Generated Code
The following is python code generated by the CellML API from this CellML file. (Back to language selection)
The raw code is available.
# Size of variable arrays:
sizeAlgebraic = 81
sizeStates = 36
sizeConstants = 77
from math import *
from numpy import *
def createLegends():
legend_states = [""] * sizeStates
legend_rates = [""] * sizeStates
legend_algebraic = [""] * sizeAlgebraic
legend_voi = ""
legend_constants = [""] * sizeConstants
legend_voi = "time in component environment (millisecond)"
legend_states[0] = "V in component membrane (millivolt)"
legend_constants[0] = "Cm in component membrane (microF_per_cm2)"
legend_constants[1] = "Vmyo in component membrane (microlitre)"
legend_constants[2] = "VJSR in component membrane (microlitre)"
legend_constants[3] = "VNSR in component membrane (microlitre)"
legend_constants[4] = "Vss in component membrane (microlitre)"
legend_constants[5] = "Acap in component membrane (cm2)"
legend_constants[6] = "Ko in component membrane (micromolar)"
legend_constants[7] = "Nao in component membrane (micromolar)"
legend_constants[8] = "Cao in component membrane (micromolar)"
legend_constants[9] = "R in component membrane (joule_per_mole_kelvin)"
legend_constants[10] = "T in component membrane (kelvin)"
legend_constants[11] = "F in component membrane (coulomb_per_millimole)"
legend_algebraic[58] = "i_CaL in component L_type_calcium_current (picoA_per_picoF)"
legend_algebraic[59] = "i_pCa in component calcium_pump_current (picoA_per_picoF)"
legend_algebraic[60] = "i_NaCa in component sodium_calcium_exchange_current (picoA_per_picoF)"
legend_algebraic[64] = "i_Cab in component calcium_background_current (picoA_per_picoF)"
legend_algebraic[67] = "i_Na in component fast_sodium_current (picoA_per_picoF)"
legend_algebraic[68] = "i_Nab in component sodium_background_current (picoA_per_picoF)"
legend_algebraic[78] = "i_NaK in component sodium_potassium_pump_current (picoA_per_picoF)"
legend_algebraic[70] = "i_Kto_f in component fast_transient_outward_K_I (picoA_per_picoF)"
legend_algebraic[71] = "i_Kto_s in component slow_transient_outward_K_I (picoA_per_picoF)"
legend_algebraic[72] = "i_K1 in component time_independent_K_I (picoA_per_picoF)"
legend_algebraic[73] = "i_Ks in component slow_delayed_rectifier_K_I (picoA_per_picoF)"
legend_algebraic[74] = "i_Kur in component ultra_rapidly_activating_delayed_rectifier_K_I (picoA_per_picoF)"
legend_algebraic[75] = "i_Kss in component non_inactivating_steady_state_K_I (picoA_per_picoF)"
legend_algebraic[80] = "i_ClCa in component calcium_activated_chloride_current (picoA_per_picoF)"
legend_algebraic[76] = "i_Kr in component rapid_delayed_rectifier_K_I (picoA_per_picoF)"
legend_constants[12] = "stim_offset in component membrane (millisecond)"
legend_constants[13] = "stim_period in component membrane (millisecond)"
legend_constants[14] = "stim_duration in component membrane (millisecond)"
legend_constants[15] = "stim_amplitude in component membrane (picoA_per_picoF)"
legend_algebraic[12] = "i_Stim in component membrane (picoA_per_picoF)"
legend_algebraic[0] = "past in component membrane (millisecond)"
legend_states[1] = "Cai in component calcium_concentration (micromolar)"
legend_states[2] = "Cass in component calcium_concentration (micromolar)"
legend_states[3] = "CaJSR in component calcium_concentration (micromolar)"
legend_states[4] = "CaNSR in component calcium_concentration (micromolar)"
legend_algebraic[26] = "Bi in component calcium_concentration (dimensionless)"
legend_algebraic[31] = "Bss in component calcium_concentration (dimensionless)"
legend_algebraic[35] = "BJSR in component calcium_concentration (dimensionless)"
legend_constants[16] = "Bmax in component calcium_concentration (micromolar)"
legend_constants[17] = "CSQN_tot in component calcium_concentration (micromolar)"
legend_constants[18] = "Kd in component calcium_concentration (micromolar)"
legend_constants[19] = "Km_CSQN in component calcium_concentration (micromolar)"
legend_algebraic[44] = "J_leak in component calcium_fluxes (micromolar_per_millisecond)"
legend_algebraic[38] = "J_rel in component calcium_fluxes (micromolar_per_millisecond)"
legend_algebraic[52] = "J_serca in component calcium_fluxes (micromolar_per_millisecond)"
legend_algebraic[40] = "J_tr in component calcium_fluxes (micromolar_per_millisecond)"
legend_algebraic[42] = "J_xfer in component calcium_fluxes (micromolar_per_millisecond)"
legend_states[5] = "P_RyR in component calcium_fluxes (dimensionless)"
legend_constants[20] = "v1 in component calcium_fluxes (per_millisecond)"
legend_constants[21] = "tau_tr in component calcium_fluxes (millisecond)"
legend_constants[22] = "v2 in component calcium_fluxes (per_millisecond)"
legend_constants[23] = "tau_xfer in component calcium_fluxes (millisecond)"
legend_algebraic[46] = "CaMKb in component calcium_fluxes (dimensionless)"
legend_states[6] = "CaMKt in component calcium_fluxes (dimensionless)"
legend_algebraic[48] = "CaMKa in component calcium_fluxes (dimensionless)"
legend_constants[24] = "on_rate in component calcium_fluxes (per_millisecond)"
legend_constants[25] = "off_rate in component calcium_fluxes (per_millisecond)"
legend_algebraic[50] = "vmup in component calcium_fluxes (micromolar_per_millisecond)"
legend_constants[26] = "Km_up in component calcium_fluxes (micromolar)"
