# Size of variable arrays: sizeAlgebraic = 30 sizeStates = 14 sizeConstants = 93 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 (minute)" legend_states[0] = "CycA in component CycA (dimensionless)" legend_constants[0] = "k_assa in component kinetic_parameters (first_order_rate_constant)" legend_constants[1] = "k_dissa in component kinetic_parameters (first_order_rate_constant)" legend_algebraic[20] = "V_di in component V_di (first_order_rate_constant)" legend_algebraic[21] = "V_sa in component V_sa (first_order_rate_constant)" legend_algebraic[14] = "V_da in component V_da (first_order_rate_constant)" legend_states[1] = "Tri_A in component Tri_A (dimensionless)" legend_states[2] = "CKI in component CKI (dimensionless)" legend_states[3] = "CycB in component CycB (dimensionless)" legend_constants[2] = "k_assb in component kinetic_parameters (first_order_rate_constant)" legend_constants[3] = "k_dissb in component kinetic_parameters (first_order_rate_constant)" legend_algebraic[24] = "V_sb in component V_sb (first_order_rate_constant)" legend_algebraic[25] = "V_db in component V_db (first_order_rate_constant)" legend_algebraic[29] = "V_25 in component V_25 (first_order_rate_constant)" legend_algebraic[27] = "V_wee in component V_wee (first_order_rate_constant)" legend_states[4] = "pB in component pB (dimensionless)" legend_states[5] = "BCKI in component BCKI (dimensionless)" legend_states[6] = "CycE in component CycE (dimensionless)" legend_constants[4] = "k_disse in component kinetic_parameters (first_order_rate_constant)" legend_constants[5] = "k_asse in component kinetic_parameters (first_order_rate_constant)" legend_algebraic[23] = "V_se in component V_se (first_order_rate_constant)" legend_algebraic[13] = "V_de in component V_de (first_order_rate_constant)" legend_states[7] = "Tri_E in component Tri_E (dimensionless)" legend_algebraic[1] = "CycD in component CycD (dimensionless)" legend_constants[6] = "CycD_0 in component CycD (dimensionless)" legend_states[8] = "mass in component mass (dimensionless)" legend_states[9] = "Cdc20_A in component Cdc20_A (dimensionless)" legend_constants[7] = "k_a20 in component kinetic_parameters (first_order_rate_constant)" legend_constants[8] = "k_i20 in component kinetic_parameters (first_order_rate_constant)" legend_constants[9] = "k_d20 in component kinetic_parameters (first_order_rate_constant)" legend_states[10] = "APCP in component APCP (dimensionless)" legend_states[11] = "Cdc20_i in component Cdc20_i (dimensionless)" legend_constants[10] = "J_a20 in component Cdc20_A (dimensionless)" legend_constants[11] = "J_i20 in component Cdc20_A (dimensionless)" legend_constants[12] = "k_s20p in component kinetic_parameters (first_order_rate_constant)" legend_constants[13] = "k_s20pp in component kinetic_parameters (first_order_rate_constant)" legend_constants[14] = "n20 in component Cdc20_i (dimensionless)" legend_constants[15] = "J_20 in component Cdc20_i (dimensionless)" legend_constants[16] = "J_a20 in component Cdc20_i (dimensionless)" legend_constants[17] = "J_i20 in component Cdc20_i (dimensionless)" legend_algebraic[0] = "APC in component APC (dimensionless)" legend_constants[18] = "APC_T in component APC (dimensionless)" legend_constants[19] = "k_aie in component kinetic_parameters (first_order_rate_constant)" legend_constants[20] = "k_iie in component kinetic_parameters (first_order_rate_constant)" legend_constants[21] = "J_aie in component APCP (dimensionless)" legend_constants[22] = "J_iie in component APCP (dimensionless)" legend_states[12] = "pBCKI in component pBCKI (dimensionless)" legend_algebraic[18] = "V_si