa_1T12/K1/g2/n32/curve.npz +3 -0
  14. estimates/smcpp_converged/a2/Africa_1T12/K1/g2/n32/smcpp/data/region_2.d0.smc.gz +3 -0
  15. estimates/smcpp_converged/a2/Africa_1T12/K1/g2/n32/smcpp/data/region_2.d1.smc.gz +3 -0
  16. estimates/smcpp_converged/a2/Africa_1T12/K1/g2/n32/smcpp/data/region_2.d2.smc.gz +3 -0
  17. estimates/smcpp_converged/a2/Africa_1T12/K1/g2/n32/smcpp/data/region_2.d3.smc.gz +3 -0
  18. estimates/smcpp_converged/a2/Africa_1T12/K1/g2/n32/smcpp/plot.png +3 -0
  19. estimates/smcpp_converged/a2/Africa_1T12/K1/g4/n32/curve.npz +3 -0
  20. estimates/smcpp_converged/a2/Africa_1T12/K1/g4/n32/smcpp/data/region_4.d0.smc.gz +3 -0
  21. estimates/smcpp_converged/a2/Africa_1T12/K1/g4/n32/smcpp/data/region_4.d1.smc.gz +3 -0
  22. estimates/smcpp_converged/a2/Africa_1T12/K1/g4/n32/smcpp/data/region_4.d2.smc.gz +3 -0
  23. estimates/smcpp_converged/a2/Africa_1T12/K1/g4/n32/smcpp/data/region_4.d3.smc.gz +3 -0
  24. estimates/smcpp_converged/a2/Africa_1T12/K1/g4/n32/smcpp/plot.png +3 -0
  25. estimates/smcpp_converged/a2/Africa_1T12/K1/g7/n32/curve.npz +3 -0
  26. estimates/smcpp_converged/a2/Africa_1T12/K1/g7/n32/smcpp/data/region_7.d0.smc.gz +3 -0
  27. estimates/smcpp_converged/a2/Africa_1T12/K1/g7/n32/smcpp/data/region_7.d1.smc.gz +3 -0
  28. estimates/smcpp_converged/a2/Africa_1T12/K1/g7/n32/smcpp/data/region_7.d2.smc.gz +3 -0
  29. estimates/smcpp_converged/a2/Africa_1T12/K1/g7/n32/smcpp/data/region_7.d3.smc.gz +3 -0
  30. estimates/smcpp_converged/a2/Africa_1T12/K1/g7/n32/smcpp/plot.png +3 -0
  31. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/envlock_check_52021115.json +16 -0
  32. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/fit_spec.json +28 -0
  33. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/receipt_52021115.json +19 -0
  34. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/resources_52021115.jsonl +9 -0
  35. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/est/model.final.json +85 -0
  36. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/estimate.cmd +1 -0
  37. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/estimate.err +671 -0
  38. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/estimate.out +87 -0
  39. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/plot.csv +102 -0
  40. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/plot.err +2 -0
  41. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/vcf2smc.err +32 -0
  42. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/submissions.jsonl +1 -0
  43. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/envlock_check_52021116.json +16 -0
  44. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/fit_spec.json +28 -0
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  46. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/resources_52021116.jsonl +9 -0
  47. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/smcpp/est/model.final.json +85 -0
  48. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/smcpp/estimate.cmd +1 -0
  49. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/smcpp/estimate.err +673 -0
  50. estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/smcpp/estimate.out +87 -0
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+ "utc": "2026-09-17T21:49:11Z"
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+ }
estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/resources_52021115.jsonl ADDED
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1
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estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/est/model.final.json ADDED
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estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/estimate.cmd ADDED
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estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/estimate.err ADDED
@@ -0,0 +1,671 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
2
+ from ._conv import register_converters as _register_converters
3
+ 496 smcpp.analysis.base INFO theta: 0.000100
4
+ 497 smcpp.analysis.base INFO rho: 0.000080
5
+ 497 smcpp.analysis.base WARNING Using unfolded SFS. The user should verify that the ancestral allele has been correctly coded.
6
+ 497 smcpp.data_filter INFO Loading data...
7
+ 550 smcpp.data_filter INFO 0.12 Gb of data
8
+ 551 smcpp.data_filter INFO 1 population
9
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
10
+ from ._conv import register_converters as _register_converters
11
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
12
+ from ._conv import register_converters as _register_converters
13
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
14
+ from ._conv import register_converters as _register_converters
15
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
16
+ from ._conv import register_converters as _register_converters
17
+ 3614 smcpp.optimize.plugins.progress_printer INFO Starting EM algorithm...
18
+ 3614 smcpp.optimize.plugins.progress_printer INFO EM iteration 1 of 1...
19
+ 3614 smcpp.analysis.base INFO Running E-step
20
+ 3711 smcpp.analysis.base INFO E-step completed
21
+ 3711 smcpp.optimize.plugins.loglikelihood_monitor INFO Loglik: -2501353.935020
22
+ 16789 smcpp.optimize.plugins.progress_printer INFO Current model:
23
+
24
+ 1.02 0.73 0.24 -0.39 -1.05 -1.70 -2.35 -3.00
25
+ 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 1.27 1.27 1.27 1.27 1.27 1.27 1.27 1.27 1.27 1.27 1.27 1.27 0.67 0.67 0.67 0.67 0.67 0.67 0.67 0.67 0.67 0.67 0.35 0.35 0.35 0.35 0.35 0.35 0.35 0.35 0.18 0.18 0.18 0.18 0.18 0.18 0.18 0.18 0.18 0.18 0.10 0.10 0.10 0.10 0.10 0.10 0.10 0.10 0.10 0.10 0.05
26
+ 16846 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
27
+
28
+
29
+ 100000 +++-----+----+---+---+-+--+-+-+------------+------+----+---+---+++
30
+ ++ + ++
31
+ ++ Pop. 1 *******++
32
+ ++ ++
33
+ B********************* |
34
+ 10000 +++ B*********** +++
35
+ ++ B******* ++
36
+ ++ B****** ++
37
+ ++ * ++
38
+ 1000 +-+ B***** +-+
39
+ ++ B****** ++
40
+ ++ B******+
41
+ ++ +*
42
+ ++ + +*
43
+ 100 +-+-----+----+---+---+-+--+-+-+------------+------+----+---+---+-+
44
+ 10000
45
+ Generations
46
+
47
+
48
+ 16848 smcpp.data_filter INFO Loading data...
49
+ 16966 smcpp.data_filter INFO 0.12 Gb of data
50
+ 16967 smcpp.data_filter INFO 1 population
51
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
52
+ from ._conv import register_converters as _register_converters
53
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
54
+ from ._conv import register_converters as _register_converters
55
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
56
+ from ._conv import register_converters as _register_converters
57
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
58
+ from ._conv import register_converters as _register_converters
59
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
60
+ from ._conv import register_converters as _register_converters
61
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
62
+ from ._conv import register_converters as _register_converters
63
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
64
+ from ._conv import register_converters as _register_converters
65
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
66
+ from ._conv import register_converters as _register_converters
67
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
68
+ from ._conv import register_converters as _register_converters
69
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
70
+ from ._conv import register_converters as _register_converters
71
+ 24304 smcpp.optimize.plugins.progress_printer INFO Starting EM algorithm...
72
+ 24304 smcpp.optimize.plugins.progress_printer INFO EM iteration 1 of 20...
73
+ 24304 smcpp.analysis.base INFO Running E-step
74
+ 25693 smcpp.analysis.base INFO E-step completed
75
+ 25694 smcpp.optimize.plugins.loglikelihood_monitor INFO Loglik: -159328.771153
76
+ 101733 smcpp.optimize.plugins.progress_printer INFO Current model:
77
+
78
+ 0.59 0.55 0.55 0.55 0.56 0.56 0.55 0.50 0.39 0.22 0.25 0.16 -0.05 -0.33 -0.27 -0.31
79
+ 1.80 1.80 1.80 1.80 1.80 1.80 1.80 1.80 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.74 1.75 1.75 1.75 1.75 1.75 1.75 1.75 1.75 1.75 1.75 1.75 1.75 1.73 1.73 1.73 1.73 1.73 1.65 1.65 1.65 1.65 1.65 1.65 1.47 1.47 1.47 1.47 1.47 1.25 1.25 1.25 1.25 1.28 1.28 1.28 1.28 1.17 1.17 1.17 0.96 0.96 0.96 0.96 0.72 0.72 0.72 0.72 0.76 0.76 0.76 0.76 0.76 0.76 0.74
80
+ 101741 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
81
+
82
+
83
+ 10000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
84
+ ++ + ++
85
+ B****B********B*********B*****B****B***B** Pop. 1 *******++
86
+ ++ B***B*** ++
87
+ ++ B**B** ++
88
+ | B** |
89
+ ++ B** ++
90
+ ++ * B****
91
+ | B** |
92
+ | |
93
+ ++ ++
94
+ | |
95
+ | |
96
+ | + |
97
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
98
+ 10000
99
+ Generations
100
+
101
+
102
+ 101741 smcpp.optimize.plugins.progress_printer INFO EM iteration 2 of 20...
103
+ 101741 smcpp.analysis.base INFO Running E-step
104
+ 103337 smcpp.analysis.base INFO E-step completed
105
+ 103340 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159173.572695 (old: -159328.771153 [0.097408%])
106
+ 180717 smcpp.optimize.plugins.progress_printer INFO Current model:
107
+
108
+ 0.80 0.77 0.75 0.76 0.76 0.76 0.74 0.69 0.60 0.48 0.39 0.34 0.15 -0.07 -0.18 -0.08
109
+ 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.10 2.10 2.10 2.10 2.10 2.00 2.00 2.00 2.00 2.00 2.00 1.82 1.82 1.82 1.82 1.82 1.62 1.62 1.62 1.62 1.47 1.47 1.47 1.47 1.40 1.40 1.40 1.16 1.16 1.16 1.16 0.93 0.93 0.93 0.93 0.83 0.83 0.83 0.83 0.83 0.83 0.92
110
+ 180740 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
111
+
112
+
113
+ 10000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
114
+ B****B********B*********B*****B****B***B**B*** + ++
115
+ ++ B*** Pop. 1 *******++
116
+ ++ B**B** ++
117
+ ++ B** ++
118
+ | B** |
119
+ ++ B** +*
120
+ ++ B***+
121
+ | |
122
+ | |
123
+ ++ ++
124
+ | |
125
+ | |
126
+ | + |
127
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
128
+ 10000
129
+ Generations
130
+
131
+
132
+ 180741 smcpp.optimize.plugins.progress_printer INFO EM iteration 3 of 20...
133
+ 180741 smcpp.analysis.base INFO Running E-step
134
+ 182658 smcpp.analysis.base INFO E-step completed
135
+ 182661 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159148.124505 (old: -159173.572695 [0.015988%])
136
+ 261225 smcpp.optimize.plugins.progress_printer INFO Current model:
137
+
138
+ 0.68 0.63 0.62 0.62 0.63 0.62 0.60 0.56 0.47 0.36 0.25 0.16 0.02 -0.20 -0.37 -0.47
139
+ 1.97 1.97 1.97 1.97 1.97 1.97 1.97 1.97 1.88 1.88 1.88 1.88 1.88 1.88 1.88 1.88 1.88 1.88 1.88 1.88 1.88 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.85 1.86 1.86 1.86 1.86 1.86 1.86 1.86 1.86 1.86 1.87 1.87 1.87 1.87 1.87 1.87 1.87 1.86 1.86 1.86 1.86 1.86 1.83 1.83 1.83 1.83 1.83 1.74 1.74 1.74 1.74 1.74 1.74 1.60 1.60 1.60 1.60 1.60 1.44 1.44 1.44 1.44 1.29 1.29 1.29 1.29 1.17 1.17 1.17 1.02 1.02 1.02 1.02 0.82 0.82 0.82 0.82 0.69 0.69 0.69 0.69 0.69 0.69 0.63
140
+ 261276 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
141
+
142
+
143
+ 10000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
144
+ B***** + ++
145
+ ++ B********B*********B*****B****B***B**B*** Pop. 1 *******++
146
+ ++ B**B** ++
147
+ ++ B** ++
148
+ | B**B** |
149
+ ++ * ++
150
+ ++ B** ++
151
+ | B****
152
+ | |
153
+ ++ ++
154
+ | |
155
+ | |
156
+ | + |
157
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
158
+ 10000
159
+ Generations
160
+
161
+
162
+ 261277 smcpp.optimize.plugins.progress_printer INFO EM iteration 4 of 20...
