create_ODEs.m

modelOBJ = sbmlimport('cAMP_model_rev21.xml');
nreactions = length(modelOBJ.Reactions);
nspecies = length(modelOBJ.Species);
fid = fopen('ode.m', 'w');

for i=1:nspecies
    strnum = int2str(i);
    str = strcat('yd(',strnum,') = ');
    if(modelOBJ.species(i).ConstantAmount == 0)
        for j=1:nreactions
        nreac = length(modelOBJ.Reactions(j).reactants);
        nprod = length(modelOBJ.Reactions(j).products);
            for k=1:nreac
                if(strcmp(modelOBJ.Species(i).name, modelOBJ.Reactions(j).reactants(k).name) == 1)
            str = strcat(str,' -(',modelOBJ.Reactions(j).reactionRate,')');
                end
            end
       
            for k=1:nprod
                if(strcmp(modelOBJ.Species(i).name, modelOBJ.Reactions(j).product(k).name) == 1)
            str = strcat(str,' +(', modelOBJ.Reactions(j).reactionRate,')');
                end
            end
        end 
    else
       str = strcat(str,' 0.0');
    end
    fprintf(fid,'%s;\n',str);
end

fprintf(fid,'\n\n\n');
fprintf(fid,'yd = transpose(yd);\n');

fclose(fid);