--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/testing/utp_1.1/utps/ao/utp_ao_mcmc.m	Tue Dec 06 19:07:22 2011 +0100
@@ -0,0 +1,401 @@
+% UTP_AO_MCMC a set of UTPs for the ao/mcmc method
+%
+% M Nofrarias 06-07-09
+%
+% $Id: utp_ao_mcmc.m,v 1.8 2011/11/16 15:21:13 nikos Exp $
+%
+
+% <MethodDescription>
+%
+% MCMC samples a probability distribution for a using a 
+% Metropolis algorithm.
+%
+% </MethodDescription>
+
+function results = utp_ao_mcmc(varargin)
+  
+  % Check the inputs
+  if nargin == 0
+    
+    % Some keywords
+    class   = 'ao';
+    mthd    = 'mcmc';
+    
+    results = [];
+    disp('******************************************************');
+    disp(['****  Running UTPs for ' class '/' mthd]);
+    disp('******************************************************');
+    
+    % Test AOs
+    n1  = ao(plist('waveform','noise','type','normal','sigma',0.1,'nsecs',100,'fs',1,'yunits','m'));
+    n2  = ao(plist('waveform','noise','type','normal','sigma',0.1,'nsecs',100,'fs',1,'yunits','m'));
+    noise = [n1 ; n2];
+    
+    in(1) = ao(plist('fs', 1, 'nsecs', 100, 'tsfcn', 'sin(2*pi*1*t)'));
+    in(2) = ao(plist('fs', 1, 'nsecs', 100, 'tsfcn', 'sin(2*pi*0.1*t)'));
+    
+    out(1) = ao(plist('fs', 1, 'nsecs', 100, 'tsfcn', '10 + sin(2*pi*1*t)'));
+    out(2) = ao(plist('fs', 1, 'nsecs', 100, 'tsfcn', '200 + sin(2*pi*0.1*t)'));
+    
+    % Test smodels
+    st1 = smodel('a + t'); 
+    st1.setXvar('f');
+    st1.setParams('a',10);
+    st1.setXvar('t');
+    st1.setXvals(in(1).x);
+    
+    st2 = smodel('b + t'); 
+    st2.setXvar('f');
+    st2.setParams('b',10);
+    st2.setXvar('t');
+    st2.setXvals(in(1).x);
+    
+    model = matrix(st1,st2,st1,st2,plist('shape',[2 2]));
+    
+    % define plist
+     pl = plist('Fitparams',{'a','b'},...
+       'cov',[1 0; 0 1],...
+       'J',1,...
+       'N',2,...
+       'range',{[5 15],[180 220]},...
+       'x0',[10 200], ...
+       'noise',noise, ...
+       'Tc',[10 20], ...
+       'model',model, ...       
+       'search', false, ...
+       'frequencies',[1e-3 1],...
+       'input', [in(1) ; in(2)],...
+       'Navs',5,...
+       'simplex', false);
+    
+    % Exception list for the UTPs:
+    [ple1,ple2,ple3,ple4,ple5,ple6] = get_test_ples();
+    
+    % Run the tests
+    results = [results utp_01];    % getInfo call
+    results = [results utp_02];    % Vector input
+    results = [results utp_03];    % Matrix input
+    results = [results utp_04];    % Test history is working
+    results = [results utp_05];    % Test output of the data
+    
+    %
+    disp('Done.');
+    disp('******************************************************');
+    
+  elseif nargin == 1 % Check for UTP functions
+    if strcmp(varargin{1}, 'isutp')
+      results = 1;
+    else
+      results = 0;
+    end
+  else
+    error('### Incorrect inputs')
+  end
+  
+  %% UTP_01
+  
+  % <TestDescription>
+  %
+  % Tests that the getInfo call works for this method.
+  %
+  % </TestDescription>
+  function result = utp_01
+    
+    % <SyntaxDescription>
+    %
+    % Test that the getInfo call works for no sets, all sets, and each set
+    % individually.
+    %
+    % </SyntaxDescription>
+    
+    % <SyntaxCode>
+    try
+      % Call for no sets
+      io(1) = eval([class '.getInfo(''' mthd ''', ''None'')']);
+      % Call for all sets
+      io(2) = eval([class '.getInfo(''' mthd ''')']);
+      % Call for each set
+      for kk=1:numel(io(2).sets)
+        io(kk+2) = eval([class '.getInfo(''' mthd ''', ''' io(2).sets{kk} ''')']);
+      end
+      stest = true;
+    catch err
+      disp(err.message)
+      stest = false;
+    end
+    % </SyntaxCode>
+    
+    % <AlgoDescription>
+    %
+    % 1) Check that getInfo call returned an minfo object in all cases.
