#
# This file is automatically generated with 
# the System Biology Format Converter (http://sbfc.sourceforge.net/)
# from an SBML file.
#
# The conversion system has the following limitations:
#  - You may have to re order some reactions and Assignment Rules definition
#  - Delays are not taken into account
#  - You should change the lsode parameters (start, end, steps) to get better results
#

#
# The following line is there to be sure that Octave think that this file 
# is a script and not function file
#
1;

#
# Model name = Kholodenko2000_MAPK_feedback
#
# is urn:miriam:biomodels.db:BIOMD0000000010
# is urn:miriam:biomodels.db:MODEL6615119181
# isDescribedBy urn:miriam:pubmed:10712587
#
function z=pow(x,y),z=x^y;endfunction
function z=root(x,y),z=y^(1/x);endfunction
function z = piecewise(varargin)
	numArgs = nargin;
	result = 0;
	foundResult = 0;
	for k=1:2: numArgs-1
		if varargin{k+1} == 1
			result = varargin{k};
			foundResult = 1;
			break;
		endif
	end
	if foundResult == 0
		result = varargin{numArgs};
	endif
z = result;
endfunction

function xdot=f(x,t)
# Compartment: id = uVol, name = uVol, constant
	compartment_uVol=1.0;
# Reaction: id = J0, name = MAPKKK activation

	# Local Parameter:   id =  V1, name = V1
	reaction_J0_V1=2.5;
	# Local Parameter:   id =  Ki, name = Ki
	reaction_J0_Ki=9.0;
	# Local Parameter:   id =  n, name = n
	reaction_J0_n=1.0;
	# Local Parameter:   id =  K1, name = K1
	reaction_J0_K1=10.0;

	reaction_J0=compartment_uVol*reaction_J0_V1*x(1)/((1+(x(8)/reaction_J0_Ki)^(reaction_J0_n))*(reaction_J0_K1+x(1)));
# Reaction: id = J1, name = MAPKKK inactivation

	# Local Parameter:   id =  V2, name = V2
	reaction_J1_V2=0.25;
	# Local Parameter:   id =  KK2, name = KK2
	reaction_J1_KK2=8.0;

	reaction_J1=compartment_uVol*reaction_J1_V2*x(2)/(reaction_J1_KK2+x(2));
# Reaction: id = J2, name = phosphorylation of MAPKK

	# Local Parameter:   id =  k3, name = k3
	reaction_J2_k3=0.025;
	# Local Parameter:   id =  KK3, name = KK3
	reaction_J2_KK3=15.0;

	reaction_J2=compartment_uVol*reaction_J2_k3*x(2)*x(3)/(reaction_J2_KK3+x(3));
# Reaction: id = J3, name = phosphorylation of MAPKK-P

	# Local Parameter:   id =  k4, name = k4
	reaction_J3_k4=0.025;
	# Local Parameter:   id =  KK4, name = KK4
	reaction_J3_KK4=15.0;

	reaction_J3=compartment_uVol*reaction_J3_k4*x(2)*x(4)/(reaction_J3_KK4+x(4));
# Reaction: id = J4, name = dephosphorylation of MAPKK-PP

	# Local Parameter:   id =  V5, name = V5
	reaction_J4_V5=0.75;
	# Local Parameter:   id =  KK5, name = KK5
	reaction_J4_KK5=15.0;

	reaction_J4=compartment_uVol*reaction_J4_V5*x(5)/(reaction_J4_KK5+x(5));
# Reaction: id = J5, name = dephosphorylation of MAPKK-P

	# Local Parameter:   id =  V6, name = V6
	reaction_J5_V6=0.75;
	# Local Parameter:   id =  KK6, name = KK6
	reaction_J5_KK6=15.0;

	reaction_J5=compartment_uVol*reaction_J5_V6*x(4)/(reaction_J5_KK6+x(4));
# Reaction: id = J6, name = phosphorylation of MAPK