legend_constants[27] = "i_CaL_max in component L_type_calcium_current (picoA_per_picoF)"
legend_states[7] = "P_O1 in component ryanodine_receptors (dimensionless)"
legend_states[8] = "P_O2 in component ryanodine_receptors (dimensionless)"
legend_constants[28] = "vmup_init in component calcium_fluxes (micromolar_per_millisecond)"
legend_constants[29] = "P_ryr_const1 in component calcium_fluxes (per_millisecond)"
legend_constants[30] = "P_ryr_const2 in component calcium_fluxes (per_millisecond)"
legend_algebraic[1] = "P_C1 in component ryanodine_receptors (dimensionless)"
legend_states[9] = "P_C2 in component ryanodine_receptors (dimensionless)"
legend_constants[31] = "k_plus_a in component ryanodine_receptors (micromolar4_per_millisecond)"
legend_constants[32] = "k_minus_a in component ryanodine_receptors (per_millisecond)"
legend_constants[33] = "k_plus_b in component ryanodine_receptors (micromolar3_per_millisecond)"
legend_constants[34] = "k_minus_b in component ryanodine_receptors (per_millisecond)"
legend_constants[35] = "k_plus_c in component ryanodine_receptors (per_millisecond)"
legend_constants[36] = "k_minus_c in component ryanodine_receptors (per_millisecond)"
legend_constants[37] = "m in component ryanodine_receptors (dimensionless)"
legend_constants[38] = "n in component ryanodine_receptors (dimensionless)"
legend_constants[39] = "P_CaL in component L_type_calcium_current (per_millisecond)"
legend_states[10] = "O in component L_type_calcium_current (dimensionless)"
legend_algebraic[36] = "C in component L_type_calcium_current (dimensionless)"
legend_states[11] = "I in component L_type_calcium_current (dimensionless)"
legend_states[12] = "y_gate in component L_type_calcium_current (dimensionless)"
legend_algebraic[2] = "y_gate_inf in component L_type_calcium_current (dimensionless)"
legend_algebraic[13] = "y_gate_tau in component L_type_calcium_current (millisecond)"
legend_algebraic[14] = "alpha_p in component L_type_calcium_current (per_millisecond)"
legend_constants[74] = "alpha_m in component L_type_calcium_current (per_millisecond)"
legend_algebraic[27] = "epsilon_p in component L_type_calcium_current (per_micromolar_millisecond)"
legend_algebraic[32] = "epsilon_m in component L_type_calcium_current (per_millisecond)"
legend_constants[40] = "V_L in component L_type_calcium_current (millivolt)"
legend_constants[41] = "delta_V_L in component L_type_calcium_current (millivolt)"
legend_constants[42] = "t_L in component L_type_calcium_current (millisecond)"
legend_constants[43] = "phi_L in component L_type_calcium_current (dimensionless)"
legend_constants[44] = "a in component L_type_calcium_current (dimensionless)"
legend_constants[45] = "b in component L_type_calcium_current (dimensionless)"
legend_constants[46] = "tau_L in component L_type_calcium_current (millisecond)"
legend_constants[47] = "K_L in component L_type_calcium_current (micromolar)"
legend_algebraic[3] = "expVL in component L_type_calcium_current (dimensionless)"
legend_algebraic[54] = "FVRT in component L_type_calcium_current (dimensionless)"
legend_algebraic[56] = "FVRT_Ca in component L_type_calcium_current (dimensionless)"
legend_constants[48] = "const5 in component L_type_calcium_current (millivolt)"
legend_constants[49] = "i_pCa_max in component calcium_pump_current (picoA_per_picoF)"
legend_constants[50] = "Km_pCa in component calcium_pump_current (micromolar)"
legend_algebraic[61] = "J_pCa in component calcium_pump_current (micromolar_per_millisecond)"
legend_algebraic[63] = "J_ncx in component sodium_calcium_exchange_current (micromolar_per_millisecond)"
legend_constants[51] = "k_NaCa in component sodium_calcium_exchange_current (picoA_per_picoF)"
legend_constants[52] = "K_mNa in component sodium_calcium_exchange_current (micromolar)"
legend_constants[53] = "K_mCa in component sodium_calcium_exchange_current (micromolar)"
legend_constants[54] = "k_sat in component sodium_calcium_exchange_current (dimensionless)"
legend_constants[55] = "eta in component sodium_calcium_exchange_current (dimensionless)"
legend_states[13] = "Nai in component sodium_concentration (micromolar)"
legend_constants[56] = "g_Cab in component calcium_background_current (milliS_per_microF)"
legend_algebraic[62] = "E_CaN in component calcium_background_current (millivolt)"
legend_algebraic[66] = "J_Cab in component calcium_background_current (micromolar_per_millisecond)"
legend_algebraic[65] = "E_Na in component fast_sodium_current (millivolt)"
legend_constants[57] = "g_Na in component fast_sodium_current (milliS_per_microF)"
legend_states[14] = "O_Na in component fast_sodium_current (dimensionless)"
legend_states[15] = "C_Na1 in component fast_sodium_current (dimensionless)"
legend_states[16] = "C_Na2 in component fast_sodium_current (dimensionless)"
legend_algebraic[4] = "C_Na3 in component fast_sodium_current (dimensionless)"
legend_states[17] = "I1_Na in component fast_sodium_current (dimensionless)"
legend_states[18] = "I2_Na in component fast_sodium_current (dimensionless)"
legend_states[19] = "IF_Na in component fast_sodium_current (dimensionless)"
legend_states[20] = "IC_Na2 in component fast_sodium_current (dimensionless)"
legend_states[21] = "IC_Na3 in component fast_sodium_current (dimensionless)"
legend_algebraic[15] = "alpha_Na11 in component fast_sodium_current (per_millisecond)"