in component V_si (first_order_rate_constant)" legend_algebraic[9] = "Cdh1_i in component Cdh1_i (dimensionless)" legend_constants[23] = "Cdh1_T in component Cdh1_i (dimensionless)" legend_states[13] = "Cdh1 in component Cdh1 (dimensionless)" legend_algebraic[17] = "V_ah1 in component V_ah1 (first_order_rate_constant)" legend_algebraic[19] = "V_ih1 in component V_ih1 (first_order_rate_constant)" legend_constants[24] = "J_ah1 in component Cdh1 (dimensionless)" legend_constants[25] = "J_ih1 in component Cdh1 (dimensionless)" legend_constants[26] = "mu in component mass (first_order_rate_constant)" legend_constants[27] = "maxmass in component mass (dimensionless)" legend_algebraic[10] = "V_atf in component V_atf (first_order_rate_constant)" legend_constants[28] = "k_atfp in component kinetic_parameters (first_order_rate_constant)" legend_constants[29] = "k_atfapp in component kinetic_parameters (first_order_rate_constant)" legend_constants[30] = "k_atfepp in component kinetic_parameters (first_order_rate_constant)" legend_constants[31] = "k_atfdpp in component kinetic_parameters (first_order_rate_constant)" legend_algebraic[11] = "V_itf in component V_itf (first_order_rate_constant)" legend_constants[32] = "k_itfp in component kinetic_parameters (first_order_rate_constant)" legend_constants[33] = "k_itfapp in component kinetic_parameters (first_order_rate_constant)" legend_constants[34] = "k_itfbpp in component kinetic_parameters (first_order_rate_constant)" legend_algebraic[12] = "TF_E in component TF_E (dimensionless)" legend_constants[35] = "J_itf in component TF_E (dimensionless)" legend_constants[36] = "J_atf in component TF_E (dimensionless)" legend_constants[37] = "k_dep in component kinetic_parameters (first_order_rate_constant)" legend_constants[38] = "k_deepp in component kinetic_parameters (first_order_rate_constant)" legend_constants[39] = "k_deapp in component kinetic_parameters (first_order_rate_constant)" legend_constants[40] = "k_debpp in component kinetic_parameters (first_order_rate_constant)" legend_constants[41] = "k_dap in component kinetic_parameters (first_order_rate_constant)" legend_constants[42] = "k_dapp in component kinetic_parameters (first_order_rate_constant)" legend_constants[43] = "k_dappp in component kinetic_parameters (first_order_rate_constant)" legend_algebraic[16] = "TF_I in component TF_I (dimensionless)" legend_constants[44] = "k_afi in component kinetic_parameters (first_order_rate_constant)" legend_constants[45] = "k_ifip in component kinetic_parameters (first_order_rate_constant)" legend_constants[46] = "k_ifibpp in component kinetic_parameters (first_order_rate_constant)" legend_constants[47] = "J_ifi in component TF_I (dimensionless)" legend_constants[48] = "J_afi in component TF_I (dimensionless)" legend_algebraic[15] = "Cdc14 in component TF_I (dimensionless)" legend_constants[49] = "k_ah1p in component kinetic_parameters (first_order_rate_constant)" legend_constants[50] = "k_ah1pp in component kinetic_parameters (first_order_rate_constant)" legend_constants[51] = "k_ih1p in component kinetic_parameters (first_order_rate_constant)" legend_constants[52] = "k_ih1app in component kinetic_parameters (first_order_rate_constant)" legend_constants[53] = "k_ih1bpp in component kinetic_parameters (first_order_rate_constant)" legend_constants[54] = "k_ih1epp in component kinetic_parameters (first_order_rate_constant)" legend_constants[55] = "k_ih1dpp in component kinetic_parameters (first_order_rate_constant)" legend_constants[56] = "k_sip in component kinetic_parameters (first_order_rate_constant)" legend_constants[57] = "k_sipp in component kinetic_parameters (first_order_rate_constant)" legend_constants[58] = "k_dip in component kinetic_parameters (first_order_rate_constant)" legend_constants[59] = "k_diapp in component kinetic_parameters (first_order_rate_constant)" legend_constants[60] = "k_diepp in component kinetic_parameters (first_order_rate_constant)" legend_constants[61] = "k_didpp in component kinetic_parameters (first_order_rate_constant)" legend_constants[62] = "k_dibpp in component kinetic_parameters (first_order_rate_constant)" legend_constants[63] = "k_14di in component kinetic_parameters (dimensionless)" legend_algebraic[2] = "preMPF in component preMPF (dimensionless)" legend_algebraic[3] = "CycBT in component CycBT (dimensionless)" legend_algebraic[4] = "CycAT in component CycAT (dimensionless)" legend_algebraic[5] = "CycET in component CycET (dimensionless)" legend_algebraic[6] = "Tri_B in component Tri_B (dimensionless)" legend_algebraic[7] = "CKIT in component CKIT (dimensionless)" legend_algebraic[8] = "Cdc20_T in component Cdc20_T (dimensionless)" legend_algebraic[22] = "TF_B in component TF_B (dimensionless)" legend_constants[64] = "k_afb in component kinetic_parameters (first_order_rate_constant)" legend_constants[65] = "k_ifb in component kinetic_parameters (first_order_rate_constant)" legend_constants[66] = "J_ifb in component TF_B (dimensionless)" legend_constants[67] = "J_afb in component TF_B (dimensionless)" legend_constants[68] = "k_sbp in component kinetic_parameters (first_order_rate_constant)" legend_constants[69] = "k_sbpp in component kinetic_parameters (first_order_rate_constant)" legend_constants[70] = "k_sap in component kinetic_parameters (first_order_rate_constant)" legend_constants[71] = "k_sapp in component kinetic_parameters (first_order_rate_constant)" legend_constants[72] = "k_sep in component kinetic_parameters (first_order_rate_constant)" legend_constants[73] = "k_sepp in component kinetic_parameters (first_order_rate_constant)" legend_constants[74] = "k_dbp in component kinetic_parameters (first_order_rate_constant)" legend_constants[75] = "k_dbhpp in component kinetic_parameters (first_order_rate_constant)" legend_constants[76] = "k_dbcpp in component kinetic_parameters (first_order_rate_constant)" legend_algebraic[26] = "Wee1 in component Wee1 (dimensionless)" legend_constants[77] = "k_aweep in component kinetic_parameters (first_order_rate_constant)" legend_constants[78] = "k_aweepp in component kinetic_parameters (first_order_rate_constant)" legend_constants[79] = "k_iweep in component kinetic_parameters (first_order_rate_constant)" legend_constants[80] = "k_iweepp in component kinetic_parameters (first_order_rate_constant)" legend_constants[81] = "J_iwee in component Wee1 (dimensionless)" legend_constants[82] = "J_awee in component Wee1 (dimensionless)" legend_constants[83] = "k_weep in component kinetic_parameters (first_order_rate_constant)" legend_constants[84] = "k_weepp in component kinetic_parameters (first_order_rate_constant)" legend_algebraic[28] = "Cdc25 in component Cdc25 (dimensionless)" legend_constants[85] = "k_a25p in component kinetic_parameters (first_order_rate_constant)" legend_constants[86] = "k_a25pp in component kinetic_parameters (first_order_rate_constant)" legend_constants[87] = "k_i25p in component kinetic_parameters (first_order_rate_constant)" legend_constants[88] = "k_i25pp in component kinetic_parameters (first_order_rate_constant)" legend_constants[89] = "J_i25 in component Cdc25 (dimensionless)" legend_constants[90] = "J_a25 in component