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__author__ = 'fccoelho'
import pytest
# import pyximport; pyximport.install(pyimport=True)
from epimodels.discrete.models import (DiscreteModel, Influenza, SIS, SIR, SEIS, SEIR,
SIpRpS, SEIpRpS, SIpR, SEIpR, SIRS, SEQIAHR)
from matplotlib import pyplot as P
def test_SIS():
modelsis = SIS()
modelsis([0, 1, 1000], [0,50], 1001, {'beta': 2, 'gamma': 1})
assert len(modelsis.traces) == 3
assert len(modelsis.traces['time']) == 50
modelsis.plot_traces()
P.show()
assert isinstance(modelsis, DiscreteModel)
def test_SIR():
modelsir = SIR()
modelsir([1000, 1, 0], [0,500], 1001, {'beta': .2, 'gamma': .1})
assert len(modelsir.traces) == 4
assert len(modelsir.traces['time']) == 500
modelsir.plot_traces()
P.show()
assert isinstance(modelsir, DiscreteModel)
def test_FLU():
modelflu = Influenza()
modelflu([250, 1, 0, 0, 0, 250, 1, 0, 0, 0, 250, 1, 0, 0, 0, 250, 1, 0, 0, 0],
[0,50],
1004,
{'beta': 2.0,
'r': 0.25,
'e': 0.5,
'c': 0.5,
'g': 1 / 3,
'd': 1 / 7,
'pc1': .67,
'pc2': .67,
'pc3': .67,
'pc4': .67,
'pp1': .32,
'pp2': .112,
'pp3': .13,
'pp4': .38,
'b': 0
})
assert len(modelflu.traces) == 21
assert len(modelflu.traces['time']) == 50
print(list(modelflu.traces.keys()))
modelflu.plot_traces()
P.show()
assert isinstance(modelflu, DiscreteModel)
def test_SEIS():
modelseis = SEIS()
modelseis([1000, 1, 0], [0,50], 1001, {'beta': 2, 'r': 1, 'e': 1, 'b': 0})
assert len(modelseis.traces) == 4
assert len(modelseis.traces['time']) == 50
modelseis.plot_traces()
P.show()
assert isinstance(modelseis, DiscreteModel)
def test_SEIR():
modelseir = SEIR()
tsteps = [0,50]
modelseir([1000, 1, 1, 0], tsteps, 1002, {'beta': 2, 'r': 1, 'e': 1, 'b': 0, 'alpha': 1})
assert len(modelseir.traces) == 5
assert len(modelseir.traces['time']) == tsteps[1]
modelseir.plot_traces()
P.show()
assert isinstance(modelseir, DiscreteModel)
def test_SIpRpS():
modelsiprps = SIpRpS()
tsteps = [0,50]
modelsiprps([1000, 1, 0], tsteps, 1002, {'beta': 2, 'r': 1, 'e': 1, 'b': 0, 'delta': 0.5})
assert len(modelsiprps.traces) == 4
assert len(modelsiprps.traces['time']) == tsteps[1]
modelsiprps.plot_traces()
P.show()
assert isinstance(modelsiprps, DiscreteModel)
def test_SEIpRpS():
modelseiprps = SEIpRpS()
tsteps = [0,50]
modelseiprps([1000, 1, 0, 0], tsteps, 1002, {'beta': 2, 'r': 1, 'e': 1, 'b': 0, 'delta': 0.5})
assert len(modelseiprps.traces) == 5
assert len(modelseiprps.traces['time']) == tsteps[1]
modelseiprps.plot_traces()
P.show()
assert isinstance(modelseiprps, DiscreteModel)
def test_SIpR():
modelsipr = SIpR()
modelsipr([1000, 1, 0], [0,50], 1001, {'beta': 2, 'gamma': 1, 'b': 0, 'r': .5, 'p': .5})
assert len(modelsipr.traces) == 4
assert len(modelsipr.traces['time']) == 50
modelsipr.plot_traces()
P.show()
assert isinstance(modelsipr, DiscreteModel)
def test_SEIpR():
modelseipr = SEIpR()
tsteps = [0,50]
modelseipr([1000, 1, 1, 0], tsteps, 1002, {'beta': 2, 'r': 1, 'e': 1, 'b': 0, 'p':0.5, 'alpha': 1})
assert len(modelseipr.traces) == 5
assert len(modelseipr.traces['time']) == tsteps[1]
modelseipr.plot_traces()
P.show()
assert isinstance(modelseipr, DiscreteModel)
def test_SIRS():
modelsirs = SIRS()
modelsirs([1000, 1, 0], [0,50], 1001, {'beta': 2, 'b': 0, 'r': .5, 'w': .5})
assert len(modelsirs.traces) == 4
assert len(modelsirs.traces['time']) == 50
modelsirs.plot_traces()
P.show()
assert isinstance(modelsirs, DiscreteModel)
def test_SEQIAHR():
model = SEQIAHR()
model([.99, 0, 1e-6, 0, 0, 0, 0, 0], [0, 300], 1, {'chi': .7, 'phi': .01, 'beta': .5,
'rho': .05, 'delta': .1, 'gamma': .1, 'alpha': .33, 'mu': .03,
'p': .75, 'q': 50, 'r': 40
})
assert len(model.traces) == 9
model.plot_traces()
P.show()
assert isinstance(model, DiscreteModel)
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