legend_algebraic[37] = "beta_Na11 in component fast_sodium_current (per_millisecond)"
legend_algebraic[28] = "alpha_Na12 in component fast_sodium_current (per_millisecond)"
legend_algebraic[39] = "beta_Na12 in component fast_sodium_current (per_millisecond)"
legend_algebraic[33] = "alpha_Na13 in component fast_sodium_current (per_millisecond)"
legend_algebraic[41] = "beta_Na13 in component fast_sodium_current (per_millisecond)"
legend_algebraic[43] = "alpha_Na3 in component fast_sodium_current (per_millisecond)"
legend_algebraic[45] = "beta_Na3 in component fast_sodium_current (per_millisecond)"
legend_algebraic[47] = "alpha_Na2 in component fast_sodium_current (per_millisecond)"
legend_algebraic[49] = "beta_Na2 in component fast_sodium_current (per_millisecond)"
legend_algebraic[51] = "alpha_Na4 in component fast_sodium_current (per_millisecond)"
legend_algebraic[53] = "beta_Na4 in component fast_sodium_current (per_millisecond)"
legend_algebraic[55] = "alpha_Na5 in component fast_sodium_current (per_millisecond)"
legend_algebraic[57] = "beta_Na5 in component fast_sodium_current (per_millisecond)"
legend_states[22] = "Ki in component potassium_concentration (micromolar)"
legend_constants[58] = "g_Nab in component sodium_background_current (milliS_per_microF)"
legend_algebraic[69] = "E_K in component fast_transient_outward_K_I (millivolt)"
legend_constants[59] = "g_Kto_f in component fast_transient_outward_K_I (milliS_per_microF)"
legend_states[23] = "ato_f in component fast_transient_outward_K_I (dimensionless)"
legend_states[24] = "ito_f in component fast_transient_outward_K_I (dimensionless)"
legend_algebraic[5] = "alpha_a in component fast_transient_outward_K_I (per_millisecond)"
legend_algebraic[16] = "beta_a in component fast_transient_outward_K_I (per_millisecond)"
legend_algebraic[6] = "alpha_i in component fast_transient_outward_K_I (per_millisecond)"
legend_algebraic[17] = "beta_i in component fast_transient_outward_K_I (per_millisecond)"
legend_algebraic[7] = "ass in component slow_transient_outward_K_I (dimensionless)"
legend_algebraic[8] = "iss in component slow_transient_outward_K_I (dimensionless)"
legend_constants[60] = "g_Kto_s in component slow_transient_outward_K_I (milliS_per_microF)"
legend_states[25] = "ato_s in component slow_transient_outward_K_I (dimensionless)"
legend_states[26] = "ito_s in component slow_transient_outward_K_I (dimensionless)"
legend_algebraic[18] = "tau_ta_s in component slow_transient_outward_K_I (millisecond)"
legend_algebraic[19] = "tau_ti_s in component slow_transient_outward_K_I (millisecond)"
legend_constants[61] = "g_K1 in component time_independent_K_I (milliS_per_microF)"
legend_constants[62] = "g_Ks in component slow_delayed_rectifier_K_I (milliS_per_microF)"
legend_states[27] = "nKs in component slow_delayed_rectifier_K_I (dimensionless)"
legend_algebraic[9] = "alpha_n in component slow_delayed_rectifier_K_I (per_millisecond)"
legend_algebraic[20] = "beta_n in component slow_delayed_rectifier_K_I (per_millisecond)"
legend_constants[63] = "g_Kur in component ultra_rapidly_activating_delayed_rectifier_K_I (milliS_per_microF)"
legend_states[28] = "aur in component ultra_rapidly_activating_delayed_rectifier_K_I (dimensionless)"
legend_states[29] = "iur in component ultra_rapidly_activating_delayed_rectifier_K_I (dimensionless)"
legend_algebraic[21] = "tau_aur in component ultra_rapidly_activating_delayed_rectifier_K_I (millisecond)"
legend_algebraic[22] = "tau_iur in component ultra_rapidly_activating_delayed_rectifier_K_I (millisecond)"
legend_constants[64] = "g_Kss in component non_inactivating_steady_state_K_I (milliS_per_microF)"
legend_states[30] = "aKss in component non_inactivating_steady_state_K_I (dimensionless)"
legend_states[31] = "iKss in component non_inactivating_steady_state_K_I (dimensionless)"
legend_algebraic[23] = "tau_Kss in component non_inactivating_steady_state_K_I (millisecond)"
legend_constants[65] = "g_Kr in component rapid_delayed_rectifier_K_I (milliS_per_microF)"
legend_states[32] = "O_K in component rapid_delayed_rectifier_K_I (dimensionless)"
legend_states[33] = "C_K1 in component rapid_delayed_rectifier_K_I (dimensionless)"
legend_states[34] = "C_K2 in component rapid_delayed_rectifier_K_I (dimensionless)"
legend_algebraic[10] = "C_K0 in component rapid_delayed_rectifier_K_I (dimensionless)"
legend_states[35] = "I_K in component rapid_delayed_rectifier_K_I (dimensionless)"
legend_algebraic[24] = "alpha_a0 in component rapid_delayed_rectifier_K_I (per_millisecond)"
legend_algebraic[29] = "beta_a0 in component rapid_delayed_rectifier_K_I (per_millisecond)"
legend_constants[66] = "kb in component rapid_delayed_rectifier_K_I (per_millisecond)"
legend_constants[67] = "kf in component rapid_delayed_rectifier_K_I (per_millisecond)"
legend_algebraic[11] = "alpha_a1 in component rapid_delayed_rectifier_K_I (per_millisecond)"
legend_algebraic[25] = "beta_a1 in component rapid_delayed_rectifier_K_I (per_millisecond)"
legend_algebraic[30] = "alpha_i in component rapid_delayed_rectifier_K_I (per_millisecond)"
legend_algebraic[34] = "beta_i in component rapid_delayed_rectifier_K_I (per_millisecond)"
legend_constants[68] = "i_NaK_max in component sodium_potassium_pump_current (picoA_per_picoF)"
legend_constants[69] = "Km_Nai in component sodium_potassium_pump_current (micromolar)"
