source: issm/trunk-jpl/examples/Pig/runme.m@ 18198

%Which steps to be performed
steps=[2] ;

name_prefix='PIG.';
%Run Steps
org=organizer('repository','./Models','prefix',name_prefix,'steps',steps);

% {{{ Mesh Generation #1
if perform(org,'Mesh_generation'),

        md.miscellaneous.name=strcat(name_prefix,'Mesh_generation');

        %Mesh parameters
        domain =['./DomainOutline.exp'];
        hmax=40000;    % maximum element size of the final mesh
        hmin=5000;     % minimum element size of the final mesh
        hinit=10000;   % element size for the initial mesh
        gradation=1.7; % maximum size ratio between two neighboring elements
        err=8;         % maximum error between interpolated and control field

        % Generate an initial uniform mesh (resolution = hinit m)
        md=bamg(model,'domain',domain,'hmax',hinit,'MaxCornerAngle',1);

        %ploting
        plotmodel(md,'data','mesh')

        % Load Velocities
        % http://nsidc.org/data/nsidc-0484.html
        nsidc_vel='../Data/Antarctica_ice_velocity.nc';         

        % Get necessary data to build up the velocity grid
        xmin = ncreadatt(nsidc_vel,'/','xmin');
        xmin = strtrim(xmin);  % this is a string, and we need to recover the double value
        xmin = xmin(1:end-2);  % get rid of the unit
        xmin = str2num(xmin);  % convert to double
        
        ymax = ncreadatt(nsidc_vel,'/','ymax'); 
        ymax = strtrim(ymax);  
        ymax = ymax(1:end-2);  
        ymax = str2num(ymax); 
        
        nx = ncreadatt(nsidc_vel,'/','nx');
        ny = ncreadatt(nsidc_vel,'/','ny');
        
        spacing = ncreadatt(nsidc_vel,'/','spacing'); 
        spacing = strtrim(spacing);
        spacing = spacing(1:end-2);  
        spacing = str2num(spacing); 
        
        % Get velocities (Note: You can use ncdisp('file') to see an ncdump)
        vx = double(ncread(nsidc_vel,'vx'));
        vy = double(ncread(nsidc_vel,'vy'));
        
        x=xmin+(0:1:nx)'*spacing; 
        x=double(x);
        y=(ymax-ny*spacing)+(0:1:ny)'*spacing; 
        y=double(y);

        % Interpolate velocities onto coarse mesh
        vx_obs=InterpFromGridToMesh(x,y,flipud(vx'),md.mesh.x,md.mesh.y,0);
        vy_obs=InterpFromGridToMesh(x,y,flipud(vy'),md.mesh.x,md.mesh.y,0);
        vel_obs=sqrt(vx_obs.^2+vy_obs.^2);
        clear vx vy x y;

        % Adapt the mesh to minimize error in velocity interpolation
        md=bamg(md,'hmax',hmax,'hmin',hmin,'gradation',gradation,'field',vel_obs,'err',err);
        
        %ploting
        plotmodel(md,'data','mesh')

        % Convert x,y coordinates (Polar stereo) to lat/lon
        [md.mesh.lat,md.mesh.long]=xy2ll(md.mesh.x,md.mesh.y,-1,39,71);
        
        % Save model
        savemodel(org,md);
end
% }}}

% {{{ Masks #2
if perform(org,'SetMask'), 
        
        md = loadmodel(org,'Mesh_generation');

        % Load SeaRISe dataset for Antarctica  
        % http://websrv.cs.umt.edu/isis/index.php/Present_Day_Antarctica
        searise='../Data/Antarctica_5km_withshelves_v0.75.nc';
        
        %read thickness mask from SeaRISE
        x1=double(ncread(searise,'x1'));
        y1=double(ncread(searise,'y1'));
        thkmask=double(ncread(searise,'thkmask'));
        
        %interpolate onto our mesh vertices
        groundedice=double(InterpFromGridToMesh(x1,y1,thkmask',md.mesh.x,md.mesh.y,0));
        groundedice(groundedice<=0)=-1;
        clear thkmask;

        %fill in the md.mask structure
        md.mask.groundedice_levelset=groundedice; %ice is grounded for mask equal one
        md.mask.ice_levelset=-1*ones(md.mesh.numberofvertices,1);%ice is present when negatvie

        %ploting
        plotmodel(md,'data',md.mask.groundedice_levelset,'title','grounded/floating','data',md.mask.ice_levelset,'title','ice/no-ice')
        
        % Save model
        savemodel(org,md); 
end
% }}}

% {{{ Parameterization #3
if perform(org,'Parameterization') 

        md = loadmodel(org,'SetMask');
        md = parameterize(md,'./Pig.par');