Cdc25 (dimensionless)" legend_constants[91] = "k_25p in component kinetic_parameters (first_order_rate_constant)" legend_constants[92] = "k_25pp in component kinetic_parameters (first_order_rate_constant)" legend_rates[0] = "d/dt CycA in component CycA (dimensionless)" legend_rates[3] = "d/dt CycB in component CycB (dimensionless)" legend_rates[6] = "d/dt CycE in component CycE (dimensionless)" legend_rates[9] = "d/dt Cdc20_A in component Cdc20_A (dimensionless)" legend_rates[11] = "d/dt Cdc20_i in component Cdc20_i (dimensionless)" legend_rates[10] = "d/dt APCP in component APCP (dimensionless)" legend_rates[4] = "d/dt pB in component pB (dimensionless)" legend_rates[5] = "d/dt BCKI in component BCKI (dimensionless)" legend_rates[12] = "d/dt pBCKI in component pBCKI (dimensionless)" legend_rates[1] = "d/dt Tri_A in component Tri_A (dimensionless)" legend_rates[7] = "d/dt Tri_E in component Tri_E (dimensionless)" legend_rates[2] = "d/dt CKI in component CKI (dimensionless)" legend_rates[13] = "d/dt Cdh1 in component Cdh1 (dimensionless)" legend_rates[8] = "d/dt mass in component mass (dimensionless)" return (legend_states, legend_algebraic, legend_voi, legend_constants) def initConsts(): constants = [0.0] * sizeConstants; states = [0.0] * sizeStates; states[0] = 0.009940445423126221 constants[0] = 25 constants[1] = 1 states[1] = 0.01715379953384399 states[2] = 0.2954076826572418 states[3] = 0.1668413728475571 constants[2] = 0 constants[3] = 0 states[4] = 0.009814870543777943 states[5] = 0 states[6] = 0.07760512828826904 constants[4] = 1 constants[5] = 50 states[7] = 0.3117263317108154 constants[6] = 0.05 states[8] = 1.174216866493225 states[9] = 0.6605867147445679 constants[7] = 0.5 constants[8] = 0.25 constants[9] = 0.15 states[10] = 0.6716265678405762 states[11] = 0.01855352707207203 constants[10] = 0.005 constants[11] = 0.005 constants[12] = 0 constants[13] = 0.15 constants[14] = 1 constants[15] = 1 constants[16] = 0.005 constants[17] = 0.005 constants[18] = 1 constants[19] = 0.07 constants[20] = 0.18 constants[21] = 0.01 constants[22] = 0.01 states[12] = 0 constants[23] = 1 states[13] = 0.9992357492446899 constants[24] = 0.01 constants[25] = 0.01 constants[26] = 0.004951 constants[27] = 10000 constants[28] = 0 constants[29] = 0.2 constants[30] = 0.5 constants[31] = 3 constants[32] = 0.25 constants[33] = 0.1 constants[34] = 0.1 constants[35] = 0.01 constants[36] = 0.01 constants[37] = 0.01 constants[38] = 0.1 constants[39] = 0.5 constants[40] = 0.5 constants[41] = 0.02 constants[42] = 2 constants[43] = 0 constants[44] = 88 constants[45] = 88 constants[46] = 88 constants[47] = 88 constants[48] = 88 constants[49] = 0.18 constants[50] = 3.5 constants[51] = 0 constants[52] = 0.2 constants[53] = 1 constants[54] = 0.1 constants[55] = 0 constants[56] = 1.8 constants[57] = 0 constants[58] = 0.8 constants[59] = 5 constants[60] = 5 constants[61] = 0 constants[62] = 5 constants[63] = 0 constants[64] = 1 constants[65] = 0.1 constants[66] = 0.1 constants[67] = 0.1 constants[68] = 0.01 constants[69] = 0.03 constants[70] = 0 constants[71] = 0.025 constants[72] = 0.01 constants[73] = 0.18 constants[74] = 0.005 constants[75] = 2 constants[76] = 0.1 constants[77] = 0.3 constants[78] = 0 constants[79] = 0 constants[80] = 1 constants[81] = 0.05 constants[82] = 0.05 constants[83] = 0.02 constants[84] = 0.2 constants[85] = 0 constants[86] = 1 constants[87] = 0.3 constants[88] = 0 constants[89] = 0.1 constants[90] = 0.1 constants[91] = 0.01 constants[92] = 5 return (states, constants) def computeRates(voi, states, constants): rates = [0.0] * sizeStates; algebraic = [0.0] * sizeAlgebraic rates[9] = ((constants[7]*states[10]*states[11])/(constants[10]+states[11])-(states[9]*constants[8])/(constants[11]+states[9]))-states[9]*constants[9] rates[11] = (((constants[12]+constants[13]*(power(states[3], constants[14])))/(power(constants[15], constants[14])+power(states[3], constants[14]))+(states[9]*constants[8])/(constants[17]+states[9]))-constants[9]*states[11])-(constants[7]*states[10]*states[11])/(constants[16]+states[11]) rates[8] = constants[26]*states[8]*(1.00000-states[8]/constants[27]) algebraic[0] = (constants[18]-states[10])/1.00000 rates[10] = (constants[19]*states[3]*algebraic[0])/(constants[21]+algebraic[0])-(constants[20]*states[10])/(constants[22]+states[10]) algebraic[9] = (constants[23]-states[13])/1.00000 algebraic[15] = states[9] algebraic[17] = constants[49]+constants[50]*algebraic[15] algebraic[1] = constants[6]*states[8] algebraic[19] = constants[51]+constants[52]*states[0]+constants[53]*states[3]+constants[54]*states[6]+constants[55]*algebraic[1] rates[13] = (algebraic[9]*algebraic[17])/(constants[24]+algebraic[9])-(states[13]*algebraic[19])/(constants[25]+states[13]) algebraic[20] = (constants[58]+constants[59]*states[0]+constants[62]*states[3]+constants[60]*states[6]+constants[61]*algebraic[1])/(1.00000+constants[63]*algebraic[15]) algebraic[14] = constants[41]+(constants[42]+constants[43])*states[9]+constants[43]*states[11] rates[1] = ((constants[0]*states[2]*states[0]-constants[1]*states[1])-algebraic[20]*states[1])-algebraic[14]*states[1] algebraic[13] = constants[37]+constants[38]*states[6]+constants[39]*states[0]+constants[40]*states[3] rates[7] = ((constants[5]*states[2]*states[6]-constants[4]*states[7])-algebraic[20]*states[7])-algebraic[13]*states[7] algebraic[10] = constants[28]+constants[29]*states[0]+constants[30]*states[6]+constants[31]*algebraic[1] algebraic[11] = constants[32]+constants[33]*states[0]+constants[34]*states[3] algebraic[12] = (2.00000*algebraic[10]*constants[35])/((algebraic[11]-algebraic[10])+constants[36]*algebraic[11]+constants[35]*algebraic[10]+power(power((algebraic[11]-algebraic[10])+constants[36]*algebraic[11]+constants[35]*algebraic[10], 2.00000)-4.00000*(algebraic[11]-algebraic[10])*constants[35]*algebraic[10], 1.0/2)) algebraic[21] = states[8]*(constants[70]+constants[71]*algebraic[12]) rates[0] = ((constants[1]*states[1]+algebraic[20]*states[1]+algebraic[21])-algebraic[14]*states[0])-constants[0]*states[2]*states[0] algebraic[23] = states[8]*(constants[72]+constants[73]*algebraic[12]) rates[6] = ((constants[4]*states[7]+algebraic[20]*states[7]+algebraic[23])-algebraic[13]*states[6])-constants[5]*states[2]*states[6] algebraic[25] = constants[74]+constants[75]*states[13]+constants[76]*states[9] algebraic[16] = (2.00000*constants[44]*algebraic[15]*constants[47])/(((constants[45]+constants[46]*states[3])-constants[44]*algebraic[15])+constants[48]*(constants[45]+constants[46]*states[3])+constants[47]*constants[44]*algebraic[15]+power(power(((constants[45]+constants[46]*states[3])-constants[44]*algebraic[15])+constants[48]*(constants[45]+constants[46]*states[3])+constants[47]*constants[44]*algebraic[15], 2.00000)-4.00000*((constants[45]+constants[46]*states[3])-constants[44]*algebraic[15])*constants[47]*constants[44]*algebraic[15], 