legend_constants[70] = "Km_Ko in component sodium_potassium_pump_current (micromolar)"
legend_algebraic[77] = "f_NaK in component sodium_potassium_pump_current (dimensionless)"
legend_constants[75] = "sigma in component sodium_potassium_pump_current (dimensionless)"
legend_constants[71] = "g_ClCa in component calcium_activated_chloride_current (milliS_per_microF)"
legend_algebraic[79] = "O_ClCa in component calcium_activated_chloride_current (dimensionless)"
legend_constants[72] = "E_Cl in component calcium_activated_chloride_current (millivolt)"
legend_constants[73] = "Km_Cl in component calcium_activated_chloride_current (micromolar)"
legend_rates[0] = "d/dt V in component membrane (millivolt)"
legend_rates[1] = "d/dt Cai in component calcium_concentration (micromolar)"
legend_rates[2] = "d/dt Cass in component calcium_concentration (micromolar)"
legend_rates[3] = "d/dt CaJSR in component calcium_concentration (micromolar)"
legend_rates[4] = "d/dt CaNSR in component calcium_concentration (micromolar)"
legend_rates[6] = "d/dt CaMKt in component calcium_fluxes (dimensionless)"
legend_rates[5] = "d/dt P_RyR in component calcium_fluxes (dimensionless)"
legend_rates[7] = "d/dt P_O1 in component ryanodine_receptors (dimensionless)"
legend_rates[8] = "d/dt P_O2 in component ryanodine_receptors (dimensionless)"
legend_rates[9] = "d/dt P_C2 in component ryanodine_receptors (dimensionless)"
legend_rates[10] = "d/dt O in component L_type_calcium_current (dimensionless)"
legend_rates[11] = "d/dt I in component L_type_calcium_current (dimensionless)"
legend_rates[12] = "d/dt y_gate in component L_type_calcium_current (dimensionless)"
legend_rates[13] = "d/dt Nai in component sodium_concentration (micromolar)"
legend_rates[16] = "d/dt C_Na2 in component fast_sodium_current (dimensionless)"
legend_rates[15] = "d/dt C_Na1 in component fast_sodium_current (dimensionless)"
legend_rates[14] = "d/dt O_Na in component fast_sodium_current (dimensionless)"
legend_rates[19] = "d/dt IF_Na in component fast_sodium_current (dimensionless)"
legend_rates[17] = "d/dt I1_Na in component fast_sodium_current (dimensionless)"
legend_rates[18] = "d/dt I2_Na in component fast_sodium_current (dimensionless)"
legend_rates[20] = "d/dt IC_Na2 in component fast_sodium_current (dimensionless)"
legend_rates[21] = "d/dt IC_Na3 in component fast_sodium_current (dimensionless)"
legend_rates[22] = "d/dt Ki in component potassium_concentration (micromolar)"
legend_rates[23] = "d/dt ato_f in component fast_transient_outward_K_I (dimensionless)"
legend_rates[24] = "d/dt ito_f in component fast_transient_outward_K_I (dimensionless)"
legend_rates[25] = "d/dt ato_s in component slow_transient_outward_K_I (dimensionless)"
legend_rates[26] = "d/dt ito_s in component slow_transient_outward_K_I (dimensionless)"
legend_rates[27] = "d/dt nKs in component slow_delayed_rectifier_K_I (dimensionless)"
legend_rates[28] = "d/dt aur in component ultra_rapidly_activating_delayed_rectifier_K_I (dimensionless)"
legend_rates[29] = "d/dt iur in component ultra_rapidly_activating_delayed_rectifier_K_I (dimensionless)"
legend_rates[30] = "d/dt aKss in component non_inactivating_steady_state_K_I (dimensionless)"
legend_rates[31] = "d/dt iKss in component non_inactivating_steady_state_K_I (dimensionless)"
legend_rates[34] = "d/dt C_K2 in component rapid_delayed_rectifier_K_I (dimensionless)"
legend_rates[33] = "d/dt C_K1 in component rapid_delayed_rectifier_K_I (dimensionless)"
legend_rates[32] = "d/dt O_K in component rapid_delayed_rectifier_K_I (dimensionless)"
legend_rates[35] = "d/dt I_K in component rapid_delayed_rectifier_K_I (dimensionless)"
return (legend_states, legend_algebraic, legend_voi, legend_constants)
def initConsts():
constants = [0.0] * sizeConstants; states = [0.0] * sizeStates;
states[0] = -85.64004
constants[0] = 1
constants[1] = 2.2e-5
constants[2] = 1.022e-7
constants[3] = 1.786e-6
constants[4] = 1.264e-9
constants[5] = 0.00013866
constants[6] = 5400
constants[7] = 134000
constants[8] = 1400
constants[9] = 8.314
constants[10] = 308
constants[11] = 96.5
constants[12] = 100
constants[13] = 333.3333333
constants[14] = 3
constants[15] = -15
states[1] = 0.1040595
states[2] = 0.1043777
states[3] = 730.0589
states[4] = 841.106
constants[16] = 109
constants[17] = 15000
constants[18] = 0.6
constants[19] = 800
states[5] = 2.290355e-9
constants[20] = 4.5
constants[21] = 20
constants[22] = 1e-5
constants[23] = 8
states[6] = 0.08989079
constants[24] = 0.05
constants[25] = 0.00068
constants[26] = 0.412
constants[27] = 4
states[7] = 0.003825599
states[8] = 1.835831e-8
constants[28] = 0.3158
constants[29] = -0.09
constants[30] = -0.225
states[9] = 0.3797679
constants[31] = 0.006075
constants[32] = 0.07125
constants[33] = 0.00405
constants[34] = 0.965
constants[35] = 0.009
constants[36] = 0.0008
constants[37] = 3
constants[38] = 4
constants[39] = 19.1078
states[10] = 4.373318e-6
states[11] = 0.009171979
states[12] = 0.8876797
constants[40] = -2
constants[41] = 7.0671
constants[42] = 1.1683
constants[43] = 1.6411
constants[44] = 0.07
constants[45] = 14
constants[46] = 972.9715
constants[47] = 0.0964
constants[48] = 6.6755
constants[49] = 0.9
constants[50] = 0.4
constants[51] = 772.8991
constants[52] = 86500
constants[53] = 1380
constants[54] = 0.1
constants[55] = 0.35
states[13] = 16522.45
constants[56] = 0.00088
constants[57] = 13
states[14] = 2.639399e-7