        % Use a MacAyeal flow model
        md = setflowequation(md,'SSA','all');
        
        % Save model
        savemodel(org,md); 
end
% }}}

% {{{ Control Method #4
if perform(org,'Control_drag') 

        md = loadmodel(org,'Parameterization');

        % Control general
        md.inversion.iscontrol=1;
        md.inversion.maxsteps=20;
        md.inversion.maxiter=40;
        md.inversion.dxmin=0.1;
        md.inversion.gttol=1.0e-4;
        md.verbose=verbose('solution',true,'control',true);

        % Cost functions
        md.inversion.cost_functions=[101 103 501];
        md.inversion.cost_functions_coefficients=ones(md.mesh.numberofvertices,3);
        md.inversion.cost_functions_coefficients(:,1)=1;
        md.inversion.cost_functions_coefficients(:,2)=1;
        md.inversion.cost_functions_coefficients(:,3)=8e-15;

        % Controls
        md.inversion.control_parameters={'FrictionCoefficient'};
        md.inversion.min_parameters=1*ones(md.mesh.numberofvertices,1);
        md.inversion.max_parameters=200*ones(md.mesh.numberofvertices,1);

        % Additional parameters
        md.stressbalance.restol=0.01;
        md.stressbalance.reltol=0.1;
        md.stressbalance.abstol=NaN;

        % Solve
        md.toolkits=toolkits;
        md.cluster=generic('name',oshostname,'np',2);
        md=solve(md,StressbalanceSolutionEnum);

        % Update model friction fields accordingly
        md.friction.coefficient=md.results.StressbalanceSolution.FrictionCoefficient;

        plotmodel(md,'data',md.friction.coefficient)

        % Save model
        savemodel(org,md); 
end
% }}}

% {{{ Plot #5
if perform(org,'PlotSSA')

        md = loadmodel(org,'Control_drag');

        plotmodel(md,'nlines',2,'ncols',2,'unit#all','km','axis#all','equal',...
                'xlim#all',[min(md.mesh.x) max(md.mesh.x)]/10^3,...
                'ylim#all',[min(md.mesh.y) max(md.mesh.y)]/10^3,...
                'FontSize#all',12,...
                'data',md.initialization.vel,'title','Observed velocity',...
                'data',md.results.StressbalanceSolution.Vel,'title','Modeled Velocity',...
                'data',md.geometry.base,'title','Bed elevation',...
                'data',md.results.StressbalanceSolution.FrictionCoefficient,'title','Friction Coefficient',...
                'colorbar#all','on','colorbartitle#1-2','[m/yr]',...
                'caxis#1-2',([1.5,4000]),...
                'colorbartitle#3','[m]', 'log#1-2',10);
end
% }}}

% {{{ HO #6
if perform(org,'ModelHO')

        % Load Model

        % Disable inversion

        %Extrude Mesh

        % Set Flowequation

        % Solve

        % Save Model

end
% }}}

% {{{ Plot #7
if perform(org,'PlotHO')

        mdHO = loadmodel(org,'ModelHO'); 
        mdSSA = loadmodel(org,'Control_drag');

        basal=find(mdHO.mesh.vertexonbase);
        surf=find(mdHO.mesh.vertexonsurface);

        plotmodel(md,'nlines',3,'ncols',2,'unit#all','km','axis#all','equal',...
                                                'xlim#all',[min(md.mesh.x) max(md.mesh.x)]/10^3,...
                                                'ylim#all',[min(md.mesh.y) max(md.mesh.y)]/10^3,...
                                                'FontSize#all',12,...
                                                'data',mdHO.initialization.vel,'title','Observed velocity',...
                                                'data',(mdHO.results.StressbalanceSolution.Vel(surf)-mdHO.initialization.vel(surf)),'title','(HO-observed) velocities',...
                                                'data',mdSSA.results.StressbalanceSolution.Vel,'title','Modeled SSA Velocity',...
                                                'data',(mdHO.results.StressbalanceSolution.Vel(surf)-mdSSA.results.StressbalanceSolution.Vel),'title','(HO-SSA) velocities',...
                                                'data',mdHO.results.StressbalanceSolution.Vel,'title','Modeled HO surface Velocities',...
                                                'data',(mdHO.results.StressbalanceSolution.Vel(surf)-mdHO.results.StressbalanceSolution.Vel(basal)),'title','(HOsurf-HO base) velocities',...
                                                'caxis#1',([1.5,4000]),'caxis#3',([1.5,4000]),'caxis#5',([1.5,4000]),...
                                                'colorbar#all','on','view#all',2,...
                                                'colorbartitle#all','[m/yr]',...
                                                'layer#5',1, 'log#1', 10,'log#3', 10,'log#5', 10);
end
% }}}