	# Local Parameter:   id =  k7, name = k7
	reaction_J6_k7=0.025;
	# Local Parameter:   id =  KK7, name = KK7
	reaction_J6_KK7=15.0;

	reaction_J6=compartment_uVol*reaction_J6_k7*x(5)*x(6)/(reaction_J6_KK7+x(6));
# Reaction: id = J7, name = phosphorylation of MAPK-P

	# Local Parameter:   id =  k8, name = k8
	reaction_J7_k8=0.025;
	# Local Parameter:   id =  KK8, name = KK8
	reaction_J7_KK8=15.0;

	reaction_J7=compartment_uVol*reaction_J7_k8*x(5)*x(7)/(reaction_J7_KK8+x(7));
# Reaction: id = J8, name = dephosphorylation of MAPK-PP

	# Local Parameter:   id =  V9, name = V9
	reaction_J8_V9=0.5;
	# Local Parameter:   id =  KK9, name = KK9
	reaction_J8_KK9=15.0;

	reaction_J8=compartment_uVol*reaction_J8_V9*x(8)/(reaction_J8_KK9+x(8));
# Reaction: id = J9, name = dephosphorylation of MAPK-P

	# Local Parameter:   id =  V10, name = V10
	reaction_J9_V10=0.5;
	# Local Parameter:   id =  KK10, name = KK10
	reaction_J9_KK10=15.0;

	reaction_J9=compartment_uVol*reaction_J9_V10*x(7)/(reaction_J9_KK10+x(7));
	xdot=zeros(8,1);
	# Species:   id = MKKK, name = MAPKKK, affected by kineticLaw

	xdot(1) = (1/(compartment_uVol))*((-1.0 * reaction_J0) + ( 1.0 * reaction_J1));

	# Species:   id = MKKK_P, name = MAPKKK-P, affected by kineticLaw

	xdot(2) = (1/(compartment_uVol))*(( 1.0 * reaction_J0) + (-1.0 * reaction_J1));

	# Species:   id = MKK, name = MAPKK, affected by kineticLaw

	xdot(3) = (1/(compartment_uVol))*((-1.0 * reaction_J2) + ( 1.0 * reaction_J5));

	# Species:   id = MKK_P, name = MAPKK-P, affected by kineticLaw

	xdot(4) = (1/(compartment_uVol))*(( 1.0 * reaction_J2) + (-1.0 * reaction_J3) + ( 1.0 * reaction_J4) + (-1.0 * reaction_J5));

	# Species:   id = MKK_PP, name = MAPKK-PP, affected by kineticLaw

	xdot(5) = (1/(compartment_uVol))*(( 1.0 * reaction_J3) + (-1.0 * reaction_J4));

	# Species:   id = MAPK, name = MAPK, affected by kineticLaw

	xdot(6) = (1/(compartment_uVol))*((-1.0 * reaction_J6) + ( 1.0 * reaction_J9));

	# Species:   id = MAPK_P, name = MAPK-P, affected by kineticLaw

	xdot(7) = (1/(compartment_uVol))*(( 1.0 * reaction_J6) + (-1.0 * reaction_J7) + ( 1.0 * reaction_J8) + (-1.0 * reaction_J9));

	# Species:   id = MAPK_PP, name = MAPK-PP, affected by kineticLaw

	xdot(8) = (1/(compartment_uVol))*(( 1.0 * reaction_J7) + (-1.0 * reaction_J8));

endfunction

#Initial conditions vector
x0=zeros(8,1);
x0(1) = 90.0;
x0(2) = 10.0;
x0(3) = 280.0;
x0(4) = 10.0;
x0(5) = 10.0;
x0(6) = 280.0;
x0(7) = 10.0;
x0(8) = 10.0;


#Creating linespace
t=linspace(0,90,100);

#Solving equations
x=lsode("f",x0,t);

#ploting the results
plot(t,x);