Location: BG_Kr @ 78241c53362e / parameter_finder / output / TEMP.cellml.txt

Author:
Shelley Fong <s.fong@auckland.ac.nz>
Date:
2022-04-22 11:22:10+12:00
Desc:
Changing units to s for alpha and beta gate parameters
Permanent Source URI:
https://staging.physiomeproject.org/workspace/82c/rawfile/78241c53362eaa4197ccb6597082fae1be26b9ee/parameter_finder/output/TEMP.cellml.txt
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def model individual_Kr 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_K_i: fmol {init: 1e-888, pub: out};
var q_K_o: fmol {init: 1e-888, pub: out};
var q_Sa_Kr: fmol {init: 1e-888, pub: out};
var q_Sb_Kr: fmol {init: 1e-888, pub: out};
var q_Sc_Kr: fmol {init: 1e-888, pub: out};
var q_Sd_Kr: fmol {init: 1e-888, pub: out};
// From submodule
var v_Kr: fmol_per_sec {pub: in};
var v_xr10: fmol_per_sec {pub: in};
var v_xr11: fmol_per_sec {pub: in};
var v_xr20: fmol_per_sec {pub: in};
var v_xr21: fmol_per_sec {pub: in};
ode(q_K_i, time) = vvv;
ode(q_K_o, time) = vvv;
ode(q_Sa_Kr, time) = vvv;
ode(q_Sb_Kr, time) = vvv;
ode(q_Sc_Kr, time) = vvv;
ode(q_Sd_Kr, time) = vvv;
enddef;

def comp Kr_parameters as
var kappa_Kr: fmol_per_sec {init: 2641.62, pub: out};
var kappa_xr10: fmol_per_sec {init: 0.0794844, pub: out};
var kappa_xr11: fmol_per_sec {init: 0.00212813, pub: out};
var kappa_xr20: fmol_per_sec {init: 0.267259, pub: out};
var kappa_xr21: fmol_per_sec {init: 2.18134, pub: out};
var K_K_i: per_fmol {init: 13.8536, pub: out};
var K_K_o: per_fmol {init: 15.7427, pub: out};
var K_Sa_Kr: per_fmol {init: 0.0465841, pub: out};
var K_Sb_Kr: per_fmol {init: 0.00570751, pub: out};
var K_Sc_Kr: per_fmol {init: 1.73989, pub: out};
var K_Sd_Kr: per_fmol {init: 0.213172, pub: out};
enddef;
def comp Kr as
        var time: second {pub: in};
        var R: J_per_K_per_mol {pub: in};
        var T: kelvin {pub: in};
        // parameters
var kappa_Kr: fmol_per_sec {pub: in};
var kappa_xr10: fmol_per_sec {pub: in};
var kappa_xr11: fmol_per_sec {pub: in};
var kappa_xr20: fmol_per_sec {pub: in};
var kappa_xr21: fmol_per_sec {pub: in};
var K_K_i: per_fmol {pub: in};
var K_K_o: per_fmol {pub: in};
var K_Sa_Kr: per_fmol {pub: in};
var K_Sb_Kr: per_fmol {pub: in};
var K_Sc_Kr: per_fmol {pub: in};
var K_Sd_Kr: per_fmol {pub: in};
// Input from global environment
var q_K_i: fmol {pub: in};
var q_K_o: fmol {pub: in};
var q_Sa_Kr: fmol {pub: in};
var q_Sb_Kr: fmol {pub: in};
var q_Sc_Kr: fmol {pub: in};
var q_Sd_Kr: fmol {pub: in};
// Constitutive parameters
var mu_K_i: J_per_mol;
var mu_K_o: J_per_mol;
var mu_Sa_Kr: J_per_mol;
var mu_Sb_Kr: J_per_mol;
var mu_Sc_Kr: J_per_mol;
var mu_Sd_Kr: J_per_mol;
var v_Kr: fmol_per_sec {pub: out};
var v_xr10: fmol_per_sec {pub: out};
var v_xr11: fmol_per_sec {pub: out};
var v_xr20: fmol_per_sec {pub: out};
var v_xr21: fmol_per_sec {pub: out};
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_Sa_Kr = R*T*ln(K_Sa_Kr*q_Sa_Kr);
mu_Sb_Kr = R*T*ln(K_Sb_Kr*q_Sb_Kr);
mu_Sc_Kr = R*T*ln(K_Sc_Kr*q_Sc_Kr);
mu_Sd_Kr = R*T*ln(K_Sd_Kr*q_Sd_Kr);
v_Kr = ppp;
v_xr10 = ppp;
v_xr11 = ppp;
v_xr20 = ppp;
v_xr21 = ppp;
enddef;
def map between environment and Kr for
vars time and time;
vars q_K_i and q_K_i;
vars q_K_o and q_K_o;
vars q_Sa_Kr and q_Sa_Kr;
vars q_Sb_Kr and q_Sb_Kr;
vars q_Sc_Kr and q_Sc_Kr;
vars q_Sd_Kr and q_Sd_Kr;
vars v_Kr and v_Kr;
vars v_xr10 and v_xr10;
vars v_xr11 and v_xr11;
vars v_xr20 and v_xr20;
vars v_xr21 and v_xr21;
enddef;
def map between Kr and Kr_parameters for
vars kappa_Kr and kappa_Kr;
vars kappa_xr10 and kappa_xr10;
vars kappa_xr11 and kappa_xr11;
vars kappa_xr20 and kappa_xr20;
vars kappa_xr21 and kappa_xr21;
vars K_K_i and K_K_i;
vars K_K_o and K_K_o;
vars K_Sa_Kr and K_Sa_Kr;
vars K_Sb_Kr and K_Sb_Kr;
vars K_Sc_Kr and K_Sc_Kr;
vars K_Sd_Kr and K_Sd_Kr;
enddef;
def map between constants and Kr for
vars R and R;
 vars T and T;
enddef;
enddef;