states[15] = 0.0001581035
states[16] = 0.01702105
states[17] = 0.00001799179
states[18] = 0.000005460299
states[19] = 0.0000556206
states[20] = 0.005985434
states[21] = 0.2543133
states[22] = 141474
constants[58] = 0.0026
constants[59] = 0.4067
states[23] = 0.001937245
states[24] = 0.9999985
constants[60] = 0
states[25] = 0.02000568
states[26] = 0.9308568
constants[61] = 0.2938
constants[62] = 0.00575
states[27] = 0.002206261
constants[63] = 0.16
states[28] = 0.02000568
states[29] = 0.9822006
constants[64] = 0.05
states[30] = 0.8883113
states[31] = 1
constants[65] = 0.078
states[32] = 0.0004858865
states[33] = 0.0007799137
states[34] = 0.0005301217
states[35] = 0.00007519518
constants[66] = 0.036778
constants[67] = 0.023761
constants[68] = 1.66
constants[69] = 21000
constants[70] = 1500
constants[71] = 10
constants[72] = -40
constants[73] = 10
constants[74] = constants[43]/constants[42]
constants[75] = (1.00000/7.00000)*(exp(constants[7]/67300.0)-1.00000)
constants[76] = 0.00000
return (states, constants)
def computeRates(voi, states, constants):
rates = [0.0] * sizeStates; algebraic = [0.0] * sizeAlgebraic
rates[31] = constants[76]
rates[8] = constants[33]*(power(states[2], constants[37]))*states[7]-constants[34]*states[8]
rates[9] = constants[35]*states[7]-constants[36]*states[9]
algebraic[1] = 1.00000-(states[9]+states[7]+states[8])
rates[7] = (constants[31]*(power(states[2], constants[38]))*algebraic[1]+constants[34]*states[8]+constants[36]*states[9])-(constants[32]*states[7]+constants[33]*(power(states[2], constants[37]))*states[7]+constants[35]*states[7])
algebraic[2] = 1.00000/(1.00000+exp((states[0]+16.6577)/constants[48]))+0.100000/(1.00000+exp((-states[0]+40.0000)/6.00000))
algebraic[13] = 20.0000+600.000/(1.00000+exp((states[0]+30.0000)/9.60000))
rates[12] = (algebraic[2]-states[12])/algebraic[13]
algebraic[5] = 0.180640*exp(0.0357700*(states[0]+30.0000))
algebraic[16] = 0.395600*exp(-0.0623700*(states[0]+30.0000))
rates[23] = algebraic[5]*(1.00000-states[23])-algebraic[16]*states[23]
algebraic[6] = (0.000152000*exp(-(states[0]+13.5000)/7.00000))/(0.00670830*exp(-(states[0]+33.5000)/7.00000)+1.00000)
algebraic[17] = (0.000950000*exp((states[0]+33.5000)/7.00000))/(0.0513350*exp((states[0]+33.5000)/7.00000)+1.00000)
rates[24] = algebraic[6]*(1.00000-states[24])-algebraic[17]*states[24]
algebraic[7] = 1.00000/(1.00000+exp(-(states[0]+22.5000)/7.70000))
algebraic[18] = 0.493000*exp(-0.0629000*states[0])+2.05800
rates[25] = (algebraic[7]-states[25])/algebraic[18]
algebraic[8] = 1.00000/(1.00000+exp((states[0]+45.2000)/5.70000))
algebraic[19] = 270.000+1050.00/(1.00000+exp((states[0]+45.2000)/5.70000))
rates[26] = (algebraic[8]-states[26])/algebraic[19]
algebraic[9] = (4.81333e-06*(states[0]+26.5000))/(1.00000-exp(-0.128000*(states[0]+26.5000)))
algebraic[20] = 9.53333e-05*exp(-0.0380000*(states[0]+26.5000))
rates[27] = algebraic[9]*(1.00000-states[27])-algebraic[20]*states[27]
algebraic[21] = 0.493000*exp(-0.0629000*states[0])+2.05800
rates[28] = (algebraic[7]-states[28])/algebraic[21]
algebraic[22] = 1200.00-170.000/(1.00000+exp((states[0]+45.2000)/5.70000))
rates[29] = (algebraic[8]-states[29])/algebraic[22]
algebraic[23] = 39.3000*exp(-0.0862000*states[0])+13.1700
rates[30] = (algebraic[7]-states[30])/algebraic[23]
algebraic[11] = 0.0137330*exp(0.0381980*states[0])
algebraic[25] = 6.89000e-05*exp(-0.0417800*states[0])
rates[34] = (constants[67]*states[33]+algebraic[25]*states[32])-(constants[66]*states[34]+algebraic[11]*states[34])
algebraic[10] = 1.00000-(states[33]+states[34]+states[32]+states[35])
algebraic[24] = 0.0223480*exp(0.0117600*states[0])
algebraic[29] = 0.0470020*exp(-0.0631000*states[0])
rates[33] = (algebraic[24]*algebraic[10]+constants[66]*states[34])-(algebraic[29]*states[33]+constants[67]*states[33])
algebraic[30] = 0.0908210*exp(0.0233910*(states[0]+5.00000))
algebraic[34] = 0.00649700*exp(-0.0326800*(states[0]+5.00000))
rates[32] = (algebraic[11]*states[34]+algebraic[34]*states[35])-(algebraic[25]*states[32]+algebraic[30]*states[32])
rates[35] = algebraic[30]*states[32]-algebraic[34]*states[35]
algebraic[36] = (1.00000-states[10])-states[11]
algebraic[3] = exp((states[0]-constants[40])/constants[41])
algebraic[14] = algebraic[3]/(constants[42]*(algebraic[3]+1.00000))
rates[10] = algebraic[14]*algebraic[36]-constants[74]*states[10]
algebraic[27] = (algebraic[3]+constants[44])/(constants[46]*constants[47]*(algebraic[3]+1.00000))
algebraic[32] = (constants[45]*(algebraic[3]+constants[44]))/(constants[46]*(constants[45]*algebraic[3]+constants[44]))
rates[11] = algebraic[27]*states[2]*algebraic[36]-algebraic[32]*states[11]
algebraic[35] = power(1.00000+(constants[17]*constants[19])/(power(constants[19]+states[3], 2.00000)), -1.00000)
algebraic[38] = constants[20]*(states[7]+states[8])*(states[3]-states[2])*states[5]
algebraic[40] = (states[4]-states[3])/constants[21]
rates[3] = algebraic[35]*(algebraic[40]-algebraic[38])
algebraic[4] = 1.00000-(states[14]+states[15]+states[16]+states[19]+states[17]+states[18]+states[20]+states[21])
algebraic[15] = 3.80200/(0.102700*exp(-(states[0]+2.50000)/17.0000)+0.200000*exp(-(states[0]+2.50000)/150.000))
algebraic[37] = 0.191700*exp(-(states[0]+2.50000)/20.3000)
algebraic[28] = 3.80200/(0.102700*exp(-(states[0]+2.50000)/15.0000)+0.230000*exp(-(states[0]+2.50000)/150.000))
