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# Find system constants
Nx=`mtt_getsize $Sys x` # States
Nu=`mtt_getsize $Sys u` # Inputs
Ny=`mtt_getsize $Sys y` # Inputs
Npar=`wc -l $Sys\_sympar.txt | awk '{print $1}'`
# Header
lang_header -noglobals $1 sim m 'x0,u,t,par,sensitivities' '[y,x]' > $1_sim.m
lang_header -noglobals $1 sim m 'x0,u,t,par,sensitivities' '[y,ys]' > $1_sim.m
cat >> $1_sim.m <<EOF
## tick=time;
if nargin<5
sensitivities = [];
endif;
## Initialise
[ui] = zero_input($Nu); # Zero the input
[xi] = x0; # Read in initial state
##Sizes
N = length(t);
[n_u,N_u] = size(u);
## Doing sensitivities (assumes sensitivity system is invoked)
doing_sensitivities = (length(sensitivities)>0);
if doing_sensitivities
n_y = $Ny/2;
doing_state=0;
else
n_y = $Ny;
doing_state=(nargout>1);
endif;
##Sizes
N = length(t);
## Initialise arrays
x = zeros($Nx,N);
y = zeros($Ny,N);
## Initialise
ui = zeros(n_u,1); # Initial control
[xi] = x0; # Read in initial state
## Timing parameters
first = t(1);
dt = t(2) - t(1);
last = t(length(t))+dt;
last = t(length(t));
n_sens = length(sensitivities);
EOF
if [ "$computation" = "c" ]; then
cat >> $1_sim.m <<EOF
## Create the system input file
t1 = [0:N_u-1]*dt; # Create time vector from zero (to fit u);
ut = [t1' u'];
## tick1=time;
save -ascii $1_input.dat ut
## save_time = time-tick1
##system("strip_comments <mtt_junk.dat >mtt_u.dat;"); #Strip the leading comments
## Create the command string
## tick1=time;
command = "";
for sensitivity_index = [0 sensitivities]
args = "";
for i=1:$Nx
args = sprintf("%s %g", args, x0(i));
endfor
par(sensitivities) = zeros(1,n_sens);
if sensitivity_index>0
par(sensitivity_index) = 1;
i_1 = $Ny/2 + 2;
i_1 = 2+n_y;
else
i_1 = 2;
endif;
if doing_state
i_2 = i_1 + n_y + $Nx;
else
i_2 = i_1 + $Ny/2 -1;
i_2 = i_1 + n_y -1;
endif;
for i=1:$Npar
args = sprintf("%s %g", args, par(i));
endfor
args = sprintf("%s %g %g %g", args, first, dt, last);
command = sprintf("%s ./$1_ode2odes.out %s | cut -f %i-%i;", command, args, i_1, i_2);
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
command
[Ny,My] = size(yy);
Ny/N,N
y = reshape(yy',N,Ny/N)';
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