163
+ 261277 smcpp.analysis.base INFO Running E-step
164
+ 262868 smcpp.analysis.base INFO E-step completed
165
+ 262871 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159130.059270 (old: -159148.124505 [0.011351%])
166
+ 339350 smcpp.optimize.plugins.progress_printer INFO Current model:
167
+
168
+ 0.82 0.78 0.76 0.76 0.77 0.77 0.75 0.70 0.62 0.52 0.40 0.28 0.14 -0.06 -0.27 -0.45
169
+ 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.15 2.15 2.15 2.15 2.15 2.11 2.11 2.11 2.11 2.11 2.01 2.01 2.01 2.01 2.01 2.01 1.86 1.86 1.86 1.86 1.86 1.67 1.67 1.67 1.67 1.50 1.50 1.50 1.50 1.33 1.33 1.33 1.15 1.15 1.15 1.15 0.94 0.94 0.94 0.94 0.76 0.76 0.76 0.76 0.76 0.76 0.64
170
+ 339400 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
171
+
172
+
173
+ 10000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
174
+ B****B********B*********B*****B****B***B**B*** + ++
175
+ ++ B**B**op. 1 *******++
176
+ ++ B** ++
177
+ ++ B** ++
178
+ | B** |
179
+ ++ B** ++
180
+ ++ B***+
181
+ | *
182
+ | |
183
+ ++ ++
184
+ | |
185
+ | |
186
+ | + |
187
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
188
+ 10000
189
+ Generations
190
+
191
+
192
+ 339400 smcpp.optimize.plugins.progress_printer INFO EM iteration 5 of 20...
193
+ 339400 smcpp.analysis.base INFO Running E-step
194
+ 340977 smcpp.analysis.base INFO E-step completed
195
+ 340981 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159123.551298 (old: -159130.059270 [0.004090%])
196
+ 416121 smcpp.optimize.plugins.progress_printer INFO Current model:
197
+
198
+ 0.77 0.72 0.70 0.69 0.70 0.70 0.68 0.63 0.56 0.46 0.34 0.21 0.06 -0.14 -0.37 -0.60
199
+ 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.06 2.06 2.06 2.06 2.06 2.06 2.06 2.06 2.06 2.06 2.06 2.06 2.06 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.00 2.01 2.01 2.01 2.01 2.01 2.01 2.01 2.01 2.01 2.01 2.01 2.01 1.97 1.97 1.97 1.97 1.97 1.88 1.88 1.88 1.88 1.88 1.88 1.75 1.75 1.75 1.75 1.75 1.58 1.58 1.58 1.58 1.41 1.41 1.41 1.41 1.24 1.24 1.24 1.06 1.06 1.06 1.06 0.87 0.87 0.87 0.87 0.69 0.69 0.69 0.69 0.69 0.69 0.55
200
+ 416154 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
201
+
202
+
203
+ 10000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
204
+ B****B********B*********B*****B****B***B** + ++
205
+ ++ B***B*** Pop. 1 *******++
206
+ ++ B** ++
207
+ ++ B*B** ++
208
+ | B** |
209
+ ++ B** ++
210
+ ++ * ++
211
+ | B***|
212
+ | *
213
+ ++ ++
214
+ | |
215
+ | |
216
+ | + |
217
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
218
+ 10000
219
+ Generations
220
+
221
+
222
+ 416155 smcpp.optimize.plugins.progress_printer INFO EM iteration 6 of 20...
223
+ 416155 smcpp.analysis.base INFO Running E-step
224
+ 417693 smcpp.analysis.base INFO E-step completed
225
+ 417696 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159120.634024 (old: -159123.551298 [0.001833%])
226
+ 491267 smcpp.optimize.plugins.progress_printer INFO Current model:
227
+
228
+ 0.83 0.79 0.76 0.75 0.76 0.76 0.74 0.70 0.63 0.53 0.41 0.27 0.11 -0.09 -0.33 -0.59
229
+ 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.10 2.10 2.10 2.10 2.10 2.01 2.01 2.01 2.01 2.01 2.01 1.87 1.87 1.87 1.87 1.87 1.69 1.69 1.69 1.69 1.50 1.50 1.50 1.50 1.31 1.31 1.31 1.11 1.11 1.11 1.11 0.91 0.91 0.91 0.91 0.72 0.72 0.72 0.72 0.72 0.72 0.56
230
+ 491286 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
231
+
232
+
233
+ 10000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
234
+ B****B********B*********B*****B****B***B**B*** + ++
235
+ ++ B**B**op. 1 *******++
236
+ ++ B** ++
237
+ ++ B** ++
238
+ | B** |
239
+ ++ B** ++
240
+ ++ * ++
241
+ | B***|
242
+ | *
243
+ ++ ++
244
+ | |
245
+ | |
246
+ | + |
247
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
248
+ 10000
249
+ Generations
250
+
251
+
252
+ 491287 smcpp.optimize.plugins.progress_printer INFO EM iteration 7 of 20...
253
+ 491287 smcpp.analysis.base INFO Running E-step
254
+ 492792 smcpp.analysis.base INFO E-step completed
255
+ 492795 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159118.625487 (old: -159120.634024 [0.001262%])
256
+ 566572 smcpp.optimize.plugins.progress_printer INFO Current model:
257
+
258
+ 0.81 0.77 0.74 0.73 0.73 0.73 0.72 0.67 0.60 0.50 0.38 0.24 0.07 -0.14 -0.38 -0.64
259
+ 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.08 2.08 2.08 2.08 2.08 2.08 2.08 2.08 2.08 2.08 2.08 2.08 2.05 2.05 2.05 2.05 2.05 1.96 1.96 1.96 1.96 1.96 1.96 1.83 1.83 1.83 1.83 1.83 1.66 1.66 1.66 1.66 1.47 1.47 1.47 1.47 1.27 1.27 1.27 1.07 1.07 1.07 1.07 0.87 0.87 0.87 0.87 0.68 0.68 0.68 0.68 0.68 0.68 0.53
260
+ 566580 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
261
+
262
+
263
+ 10000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
264
+ B****B********B*********B*****B****B***B**B*** + ++
265
+ ++ B*** Pop. 1 *******++
266
+ ++ B**B** ++
267
+ ++ B** ++
268
+ | B** |
269
+ ++ B** ++
270
+ ++ * ++
271
+ | B***|
272
+ | *
273
+ ++ ++
274
+ | |
275
+ | |
276
+ | + |
277
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
278
+ 10000
279
+ Generations
280
+
281
+
282
+ 566581 smcpp.optimize.plugins.progress_printer INFO EM iteration 8 of 20...
283
+ 566581 smcpp.analysis.base INFO Running E-step
284
+ 568098 smcpp.analysis.base INFO E-step completed
285
+ 568101 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159117.206220 (old: -159118.625487 [0.000892%])
286
+ 642119 smcpp.optimize.plugins.progress_printer INFO Current model:
287
+
288
+ 0.84 0.80 0.77 0.76 0.76 0.76 0.75 0.71 0.64 0.54 0.41 0.27 0.08 -0.13 -0.38 -0.65
289
+ 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.11 2.11 2.11 2.11 2.11 2.03 2.03 2.03 2.03 2.03 2.03 1.89 1.89 1.89 1.89 1.89 1.71 1.71 1.71 1.71 1.51 1.51 1.51 1.51 1.30 1.30 1.30 1.09 1.09 1.09 1.09 0.88 0.88 0.88 0.88 0.68 0.68 0.68 0.68 0.68 0.68 0.52
290
+ 642151 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
291
+
292
+
293
+ 10000 B*****---------+---------+-----+-----+---+---+--+--+-+----------+-+
294
+ ++ B********B*********B*****B****B***B**B*** + ++
295
+ ++ B**B**op. 1 *******++
296
+ ++ B** ++
297
+ ++ B** ++
298
+ | B** |
299
+ ++ B** ++
300
+ ++ * ++
301
+ | B***|
302
+ | *
303
+ ++ +*
304
+ | |
305
+ | |
306
+ | + |
307
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
308
+ 10000
309
+ Generations
310
+
311
+
312
+ 642152 smcpp.optimize.plugins.progress_printer INFO EM iteration 9 of 20...
313
+ 642152 smcpp.analysis.base INFO Running E-step
314
+ 643774 smcpp.analysis.base INFO E-step completed
315
+ 643776 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159115.725240 (old: -159117.206220 [0.000931%])
316
+ 722751 smcpp.optimize.plugins.progress_printer INFO Current model:
317
+
318
+ 0.84 0.79 0.76 0.75 0.75 0.75 0.74 0.70 0.63 0.54 0.41 0.26 0.07 -0.16 -0.41 -0.68
319
+ 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.13 2.13 2.13 2.13 2.13 2.10 2.10 2.10 2.10 2.10 2.02 2.02 2.02 2.02 2.02 2.02 1.88 1.88 1.88 1.88 1.88 1.71 1.71 1.71 1.71 1.51 1.51 1.51 1.51 1.29 1.29 1.29 1.07 1.07 1.07 1.07 0.85 0.85 0.85 0.85 0.66 0.66 0.66 0.66 0.66 0.66 0.50
320
+ 722787 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
321
+
322
+
323
+ 10000 B*****---------+---------+-----+-----+---+---+--+--+-+----------+-+
324
+ ++ B********B*********B*****B****B***B**B*** + ++
325
+ ++ B**B**op. 1 *******++
326
+ ++ B** ++
327
+ ++ B** ++
328
+ | B** |
329
+ ++ * ++
330
+ ++ B** ++
331
+ | B***|
332
+ | *
333
+ ++ +*
334
+ | |
335
+ | |
336
+ | + |
337
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
338
+ 10000
339
+ Generations
340
+
341
+
342
+ 722788 smcpp.optimize.plugins.progress_printer INFO EM iteration 10 of 20...
343
+ 722788 smcpp.analysis.base INFO Running E-step
344
+ 724393 smcpp.analysis.base INFO E-step completed
345
+ 724395 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159114.421104 (old: -159115.725240 [0.000820%])
346
+ 800655 smcpp.optimize.plugins.progress_printer INFO Current model:
347
+
348
+ 0.86 0.81 0.78 0.77 0.77 0.77 0.76 0.72 0.65 0.55 0.43 0.27 0.07 -0.16 -0.42 -0.70
349
+ 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.16 2.16 2.16 2.16 2.16 2.13 2.13 2.13 2.13 2.13 2.05 2.05 2.05 2.05 2.05 2.05 1.92 1.92 1.92 1.92 1.92 1.74 1.74 1.74 1.74 1.53 1.53 1.53 1.53 1.31 1.31 1.31 1.08 1.08 1.08 1.08 0.85 0.85 0.85 0.85 0.65 0.65 0.65 0.65 0.65 0.65 0.50
350
+ 800695 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
351
+
352
+
353
+ 10000 B*****---------+---------+-----+-----+---+---+--+--+-+----------+-+
354
+ ++ B********B*********B*****B****B***B**B*** + ++
355
+ ++ B**B**op. 1 *******++
356
+ ++ B** ++
357
+ ++ B** ++
358
+ | B** |
359
+ ++ * ++
360
+ ++ B** ++
361
+ | B***|
362
+ | *
363
+ ++ +*
364
+ | |
365
+ | |
366
+ | + |
367
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
368
+ 10000
369
+ Generations
370
+
371
+
372
+ 800696 smcpp.optimize.plugins.progress_printer INFO EM iteration 11 of 20...
373
+ 800696 smcpp.analysis.base INFO Running E-step
374
+ 802226 smcpp.analysis.base INFO E-step completed
375
+ 802229 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159113.109404 (old: -159114.421104 [0.000824%])
376
+ 875453 smcpp.optimize.plugins.progress_printer INFO Current model:
377
+
378
+ 0.86 0.81 0.78 0.77 0.77 0.77 0.76 0.72 0.66 0.56 0.43 0.27 0.06 -0.18 -0.45 -0.73
379
+ 2.36 2.36 2.36 2.36 2.36 2.36 2.36 2.36 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.14 2.14 2.14 2.14 2.14 2.06 2.06 2.06 2.06 2.06 2.06 1.93 1.93 1.93 1.93 1.93 1.75 1.75 1.75 1.75 1.54 1.54 1.54 1.54 1.31 1.31 1.31 1.07 1.07 1.07 1.07 0.84 0.84 0.84 0.84 0.64 0.64 0.64 0.64 0.64 0.64 0.48
380
+ 875471 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
381
+
382
+
383
+ 10000 B*****---------+---------+-----+-----+---+---+--+--+-+----------+-+
384
+ ++ B********B*********B*****B****B***B**B*** + ++
385
+ ++ B**B**op. 1 *******++
386
+ ++ B** ++
387
+ ++ B** ++
388
+ | B** |
389
+ ++ * ++
390
+ ++ B** ++
391
+ | B***|
392
+ | *
393
+ ++ +*
394
+ | |
395
+ | |
396
+ | + |
397
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
398
+ 10000
399
+ Generations
400
+
401
+
402
+ 875471 smcpp.optimize.plugins.progress_printer INFO EM iteration 12 of 20...