algebraic[39] = 0.200000*exp(-(states[0]-2.50000)/20.3000)
algebraic[43] = 7.00000e-07*exp(-(states[0]+7.00000)/7.70000)
algebraic[45] = 0.00840000+2.00000e-05*(states[0]+7.00000)
rates[16] = (algebraic[15]*algebraic[4]+algebraic[39]*states[15]+algebraic[43]*states[20])-(algebraic[37]*states[16]+algebraic[28]*states[16]+algebraic[45]*states[16])
algebraic[33] = 3.80200/(0.102700*exp(-(states[0]+2.50000)/12.0000)+0.250000*exp(-(states[0]+2.50000)/150.000))
algebraic[41] = 0.220000*exp(-(states[0]-7.50000)/20.3000)
rates[15] = (algebraic[28]*states[16]+algebraic[41]*states[14]+algebraic[43]*states[19])-(algebraic[39]*states[15]+algebraic[33]*states[15]+algebraic[45]*states[15])
rates[20] = (algebraic[15]*states[21]+algebraic[39]*states[19]+algebraic[45]*states[20])-(algebraic[37]*states[20]+algebraic[28]*states[20]+algebraic[43]*states[20])
rates[21] = (algebraic[37]*states[20]+algebraic[45]*algebraic[4])-(algebraic[15]*states[21]+algebraic[43]*states[21])
algebraic[46] = (0.0500000*(1.00000-states[6])*1.00000)/(1.00000+0.700000/states[2])
rates[6] = constants[24]*algebraic[46]*(algebraic[46]+states[6])-constants[25]*states[6]
algebraic[47] = 1.00000/(0.188495*exp(-(states[0]+7.00000)/16.6000)+0.393956)
algebraic[49] = (algebraic[33]*algebraic[47]*algebraic[43])/(algebraic[41]*algebraic[45])
rates[14] = (algebraic[33]*states[15]+algebraic[49]*states[19])-(algebraic[41]*states[14]+algebraic[47]*states[14])
algebraic[44] = constants[22]*(states[4]-states[1])
algebraic[48] = algebraic[46]+states[6]
algebraic[50] = ((3.15120*(power(algebraic[48], 2.20620)))/(power(0.158800, 2.20620)+power(algebraic[48], 2.20620))+1.00000)*constants[28]
algebraic[52] = (algebraic[50]*(power(states[1], 2.00000)))/(power(constants[26], 2.00000)+power(states[1], 2.00000))
rates[4] = ((algebraic[52]-algebraic[44])*constants[1])/constants[3]-(algebraic[40]*constants[2])/constants[3]
algebraic[51] = algebraic[47]/1000.00
algebraic[53] = algebraic[43]
rates[19] = (algebraic[47]*states[14]+algebraic[45]*states[15]+algebraic[53]*states[17]+algebraic[28]*states[20])-(algebraic[49]*states[19]+algebraic[43]*states[19]+algebraic[51]*states[19]+algebraic[39]*states[19])
algebraic[55] = algebraic[47]/95000.0
algebraic[57] = algebraic[43]/50.0000
rates[17] = (algebraic[51]*states[19]+algebraic[57]*states[18])-(algebraic[53]*states[17]+algebraic[55]*states[17])
rates[18] = algebraic[55]*states[17]-algebraic[57]*states[18]
algebraic[54] = (constants[11]*states[0])/(constants[9]*constants[10])
algebraic[56] = 2.00000*algebraic[54]
algebraic[58] = custom_piecewise([greater(fabs(algebraic[56]) , 1.00000e-05), ((((-constants[39]*2.00000*constants[4]*constants[11])/(constants[5]*constants[0]))*states[10]*states[12]*algebraic[56])/(1.00000-exp(-algebraic[56])))*(constants[8]*exp(-algebraic[56])-states[2]) , True, ((((-constants[39]*2.00000*constants[4]*constants[11])/(constants[5]*constants[0]))*states[10]*states[12]*1.00000e-05)/(1.00000-exp(-1.00000e-05)))*(constants[8]*exp(-1.00000e-05)-states[2])])
algebraic[31] = power(1.00000+(constants[16]*constants[18])/(power(constants[18]+states[2], 2.00000)), -1.00000)
algebraic[42] = (states[2]-states[1])/constants[23]
rates[2] = algebraic[31]*((algebraic[38]*constants[2])/constants[4]-((algebraic[42]*constants[1])/constants[4]+(algebraic[58]*constants[5]*constants[0])/(2.00000*constants[4]*constants[11])))
rates[5] = constants[29]*states[5]+((constants[30]*algebraic[58])/constants[27])*exp(-(power(states[0]-5.00000, 2.00000))/648.000)
algebraic[59] = (constants[49]*(power(states[1], 2.00000)))/(power(constants[50], 2.00000)+power(states[1], 2.00000))
algebraic[60] = ((((((constants[51]*1.00000)/(power(constants[52], 3.00000)+power(constants[7], 3.00000)))*1.00000)/(constants[53]+constants[8]))*1.00000)/(1.00000+constants[54]*exp(((constants[55]-1.00000)*states[0]*constants[11])/(constants[9]*constants[10]))))*(exp((constants[55]*states[0]*constants[11])/(constants[9]*constants[10]))*(power(states[13], 3.00000))*constants[8]-exp(((constants[55]-1.00000)*states[0]*constants[11])/(constants[9]*constants[10]))*(power(constants[7], 3.00000))*states[1])
algebraic[62] = ((constants[9]*constants[10])/(2.00000*constants[11]))*log(constants[8]/states[1])
algebraic[64] = constants[56]*(states[0]-algebraic[62])
algebraic[26] = power(1.00000+(constants[16]*constants[18])/(power(constants[18]+states[1], 2.00000)), -1.00000)
rates[1] = algebraic[26]*(((algebraic[44]+algebraic[42])-(((algebraic[64]+algebraic[59])-2.00000*algebraic[60])*constants[5]*constants[0])/(2.00000*constants[1]*constants[11]))-algebraic[52])
algebraic[65] = ((constants[9]*constants[10])/constants[11])*log((0.900000*constants[7]+0.100000*constants[6])/(0.900000*states[13]+0.100000*states[22]))
algebraic[67] = constants[57]*states[14]*(states[0]-algebraic[65])
algebraic[68] = constants[58]*(states[0]-algebraic[65])
algebraic[77] = 1.00000/(1.00000+0.124500*exp((-0.100000*states[0]*constants[11])/(constants[9]*constants[10]))+0.0365000*constants[75]*exp((-states[0]*constants[11])/(constants[9]*constants[10])))
algebraic[78] = (((constants[68]*algebraic[77]*1.00000)/(1.00000+power(constants[69]/states[13], 1.50000)))*constants[6])/(constants[6]+constants[70])
rates[13] = (-(algebraic[67]+algebraic[68]+3.00000*algebraic[78]+3.00000*algebraic[60])*constants[5]*constants[0])/(constants[1]*constants[11])
