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Commit e78ce274
authored
2019-03-31 21:50:19 +0200
by
Chiara Antonini
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CRA_Updated_Version/CRA_Toolbox_bash/start_simulation.m
CRA_Updated_Version/CRA_Toolbox_bash/start_simulation.m
0 → 100644
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e78ce27
%Function for simulating the ODE model using the perturbed parameter
%vector. It takes in input:
%1. model which is the struct containing all the characheristics of the
%model
%2. Nr is the number of independent realizations to perform;
%3. LBpi and UBpi are the lower and upper boundaries of the Latin
%Hypercube;
%4. Ns is the number of samples to generate for creating the Latin
%Hypercube;
%It returns in output the array AllResults containing all the output
%variables simulated using the parameter vectors in AllPerturbations
function
[
AllResults
,
AllPerturbations
]
=
start_simulation
(
model
,
Nr
,
LBpi
,
UBpi
,
Ns
)
nominal_parameters
=
model
.
nominal_parameters
;
num_parameters
=
length
(
nominal_parameters
);
AllResults
=
cell
(
Nr
,
model
.
num_observables
);
AllPerturbations
=
cell
(
Nr
,
1
);
h
=
waitbar
(
0
,
'Please wait...'
);
for
k
=
1
:
Nr
waitbar
(
k
/
Nr
,
h
,[
'Realization number '
,
num2str
(
k
)]);
hypercube
=
LatinHypercube
(
LBpi
,
UBpi
,
Ns
);
perturbation
=
hypercube
.
generate_sample
(
num_parameters
);
perturbed_p
=
repmat
(
nominal_parameters
,
length
(
perturbation
),
1
)
.*
perturbation
;
AllPerturbations
{
k
,
1
}
=
perturbation
;
disp
(
strcat
(
'Generated a Latin Hypercube of size'
,{
' '
},
sprintf
(
'%.0f'
,
size
(
perturbation
,
1
)),
'x'
,
sprintf
(
'%.0f'
,
size
(
perturbation
,
2
))));
%psim_all=cell(Ns,model.num_observables);
psim_all
=
cell
(
Ns
,
1
);
parfor
i
=
1
:
Ns
pi
=
perturbed_p
(
i
,:);
modelsim
=@
(
t
,
x
)
feval
(
model
.
name
,
t
,
x
,
pi
,
model
.
input
,
model
.
total_proteins
);
[
tsimi
,
psimi
]
=
feval
(
model
.
odesolver
,
modelsim
,
model
.
time
,
model
.
initial_conditions
);
% for t=1:model.num_observables
% psim_all{i,t}=psimi(:,t);
%end
msgstr
=
lastwarn
;
if
isequal
(
msgstr
,
''
)
psim_all
{
i
,
1
}
=
psimi
;
else
psim_all
{
i
,
1
}
=
NaN
(
length
(
model
.
time
),
model
.
num_observables
);
end
lastwarn
(
''
)
end
for
j
=
1
:
model
.
num_observables
for
w
=
1
:
Ns
AllResults
{
k
,
j
}{
w
,
1
}
=
psim_all
{
w
,
1
}(:,
j
);
end
end
%AllResults{k,1:end}=psim_all;
disp
(
strcat
(
'Completed one realization. The array of results has size'
,{
' '
},
sprintf
(
'%.0f'
,
size
(
psim_all
,
1
)),
'x'
,
sprintf
(
'%.0f'
,
size
(
psim_all
,
2
))));
end
delete
(
gcp
)
%close parallel pool
close
(
h
)
%close the waitbar
end
\ No newline at end of file
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