Location: BG_pH_B1 @ 95a8d8edb889 / parameter_finder / output / TEMP.cellml.txt

Author:

Shelley Fong <sfon036@UoA.auckland.ac.nz>

Date:

2022-05-25 11:33:48+12:00

Desc:

Adding 2H to stoich either side of rxn

Permanent Source URI:

http://models.cellml.org/workspace/883/rawfile/95a8d8edb88975561a88fe7c719c25d8cf6d2173/parameter_finder/output/TEMP.cellml.txt

def model individual_pH_B1 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_H_i: fmol {init: 1e-888, pub: out};
var q_B1: fmol {init: 1e-888, pub: out};
var q_HB1: fmol {init: 1e-888, pub: out};
// From submodule
var v_Re_B1: fmol_per_sec {pub: in};
ode(q_H_i, time) = vvv;
ode(q_B1, time) = vvv;
ode(q_HB1, time) = vvv;
enddef;

def comp pH_B1_parameters as
var kappa_Re_B1: fmol_per_sec {init: 0.436516, pub: out};
var K_H_i: per_fmol {init: 0.67642, pub: out};
var K_B1: per_fmol {init: 3.5499, pub: out};
var K_HB1: per_fmol {init: 8.51562e-05, pub: out};
enddef;
def comp pH_B1 as
        var time: second {pub: in};
        var R: J_per_K_per_mol {pub: in};
        var T: kelvin {pub: in};
        // parameters
var kappa_Re_B1: fmol_per_sec {pub: in};
var K_H_i: per_fmol {pub: in};
var K_B1: per_fmol {pub: in};
var K_HB1: per_fmol {pub: in};
// Input from global environment
var q_H_i: fmol {pub: in};
var q_B1: fmol {pub: in};
var q_HB1: fmol {pub: in};
// Constitutive parameters
var mu_H_i: J_per_mol;
var mu_B1: J_per_mol;
var mu_HB1: J_per_mol;
var v_Re_B1: fmol_per_sec {pub: out};
mu_H_i = R*T*ln(K_H_i*q_H_i);
mu_B1 = R*T*ln(K_B1*q_B1);
mu_HB1 = R*T*ln(K_HB1*q_HB1);
v_Re_B1 = ppp;
enddef;
def map between environment and pH_B1 for
vars time and time;
vars q_H_i and q_H_i;
vars q_B1 and q_B1;
vars q_HB1 and q_HB1;
vars v_Re_B1 and v_Re_B1;
enddef;
def map between pH_B1 and pH_B1_parameters for
vars kappa_Re_B1 and kappa_Re_B1;
vars K_H_i and K_H_i;
vars K_B1 and K_B1;
vars K_HB1 and K_HB1;
enddef;
def map between constants and pH_B1 for
vars R and R;
 vars T and T;
enddef;
enddef;