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endif;
##Sizes
N = length(t);
[n_u,N_u] = size(u);
## Doing sensitivities (assumes sensitivity system is invoked)
n_sens = length(sensitivities);
doing_sensitivities = (length(sensitivities)>0);
doing_sensitivities = (n_sens>0);
if doing_sensitivities
n_y = $Ny/2;
doing_state=0;
ys = [];
else
n_y = $Ny;
doing_state=(nargout>1);
endif;
## Initialise
ui = zeros(n_u,1); # Initial control
[xi] = x0; # Read in initial state
## Timing parameters
first = t(1);
dt = t(2) - t(1);
n_t = length(t);
last = t(length(t));
last = t(n_t);
n_sens = length(sensitivities);
## tick1=time;
## save_time = time-tick1
##system("strip_comments <mtt_junk.dat >mtt_u.dat;"); #Strip the leading comments
save -ascii $1_state.dat xi
## Create the command string
## tick1=time;
command = "";
for sensitivity_index = [0 sensitivities]
args = "";
for i=1:$Nx
args = sprintf("%s %g", args, x0(i));
endfor
## Create the sympar file
save -ascii $1_simpar.dat dt
## Create the numpar file
[n_par,m_par] = size(par);
if m_par==1
if n_par!=$Npar
error(sprintf("Number of parameters is %i, should be %i", n_par, $Npar));
else
ipar= [[1:$Npar]' par]; #'
endif
elseif m_par==2
ipar = par;
else
error(sprintf("Number of parameter columns is %i, should be 1 or 2", m_par));
endif;
par(sensitivities) = zeros(1,n_sens);
if sensitivity_index>0
par(sensitivity_index) = 1;
i_1 = 2+n_y;
if !doing_sensitivities
save -ascii $1_numpar.dat ipar
endif;
dtime = time-tim;
T = [T; num2str(dtime)];
## main simulation loop
n_sim = max(1,n_sens);
for i_sim=1:n_sim
if i_sim==1
i_1 = 2;
else
i_1 = 2;
i_1 = 2+n_y;
endif;
i_2 = i_1 + n_y + $Nx;
i_2 = i_1 + n_y - 1;
i_3 = i_1 + n_y + 1;
i_4 = i_1 + n_y + $Nx;
else
if doing_sensitivities
i_2 = 2 + n_y;
ipars = [ipar; [sensitivities(i_sim) 1]];
save -ascii $1_numpar.dat ipars
else
i_2 = i_1 + n_y -1;
i_2 = i_1 + n_y -1;
endif
endif;
for i=1:$Npar
args = sprintf("%s %g", args, par(i));
endfor
args = sprintf("%s %g %g %g", args, first, dt, last);
S = [S;sprintf("Run %i\t",i_sim)];
tim = time;
command = sprintf("%s ./$1_ode2odes.out< $1_input.dat %s | cut -f %i-%i;", command, args, i_1, i_2);
endfor;
## string_time = time-tick1
## And execute it ...
## tick1=time;
yy=str2num(system(command));
## command_time = time-tick1
## Convert data
S = [S;sprintf("Conv %i\t",i_sim)];
tim = time;
yy = str2num(yy_str)'; #'
dtime = time-tim;
T = [T; num2str(dtime)];
[N_yy,M_yy] = size(yy);
## Reshape
if i_sim==1
yy = reshape(yy,N,M_yy*(1+n_sens))';
y = yy(1:n_y,:); # Output
if doing_sensitivities
i_1 = n_y+1;
i_2 = i_1 + n_y*n_sens - 1;
ys = yy(i_1:i_2,:); # sensitivity
endif;
if doing_state
i_1 = n_y+2;
i_2 = i_1 + $Nx - 1;
ys = yy(i_1:i_2,:); # state
endif;
## sim_time = time-tick
##RealTime = [S T]
endfunction
EOF
else
cat >> $1_sim.m <<EOF
|