403
+ 875471 smcpp.analysis.base INFO Running E-step
404
+ 876967 smcpp.analysis.base INFO E-step completed
405
+ 876969 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159111.892794 (old: -159113.109404 [0.000765%])
406
+ 949583 smcpp.optimize.plugins.progress_printer INFO Current model:
407
+
408
+ 0.87 0.83 0.79 0.78 0.78 0.78 0.77 0.74 0.67 0.57 0.44 0.27 0.06 -0.18 -0.46 -0.75
409
+ 2.39 2.39 2.39 2.39 2.39 2.39 2.39 2.39 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.16 2.16 2.16 2.16 2.16 2.09 2.09 2.09 2.09 2.09 2.09 1.96 1.96 1.96 1.96 1.96 1.77 1.77 1.77 1.77 1.56 1.56 1.56 1.56 1.31 1.31 1.31 1.07 1.07 1.07 1.07 0.83 0.83 0.83 0.83 0.63 0.63 0.63 0.63 0.63 0.63 0.47
410
+ 949617 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
411
+
412
+
413
+ 10000 B*****---------+---------+-----+-----+---+---+--+--+-+----------+-+
414
+ ++ B********B*********B*****B****B***B**B***B*** + ++
415
+ ++ B**op. 1 *******++
416
+ ++ B** ++
417
+ ++ B** ++
418
+ | B** |
419
+ ++ * ++
420
+ ++ B** ++
421
+ | B***|
422
+ | *
423
+ ++ +*
424
+ | |
425
+ | |
426
+ | + |
427
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
428
+ 10000
429
+ Generations
430
+
431
+
432
+ 949618 smcpp.optimize.plugins.progress_printer INFO EM iteration 13 of 20...
433
+ 949618 smcpp.analysis.base INFO Running E-step
434
+ 951109 smcpp.analysis.base INFO E-step completed
435
+ 951112 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159110.706990 (old: -159111.892794 [0.000745%])
436
+ 1023201 smcpp.optimize.plugins.progress_printer INFO Current model:
437
+
438
+ 0.88 0.83 0.80 0.78 0.78 0.78 0.78 0.74 0.68 0.58 0.45 0.28 0.06 -0.20 -0.48 -0.78
439
+ 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.17 2.17 2.17 2.17 2.17 2.10 2.10 2.10 2.10 2.10 2.10 1.97 1.97 1.97 1.97 1.97 1.79 1.79 1.79 1.79 1.57 1.57 1.57 1.57 1.32 1.32 1.32 1.06 1.06 1.06 1.06 0.82 0.82 0.82 0.82 0.62 0.62 0.62 0.62 0.62 0.62 0.46
440
+ 1023239 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
441
+
442
+
443
+ 10000 B*****---------+---------+-----+-----+---+---+--+--+-+----------+-+
444
+ ++ B********B*********B*****B****B***B**B***B*** + ++
445
+ ++ B**op. 1 *******++
446
+ ++ B** ++
447
+ ++ B** ++
448
+ | B** |
449
+ ++ * ++
450
+ ++ B** ++
451
+ | B***|
452
+ | *
453
+ ++ +*
454
+ | |
455
+ | |
456
+ | + |
457
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
458
+ 10000
459
+ Generations
460
+
461
+
462
+ 1023240 smcpp.optimize.plugins.progress_printer INFO EM iteration 14 of 20...
463
+ 1023240 smcpp.analysis.base INFO Running E-step
464
+ 1024712 smcpp.analysis.base INFO E-step completed
465
+ 1024716 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159109.589487 (old: -159110.706990 [0.000702%])
466
+ 1096123 smcpp.optimize.plugins.progress_printer INFO Current model:
467
+
468
+ 0.88 0.84 0.81 0.79 0.79 0.79 0.78 0.75 0.69 0.59 0.46 0.28 0.06 -0.20 -0.50 -0.80
469
+ 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.21 2.21 2.21 2.21 2.21 2.19 2.19 2.19 2.19 2.19 2.12 2.12 2.12 2.12 2.12 2.12 2.00 2.00 2.00 2.00 2.00 1.81 1.81 1.81 1.81 1.58 1.58 1.58 1.58 1.32 1.32 1.32 1.06 1.06 1.06 1.06 0.82 0.82 0.82 0.82 0.61 0.61 0.61 0.61 0.61 0.61 0.45
470
+ 1096157 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
471
+
472
+
473
+ 10000 B****B********-+---------+-----+-----+---+---+--+--+-+----------+-+
474
+ ++ B*********B*****B****B***B**B***B*** + ++
475
+ ++ B**op. 1 *******++
476
+ ++ B** ++
477
+ ++ B** ++
478
+ | B** |
479
+ ++ * ++
480
+ ++ B** ++
481
+ | * |
482
+ | B***|
483
+ ++ +*
484
+ | |
485
+ | |
486
+ | + |
487
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
488
+ 10000
489
+ Generations
490
+
491
+
492
+ 1096158 smcpp.optimize.plugins.progress_printer INFO EM iteration 15 of 20...
493
+ 1096158 smcpp.analysis.base INFO Running E-step
494
+ 1097623 smcpp.analysis.base INFO E-step completed
495
+ 1097627 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159108.517601 (old: -159109.589487 [0.000674%])
496
+ 1168299 smcpp.optimize.plugins.progress_printer INFO Current model:
497
+
498
+ 0.89 0.85 0.82 0.80 0.80 0.80 0.79 0.76 0.70 0.60 0.46 0.28 0.06 -0.21 -0.51 -0.82
499
+ 2.44 2.44 2.44 2.44 2.44 2.44 2.44 2.44 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.21 2.21 2.21 2.21 2.21 2.14 2.14 2.14 2.14 2.14 2.14 2.01 2.01 2.01 2.01 2.01 1.83 1.83 1.83 1.83 1.59 1.59 1.59 1.59 1.33 1.33 1.33 1.06 1.06 1.06 1.06 0.81 0.81 0.81 0.81 0.60 0.60 0.60 0.60 0.60 0.60 0.44
500
+ 1168319 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
501
+
502
+
503
+ 10000 B****B********-+---------+-----+-----+---+---+--+--+-+----------+-+
504
+ ++ B*********B*****B****B***B**B***B*** + ++
505
+ ++ B**op. 1 *******++
506
+ ++ B** ++
507
+ ++ B** ++
508
+ | B** |
509
+ ++ * ++
510
+ ++ B** ++
511
+ | * |
512
+ | B***|
513
+ ++ +*
514
+ | *
515
+ | |
516
+ | + |
517
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
518
+ 10000
519
+ Generations
520
+
521
+
522
+ 1168319 smcpp.optimize.plugins.progress_printer INFO EM iteration 16 of 20...
523
+ 1168319 smcpp.analysis.base INFO Running E-step
524
+ 1169776 smcpp.analysis.base INFO E-step completed
525
+ 1169778 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159107.504982 (old: -159108.517601 [0.000636%])
526
+ 1240096 smcpp.optimize.plugins.progress_printer INFO Current model:
527
+
528
+ 0.90 0.86 0.82 0.81 0.80 0.81 0.80 0.77 0.71 0.61 0.47 0.29 0.05 -0.22 -0.53 -0.85
529
+ 2.45 2.45 2.45 2.45 2.45 2.45 2.45 2.45 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.23 2.23 2.23 2.23 2.23 2.23 2.23 2.24 2.24 2.24 2.24 2.24 2.22 2.22 2.22 2.22 2.22 2.16 2.16 2.16 2.16 2.16 2.16 2.03 2.03 2.03 2.03 2.03 1.84 1.84 1.84 1.84 1.60 1.60 1.60 1.60 1.33 1.33 1.33 1.06 1.06 1.06 1.06 0.80 0.80 0.80 0.80 0.59 0.59 0.59 0.59 0.59 0.59 0.43
530
+ 1240109 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
531
+
532
+
533
+ 10000 B****B********-+---------+-----+-----+---+---+--+--+-+----------+-+
534
+ ++ B*********B*****B****B***B**B***B*** + ++
535
+ ++ B**op. 1 *******++
536
+ ++ B** ++
537
+ ++ B** ++
538
+ | B** |
539
+ ++ * ++
540
+ ++ B** ++
541
+ | * |
542
+ | B***|
543
+ ++ +*
544
+ | *
545
+ | |
546
+ | + |
547
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
548
+ 10000
549
+ Generations
550
+
551
+
552
+ 1240110 smcpp.optimize.plugins.progress_printer INFO EM iteration 17 of 20...
553
+ 1240110 smcpp.analysis.base INFO Running E-step
554
+ 1241557 smcpp.analysis.base INFO E-step completed
555
+ 1241559 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159106.539274 (old: -159107.504982 [0.000607%])
556
+ 1312348 smcpp.optimize.plugins.progress_printer INFO Current model:
557
+
558
+ 0.90 0.86 0.83 0.81 0.81 0.81 0.81 0.78 0.72 0.62 0.48 0.29 0.05 -0.23 -0.54 -0.87
559
+ 2.47 2.47 2.47 2.47 2.47 2.47 2.47 2.47 2.37 2.37 2.37 2.37 2.37 2.37 2.37 2.37 2.37 2.37 2.37 2.37 2.37 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.24 2.24 2.24 2.24 2.24 2.18 2.18 2.18 2.18 2.18 2.18 2.05 2.05 2.05 2.05 2.05 1.86 1.86 1.86 1.86 1.62 1.62 1.62 1.62 1.34 1.34 1.34 1.05 1.05 1.05 1.05 0.79 0.79 0.79 0.79 0.58 0.58 0.58 0.58 0.58 0.58 0.42
560
+ 1312361 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
561
+
562
+
563
+ 10000 B****B********-+---------+-----+-----+---+---+--+--+-+----------+-+
564
+ ++ B*********B*****B****B***B**B***B*** + ++
565
+ ++ B**op. 1 *******++
566
+ ++ B** ++
567
+ ++ B** ++
568
+ | B** |
569
+ ++ * ++
570
+ ++ B** ++
571
+ | * |
572
+ | B***|
573
+ ++ +*
574
+ | *
575
+ | |
576
+ | + |
577
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
578
+ 10000
579
+ Generations
580
+
581
+
582
+ 1312361 smcpp.optimize.plugins.progress_printer INFO EM iteration 18 of 20...
583
+ 1312361 smcpp.analysis.base INFO Running E-step
584
+ 1313838 smcpp.analysis.base INFO E-step completed
585
+ 1313840 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159105.623395 (old: -159106.539274 [0.000576%])
586
+ 1380764 smcpp.optimize.plugins.progress_printer INFO Current model:
587
+
588
+ 0.91 0.87 0.84 0.82 0.82 0.82 0.81 0.79 0.73 0.63 0.49 0.29 0.05 -0.24 -0.56 -0.89
589
+ 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.39 2.39 2.39 2.39 2.39 2.39 2.39 2.39 2.39 2.39 2.39 2.39 2.39 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.26 2.26 2.26 2.26 2.26 2.20 2.20 2.20 2.20 2.20 2.20 2.07 2.07 2.07 2.07 2.07 1.88 1.88 1.88 1.88 1.63 1.63 1.63 1.63 1.34 1.34 1.34 1.05 1.05 1.05 1.05 0.79 0.79 0.79 0.79 0.57 0.57 0.57 0.57 0.57 0.57 0.41
590
+ 1380772 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
591
+
592
+
593
+ 10000 B****B********B**********+-----+-----+---+---+--+--+-+----------+-+
594
+ ++ B*****B****B***B**B***B*** + ++
595
+ ++ B**op. 1 *******++
596
+ ++ B** ++
597
+ ++ B** ++
598
+ | B** |
599
+ ++ * ++
600
+ ++ B** ++
601
+ | * |
602
+ | B***|
603
+ ++ +*
604
+ | *
605
+ | |
606
+ | + |
607
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
608
+ 10000
609
+ Generations
610
+
611
+
612
+ 1380772 smcpp.optimize.plugins.progress_printer INFO EM iteration 19 of 20...
613
+ 1380772 smcpp.analysis.base INFO Running E-step
614
+ 1382384 smcpp.analysis.base INFO E-step completed
615
+ 1382387 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159104.752287 (old: -159105.623395 [0.000548%])
616
+ 1448946 smcpp.optimize.plugins.progress_printer INFO Current model:
617
+
618
+ 0.91 0.88 0.84 0.83 0.82 0.83 0.82 0.80 0.74 0.64 0.49 0.30 0.05 -0.25 -0.57 -0.91
619
+ 2.50 2.50 2.50 2.50 2.50 2.50 2.50 2.50 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.27 2.27 2.27 2.27 2.27 2.22 2.22 2.22 2.22 2.22 2.22 2.09 2.09 2.09 2.09 2.09 1.89 1.89 1.89 1.89 1.64 1.64 1.64 1.64 1.35 1.35 1.35 1.05 1.05 1.05 1.05 0.78 0.78 0.78 0.78 0.56 0.56 0.56 0.56 0.56 0.56 0.40
620
+ 1448956 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
621
+
622
+
623
+ 10000 B****B********B**********+-----+-----+---+---+--+--+-+----------+-+
624
+ ++ B*****B****B***B**B***B*** + ++
625
+ ++ B**op. 1 *******++
626
+ ++ B** ++
627
+ ++ B** ++
628
+ | B** |
629
+ ++ * ++
630
+ ++ B** ++
631
+ | * |
632
+ | B***|
633
+ ++ +*
634
+ | *
635
+ | |
636
+ | + |
637
+ 1000 +-+------------+---------+-----+-----+---+---+--+--+-+----------+-+
638
+ 10000
639
+ Generations
640
+
641
+
642
+ 1448957 smcpp.optimize.plugins.progress_printer INFO EM iteration 20 of 20...