algebraic[69] = ((constants[9]*constants[10])/constants[11])*log(constants[6]/states[22])
algebraic[70] = constants[59]*(power(states[23], 3.00000))*states[24]*(states[0]-algebraic[69])
algebraic[71] = constants[60]*states[25]*states[26]*(states[0]-algebraic[69])
algebraic[72] = (((constants[61]*constants[6])/(constants[6]+210.000))*(states[0]-algebraic[69]))/(1.00000+exp(0.0896000*(states[0]-algebraic[69])))
algebraic[73] = constants[62]*(power(states[27], 2.00000))*(states[0]-algebraic[69])
algebraic[74] = constants[63]*states[28]*states[29]*(states[0]-algebraic[69])
algebraic[75] = constants[64]*states[30]*states[31]*(states[0]-algebraic[69])
algebraic[76] = constants[65]*states[32]*(states[0]-((constants[9]*constants[10])/constants[11])*log((0.980000*constants[6]+0.0200000*constants[7])/(0.980000*states[22]+0.0200000*states[13])))
algebraic[0] = floor(voi/constants[13])*constants[13]
algebraic[12] = custom_piecewise([greater_equal(voi-algebraic[0] , constants[12]) & less_equal(voi-algebraic[0] , constants[12]+constants[14]), constants[15] , True, 0.00000])
rates[22] = (-((algebraic[12]+algebraic[70]+algebraic[71]+algebraic[72]+algebraic[73]+algebraic[75]+algebraic[74]+algebraic[76])-2.00000*algebraic[78])*constants[5]*constants[0])/(constants[1]*constants[11])
algebraic[79] = 0.200000/(1.00000+exp(-(states[0]-46.7000)/7.80000))
algebraic[80] = ((constants[71]*algebraic[79]*states[1])/(states[1]+constants[73]))*(states[0]-constants[72])
rates[0] = -(algebraic[58]+algebraic[59]+algebraic[60]+algebraic[64]+algebraic[67]+algebraic[68]+algebraic[78]+algebraic[70]+algebraic[71]+algebraic[72]+algebraic[73]+algebraic[74]+algebraic[75]+algebraic[76]+algebraic[80]+algebraic[12])
return(rates)
def computeAlgebraic(constants, states, voi):
algebraic = array([[0.0] * len(voi)] * sizeAlgebraic)
states = array(states)
voi = array(voi)
algebraic[1] = 1.00000-(states[9]+states[7]+states[8])
algebraic[2] = 1.00000/(1.00000+exp((states[0]+16.6577)/constants[48]))+0.100000/(1.00000+exp((-states[0]+40.0000)/6.00000))
algebraic[13] = 20.0000+600.000/(1.00000+exp((states[0]+30.0000)/9.60000))
algebraic[5] = 0.180640*exp(0.0357700*(states[0]+30.0000))
algebraic[16] = 0.395600*exp(-0.0623700*(states[0]+30.0000))
algebraic[6] = (0.000152000*exp(-(states[0]+13.5000)/7.00000))/(0.00670830*exp(-(states[0]+33.5000)/7.00000)+1.00000)
algebraic[17] = (0.000950000*exp((states[0]+33.5000)/7.00000))/(0.0513350*exp((states[0]+33.5000)/7.00000)+1.00000)
algebraic[7] = 1.00000/(1.00000+exp(-(states[0]+22.5000)/7.70000))
algebraic[18] = 0.493000*exp(-0.0629000*states[0])+2.05800
algebraic[8] = 1.00000/(1.00000+exp((states[0]+45.2000)/5.70000))
algebraic[19] = 270.000+1050.00/(1.00000+exp((states[0]+45.2000)/5.70000))
algebraic[9] = (4.81333e-06*(states[0]+26.5000))/(1.00000-exp(-0.128000*(states[0]+26.5000)))
algebraic[20] = 9.53333e-05*exp(-0.0380000*(states[0]+26.5000))
algebraic[21] = 0.493000*exp(-0.0629000*states[0])+2.05800
algebraic[22] = 1200.00-170.000/(1.00000+exp((states[0]+45.2000)/5.70000))
algebraic[23] = 39.3000*exp(-0.0862000*states[0])+13.1700
algebraic[11] = 0.0137330*exp(0.0381980*states[0])
algebraic[25] = 6.89000e-05*exp(-0.0417800*states[0])
algebraic[10] = 1.00000-(states[33]+states[34]+states[32]+states[35])
algebraic[24] = 0.0223480*exp(0.0117600*states[0])
algebraic[29] = 0.0470020*exp(-0.0631000*states[0])
algebraic[30] = 0.0908210*exp(0.0233910*(states[0]+5.00000))
algebraic[34] = 0.00649700*exp(-0.0326800*(states[0]+5.00000))
algebraic[36] = (1.00000-states[10])-states[11]
algebraic[3] = exp((states[0]-constants[40])/constants[41])
algebraic[14] = algebraic[3]/(constants[42]*(algebraic[3]+1.00000))
algebraic[27] = (algebraic[3]+constants[44])/(constants[46]*constants[47]*(algebraic[3]+1.00000))
algebraic[32] = (constants[45]*(algebraic[3]+constants[44]))/(constants[46]*(constants[45]*algebraic[3]+constants[44]))
algebraic[35] = power(1.00000+(constants[17]*constants[19])/(power(constants[19]+states[3], 2.00000)), -1.00000)
algebraic[38] = constants[20]*(states[7]+states[8])*(states[3]-states[2])*states[5]
algebraic[40] = (states[4]-states[3])/constants[21]
algebraic[4] = 1.00000-(states[14]+states[15]+states[16]+states[19]+states[17]+states[18]+states[20]+states[21])
algebraic[15] = 3.80200/(0.102700*exp(-(states[0]+2.50000)/17.0000)+0.200000*exp(-(states[0]+2.50000)/150.000))
algebraic[37] = 0.191700*exp(-(states[0]+2.50000)/20.3000)
algebraic[28] = 3.80200/(0.102700*exp(-(states[0]+2.50000)/15.0000)+0.230000*exp(-(states[0]+2.50000)/150.000))
algebraic[39] = 0.200000*exp(-(states[0]-2.50000)/20.3000)
algebraic[43] = 7.00000e-07*exp(-(states[0]+7.00000)/7.70000)
algebraic[45] = 0.00840000+2.00000e-05*(states[0]+7.00000)
algebraic[33] = 3.80200/(0.102700*exp(-(states[0]+2.50000)/12.0000)+0.250000*exp(-(states[0]+2.50000)/150.000))
algebraic[41] = 0.220000*exp(-(states[0]-7.50000)/20.3000)
algebraic[46] = (0.0500000*(1.00000-states[6])*1.00000)/(1.00000+0.700000/states[2])
algebraic[47] = 1.00000/(0.188495*exp(-(states[0]+7.00000)/16.6000)+0.393956)
algebraic[49] = (algebraic[33]*algebraic[47]*algebraic[43])/(algebraic[41]*algebraic[45])
algebraic[44] = constants[22]*(states[4]-states[1])
algebraic[48] = algebraic[46]+states[6]
algebraic[50] = ((3.15120*(power(algebraic[48], 2.20620)))/(power(0.158800, 2.20620)+power(algebraic[48], 2.20620))+1.00000)*constants[28]
