- Author:
- Shelley Fong <s.fong@auckland.ac.nz>
- Date:
- 2022-03-07 13:07:15+13:00
- Desc:
- Rename comp
- Permanent Source URI:
- https://models.cellml.org/workspace/838/rawfile/13ccd45033f712bd29772d87a155d16643a5ffa0/parameter_finder/output/TEMP.cellml.txt
def model individual_funny as
def import using "units_and_constants/units_BG.cellml" for
unit mM using unit mM;
unit fmol using unit fmol;
unit per_fmol using unit per_fmol;
unit J_per_mol using unit J_per_mol;
unit fmol_per_sec using unit fmol_per_sec;
unit C_per_mol using unit C_per_mol;
unit J_per_C using unit J_per_C;
unit microm3 using unit microm3;
unit fF using unit fF;
unit fC using unit fC;
unit fA using unit fA;
unit per_second using unit per_second;
unit millivolt using unit millivolt;
unit per_sec using unit per_sec;
unit J_per_K_per_mol using unit J_per_K_per_mol;
unit fmol_per_L using unit fmol_per_L;
unit fmol_per_L_per_sec using unit fmol_per_L_per_sec;
unit per_sec_per_fmol_per_L using unit per_sec_per_fmol_per_L;
unit uM using unit uM;
unit mM_per_sec using unit mM_per_sec;
unit uM_per_sec using unit uM_per_sec;
unit pL using unit pL;
unit m_to_u using unit m_to_u;
enddef;
def import using "units_and_constants/constants_BG.cellml" for
comp constants using comp constants;
enddef;
def comp environment as
var time: second {pub: out};
// initial values
var q_Na_i: fmol {init: 1e-888, pub: out};
var q_Na_o: fmol {init: 1e-888, pub: out};
var q_K_i: fmol {init: 1e-888, pub: out};
var q_K_o: fmol {init: 1e-888, pub: out};
var q_x0: fmol {init: 1e-888, pub: out};
var q_x1: fmol {init: 1e-888, pub: out};
// From submodule
var v_funny_Na: fmol_per_sec {pub: in};
var v_funny_K: fmol_per_sec {pub: in};
var v_R_xf: fmol_per_sec {pub: in};
ode(q_Na_i, time) = vvv;
ode(q_Na_o, time) = vvv;
ode(q_K_i, time) = vvv;
ode(q_K_o, time) = vvv;
ode(q_x0, time) = vvv;
ode(q_x1, time) = vvv;
enddef;
def comp funny_parameters as
var kappa_funny_Na: fmol_per_sec {init: 33711.9, pub: out};
var kappa_funny_K: fmol_per_sec {init: 68505.2, pub: out};
var kappa_R_xf: fmol_per_sec {init: 0.000937554, pub: out};
var K_Na_i: per_fmol {init: 5.33744, pub: out};
var K_Na_o: per_fmol {init: 35.4319, pub: out};
var K_K_i: per_fmol {init: 7.60857, pub: out};
var K_K_o: per_fmol {init: 50.5085, pub: out};
var K_x0: per_fmol {init: 9.39344e-05, pub: out};
var K_x1: per_fmol {init: 9.98095, pub: out};
enddef;
def comp funny as
var time: second {pub: in};
var R: J_per_K_per_mol {pub: in};
var T: kelvin {pub: in};
// parameters
var kappa_funny_Na: fmol_per_sec {pub: in};
var kappa_funny_K: fmol_per_sec {pub: in};
var kappa_R_xf: fmol_per_sec {pub: in};
var K_Na_i: per_fmol {pub: in};
var K_Na_o: per_fmol {pub: in};
var K_K_i: per_fmol {pub: in};
var K_K_o: per_fmol {pub: in};
var K_x0: per_fmol {pub: in};
var K_x1: per_fmol {pub: in};
// Input from global environment
var q_Na_i: fmol {pub: in};
var q_Na_o: fmol {pub: in};
var q_K_i: fmol {pub: in};
var q_K_o: fmol {pub: in};
var q_x0: fmol {pub: in};
var q_x1: fmol {pub: in};
// Constitutive parameters
var mu_Na_i: J_per_mol;
var mu_Na_o: J_per_mol;
var mu_K_i: J_per_mol;
var mu_K_o: J_per_mol;
var mu_x0: J_per_mol;
var mu_x1: J_per_mol;
var v_funny_Na: fmol_per_sec {pub: out};
var v_funny_K: fmol_per_sec {pub: out};
var v_R_xf: fmol_per_sec {pub: out};
mu_Na_i = R*T*ln(K_Na_i*q_Na_i);
mu_Na_o = R*T*ln(K_Na_o*q_Na_o);
mu_K_i = R*T*ln(K_K_i*q_K_i);
mu_K_o = R*T*ln(K_K_o*q_K_o);
mu_x0 = R*T*ln(K_x0*q_x0);
mu_x1 = R*T*ln(K_x1*q_x1);
v_funny_Na = ppp;
v_funny_K = ppp;
v_R_xf = ppp;
enddef;
def map between environment and funny for
vars time and time;
vars q_Na_i and q_Na_i;
vars q_Na_o and q_Na_o;
vars q_K_i and q_K_i;
vars q_K_o and q_K_o;
vars q_x0 and q_x0;
vars q_x1 and q_x1;
vars v_funny_Na and v_funny_Na;
vars v_funny_K and v_funny_K;
vars v_R_xf and v_R_xf;
enddef;
def map between funny and funny_parameters for
vars kappa_funny_Na and kappa_funny_Na;
vars kappa_funny_K and kappa_funny_K;
vars kappa_R_xf and kappa_R_xf;
vars K_Na_i and K_Na_i;
vars K_Na_o and K_Na_o;
vars K_K_i and K_K_i;
vars K_K_o and K_K_o;
vars K_x0 and K_x0;
vars K_x1 and K_x1;
enddef;
def map between constants and funny for
vars R and R;
vars T and T;
enddef;
enddef;