643
+ 1448957 smcpp.analysis.base INFO Running E-step
644
+ 1450348 smcpp.analysis.base INFO E-step completed
645
+ 1450351 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -159103.925895 (old: -159104.752287 [0.000519%])
646
+ 1517112 smcpp.optimize.plugins.progress_printer INFO Current model:
647
+
648
+ 0.92 0.88 0.85 0.84 0.83 0.83 0.83 0.80 0.75 0.65 0.50 0.30 0.05 -0.25 -0.59 -0.93
649
+ 2.51 2.51 2.51 2.51 2.51 2.51 2.51 2.51 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.31 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.29 2.29 2.29 2.29 2.29 2.23 2.23 2.23 2.23 2.23 2.23 2.11 2.11 2.11 2.11 2.11 1.91 1.91 1.91 1.91 1.65 1.65 1.65 1.65 1.35 1.35 1.35 1.05 1.05 1.05 1.05 0.78 0.78 0.78 0.78 0.56 0.56 0.56 0.56 0.56 0.56 0.39
650
+ 1517145 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
651
+
652
+
653
+ 100000 +++------------+--------+------+----+---+---+--+--+-+----------+++
654
+ ++ + ++
655
+ ++ Pop. 1 *******++
656
+ ++ ++
657
+ ++ ++
658
+ ++ ++
659
+ | |
660
+ 10000 B****B*******B**********B*****B****B**B**B**** +++
661
+ ++ B**B**B** ++
662
+ ++ B** ++
663
+ ++ B** ++
664
+ ++ B** ++
665
+ ++ B***+
666
+ | + *
667
+ 1000 +-+------------+--------+------+----+---+---+--+--+-+----------+-+
668
+ 10000
669
+ Generations
670
+
671
+
estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/estimate.out ADDED
@@ -0,0 +1,87 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ RUNNING THE L-BFGS-B CODE
2
+
3
+ * * *
4
+
5
+ Machine precision = 2.220D-16
6
+ N = 8 M = 10
7
+
8
+ At X0 0 variables are exactly at the bounds
9
+
10
+ At iterate 0 f= 2.47563D+06 |proj g|= 3.00000D+00
11
+
12
+ At iterate 1 f= 2.43192D+06 |proj g|= 3.66793D+00
13
+
14
+ At iterate 2 f= 2.42556D+06 |proj g|= 3.50958D+00
15
+
16
+ At iterate 3 f= 2.42106D+06 |proj g|= 4.08788D+00
17
+
18
+ At iterate 4 f= 2.42048D+06 |proj g|= 4.03008D+00
19
+
20
+ At iterate 5 f= 2.42026D+06 |proj g|= 3.16319D+00
21
+
22
+ At iterate 6 f= 2.41996D+06 |proj g|= 3.23734D+00
23
+
24
+ At iterate 7 f= 2.41974D+06 |proj g|= 3.27927D+00
25
+
26
+ At iterate 8 f= 2.41963D+06 |proj g|= 3.66470D+00
27
+
28
+ At iterate 9 f= 2.41952D+06 |proj g|= 4.02723D+00
29
+
30
+ At iterate 10 f= 2.41950D+06 |proj g|= 4.02351D+00
31
+
32
+ At iterate 11 f= 2.41949D+06 |proj g|= 4.02288D+00
33
+
34
+ At iterate 12 f= 2.41947D+06 |proj g|= 3.49064D+00
35
+
36
+ At iterate 13 f= 2.41942D+06 |proj g|= 3.56480D+00
37
+
38
+ At iterate 14 f= 2.41929D+06 |proj g|= 3.84042D+00
39
+
40
+ At iterate 15 f= 2.41907D+06 |proj g|= 4.65678D+00
41
+ Positive dir derivative in projection
42
+ Using the backtracking step
43
+
44
+ At iterate 16 f= 2.41905D+06 |proj g|= 4.90374D+00
45
+
46
+ At iterate 17 f= 2.41888D+06 |proj g|= 5.43762D+00
47
+
48
+ At iterate 18 f= 2.41886D+06 |proj g|= 5.39769D+00
49
+
50
+ At iterate 19 f= 2.41885D+06 |proj g|= 6.00000D+00
51
+
52
+ At iterate 20 f= 2.41885D+06 |proj g|= 5.37733D+00
53
+
54
+ At iterate 21 f= 2.41885D+06 |proj g|= 5.36758D+00
55
+
56
+ At iterate 22 f= 2.41885D+06 |proj g|= 5.35387D+00
57
+
58
+ At iterate 23 f= 2.41885D+06 |proj g|= 4.70172D+00
59
+
60
+ At iterate 24 f= 2.41885D+06 |proj g|= 3.72673D+00
61
+
62
+ At iterate 25 f= 2.41885D+06 |proj g|= 7.03875D-01
63
+
64
+ * * *
65
+
66
+ Tit = total number of iterations
67
+ Tnf = total number of function evaluations
68
+ Tnint = total number of segments explored during Cauchy searches
69
+ Skip = number of BFGS updates skipped
70
+ Nact = number of active bounds at final generalized Cauchy point
71
+ Projg = norm of the final projected gradient
72
+ F = final function value
73
+
74
+ * * *
75
+
76
+ N Tit Tnf Tnint Skip Nact Projg F
77
+ 8 25 29 32 0 1 7.039D-01 2.419D+06
78
+ F = 2418846.2058528652
79
+
80
+ CONVERGENCE: REL_REDUCTION_OF_F_<=_FACTR*EPSMCH
81
+
82
+ Cauchy time 0.000E+00 seconds.
83
+ Subspace minimization time 0.000E+00 seconds.
84
+ Line search time 0.000E+00 seconds.
85
+
86
+ Total User time 0.000E+00 seconds.
87
+
estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/plot.csv ADDED
@@ -0,0 +1,102 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
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estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/plot.err ADDED
@@ -0,0 +1,2 @@
 
 
 
1
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
2
+ from ._conv import register_converters as _register_converters
estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/smcpp/vcf2smc.err ADDED
@@ -0,0 +1,32 @@
 
 
 
 
 
 
 
0
  0%| | 0.00/30.0M [00:00<?, ?bases/s]
1
  2%|▏ | 744k/30.0M [00:00<00:03, 7.43Mbases/s]
2
  5%|▍ | 1.49M/30.0M [00:00<00:03, 7.44Mbases/s]
3
  8%|▊ | 2.30M/30.0M [00:00<00:03, 7.63Mbases/s]
4
  10%|▉ | 2.99M/30.0M [00:00<00:03, 7.38Mbases/s]
5
  12%|█▏ | 3.71M/30.0M [00:00<00:03, 7.32Mbases/s]
6
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1
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
2
+ from ._conv import register_converters as _register_converters
3
+ 478 smcpp.commands.vcf2smc WARNING Neither missing cutoff (-c) or mask (-m) has been specified. This means that stretches of the chromosome that do not have any VCF entries (for example, centromeres) will be interpreted as homozygous recessive.
4
+ 478 smcpp.commands.vcf2smc INFO Population 1:
5
+ 478 smcpp.commands.vcf2smc INFO Distinguished lineages: sample0:0, sample0:1
6
+ 478 smcpp.commands.vcf2smc INFO Undistinguished lineages: sample1:0, sample1:1, sample2:0, sample2:1, sample3:0, sample3:1, sample4:0, sample4:1, sample5:0, sample5:1, sample6:0, sample6:1, sample7:0, sample7:1, sample8:0, sample8:1, sample9:0, sample9:1, sample10:0, sample10:1, sample11:0, sample11:1, sample12:0, sample12:1, sample13:0, sample13:1, sample14:0, sample14:1, sample15:0, sample15:1, sample16:0, sample16:1, sample17:0, sample17:1, sample18:0, sample18:1, sample19:0, sample19:1, sample20:0, sample20:1, sample21:0, sample21:1, sample22:0, sample22:1, sample23:0, sample23:1, sample24:0, sample24:1, sample25:0, sample25:1, sample26:0, sample26:1, sample27:0, sample27:1, sample28:0, sample28:1, sample29:0, sample29:1, sample30:0, sample30:1, sample31:0, sample31:1
7
+
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+ 4710 smcpp.util INFO Wrote 113676 observations
50
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
51
+ from ._conv import register_converters as _register_converters
52
+ 515 smcpp.commands.vcf2smc WARNING Neither missing cutoff (-c) or mask (-m) has been specified. This means that stretches of the chromosome that do not have any VCF entries (for example, centromeres) will be interpreted as homozygous recessive.
53
+ 515 smcpp.commands.vcf2smc INFO Population 1:
54
+ 515 smcpp.commands.vcf2smc INFO Distinguished lineages: sample1:0, sample1:1
55
+ 515 smcpp.commands.vcf2smc INFO Undistinguished lineages: sample0:0, sample0:1, sample2:0, sample2:1, sample3:0, sample3:1, sample4:0, sample4:1, sample5:0, sample5:1, sample6:0, sample6:1, sample7:0, sample7:1, sample8:0, sample8:1, sample9:0, sample9:1, sample10:0, sample10:1, sample11:0, sample11:1, sample12:0, sample12:1, sample13:0, sample13:1, sample14:0, sample14:1, sample15:0, sample15:1, sample16:0, sample16:1, sample17:0, sample17:1, sample18:0, sample18:1, sample19:0, sample19:1, sample20:0, sample20:1, sample21:0, sample21:1, sample22:0, sample22:1, sample23:0, sample23:1, sample24:0, sample24:1, sample25:0, sample25:1, sample26:0, sample26:1, sample27:0, sample27:1, sample28:0, sample28:1, sample29:0, sample29:1, sample30:0, sample30:1, sample31:0, sample31:1
56
+
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+ 4805 smcpp.util INFO Wrote 113675 observations
100
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
101
+ from ._conv import register_converters as _register_converters
102
+ 508 smcpp.commands.vcf2smc WARNING Neither missing cutoff (-c) or mask (-m) has been specified. This means that stretches of the chromosome that do not have any VCF entries (for example, centromeres) will be interpreted as homozygous recessive.
103
+ 510 smcpp.commands.vcf2smc INFO Population 1:
104
+ 510 smcpp.commands.vcf2smc INFO Distinguished lineages: sample2:0, sample2:1
105
+ 510 smcpp.commands.vcf2smc INFO Undistinguished lineages: sample0:0, sample0:1, sample1:0, sample1:1, sample3:0, sample3:1, sample4:0, sample4:1, sample5:0, sample5:1, sample6:0, sample6:1, sample7:0, sample7:1, sample8:0, sample8:1, sample9:0, sample9:1, sample10:0, sample10:1, sample11:0, sample11:1, sample12:0, sample12:1, sample13:0, sample13:1, sample14:0, sample14:1, sample15:0, sample15:1, sample16:0, sample16:1, sample17:0, sample17:1, sample18:0, sample18:1, sample19:0, sample19:1, sample20:0, sample20:1, sample21:0, sample21:1, sample22:0, sample22:1, sample23:0, sample23:1, sample24:0, sample24:1, sample25:0, sample25:1, sample26:0, sample26:1, sample27:0, sample27:1, sample28:0, sample28:1, sample29:0, sample29:1, sample30:0, sample30:1, sample31:0, sample31:1
106
+
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+ 4730 smcpp.util INFO Wrote 113674 observations
149
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
150
+ from ._conv import register_converters as _register_converters
151
+ 517 smcpp.commands.vcf2smc WARNING Neither missing cutoff (-c) or mask (-m) has been specified. This means that stretches of the chromosome that do not have any VCF entries (for example, centromeres) will be interpreted as homozygous recessive.