+    % 2) Check that all plists have the correct parameters.
+    %
+    % </AlgoDescription>
+    
+    % <AlgoCode>
+    atest = true;
+    if stest
+      % check we have minfo objects
+      if isa(io, 'minfo')
+        % SET 'None'
+        if ~isempty(io(1).sets), atest = false; end
+        if ~isempty(io(1).plists), atest = false; end
+        % Check all Sets
+        if ~any(strcmpi(io(2).sets, 'Default')), atest = false; end
+        if numel(io(2).plists) ~= numel(io(2).sets), atest = false; end
+        % SET 'Default'
+        if io(3).plists.nparams ~= 19, atest = false; end
+        % Check key
+        if ~io(3).plists.isparam('N'), atest = false; end
+        if ~io(3).plists.isparam('cov'), atest = false; end
+        if ~io(3).plists.isparam('Fitparams'), atest = false; end
+        if ~io(3).plists.isparam('noise'), atest = false; end
+        if ~io(3).plists.isparam('model'), atest = false; end
+        if ~io(3).plists.isparam('search'), atest = false; end
+        if ~io(3).plists.isparam('simplex'), atest = false; end
+        if ~io(3).plists.isparam('heat'), atest = false; end
+        if ~io(3).plists.isparam('Tc'), atest = false; end
+        if ~io(3).plists.isparam('x0'), atest = false; end
+        if ~io(3).plists.isparam('jumps'), atest = false; end
+        if ~io(3).plists.isparam('plot'), atest = false; end
+        if ~io(3).plists.isparam('debug'), atest = false; end
+        %if ~io(3).plists.isparam('fpars'), atest = false; end
+        % Check default value
+        if ~isequal(io(3).plists.find('N'), 1000), atest = false; end
+        if ~isequal(io(3).plists.find('cov'), 1e-4), atest = false; end
+        if ~isEmptyDouble(io(3).plists.find('Fitparams')), atest = false; end
+        if ~isequal(io(3).plists.find('noise'), ''), atest = false; end
+        if ~isequal(io(3).plists.find('model'), ''), atest = false; end
+        if ~isequal(io(3).plists.find('search'), true), atest = false; end
+        if ~isequal(io(3).plists.find('simplex'), true), atest = false; end
+        if ~isequal(io(3).plists.find('heat'), 1), atest = false; end
+        if ~isequal(io(3).plists.find('Tc'), []), atest = false; end
+        if ~isequal(io(3).plists.find('x0'), []), atest = false; end
+        if ~isequal(io(3).plists.find('jumps'), []), atest = false; end
+        if ~isequal(io(3).plists.find('plot'), []), atest = false; end
+        if ~isequal(io(3).plists.find('debug'), false), atest = false; end
+        %if ~isequal(io(3).plists.find('fpars'), []), atest = false; end
+        % Check options
+        if ~isequal(io(3).plists.getOptionsForParam('N'), {[1000]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('cov'), {[1e-4]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('Fitparams'), {[]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('noise'), {[]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('model'), {[]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('search'), {true, false}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('simplex'), {true, false}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('heat'), {[1]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('Tc'), {[]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('x0'), {[]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('jumps'), {[]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('plot'), {[]}), atest = false; end
+        if ~isequal(io(3).plists.getOptionsForParam('debug'), {false, true}), atest = false; end
+        %if ~isequal(io(3).plists.getOptionsForParam('fpars'), {[]}), atest = false; end
+      end
+    else
+      atest = false;
+    end
+    % </AlgoCode>
+    
+    % Return a result structure
+    result = utp_prepare_result(atest, stest, dbstack, mfilename);
+  end % END UTP_01
+  
+  %% UTP_02
+  
+  % <TestDescription>
+  %
+  % Tests that the metropolis2D method works with a vector of AOs as input.
+  %
+  % </TestDescription>
+  function result = utp_02
+    
+    % <SyntaxDescription>
+    %
+    % Test that the metropolis2D method works for a vector of AOs as input.
+    %
+    % </SyntaxDescription>
+    
+    % <SyntaxCode>
+    try
+      avec = [out(1) ; out(2)];
+      m  = mcmc(avec,pl);
+      stest = true;
+    catch err
+      disp(err.message)
+      stest = false;
+    end
+    % </SyntaxCode>
+    
+    % <AlgoDescription>
+    %
+    % 1) Check that the number of elements in 'out' is the square of the
+    %    number in the input.