1.0/2)) algebraic[18] = constants[56]+constants[57]*algebraic[16] rates[2] = (((((((-constants[2]*states[3]*states[2]+constants[3]*states[5])-constants[2]*states[4]*states[2])+constants[3]*states[12]+algebraic[25]*states[5]+algebraic[25]*states[12]+algebraic[18])-algebraic[20]*states[2])-constants[0]*states[2]*states[0])+constants[1]*states[1]+algebraic[14]*states[1])-constants[5]*states[2]*states[6])+constants[4]*states[7]+algebraic[13]*states[7] algebraic[22] = (2.00000*constants[64]*states[3]*constants[66])/((constants[65]-constants[64]*states[3])+constants[67]*constants[65]+constants[66]*constants[64]*states[3]+power(power((constants[65]-constants[64]*states[3])+constants[67]*constants[65]+constants[66]*constants[64]*states[3], 2.00000)-4.00000*(constants[65]-constants[64]*states[3])*constants[64]*states[3]*constants[66], 1.0/2)) algebraic[24] = states[8]*(constants[68]+constants[69]*algebraic[22]) algebraic[28] = (2.00000*(constants[85]+constants[86]*states[3])*constants[89])/(((constants[87]+constants[88]*algebraic[15])-(constants[85]+constants[86]*states[3]))+constants[90]*(constants[87]+constants[88]*algebraic[15])+(constants[85]+constants[86]*states[3])*constants[89]+power(power(((constants[87]+constants[88]*algebraic[15])-(constants[85]+constants[86]*states[3]))+constants[90]*(constants[87]+constants[88]*algebraic[15])+(constants[85]+constants[86]*states[3])*constants[89], 2.00000)-4.00000*((constants[87]+constants[88]*algebraic[15])-(constants[85]+constants[86]*states[3]))*(constants[85]+constants[86]*states[3])*constants[89], 1.0/2)) algebraic[29] = constants[91]+constants[92]*algebraic[28] algebraic[26] = (2.00000*(constants[77]+constants[78]*algebraic[15])*constants[81])/(((constants[79]+constants[80]*states[3])-(constants[77]+constants[78]*algebraic[15]))+constants[82]*(constants[79]+constants[80]*states[3])+constants[81]*(constants[77]+constants[78]*algebraic[15])+power(power(((constants[79]+constants[80]*states[3])-(constants[77]+constants[78]*algebraic[15]))+constants[82]*(constants[79]+constants[80]*states[3])+constants[81]*(constants[77]+constants[78]*algebraic[15]), 2.00000)-4.00000*((constants[79]+constants[80]*states[3])-(constants[77]+constants[78]*algebraic[15]))*(constants[77]+constants[78]*algebraic[15])*constants[81], 1.0/2)) algebraic[27] = constants[83]+constants[84]*algebraic[26] rates[3] = ((((algebraic[24]-algebraic[25]*states[3])+algebraic[29]*states[4])-algebraic[27]*states[3])-constants[2]*states[3]*states[2])+constants[3]*states[5]+algebraic[20]*states[5] rates[4] = (((algebraic[27]*states[3]-algebraic[25]*states[4])-constants[2]*states[4]*states[2])+constants[3]*states[12]+algebraic[20]*states[12])-algebraic[29]*states[4] rates[5] = ((((constants[2]*states[3]*states[2]-constants[3]*states[5])+algebraic[29]*states[12])-algebraic[27]*states[5])-algebraic[25]*states[5])-algebraic[20]*states[5] rates[12] = ((((constants[2]*states[4]*states[2]-constants[3]*states[12])-algebraic[29]*states[12])+algebraic[27]*states[5])-algebraic[25]*states[12])-algebraic[20]*states[12] return(rates) def computeAlgebraic(constants, states, voi): algebraic = array([[0.0] * len(voi)] * sizeAlgebraic) states = array(states) voi = array(voi) algebraic[0] = (constants[18]-states[10])/1.00000 algebraic[9] = (constants[23]-states[13])/1.00000 algebraic[15] = states[9] algebraic[17] = constants[49]+constants[50]*algebraic[15] algebraic[1] = constants[6]*states[8] algebraic[19] = constants[51]+constants[52]*states[0]+constants[53]*states[3]+constants[54]*states[6]+constants[55]*algebraic[1] algebraic[20] = (constants[58]+constants[59]*states[0]+constants[62]*states[3]+constants[60]*states[6]+constants[61]*algebraic[1])/(1.00000+constants[63]*algebraic[15]) algebraic[14] = constants[41]+(constants[42]+constants[43])*states[9]+constants[43]*states[11] algebraic[13] = constants[37]+constants[38]*states[6]+constants[39]*states[0]+constants[40]*states[3] algebraic[10] = constants[28]+constants[29]*states[0]+constants[30]*states[6]+constants[31]*algebraic[1] algebraic[11] = constants[32]+constants[33]*states[0]+constants[34]*states[3] algebraic[12] = (2.00000*algebraic[10]*constants[35])/((algebraic[11]-algebraic[10])+constants[36]*algebraic[11]+constants[35]*algebraic[10]+power(power((algebraic[11]-algebraic[10])+constants[36]*algebraic[11]+constants[35]*algebraic[10], 