152
+ 518 smcpp.commands.vcf2smc INFO Population 1:
153
+ 518 smcpp.commands.vcf2smc INFO Distinguished lineages: sample3:0, sample3:1
154
+ 518 smcpp.commands.vcf2smc INFO Undistinguished lineages: sample0:0, sample0:1, sample1:0, sample1:1, sample2:0, sample2:1, sample4:0, sample4:1, sample5:0, sample5:1, sample6:0, sample6:1, sample7:0, sample7:1, sample8:0, sample8:1, sample9:0, sample9:1, sample10:0, sample10:1, sample11:0, sample11:1, sample12:0, sample12:1, sample13:0, sample13:1, sample14:0, sample14:1, sample15:0, sample15:1, sample16:0, sample16:1, sample17:0, sample17:1, sample18:0, sample18:1, sample19:0, sample19:1, sample20:0, sample20:1, sample21:0, sample21:1, sample22:0, sample22:1, sample23:0, sample23:1, sample24:0, sample24:1, sample25:0, sample25:1, sample26:0, sample26:1, sample27:0, sample27:1, sample28:0, sample28:1, sample29:0, sample29:1, sample30:0, sample30:1, sample31:0, sample31:1
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+ 4818 smcpp.util INFO Wrote 113674 observations
estimates/smcpp_converged/a2/BOT_X100_20K/K1/g0/n32/submissions.jsonl ADDED
@@ -0,0 +1 @@
 
 
1
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estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/envlock_check_52021116.json ADDED
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estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/fit_spec.json ADDED
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estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/receipt_52021116.json ADDED
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estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/resources_52021116.jsonl ADDED
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1
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2
+ {"cgroup": "/sys/fs/cgroup/system.slice/slurmstepd.scope/job_52021116", "cgroup_cpu_system_s": 1.698432, "cgroup_cpu_usage_s": 11.573655, "cgroup_cpu_user_s": 9.875223, "cgroup_memory_current_bytes": 48484352, "cgroup_memory_peak_bytes": 135565312, "cmd": "timeout --signal=TERM --kill-after=60 9269 smc++ vcf2smc -d sample0 sample0 /ibex/project/c2041/hany0c/bench_h2h_20260915/export/v2_a2_BOT_X100_20K/r00000001/n32/view.bcf /ibex/project/c2041/hany0c/bench_h2h_20260915/fits/v1/smcpp/EQ/tune_d4_rp3_ftol1e-6/v2_a2_BOT_X100_20K/K1/g1/n32/smcpp/data/region_1.d0.smc.gz region_1 pop1:sample0,sample1,sample2,sample3,sample4,sample5,sample6,sample7,sample8,sample9,sample10,sample11,sample12,sample13,sample14,sample15,sample16,sample17,sample18,sample19,sample20,sample21,sample22,sample23,sample24,sample25,sample26,sample27,sample28,sample29,sample30,sample31", "cpu_s": 4.878, "end_utc": "2026-09-17T21:23:30.900875Z", "exit_code": 0, "forwarded_signals": null, "gpu_names": [], "gpu_peak_memory_used_mib": null, "gpu_peak_utilization_pct": null, "gpu_sample_interval_s": null, "gpu_sampled": false, "gpu_samples": 0, "host": "cn604-12", "kind": "stage", "name": "vcf2smc", "peak_rss_kib": 134528, "peak_rss_scope": "max single process among the child and its reaped descendants (wait4)", "schema": "bench_h2h.resources.v1", "slurm_job_id": "52021116", "stage_kind": "preprocess", "start_utc": "2026-09-17T21:23:25.944502Z", "system_cpu_s": 0.127, "term_signal": null, "user_cpu_s": 4.751, "wall_s": 4.956}
3
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4
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5
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6
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7
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8
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estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/smcpp/est/model.final.json ADDED
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+ 1.0021893594625286,
25
+ 1.0642378325886592,
26
+ 1.1237157503535111,
27
+ 1.201466433806781,
28
+ 1.3000894476493479,
29
+ 1.4000545637692385,
30
+ 1.450163493278088,
31
+ 1.5500837650896877,
32
+ 1.6002177129547424,
33
+ 1.7001735495622832,
34
+ 1.8281571852646004,
35
+ 1.9609456155489,
36
+ 2.1727118569535975,
37
+ 2.7262053357936695,
38
+ Infinity
39
+ ]
40
+ },
41
+ "model": {
42
+ "N0": 3999.999953255611,
43
+ "class": "SMCModel",
44
+ "knots": [
45
+ 0.1508625033657385,
46
+ 0.22635525497798073,
47
+ 0.27516139983090165,
48
+ 0.3450494404567275,
49
+ 0.4416259198333597,
50
+ 0.5222051160156624,
51
+ 0.6616854892402586,
52
+ 0.7705528231551921,
53
+ 0.8918324074448198,
54
+ 1.0021893594625286,
55
+ 1.1237157503535111,
56
+ 1.3000894476493479,
57
+ 1.450163493278088,
58
+ 1.6002177129547424,
59
+ 1.8281571852646004,
60
+ 2.1727118569535975
61
+ ],
62
+ "pid": "pop1",
63
+ "spline_class": "Piecewise",
64
+ "y": [
65
+ 1.17330600948414,
66
+ 1.0233471699476977,
67
+ 0.902189698582863,
68
+ 0.8275599511683949,
69
+ 0.7993321747714968,
70
+ 0.8020385403820166,
71
+ 0.8122410061283656,
72
+ 0.8070141151069483,
73
+ 0.7694293192775653,
74
+ 0.6881749240679146,
75
+ 0.5555885550385758,
76
+ 0.3631622255707714,
77
+ 0.10738221663199315,
78
+ -0.20565456640602103,
79
+ -0.5535636783242975,
80
+ -0.9118313145482451
81
+ ]
82
+ },
83
+ "rho": 7.999999857891455e-05,
84
+ "theta": 0.0001
85
+ }
estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/smcpp/estimate.cmd ADDED
@@ -0,0 +1 @@
 
 
1
+ smc++ estimate --cores 8 --knots 16 --em-iterations 20 -o /ibex/project/c2041/hany0c/bench_h2h_20260915/fits/v1/smcpp/EQ/tune_d4_rp3_ftol1e-6/v2_a2_BOT_X100_20K/K1/g1/n32/smcpp/est --unfold -r 9.99999993922529e-09 --regularization-penalty 3.0 --ftol 1e-06 1.2500000146076218e-08 /ibex/project/c2041/hany0c/bench_h2h_20260915/fits/v1/smcpp/EQ/tune_d4_rp3_ftol1e-6/v2_a2_BOT_X100_20K/K1/g1/n32/smcpp/data/region_1.d0.smc.gz /ibex/project/c2041/hany0c/bench_h2h_20260915/fits/v1/smcpp/EQ/tune_d4_rp3_ftol1e-6/v2_a2_BOT_X100_20K/K1/g1/n32/smcpp/data/region_1.d1.smc.gz /ibex/project/c2041/hany0c/bench_h2h_20260915/fits/v1/smcpp/EQ/tune_d4_rp3_ftol1e-6/v2_a2_BOT_X100_20K/K1/g1/n32/smcpp/data/region_1.d2.smc.gz /ibex/project/c2041/hany0c/bench_h2h_20260915/fits/v1/smcpp/EQ/tune_d4_rp3_ftol1e-6/v2_a2_BOT_X100_20K/K1/g1/n32/smcpp/data/region_1.d3.smc.gz
estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/smcpp/estimate.err ADDED
@@ -0,0 +1,673 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
2
+ from ._conv import register_converters as _register_converters
3
+ 487 smcpp.analysis.base INFO theta: 0.000100
4
+ 487 smcpp.analysis.base INFO rho: 0.000080
5
+ 487 smcpp.analysis.base WARNING Using unfolded SFS. The user should verify that the ancestral allele has been correctly coded.
6
+ 487 smcpp.data_filter INFO Loading data...
7
+ 553 smcpp.data_filter INFO 0.12 Gb of data
8
+ 554 smcpp.data_filter INFO 1 population
9
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
10
+ from ._conv import register_converters as _register_converters
11
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
12
+ from ._conv import register_converters as _register_converters
13
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
14
+ from ._conv import register_converters as _register_converters
15
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
16
+ from ._conv import register_converters as _register_converters
17
+ 3971 smcpp.optimize.plugins.progress_printer INFO Starting EM algorithm...
18
+ 3971 smcpp.optimize.plugins.progress_printer INFO EM iteration 1 of 1...
19
+ 3971 smcpp.analysis.base INFO Running E-step
20
+ 4061 smcpp.analysis.base INFO E-step completed
21
+ 4061 smcpp.optimize.plugins.loglikelihood_monitor INFO Loglik: -2526676.943836
22
+ 16323 smcpp.optimize.plugins.progress_printer INFO Current model:
23
+
24
+ 1.03 0.75 0.26 -0.37 -1.03 -1.69 -2.34 -2.99
25
+ 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.79 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 1.30 1.30 1.30 1.30 1.30 1.30 1.30 1.30 1.30 1.30 1.30 1.30 0.69 0.69 0.69 0.69 0.69 0.69 0.69 0.69 0.69 0.69 0.36 0.36 0.36 0.36 0.36 0.36 0.36 0.36 0.18 0.18 0.18 0.18 0.18 0.18 0.18 0.18 0.18 0.18 0.10 0.10 0.10 0.10 0.10 0.10 0.10 0.10 0.10 0.10 0.05
26
+ 16331 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
27
+
28
+
29
+ 100000 +++-----+----+---+--+--+--+-+-+-----------+-------+----+---+--++++
30
+ ++ + ++
31
+ ++ Pop. 1 *******++
32
+ ++ ++
33
+ ********************** |
34
+ 10000 +++ B*********** +++
35
+ ++ B******* ++
36
+ ++ B****** ++
37
+ ++ * ++
38
+ 1000 +-+ B***** +-+
39
+ ++ B****** ++
40
+ ++ B******+
41
+ ++ +*
42
+ ++ + +*
43
+ 100 +-+-----+----+---+--+--+--+-+-+-----------+-------+----+---+--++-+
44
+ 10000
45
+ Generations
46
+
47
+
48
+ 16333 smcpp.data_filter INFO Loading data...
49
+ 16454 smcpp.data_filter INFO 0.12 Gb of data
50
+ 16455 smcpp.data_filter INFO 1 population
51
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
52
+ from ._conv import register_converters as _register_converters
53
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
54
+ from ._conv import register_converters as _register_converters
55
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
56
+ from ._conv import register_converters as _register_converters
57
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
58
+ from ._conv import register_converters as _register_converters
59
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
60
+ from ._conv import register_converters as _register_converters
61
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
62
+ from ._conv import register_converters as _register_converters
63
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
64
+ from ._conv import register_converters as _register_converters
65
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
66
+ from ._conv import register_converters as _register_converters
67
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
68
+ from ._conv import register_converters as _register_converters
69
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
70
+ from ._conv import register_converters as _register_converters
71
+ /ibex/sw/csi/smcpp/1.15.2/linux_binary/smcpp/lib/python3.6/site-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
72
+ from ._conv import register_converters as _register_converters
73
+ 24721 smcpp.optimize.plugins.progress_printer INFO Starting EM algorithm...
74
+ 24721 smcpp.optimize.plugins.progress_printer INFO EM iteration 1 of 20...
75
+ 24721 smcpp.analysis.base INFO Running E-step
76
+ 26127 smcpp.analysis.base INFO E-step completed
77
+ 26130 smcpp.optimize.plugins.loglikelihood_monitor INFO Loglik: -160572.209075
78
+ 103152 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
79
+
80
+
81
+ 10000 +-+---------+----------+------+----+----+--+---+--+-+-----------+-+
82
+ *********** + ++
83
+ ++ B****B****B******B***B*****B**B*** Pop. 1 *******++
84
+ ++ B*** ++
85
+ ++ B**B**B** ++
86
+ | B** |
87
+ ++ * ++
88
+ ++ B***B***B
89
+ | |
90
+ | |
91
+ ++ ++
92
+ | |
93
+ | |
94
+ | + |
95
+ 1000 +-+---------+----------+------+----+----+--+---+--+-+-----------+-+
96
+ 10000
97
+ Generations
98
+
99
+
100
+ 103152 smcpp.optimize.plugins.progress_printer INFO Current model:
101
+
102
+ 0.68 0.61 0.61 0.61 0.61 0.61 0.60 0.55 0.45 0.29 0.31 0.23 0.03 -0.26 -0.21 -0.25
103
+ 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.84 1.82 1.82 1.82 1.82 1.82 1.82 1.74 1.74 1.74 1.74 1.74 1.56 1.56 1.56 1.56 1.56 1.34 1.34 1.34 1.34 1.37 1.37 1.37 1.37 1.37 1.26 1.26 1.26 1.26 1.03 1.03 1.03 1.03 0.77 0.77 0.77 0.77 0.77 0.81 0.81 0.81 0.81 0.81 0.81 0.78
104
+ 103152 smcpp.optimize.plugins.progress_printer INFO EM iteration 2 of 20...