+    % 2) Check that each output AO contains the correct data.
+    %
+    % </AlgoDescription>
+    
+    % <AlgoCode>
+    atest = true;
+    if stest
+      % Check we have the correct number of outputs
+      if numel(m.names) ~= numel(in), atest = false; end
+    else
+      atest = false;
+    end
+    % </AlgoCode>
+    
+    % Return a result structure
+    result = utp_prepare_result(atest, stest, dbstack, mfilename);
+  end % END UTP_02
+  
+  %% UTP_03
+  
+  % <TestDescription>
+  %
+  % Tests that the metropolis2D method works with a matrix of AOs as input.
+  %
+  % </TestDescription>
+  function result = utp_03
+    
+    % <SyntaxDescription>
+    %
+    % Test that the metropolis2D method works for a matrix of AOs as input.
+    %
+    % </SyntaxDescription>
+    
+    % <SyntaxCode>
+    try
+      amat =  matrix(out(1),out(2),plist('shape',[2 1]));
+      m  = mcmc(amat,pl);
+      stest = true;
+    catch err
+      disp(err.message)
+      stest = false;
+    end
+    % </SyntaxCode>
+    
+    % <AlgoDescription>
+    %
+    % 1) Check that the number of elements in 'out' is the square of the
+    %    number in the input.
+    % 2) Check that each output AO contains the correct data.
+    %
+    % </AlgoDescription>
+    
+    % <AlgoCode>
+    atest = true;
+    if stest
+      % Check we have the correct number of outputs
+      if numel(m.names) ~= numel(in), atest = false; end
+    else
+      atest = false;
+    end
+    % </AlgoCode>
+    
+    % Return a result structure
+    result = utp_prepare_result(atest, stest, dbstack, mfilename);
+  end % END UTP_03
+  
+
+  %% UTP_04
+  % <TestDescription>
+  %
+  % Tests that the metropolis2D method properly applies history.
+  %
+  % </TestDescription>
+  function result = utp_04
+    
+    % <SyntaxDescription>
+    %
+    % Test that the result of applying the metropolis2D method can be processed back
+    % to an m-file.
+    %
+    % </SyntaxDescription>
+    
+    % <SyntaxCode>
+    try
+      m  = mcmc([out(1) ; out(2)],pl);
+      mm = rebuild(m);
+      stest = true;
+    catch err
+      disp(err.message)
+      stest = false;
+    end
+    % </SyntaxCode>
+    
+    % <AlgoDescription>
+    %
+    % 1) Check that the last entry in the history of 'm' corresponds to
+    %    'metropolis2D'.
+    % 2) Check that the re-built object is the same object as 'm'.
+    %    THIS IS NOT TRUE FOR METROPOLIS BECAUSE THE OUTPUT CHAIN IS ONLY
+    %    EQUAL STATISTICALLY
+    %
+    % </AlgoDescription>
+    
+    % <AlgoCode>
+    atest = true;
+    if stest
+      % Check the last step in the history of 'out'
+      if ~strcmp(m(1).hist.methodInfo.mname, 'mcmc'), atest = true; end
+      % Check the re-built object
+%       if ~eq(mm(1), m(1), ple2), atest = false; end
+    else
+      atest = false;
+    end
+    % </AlgoCode>
+    
+    % Return a result structure
+    result = utp_prepare_result(atest, stest, dbstack, mfilename);
+  end % END UTP_04
+  
+  %% UTP_05
+
+  % <TestDescription>
+  %
+  % Tests that the metropolis2D method can not modify the input AO.
+  %
+  % </TestDescription>
+  function result = utp_05
+
+    % <SyntaxDescription>
+    %
+    % Test that the tfe method can not modify the input AO.
+    % The method must throw an error for the modifier call.
+    %
+    % </SyntaxDescription>
+
+    try
+      % <SyntaxCode>
+       % copy at1 to work with
+      ain = ao(in(1));
+      % modify ain
+      ain.mcmc(in,out,pl);
+      % </SyntaxCode>
+      stest = false;
+    catch err
+      stest = true;
+    end
+
+    % <AlgoDescription>
+    %
+    % 1) Nothing to check.
+    %
+    % </AlgoDescription>
+
+    atest = true;
+    if stest
+      % <AlgoCode>
+      % </AlgoCode>
+    else
+      atest = false;
+    end
+
+    % Return a result structure
+    result = utp_prepare_result(atest, stest, dbstack, mfilename);
+  end % END UTP_05
+  
+  
+  
+end
+