# sample file
# comments have #s in front of them
# newlines don't matter.

#-- options that could be uncommented
#infinite_sites yes
#random_seed 12345   # Specifies a particular random number seed
#number_mutation_sites 2000  # Fixed number of mutation sites

# in bp.
length 250000

# per bp per generation
mutation_rate 1.5e-8

recomb_file model.test
gene_conversion_rate 4.5e-9


# population info

pop_define 1 european
pop_define 3 african-american
pop_define 4 asian
pop_define 5 african

#european
pop_size 1 100000
sample_size 1 50

#african american
pop_size 3 100000
sample_size 3 50

#asian
pop_size 4 100000
sample_size 4 50

#african
pop_size 5 100000
sample_size 5 60

pop_event migration_rate "afr->eur migration" 5 1 0. .000032
pop_event migration_rate "eur->afr migration" 1 5 0 .000032
pop_event migration_rate "afr->as migration" 5 4 0. .000008
pop_event migration_rate "as->afr migration" 4 5 0 .000008
pop_event admix "african american admix" 3 1 5. .2
pop_event split "african to aa" 5 3 7.0

pop_event change_size "agriculture - african" 5 200 24000
pop_event change_size "agriculture - european" 1 350 7700
pop_event change_size "agriculture - asian" 4 400 7700
pop_event bottleneck "african bottleneck" 5 1997 .008
pop_event bottleneck "asian bottleneck" 4 1998 .067
pop_event bottleneck "european bottleneck" 1 1999 .02

pop_event split "asian and european split" 1 4 2000
pop_event migration_rate "afr->eur migration" 5 1 1996 0
pop_event migration_rate "eur->afr migration" 1 5 1995 0
pop_event migration_rate "afr->as migration" 5 4 1994 0
pop_event migration_rate "as->afr migration" 4 5 1993 0

pop_event bottleneck "OoA bottleneck" 1 3499 .085
pop_event split "out of Africa" 5 1 3500

pop_event change_size "african pop size" 5 17000 12500