105
+ 103153 smcpp.analysis.base INFO Running E-step
106
+ 104889 smcpp.analysis.base INFO E-step completed
107
+ 104907 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160419.692219 (old: -160572.209075 [0.094983%])
108
+ 212877 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
109
+
110
+
111
+ 10000 ***********-+----------+------+----+----+--+---+--+-+-----------+-+
112
+ ++ B****B****B******B***B*****B**B*** + ++
113
+ ++ B*** Pop. 1 *******++
114
+ ++ B**B**B** ++
115
+ ++ * ++
116
+ | B** |
117
+ ++ B*** +B
118
+ ++ B***+
119
+ | |
120
+ | |
121
+ ++ ++
122
+ | |
123
+ | |
124
+ | + |
125
+ 1000 +-+---------+----------+------+----+----+--+---+--+-+-----------+-+
126
+ 10000
127
+ Generations
128
+
129
+
130
+ 212878 smcpp.optimize.plugins.progress_printer INFO Current model:
131
+
132
+ 0.85 0.77 0.73 0.75 0.75 0.75 0.73 0.69 0.60 0.48 0.40 0.35 0.16 -0.06 -0.18 -0.10
133
+ 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.08 2.08 2.08 2.08 2.08 2.08 2.08 2.08 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.08 2.08 2.08 2.08 2.08 2.08 1.99 1.99 1.99 1.99 1.99 1.82 1.82 1.82 1.82 1.82 1.62 1.62 1.62 1.62 1.49 1.49 1.49 1.49 1.49 1.42 1.42 1.42 1.42 1.17 1.17 1.17 1.17 0.94 0.94 0.94 0.94 0.94 0.83 0.83 0.83 0.83 0.83 0.83 0.90
134
+ 212878 smcpp.optimize.plugins.progress_printer INFO EM iteration 3 of 20...
135
+ 212878 smcpp.analysis.base INFO Running E-step
136
+ 214525 smcpp.analysis.base INFO E-step completed
137
+ 214528 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160394.602523 (old: -160419.692219 [0.015640%])
138
+ 292918 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
139
+
140
+
141
+ 10000 +-+---------+----------+------+----+----+--+---+--+-+-----------+-+
142
+ **********B***** + ++
143
+ ++ B****B******B***B*****B**B***B*** Pop. 1 *******++
144
+ ++ B** ++
145
+ ++ B**B** ++
146
+ | B** |
147
+ ++ * ++
148
+ ++ B*** ++
149
+ | B***B
150
+ | |
151
+ ++ ++
152
+ | |
153
+ | |
154
+ | + |
155
+ 1000 +-+---------+----------+------+----+----+--+---+--+-+-----------+-+
156
+ 10000
157
+ Generations
158
+
159
+
160
+ 292918 smcpp.optimize.plugins.progress_printer INFO Current model:
161
+
162
+ 0.80 0.68 0.64 0.64 0.66 0.65 0.63 0.59 0.51 0.41 0.31 0.21 0.07 -0.16 -0.33 -0.44
163
+ 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 1.98 1.98 1.98 1.98 1.98 1.98 1.98 1.89 1.89 1.89 1.89 1.89 1.89 1.89 1.89 1.90 1.90 1.90 1.90 1.90 1.90 1.90 1.90 1.90 1.93 1.93 1.93 1.93 1.93 1.93 1.93 1.92 1.92 1.92 1.92 1.92 1.92 1.92 1.92 1.88 1.88 1.88 1.88 1.88 1.88 1.80 1.80 1.80 1.80 1.80 1.66 1.66 1.66 1.66 1.66 1.50 1.50 1.50 1.50 1.36 1.36 1.36 1.36 1.36 1.23 1.23 1.23 1.23 1.07 1.07 1.07 1.07 0.86 0.86 0.86 0.86 0.86 0.72 0.72 0.72 0.72 0.72 0.72 0.64
164
+ 292918 smcpp.optimize.plugins.progress_printer INFO EM iteration 4 of 20...
165
+ 292919 smcpp.analysis.base INFO Running E-step
166
+ 294491 smcpp.analysis.base INFO E-step completed
167
+ 294494 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160375.958712 (old: -160394.602523 [0.011624%])
168
+ 370485 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
169
+
170
+
171
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
172
+ ++ + ++
173
+ ++ Pop. 1 *******++
174
+ ++ ++
175
+ ++ ++
176
+ ++ ++
177
+ | |
178
+ 10000 **********B****B****B*****B***B***** +++
179
+ ++ B***B**B**B**B*** ++
180
+ ++ B**B** ++
181
+ ++ B** ++
182
+ ++ B***B
183
+ ++ ++
184
+ | + |
185
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
186
+ 10000
187
+ Generations
188
+
189
+
190
+ 370486 smcpp.optimize.plugins.progress_printer INFO Current model:
191
+
192
+ 0.93 0.82 0.76 0.76 0.77 0.77 0.75 0.71 0.63 0.54 0.43 0.32 0.17 -0.03 -0.26 -0.45
193
+ 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.55 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.12 2.12 2.12 2.12 2.12 2.12 2.03 2.03 2.03 2.03 2.03 1.88 1.88 1.88 1.88 1.88 1.71 1.71 1.71 1.71 1.54 1.54 1.54 1.54 1.54 1.38 1.38 1.38 1.38 1.19 1.19 1.19 1.19 0.97 0.97 0.97 0.97 0.97 0.77 0.77 0.77 0.77 0.77 0.77 0.64
194
+ 370486 smcpp.optimize.plugins.progress_printer INFO EM iteration 5 of 20...
195
+ 370486 smcpp.analysis.base INFO Running E-step
196
+ 372125 smcpp.analysis.base INFO E-step completed
197
+ 372128 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160369.126149 (old: -160375.958712 [0.004260%])
198
+ 446897 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
199
+
200
+
201
+ 10000 ***********-+----------+------+----+----+--+---+--+-+-----------+-+
202
+ ++ B****B****B******B***B*****B*** + ++
203
+ ++ B***B*** Pop. 1 *******++
204
+ ++ B**B*** ++
205
+ ++ B** ++
206
+ | B** |
207
+ ++ B*** ++
208
+ ++ * ++
209
+ | B***|
210
+ | B
211
+ ++ ++
212
+ | |
213
+ | |
214
+ | + |
215
+ 1000 +-+---------+----------+------+----+----+--+---+--+-+-----------+-+
216
+ 10000
217
+ Generations
218
+
219
+
220
+ 446897 smcpp.optimize.plugins.progress_printer INFO Current model:
221
+
222
+ 0.91 0.78 0.71 0.70 0.72 0.72 0.70 0.66 0.59 0.50 0.39 0.26 0.11 -0.10 -0.34 -0.58
223
+ 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.48 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.04 2.04 2.04 2.04 2.04 2.04 2.04 2.04 2.01 2.01 2.01 2.01 2.01 2.01 2.01 2.01 2.01 2.05 2.05 2.05 2.05 2.05 2.05 2.05 2.06 2.06 2.06 2.06 2.06 2.06 2.06 2.06 2.02 2.02 2.02 2.02 2.02 2.02 1.93 1.93 1.93 1.93 1.93 1.80 1.80 1.80 1.80 1.80 1.64 1.64 1.64 1.64 1.48 1.48 1.48 1.48 1.48 1.30 1.30 1.30 1.30 1.11 1.11 1.11 1.11 0.91 0.91 0.91 0.91 0.91 0.71 0.71 0.71 0.71 0.71 0.71 0.56
224
+ 446897 smcpp.optimize.plugins.progress_printer INFO EM iteration 6 of 20...
225
+ 446898 smcpp.analysis.base INFO Running E-step
226
+ 448551 smcpp.analysis.base INFO E-step completed
227
+ 448554 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160365.763502 (old: -160369.126149 [0.002097%])
228
+ 523518 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
229
+
230
+
231
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
232
+ ++ + ++
233
+ ++ Pop. 1 *******++
234
+ ++ ++
235
+ ++ ++
236
+ ++ ++
237
+ | |
238
+ 10000 **********B****B****B*****B***B*****B*** +++
239
+ ++ B**B**B**B*** ++
240
+ ++ B**B** ++
241
+ ++ B** ++
242
+ ++ B***+
243
+ ++ +B
244
+ | + |
245
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
246
+ 10000
247
+ Generations
248
+
249
+
250
+ 523519 smcpp.optimize.plugins.progress_printer INFO Current model:
251
+
252
+ 0.98 0.85 0.77 0.75 0.76 0.77 0.76 0.71 0.65 0.56 0.45 0.32 0.15 -0.06 -0.31 -0.58
253
+ 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.66 2.34 2.34 2.34 2.34 2.34 2.34 2.34 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.14 2.14 2.14 2.14 2.14 2.14 2.04 2.04 2.04 2.04 2.04 1.91 1.91 1.91 1.91 1.91 1.75 1.75 1.75 1.75 1.57 1.57 1.57 1.57 1.57 1.37 1.37 1.37 1.37 1.16 1.16 1.16 1.16 0.94 0.94 0.94 0.94 0.94 0.73 0.73 0.73 0.73 0.73 0.73 0.56
254
+ 523519 smcpp.optimize.plugins.progress_printer INFO EM iteration 7 of 20...
255
+ 523520 smcpp.analysis.base INFO Running E-step
256
+ 525111 smcpp.analysis.base INFO E-step completed
257
+ 525114 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160363.510217 (old: -160365.763502 [0.001405%])
258
+ 599787 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
259
+
260
+
261
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
262
+ ++ + ++
263
+ ++ Pop. 1 *******++
264
+ ++ ++
265
+ ++ ++
266
+ ++ ++
267
+ | |
268
+ 10000 **********B****B***** +++
269
+ ++ B*****B***B*****B***B**B**B**B*** ++
270
+ ++ B**B** ++
271
+ ++ B** ++
272
+ ++ B***+
273
+ ++ +B
274
+ | + |
275
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
276
+ 10000
277
+ Generations
278
+
279
+
280
+ 599788 smcpp.optimize.plugins.progress_printer INFO Current model:
281
+
282
+ 0.97 0.84 0.76 0.73 0.74 0.75 0.74 0.70 0.63 0.54 0.43 0.29 0.12 -0.10 -0.36 -0.63
283
+ 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.65 2.32 2.32 2.32 2.32 2.32 2.32 2.32 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.07 2.09 2.09 2.09 2.09 2.09 2.09 2.09 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.09 2.09 2.09 2.09 2.09 2.09 2.00 2.00 2.00 2.00 2.00 1.88 1.88 1.88 1.88 1.88 1.72 1.72 1.72 1.72 1.54 1.54 1.54 1.54 1.54 1.34 1.34 1.34 1.34 1.12 1.12 1.12 1.12 0.90 0.90 0.90 0.90 0.90 0.70 0.70 0.70 0.70 0.70 0.70 0.53
284
+ 599788 smcpp.optimize.plugins.progress_printer INFO EM iteration 8 of 20...
285
+ 599789 smcpp.analysis.base INFO Running E-step
286
+ 601419 smcpp.analysis.base INFO E-step completed
287
+ 601423 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160361.806438 (old: -160363.510217 [0.001062%])
288
+ 678047 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
289
+
290
+
291
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
292
+ ++ + ++
293
+ ++ Pop. 1 *******++
294
+ ++ ++
295
+ ++ ++
296
+ ++ ++
297
+ | |
298
+ 10000 **********B****B***** B***B*****B*** +++
299
+ ++ B****** B**B**B**B*** ++
300
+ ++ B**B** ++
301
+ ++ B** ++
302
+ ++ B***+
303
+ ++ +B
304
+ | + |
305
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
306
+ 10000
307
+ Generations
308
+
309
+
310
+ 678047 smcpp.optimize.plugins.progress_printer INFO Current model:
311
+
312
+ 1.01 0.88 0.78 0.75 0.76 0.77 0.76 0.72 0.66 0.57 0.46 0.32 0.13 -0.10 -0.36 -0.64
313
+ 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.12 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.14 2.14 2.14 2.14 2.14 2.14 2.06 2.06 2.06 2.06 2.06 1.93 1.93 1.93 1.93 1.93 1.77 1.77 1.77 1.77 1.58 1.58 1.58 1.58 1.58 1.37 1.37 1.37 1.37 1.14 1.14 1.14 1.14 0.91 0.91 0.91 0.91 0.91 0.70 0.70 0.70 0.70 0.70 0.70 0.53
314
+ 678047 smcpp.optimize.plugins.progress_printer INFO EM iteration 9 of 20...