algebraic[52] = (algebraic[50]*(power(states[1], 2.00000)))/(power(constants[26], 2.00000)+power(states[1], 2.00000))
algebraic[51] = algebraic[47]/1000.00
algebraic[53] = algebraic[43]
algebraic[55] = algebraic[47]/95000.0
algebraic[57] = algebraic[43]/50.0000
algebraic[54] = (constants[11]*states[0])/(constants[9]*constants[10])
algebraic[56] = 2.00000*algebraic[54]
algebraic[58] = custom_piecewise([greater(fabs(algebraic[56]) , 1.00000e-05), ((((-constants[39]*2.00000*constants[4]*constants[11])/(constants[5]*constants[0]))*states[10]*states[12]*algebraic[56])/(1.00000-exp(-algebraic[56])))*(constants[8]*exp(-algebraic[56])-states[2]) , True, ((((-constants[39]*2.00000*constants[4]*constants[11])/(constants[5]*constants[0]))*states[10]*states[12]*1.00000e-05)/(1.00000-exp(-1.00000e-05)))*(constants[8]*exp(-1.00000e-05)-states[2])])
algebraic[31] = power(1.00000+(constants[16]*constants[18])/(power(constants[18]+states[2], 2.00000)), -1.00000)
algebraic[42] = (states[2]-states[1])/constants[23]
algebraic[59] = (constants[49]*(power(states[1], 2.00000)))/(power(constants[50], 2.00000)+power(states[1], 2.00000))
algebraic[60] = ((((((constants[51]*1.00000)/(power(constants[52], 3.00000)+power(constants[7], 3.00000)))*1.00000)/(constants[53]+constants[8]))*1.00000)/(1.00000+constants[54]*exp(((constants[55]-1.00000)*states[0]*constants[11])/(constants[9]*constants[10]))))*(exp((constants[55]*states[0]*constants[11])/(constants[9]*constants[10]))*(power(states[13], 3.00000))*constants[8]-exp(((constants[55]-1.00000)*states[0]*constants[11])/(constants[9]*constants[10]))*(power(constants[7], 3.00000))*states[1])
algebraic[62] = ((constants[9]*constants[10])/(2.00000*constants[11]))*log(constants[8]/states[1])
algebraic[64] = constants[56]*(states[0]-algebraic[62])
algebraic[26] = power(1.00000+(constants[16]*constants[18])/(power(constants[18]+states[1], 2.00000)), -1.00000)
algebraic[65] = ((constants[9]*constants[10])/constants[11])*log((0.900000*constants[7]+0.100000*constants[6])/(0.900000*states[13]+0.100000*states[22]))
algebraic[67] = constants[57]*states[14]*(states[0]-algebraic[65])
algebraic[68] = constants[58]*(states[0]-algebraic[65])
algebraic[77] = 1.00000/(1.00000+0.124500*exp((-0.100000*states[0]*constants[11])/(constants[9]*constants[10]))+0.0365000*constants[75]*exp((-states[0]*constants[11])/(constants[9]*constants[10])))
algebraic[78] = (((constants[68]*algebraic[77]*1.00000)/(1.00000+power(constants[69]/states[13], 1.50000)))*constants[6])/(constants[6]+constants[70])
algebraic[69] = ((constants[9]*constants[10])/constants[11])*log(constants[6]/states[22])
algebraic[70] = constants[59]*(power(states[23], 3.00000))*states[24]*(states[0]-algebraic[69])
algebraic[71] = constants[60]*states[25]*states[26]*(states[0]-algebraic[69])
algebraic[72] = (((constants[61]*constants[6])/(constants[6]+210.000))*(states[0]-algebraic[69]))/(1.00000+exp(0.0896000*(states[0]-algebraic[69])))
algebraic[73] = constants[62]*(power(states[27], 2.00000))*(states[0]-algebraic[69])
algebraic[74] = constants[63]*states[28]*states[29]*(states[0]-algebraic[69])
algebraic[75] = constants[64]*states[30]*states[31]*(states[0]-algebraic[69])
algebraic[76] = constants[65]*states[32]*(states[0]-((constants[9]*constants[10])/constants[11])*log((0.980000*constants[6]+0.0200000*constants[7])/(0.980000*states[22]+0.0200000*states[13])))
algebraic[0] = floor(voi/constants[13])*constants[13]
algebraic[12] = custom_piecewise([greater_equal(voi-algebraic[0] , constants[12]) & less_equal(voi-algebraic[0] , constants[12]+constants[14]), constants[15] , True, 0.00000])
algebraic[79] = 0.200000/(1.00000+exp(-(states[0]-46.7000)/7.80000))
algebraic[80] = ((constants[71]*algebraic[79]*states[1])/(states[1]+constants[73]))*(states[0]-constants[72])
algebraic[61] = (-algebraic[59]*constants[5]*constants[0])/(2.00000*constants[1]*constants[11])
algebraic[63] = (algebraic[60]*constants[5]*constants[0])/(constants[1]*constants[11])
algebraic[66] = (-algebraic[64]*constants[5]*constants[0])/(2.00000*constants[1]*constants[11])
return algebraic
def custom_piecewise(cases):
"""Compute result of a piecewise function"""
return select(cases[0::2],cases[1::2])
def solve_model():
"""Solve model with ODE solver"""
from scipy.integrate import ode
# Initialise constants and state variables
(init_states, constants) = initConsts()
# Set timespan to solve over
voi = linspace(0, 10, 500)
# Construct ODE object to solve
r = ode(computeRates)
r.set_integrator('vode', method='bdf', atol=1e-06, rtol=1e-06, max_step=1)
r.set_initial_value(init_states, voi[0])
r.set_f_params(constants)
# Solve model
states = array([[0.0] * len(voi)] * sizeStates)
states[:,0] = init_states
for (i,t) in enumerate(voi[1:]):
if r.successful():
r.integrate(t)
states[:,i+1] = r.y
else:
break
# Compute algebraic variables
algebraic = computeAlgebraic(constants, states, voi)
return (voi, states, algebraic)
def plot_model(voi, states, algebraic):
"""Plot variables against variable of integration"""
import pylab
(legend_states, legend_algebraic, legend_voi, legend_constants) = createLegends()
pylab.figure(1)
pylab.plot(voi,vstack((states,algebraic)).T)
pylab.xlabel(legend_voi)
pylab.legend(legend_states + legend_algebraic, loc='best')
pylab.show()
if __name__ == "__main__":
(voi, states, algebraic) = solve_model()
plot_model(voi, states, algebraic)