2.00000)-4.00000*(algebraic[11]-algebraic[10])*constants[35]*algebraic[10], 1.0/2)) algebraic[21] = states[8]*(constants[70]+constants[71]*algebraic[12]) algebraic[23] = states[8]*(constants[72]+constants[73]*algebraic[12]) algebraic[25] = constants[74]+constants[75]*states[13]+constants[76]*states[9] algebraic[16] = (2.00000*constants[44]*algebraic[15]*constants[47])/(((constants[45]+constants[46]*states[3])-constants[44]*algebraic[15])+constants[48]*(constants[45]+constants[46]*states[3])+constants[47]*constants[44]*algebraic[15]+power(power(((constants[45]+constants[46]*states[3])-constants[44]*algebraic[15])+constants[48]*(constants[45]+constants[46]*states[3])+constants[47]*constants[44]*algebraic[15], 2.00000)-4.00000*((constants[45]+constants[46]*states[3])-constants[44]*algebraic[15])*constants[47]*constants[44]*algebraic[15], 1.0/2)) algebraic[18] = constants[56]+constants[57]*algebraic[16] algebraic[22] = (2.00000*constants[64]*states[3]*constants[66])/((constants[65]-constants[64]*states[3])+constants[67]*constants[65]+constants[66]*constants[64]*states[3]+power(power((constants[65]-constants[64]*states[3])+constants[67]*constants[65]+constants[66]*constants[64]*states[3], 2.00000)-4.00000*(constants[65]-constants[64]*states[3])*constants[64]*states[3]*constants[66], 1.0/2)) algebraic[24] = states[8]*(constants[68]+constants[69]*algebraic[22]) algebraic[28] = (2.00000*(constants[85]+constants[86]*states[3])*constants[89])/(((constants[87]+constants[88]*algebraic[15])-(constants[85]+constants[86]*states[3]))+constants[90]*(constants[87]+constants[88]*algebraic[15])+(constants[85]+constants[86]*states[3])*constants[89]+power(power(((constants[87]+constants[88]*algebraic[15])-(constants[85]+constants[86]*states[3]))+constants[90]*(constants[87]+constants[88]*algebraic[15])+(constants[85]+constants[86]*states[3])*constants[89], 2.00000)-4.00000*((constants[87]+constants[88]*algebraic[15])-(constants[85]+constants[86]*states[3]))*(constants[85]+constants[86]*states[3])*constants[89], 1.0/2)) algebraic[29] = constants[91]+constants[92]*algebraic[28] algebraic[26] = (2.00000*(constants[77]+constants[78]*algebraic[15])*constants[81])/(((constants[79]+constants[80]*states[3])-(constants[77]+constants[78]*algebraic[15]))+constants[82]*(constants[79]+constants[80]*states[3])+constants[81]*(constants[77]+constants[78]*algebraic[15])+power(power(((constants[79]+constants[80]*states[3])-(constants[77]+constants[78]*algebraic[15]))+constants[82]*(constants[79]+constants[80]*states[3])+constants[81]*(constants[77]+constants[78]*algebraic[15]), 2.00000)-4.00000*((constants[79]+constants[80]*states[3])-(constants[77]+constants[78]*algebraic[15]))*(constants[77]+constants[78]*algebraic[15])*constants[81], 1.0/2)) algebraic[27] = constants[83]+constants[84]*algebraic[26] algebraic[2] = states[4]+states[5] algebraic[3] = states[3]+states[4]+states[5]+states[12] algebraic[4] = states[0]+states[1] algebraic[5] = states[6]+states[7] algebraic[6] = states[5]+states[12] algebraic[7] = states[2]+states[5]+states[12]+states[1]+states[7] algebraic[8] = states[11]+states[9] return algebraic 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)