315
+ 678048 smcpp.analysis.base INFO Running E-step
316
+ 679671 smcpp.analysis.base INFO E-step completed
317
+ 679687 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160360.154021 (old: -160361.806438 [0.001030%])
318
+ 758750 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
319
+
320
+
321
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
322
+ ++ + ++
323
+ ++ Pop. 1 *******++
324
+ ++ ++
325
+ ++ ++
326
+ ++ ++
327
+ | |
328
+ 10000 **********B****B***** B*****B*** +++
329
+ ++ B*****B**** B**B**B**B*** ++
330
+ ++ B**B** ++
331
+ ++ B** ++
332
+ ++ B***+
333
+ ++ +B
334
+ | + |
335
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
336
+ 10000
337
+ Generations
338
+
339
+
340
+ 758751 smcpp.optimize.plugins.progress_printer INFO Current model:
341
+
342
+ 1.02 0.88 0.78 0.74 0.75 0.76 0.75 0.72 0.66 0.57 0.46 0.31 0.12 -0.12 -0.39 -0.68
343
+ 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.77 2.41 2.41 2.41 2.41 2.41 2.41 2.41 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.11 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.13 2.13 2.13 2.13 2.13 2.13 2.06 2.06 2.06 2.06 2.06 1.93 1.93 1.93 1.93 1.93 1.77 1.77 1.77 1.77 1.58 1.58 1.58 1.58 1.58 1.36 1.36 1.36 1.36 1.12 1.12 1.12 1.12 0.89 0.89 0.89 0.89 0.89 0.68 0.68 0.68 0.68 0.68 0.68 0.51
344
+ 758751 smcpp.optimize.plugins.progress_printer INFO EM iteration 10 of 20...
345
+ 758752 smcpp.analysis.base INFO Running E-step
346
+ 760401 smcpp.analysis.base INFO E-step completed
347
+ 760405 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160358.685571 (old: -160360.154021 [0.000916%])
348
+ 837039 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
349
+
350
+
351
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
352
+ ++ + ++
353
+ ++ Pop. 1 *******++
354
+ ++ ++
355
+ ++ ++
356
+ ++ ++
357
+ | |
358
+ 10000 **********B****B****B*****B***B*****B*** +++
359
+ ++ B**B**B**B*** ++
360
+ ++ B**B** ++
361
+ ++ B** ++
362
+ ++ B***+
363
+ ++ +B
364
+ | + |
365
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
366
+ 10000
367
+ Generations
368
+
369
+
370
+ 837040 smcpp.optimize.plugins.progress_printer INFO Current model:
371
+
372
+ 1.04 0.90 0.80 0.76 0.76 0.77 0.77 0.74 0.68 0.59 0.47 0.32 0.12 -0.12 -0.40 -0.70
373
+ 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.84 2.47 2.47 2.47 2.47 2.47 2.47 2.47 2.23 2.23 2.23 2.23 2.23 2.23 2.23 2.23 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.15 2.15 2.15 2.15 2.15 2.15 2.09 2.09 2.09 2.09 2.09 1.97 1.97 1.97 1.97 1.97 1.80 1.80 1.80 1.80 1.61 1.61 1.61 1.61 1.61 1.38 1.38 1.38 1.38 1.13 1.13 1.13 1.13 0.88 0.88 0.88 0.88 0.88 0.67 0.67 0.67 0.67 0.67 0.67 0.50
374
+ 837040 smcpp.optimize.plugins.progress_printer INFO EM iteration 11 of 20...
375
+ 837040 smcpp.analysis.base INFO Running E-step
376
+ 838648 smcpp.analysis.base INFO E-step completed
377
+ 838653 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160357.276441 (old: -160358.685571 [0.000879%])
378
+ 913635 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
379
+
380
+
381
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
382
+ ++ + ++
383
+ ++ Pop. 1 *******++
384
+ ++ ++
385
+ ++ ++
386
+ ++ ++
387
+ | |
388
+ 10000 **********B****B****B*****B***B*****B*** +++
389
+ ++ B**B**B**B*** ++
390
+ ++ B**B** ++
391
+ ++ B** ++
392
+ ++ B***+
393
+ ++ +B
394
+ | + |
395
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
396
+ 10000
397
+ Generations
398
+
399
+
400
+ 913636 smcpp.optimize.plugins.progress_printer INFO Current model:
401
+
402
+ 1.06 0.91 0.81 0.76 0.76 0.77 0.77 0.74 0.68 0.60 0.48 0.32 0.12 -0.14 -0.42 -0.72
403
+ 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.88 2.49 2.49 2.49 2.49 2.49 2.49 2.49 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.25 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.13 2.13 2.13 2.13 2.13 2.13 2.13 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.16 2.16 2.16 2.16 2.16 2.16 2.10 2.10 2.10 2.10 2.10 1.98 1.98 1.98 1.98 1.98 1.82 1.82 1.82 1.82 1.61 1.61 1.61 1.61 1.61 1.38 1.38 1.38 1.38 1.12 1.12 1.12 1.12 0.87 0.87 0.87 0.87 0.87 0.65 0.65 0.65 0.65 0.65 0.65 0.48
404
+ 913636 smcpp.optimize.plugins.progress_printer INFO EM iteration 12 of 20...
405
+ 913637 smcpp.analysis.base INFO Running E-step
406
+ 915186 smcpp.analysis.base INFO E-step completed
407
+ 915192 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160355.984798 (old: -160357.276441 [0.000805%])
408
+ 989465 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
409
+
410
+
411
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
412
+ ++ + ++
413
+ ++ Pop. 1 *******++
414
+ ++ ++
415
+ ++ ++
416
+ ++ ++
417
+ | |
418
+ 10000 **********B****B****B*****B***B*****B***B*** +++
419
+ ++ B**B**B*** ++
420
+ ++ B**B** ++
421
+ ++ B** ++
422
+ ++ B***+
423
+ ++ +B
424
+ | + |
425
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
426
+ 10000
427
+ Generations
428
+
429
+
430
+ 989465 smcpp.optimize.plugins.progress_printer INFO Current model:
431
+
432
+ 1.08 0.93 0.82 0.77 0.76 0.77 0.78 0.75 0.70 0.61 0.49 0.33 0.12 -0.14 -0.44 -0.75
433
+ 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.93 2.54 2.54 2.54 2.54 2.54 2.54 2.54 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.28 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.14 2.14 2.14 2.14 2.14 2.14 2.14 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.12 2.12 2.12 2.12 2.12 2.01 2.01 2.01 2.01 2.01 1.84 1.84 1.84 1.84 1.63 1.63 1.63 1.63 1.63 1.39 1.39 1.39 1.39 1.12 1.12 1.12 1.12 0.87 0.87 0.87 0.87 0.87 0.65 0.65 0.65 0.65 0.65 0.65 0.47
434
+ 989465 smcpp.optimize.plugins.progress_printer INFO EM iteration 13 of 20...
435
+ 989466 smcpp.analysis.base INFO Running E-step
436
+ 991004 smcpp.analysis.base INFO E-step completed
437
+ 991007 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160354.764474 (old: -160355.984798 [0.000761%])
438
+ 1063993 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
439
+
440
+
441
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
442
+ ++ + ++
443
+ ++ Pop. 1 *******++
444
+ ++ ++
445
+ ++ ++
446
+ ++ ++
447
+ *********** |
448
+ 10000 +++ B****B****B*****B***B*****B***B*** +++
449
+ ++ B**B**B*** ++
450
+ ++ B**B** ++
451
+ ++ B** ++
452
+ ++ B***+
453
+ ++ +B
454
+ | + |
455
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
456
+ 10000
457
+ Generations
458
+
459
+
460
+ 1063994 smcpp.optimize.plugins.progress_printer INFO Current model:
461
+
462
+ 1.09 0.94 0.83 0.78 0.76 0.77 0.78 0.76 0.71 0.62 0.50 0.33 0.11 -0.15 -0.46 -0.77
463
+ 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.97 2.57 2.57 2.57 2.57 2.57 2.57 2.57 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.30 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.15 2.15 2.15 2.15 2.15 2.15 2.15 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.18 2.18 2.18 2.18 2.18 2.18 2.14 2.14 2.14 2.14 2.14 2.03 2.03 2.03 2.03 2.03 1.86 1.86 1.86 1.86 1.65 1.65 1.65 1.65 1.65 1.39 1.39 1.39 1.39 1.12 1.12 1.12 1.12 0.86 0.86 0.86 0.86 0.86 0.63 0.63 0.63 0.63 0.63 0.63 0.46
464
+ 1063994 smcpp.optimize.plugins.progress_printer INFO EM iteration 14 of 20...
465
+ 1063995 smcpp.analysis.base INFO Running E-step
466
+ 1065542 smcpp.analysis.base INFO E-step completed
467
+ 1065546 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160353.638038 (old: -160354.764474 [0.000702%])
468
+ 1137997 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
469
+
470
+
471
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
472
+ ++ + ++
473
+ ++ Pop. 1 *******++
474
+ ++ ++
475
+ ++ ++
476
+ ++ ++
477
+ *********** |
478
+ 10000 +++ B****B****B*****B***B*****B***B*** +++
479
+ ++ B**B**B*** ++
480
+ ++ B**B** ++
481
+ ++ B** ++
482
+ ++ B***+
483
+ ++ +B
484
+ | + |
485
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
486
+ 10000
487
+ Generations
488
+
489
+
490
+ 1137998 smcpp.optimize.plugins.progress_printer INFO Current model:
491
+
492
+ 1.10 0.96 0.84 0.78 0.77 0.78 0.79 0.77 0.72 0.63 0.51 0.34 0.11 -0.16 -0.47 -0.79
493
+ 3.02 3.02 3.02 3.02 3.02 3.02 3.02 3.02 3.02 3.02 3.02 3.02 3.02 3.02 3.02 3.02 2.60 2.60 2.60 2.60 2.60 2.60 2.60 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.33 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.16 2.16 2.16 2.16 2.16 2.16 2.16 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.19 2.19 2.19 2.19 2.19 2.19 2.15 2.15 2.15 2.15 2.15 2.05 2.05 2.05 2.05 2.05 1.88 1.88 1.88 1.88 1.66 1.66 1.66 1.66 1.66 1.40 1.40 1.40 1.40 1.12 1.12 1.12 1.12 0.85 0.85 0.85 0.85 0.85 0.62 0.62 0.62 0.62 0.62 0.62 0.45
494
+ 1137998 smcpp.optimize.plugins.progress_printer INFO EM iteration 15 of 20...
495
+ 1137998 smcpp.analysis.base INFO Running E-step
496
+ 1139515 smcpp.analysis.base INFO E-step completed
497
+ 1139518 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160352.587961 (old: -160353.638038 [0.000655%])
498
+ 1212533 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
499
+
500
+
501
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
502
+ ++ + ++
503
+ ++ Pop. 1 *******++
504
+ ++ ++
505
+ ++ ++
506
+ ++ ++
507
+ *********** |
508
+ 10000 +++ B****B****B*****B***B*****B***B*** +++
509
+ ++ B**B**B*** ++
510
+ ++ B**B** ++
511
+ ++ B** ++
512
+ ++ B***+
513
+ ++ +B
514
+ | + |
515
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
516
+ 10000
517
+ Generations
518
+
519
+
520
+ 1212534 smcpp.optimize.plugins.progress_printer INFO Current model:
521
+
522
+ 1.12 0.97 0.85 0.79 0.77 0.78 0.79 0.77 0.73 0.64 0.52 0.34 0.11 -0.17 -0.49 -0.81
523
+ 3.06 3.06 3.06 3.06 3.06 3.06 3.06 3.06 3.06 3.06 3.06 3.06 3.06 3.06 3.06 3.06 2.63 2.63 2.63 2.63 2.63 2.63 2.63 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.35 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.17 2.17 2.17 2.17 2.17 2.17 2.17 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.20 2.20 2.20 2.20 2.20 2.20 2.17 2.17 2.17 2.17 2.17 2.07 2.07 2.07 2.07 2.07 1.90 1.90 1.90 1.90 1.68 1.68 1.68 1.68 1.68 1.41 1.41 1.41 1.41 1.12 1.12 1.12 1.12 0.84 0.84 0.84 0.84 0.84 0.61 0.61 0.61 0.61 0.61 0.61 0.44
524
+ 1212534 smcpp.optimize.plugins.progress_printer INFO EM iteration 16 of 20...
525
+ 1212535 smcpp.analysis.base INFO Running E-step
526
+ 1214020 smcpp.analysis.base INFO E-step completed
527
+ 1214023 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160351.615314 (old: -160352.587961 [0.000607%])
528
+ 1286974 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
529
+
530
+
531
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
532
+ ++ + ++
533
+ ++ Pop. 1 *******++
534
+ ++ ++
535
+ ++ ++
536
+ ++ ++
537
+ *********** |
538
+ 10000 +++ B****B****B*****B***B*****B***B*** +++
539
+ ++ B**B**B*** ++
540
+ ++ B**B** ++
541
+ ++ B** ++
542
+ ++ B***+
543
+ ++ +B
544
+ | + |
545
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
546
+ 10000
547
+ Generations
548
+
549
+
550
+ 1286975 smcpp.optimize.plugins.progress_printer INFO Current model:
551
+
552
+ 1.13 0.98 0.86 0.80 0.78 0.79 0.79 0.78 0.74 0.65 0.52 0.35 0.11 -0.18 -0.50 -0.83
553
+ 3.10 3.10 3.10 3.10 3.10 3.10 3.10 3.10 3.10 3.10 3.10 3.10 3.10 3.10 3.10 3.10 2.67 2.67 2.67 2.67 2.67 2.67 2.67 2.37 2.37 2.37 2.37 2.37 2.37 2.37 2.37 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.18 2.18 2.18 2.18 2.18 2.18 2.18 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.21 2.21 2.21 2.21 2.21 2.21 2.19 2.19 2.19 2.19 2.19 2.09 2.09 2.09 2.09 2.09 1.92 1.92 1.92 1.92 1.69 1.69 1.69 1.69 1.69 1.41 1.41 1.41 1.41 1.12 1.12 1.12 1.12 0.84 0.84 0.84 0.84 0.84 0.61 0.61 0.61 0.61 0.61 0.61 0.43
554
+ 1286975 smcpp.optimize.plugins.progress_printer INFO EM iteration 17 of 20...
