settings.py

settings = {
    ### General Settings ###
    'num_replicates': 100,
    'posterior_predictive_checks': False,
    'posterior_parameter_file': 'shrub_posterior',

    # Multiprocessing settings
    # If set to 0, all CPUs are used
    'num_cpus': 8,

    ### ERCS Settings ###
    'length': 200, # torus side length
    'dimensions': 2,
    'sample_locations': [ (69.6935679318, 102.336968639), (84.2747806699, 109.854393873), (90.7830934031, 110.733895594), 
                          (67.0087732054, 112.678057292), (65.3330909796, 112.650283554), (58.6396199893, 114.372255344), 
                          (53.0663564539, 114.844408899), (51.4554796181, 116.649701905), (37.3741941738, 109.123018758), 
                          (26.3572778828, 105.65130144), (23.6632252436, 99.1985361834), (37.9667005962, 93.2086665697), 
                          (46.5487858078, 89.9406233338), (191.0, 101.966652125), (191.0, 101.966652125), 
                          (178.224080268, 95.3842760894), (175.807765014, 96.948863361), (171.308419369, 99.5133052203), 
                          (170.040085309, 98.9300567108), (168.132955261, 98.5875139353), (164.087247346, 92.6254180602), 
                          (167.920023266, 92.7457709272), (124.509669914, 100.457612331), (119.880713489, 92.2551015462), 
                          (115.992390093, 91.0886045272), (103.707139741, 76.5814550919), (90.1905869808, 74.3502980951), 
                          (80.3123939702, 76.6370025689), (50.1871455577, 80.9882216083), (164.13353691, 92.699481363), 
                          (137.646648248, 85.9689787213), (14.9144976007, 114.585187339), (4.86040424604, 111.613397315), 
                          (0.0, 112.678057292) ],
    'recombination_probability': 0.5,
    'num_parents': 1,

    # If true, parameters for events are 
    # set based on population density.
    'neighborhood_size': (20, 20),
    'small_event': { 'rate': (1000.0, 1000.0), 'radius': (5.0, 5.0) },

    ### SeqGen Settings ###
    'mutation_rates': [ 1.25e-8, 1.25e-8, 3.475e-8, 3.475e-8, 3.475e-8 ], 
    'seq_length': '2811',
    'num_partitions': '5',
    'partitions': ['1181', '959', '275', '163', '233'],

    ### Testing Settings ###
    'debug': True
}