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CM_Drive.m
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%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Copyright Xin-Guang Zhu, Yu Wang, Donald R. ORT and Stephen P. LONG
%CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, CAS, Shanghai,200031
%China Institute of Genomic Biology and Department of Plant Biology, Shanghai Institutes for Biological Sciences, CAS, Shanghai,200031
%University of Illinois at Urbana Champaign
%Global Change and Photosynthesis Research Unit, USDA/ARS, 1406 Institute of Genomic Biology, Urbana, IL 61801, USA.
% This file is part of e-photosynthesis.
% e-photosynthesis is free software; you can redistribute it and/or modify
% it under the terms of the GNU General Public License as published by
% the Free Software Foundation;
% e-photosynthesis is distributed in the hope that it will be useful,
% but WITHOUT ANY WARRANTY; without even the implied warranty of
% MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
% GNU General Public License for more details.
% You should have received a copy of the GNU General Public License (GPL)
% along with this program. If not, see <http://www.gnu.org/licenses/>.
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
global dontClear;
if (~dontClear)
clear all;
end
InitRatios(1, 1);
Begin = 1;
fin = SYSInitial(Begin);
global options1;
global tglobal;
time = tglobal;
global GP ;
GP =0;
global PS_PR_OLDTIME;
global PS_PR_TIME_N;
global PS_PR_VEL;
PS_PR_OLDTIME = 0;
PS_PR_TIME_N = 1;
PS_PR_VEL = zeros(27,1);
global PS_OLD_TIME;
global PS_TIME_N;
global PS_VEL;
PS_OLD_TIME = 0;
PS_TIME_N= 0;
PS_VEL = zeros(1,1);
global PR_OLD_TIME;
global PR_TIME_N;
global PR_VEL;
PR_OLD_TIME = 0;
PR_TIME_N = 1;
PR_VEL = zeros(1,1);
Begin = 1;
PS_PRs = zeros(24,1);
ModelComb = IniModelCom; % Initialize the structure of the model, i.e. Is this model separate or combined with others.
global PR_PS_com; % This is a variable indicating whether the PR model is actually need to be combined with PS or not. If 1 then means combined; 0 means not.
PR_PS_com = 1;
global PSPR_SUCS_com; % This is a variable indicating whether the PSPR model is actually need to be combined with SUCS or not. If 1 then means combined; 0 means not.
PSPR_SUCS_com = 1;
CMs = CM_Ini(Begin);
global ATPActive;
ATPActive = 0;
%%%%%%%%%%%%%%%%%%%%%%%%
% Calculation step %
%%%%%%%%%%%%%%%%%%%%%%%%
CM_Param = 0;
global CO2A;
CO2A = zeros(5,1);
SUCS_Param = zeros(2,1);
SUCS_Param(1) = 1;
SUCS_Param(2) = 1;
PS_PR_Param = 0;
[Tt,d] = ode15s(@CM_mb,[0,time],CMs,options1,PS_PR_Param, SUCS_Param);
%%%%%%%%%%%%%%%%%%%%%%%%
% output step %
%%%%%%%%%%%%%%%%%%%%%%%%
global dontGraph;
if (~dontGraph)
success = CM_OUT(Tt, d);
else
success = 1;
end
% Reinitialize some values of global variables.
PSPR_SUCS_com = 0;
IniModelCom;