555
+ 1286976 smcpp.analysis.base INFO Running E-step
556
+ 1288500 smcpp.analysis.base INFO E-step completed
557
+ 1288503 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160350.710089 (old: -160351.615314 [0.000565%])
558
+ 1359961 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
559
+
560
+
561
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
562
+ ++ + ++
563
+ ++ Pop. 1 *******++
564
+ ++ ++
565
+ ++ ++
566
+ ++ ++
567
+ *********** |
568
+ 10000 +++ B****B****B*****B***B*****B***B*** +++
569
+ ++ B**B**B*** ++
570
+ ++ B**B** ++
571
+ ++ B** ++
572
+ ++ B***+
573
+ ++ +B
574
+ | + |
575
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
576
+ 10000
577
+ Generations
578
+
579
+
580
+ 1359961 smcpp.optimize.plugins.progress_printer INFO Current model:
581
+
582
+ 1.14 0.99 0.87 0.81 0.78 0.79 0.80 0.79 0.74 0.66 0.53 0.35 0.11 -0.19 -0.51 -0.86
583
+ 3.13 3.13 3.13 3.13 3.13 3.13 3.13 3.13 3.13 3.13 3.13 3.13 3.13 3.13 3.13 3.13 2.70 2.70 2.70 2.70 2.70 2.70 2.70 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.40 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.24 2.19 2.19 2.19 2.19 2.19 2.19 2.19 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.22 2.22 2.22 2.22 2.22 2.22 2.20 2.20 2.20 2.20 2.20 2.11 2.11 2.11 2.11 2.11 1.94 1.94 1.94 1.94 1.70 1.70 1.70 1.70 1.70 1.42 1.42 1.42 1.42 1.12 1.12 1.12 1.12 0.83 0.83 0.83 0.83 0.83 0.60 0.60 0.60 0.60 0.60 0.60 0.43
584
+ 1359961 smcpp.optimize.plugins.progress_printer INFO EM iteration 18 of 20...
585
+ 1359962 smcpp.analysis.base INFO Running E-step
586
+ 1361455 smcpp.analysis.base INFO E-step completed
587
+ 1361460 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160349.868967 (old: -160350.710089 [0.000525%])
588
+ 1431698 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
589
+
590
+
591
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
592
+ ++ + ++
593
+ ++ Pop. 1 *******++
594
+ ++ ++
595
+ ++ ++
596
+ ++ ++
597
+ *********** |
598
+ 10000 +++ B****B****B*****B***B*****B***B**B*** +++
599
+ ++ B**B*** ++
600
+ ++ B**B** ++
601
+ ++ B** ++
602
+ ++ B***+
603
+ ++ +B
604
+ | + |
605
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
606
+ 10000
607
+ Generations
608
+
609
+
610
+ 1431699 smcpp.optimize.plugins.progress_printer INFO Current model:
611
+
612
+ 1.15 1.00 0.88 0.81 0.79 0.79 0.80 0.79 0.75 0.67 0.54 0.35 0.11 -0.19 -0.53 -0.87
613
+ 3.17 3.17 3.17 3.17 3.17 3.17 3.17 3.17 3.17 3.17 3.17 3.17 3.17 3.17 3.17 3.17 2.73 2.73 2.73 2.73 2.73 2.73 2.73 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.42 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.26 2.20 2.20 2.20 2.20 2.20 2.20 2.20 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.23 2.23 2.23 2.23 2.23 2.23 2.21 2.21 2.21 2.21 2.21 2.12 2.12 2.12 2.12 2.12 1.96 1.96 1.96 1.96 1.72 1.72 1.72 1.72 1.72 1.43 1.43 1.43 1.43 1.12 1.12 1.12 1.12 0.83 0.83 0.83 0.83 0.83 0.59 0.59 0.59 0.59 0.59 0.59 0.42
614
+ 1431699 smcpp.optimize.plugins.progress_printer INFO EM iteration 19 of 20...
615
+ 1431700 smcpp.analysis.base INFO Running E-step
616
+ 1433177 smcpp.analysis.base INFO E-step completed
617
+ 1433180 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160349.086340 (old: -160349.868967 [0.000488%])
618
+ 1503476 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
619
+
620
+
621
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
622
+ ++ + ++
623
+ ++ Pop. 1 *******++
624
+ ++ ++
625
+ ++ ++
626
+ ++ ++
627
+ *********** |
628
+ 10000 +++ B****B****B*****B***B*****B***B**B*** +++
629
+ ++ B**B*** ++
630
+ ++ B**B** ++
631
+ ++ B** ++
632
+ ++ B***+
633
+ ++ +*
634
+ | + B
635
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
636
+ 10000
637
+ Generations
638
+
639
+
640
+ 1503476 smcpp.optimize.plugins.progress_printer INFO Current model:
641
+
642
+ 1.16 1.01 0.89 0.82 0.79 0.80 0.81 0.80 0.76 0.68 0.55 0.36 0.11 -0.20 -0.54 -0.89
643
+ 3.20 3.20 3.20 3.20 3.20 3.20 3.20 3.20 3.20 3.20 3.20 3.20 3.20 3.20 3.20 3.20 2.75 2.75 2.75 2.75 2.75 2.75 2.75 2.44 2.44 2.44 2.44 2.44 2.44 2.44 2.44 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.27 2.21 2.21 2.21 2.21 2.21 2.21 2.21 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.24 2.24 2.24 2.24 2.24 2.24 2.23 2.23 2.23 2.23 2.23 2.14 2.14 2.14 2.14 2.14 1.97 1.97 1.97 1.97 1.73 1.73 1.73 1.73 1.73 1.43 1.43 1.43 1.43 1.11 1.11 1.11 1.11 0.82 0.82 0.82 0.82 0.82 0.58 0.58 0.58 0.58 0.58 0.58 0.41
644
+ 1503477 smcpp.optimize.plugins.progress_printer INFO EM iteration 20 of 20...
645
+ 1503477 smcpp.analysis.base INFO Running E-step
646
+ 1504953 smcpp.analysis.base INFO E-step completed
647
+ 1504957 smcpp.optimize.plugins.loglikelihood_monitor INFO New loglik: -160348.357408 (old: -160349.086340 [0.000455%])
648
+ 1574161 smcpp.optimize.plugins.ascii_plotter INFO Plot of current model:
649
+
650
+
651
+ 100000 +++---------+---------+------+-----+---+---+--+--+--+----------+++
652
+ ++ + ++
653
+ ++ Pop. 1 *******++
654
+ ++ ++
655
+ ++ ++
656
+ ++ ++
657
+ *********** |
658
+ 10000 +++ B****B****B*****B***B*****B***B**B*** +++
659
+ ++ B**B*** ++
660
+ ++ B**B** ++
661
+ ++ B** ++
662
+ ++ B***+
663
+ ++ +*
664
+ | + B
665
+ 1000 +-+---------+---------+------+-----+---+---+--+--+--+----------+-+
666
+ 10000
667
+ Generations
668
+
669
+
670
+ 1574162 smcpp.optimize.plugins.progress_printer INFO Current model:
671
+
672
+ 1.17 1.02 0.90 0.83 0.80 0.80 0.81 0.81 0.77 0.69 0.56 0.36 0.11 -0.21 -0.55 -0.91
673
+ 3.23 3.23 3.23 3.23 3.23 3.23 3.23 3.23 3.23 3.23 3.23 3.23 3.23 3.23 3.23 3.23 2.78 2.78 2.78 2.78 2.78 2.78 2.78 2.46 2.46 2.46 2.46 2.46 2.46 2.46 2.46 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.29 2.22 2.22 2.22 2.22 2.22 2.22 2.22 2.23 2.23 2.23 2.23 2.23 2.23 2.23 2.23 2.25 2.25 2.25 2.25 2.25 2.25 2.24 2.24 2.24 2.24 2.24 2.16 2.16 2.16 2.16 2.16 1.99 1.99 1.99 1.99 1.74 1.74 1.74 1.74 1.74 1.44 1.44 1.44 1.44 1.11 1.11 1.11 1.11 0.81 0.81 0.81 0.81 0.81 0.57 0.57 0.57 0.57 0.57 0.57 0.40
estimates/smcpp_converged/a2/BOT_X100_20K/K1/g1/n32/smcpp/estimate.out ADDED
@@ -0,0 +1,87 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ RUNNING THE L-BFGS-B CODE
2
+
3
+ * * *
4
+
5
+ Machine precision = 2.220D-16
6
+ N = 8 M = 10
7
+
8
+ At X0 0 variables are exactly at the bounds
9
+
10
+ At iterate 0 f= 2.50071D+06 |proj g|= 3.00000D+00
11
+
12
+ At iterate 1 f= 2.45661D+06 |proj g|= 3.66793D+00
13
+
14
+ At iterate 2 f= 2.45032D+06 |proj g|= 3.51135D+00
15
+
16
+ At iterate 3 f= 2.44583D+06 |proj g|= 4.08430D+00
17
+
18
+ At iterate 4 f= 2.44526D+06 |proj g|= 4.02810D+00
19
+
20
+ At iterate 5 f= 2.44503D+06 |proj g|= 3.16502D+00
21
+
22
+ At iterate 6 f= 2.44473D+06 |proj g|= 3.23354D+00
23
+
24
+ At iterate 7 f= 2.44449D+06 |proj g|= 3.27512D+00
25
+
26
+ At iterate 8 f= 2.44438D+06 |proj g|= 3.67319D+00
27
+
28
+ At iterate 9 f= 2.44428D+06 |proj g|= 4.02397D+00
29
+
30
+ At iterate 10 f= 2.44426D+06 |proj g|= 4.02023D+00
31
+
32
+ At iterate 11 f= 2.44424D+06 |proj g|= 4.01973D+00
33
+
34
+ At iterate 12 f= 2.44422D+06 |proj g|= 3.48983D+00
35
+
36
+ At iterate 13 f= 2.44417D+06 |proj g|= 3.57691D+00
37
+
38
+ At iterate 14 f= 2.44404D+06 |proj g|= 3.85069D+00
39
+
40
+ At iterate 15 f= 2.44381D+06 |proj g|= 4.70107D+00
41
+ Positive dir derivative in projection
42
+ Using the backtracking step
43
+
44
+ At iterate 16 f= 2.44374D+06 |proj g|= 5.47413D+00
45
+
46
+ At iterate 17 f= 2.44361D+06 |proj g|= 5.42845D+00
47
+
48
+ At iterate 18 f= 2.44359D+06 |proj g|= 5.38813D+00
49
+
50
+ At iterate 19 f= 2.44358D+06 |proj g|= 6.00000D+00
51
+
52
+ At iterate 20 f= 2.44358D+06 |proj g|= 5.37379D+00
53
+
54
+ At iterate 21 f= 2.44358D+06 |proj g|= 5.36481D+00
55
+
56
+ At iterate 22 f= 2.44358D+06 |proj g|= 5.34417D+00
57
+
58
+ At iterate 23 f= 2.44357D+06 |proj g|= 4.70121D+00
59
+
60
+ At iterate 24 f= 2.44357D+06 |proj g|= 4.01568D+00
61
+
62
+ At iterate 25 f= 2.44357D+06 |proj g|= 1.78395D+00
63
+
64
+ * * *
65
+
66
+ Tit = total number of iterations
67
+ Tnf = total number of function evaluations
68
+ Tnint = total number of segments explored during Cauchy searches
69
+ Skip = number of BFGS updates skipped
70
+ Nact = number of active bounds at final generalized Cauchy point
71
+ Projg = norm of the final projected gradient
72
+ F = final function value
73
+
74
+ * * *
75
+
76
+ N Tit Tnf Tnint Skip Nact Projg F
77
+ 8 25 28 32 0 1 1.784D+00 2.444D+06
78
+ F = 2443573.8775165412
79
+
80
+ CONVERGENCE: REL_REDUCTION_OF_F_<=_FACTR*EPSMCH
81
+
82
+ Cauchy time 0.000E+00 seconds.
83
+ Subspace minimization time 0.000E+00 seconds.
84
+ Line search time 0.000E+00 seconds.
85
+
86
+ Total User time 0.000E+00 seconds.
87
+