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

steps=[1];

if any(steps==1) %Mesh Generation #1 
        %Mesh parameters
        domain =['./DomainOutline.exp'];
        hinit=10000;    % element size for the initial mesh
        hmax=40000;             % maximum element size of the final mesh
        hmin=5000;              % minimum element size of the final 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);

        % Load Velocities
        nsidc_vel='../Data/Antarctica_ice_velocity.nc';

        % Get necessary data to build up the velocity grid
        xmin    = ncreadatt(nsidc_vel,'/','xmin');
        ymax    = ncreadatt(nsidc_vel,'/','ymax');
        spacing = ncreadatt(nsidc_vel,'/','spacing');
        nx              = double(ncreadatt(nsidc_vel,'/','nx'));
        ny              = double(ncreadatt(nsidc_vel,'/','ny'));
        vx              = double(ncread(nsidc_vel,'vx'));
        vy              = double(ncread(nsidc_vel,'vy'));

        % Read coordinates
        xmin = strtrim(xmin);
        xmin = str2num(xmin(1:end-2));
        ymax = strtrim(ymax);
        ymax = str2num(ymax(1:end-2));
        spacing = strtrim(spacing);
        spacing = str2num(spacing(1:end-2));

        % Build the coordinates
        x=xmin+(0:1:nx)'*spacing;
        y=(ymax-ny*spacing)+(0:1:ny)'*spacing;

        % 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')

        % Save model
        save ./Models/PIG_Mesh_generation md;
end 

if any(steps==2) %Masks #2 
        md = loadmodel('./Models/PIG_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.ocean_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.ocean_levelset,'title','grounded/floating','data',md.mask.ice_levelset,'title','ice/no-ice')

        % Save model
        save ./Models/PIG_SetMask md;
end 

if any(steps==3) %Parameterization #3 
        md = loadmodel('./Models/PIG_SetMask');
        md = parameterize(md,'./Pig.par');

        % Use a MacAyeal flow model
        md = setflowequation(md,'SSA','all');

        % Save model
        save ./Models/PIG_Parameterization md;
end 

if any(steps==4) %Control Method #4 
        md = loadmodel('./Models/PIG_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('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,'Stressbalance');

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

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

        % Save model
        save ./Models/PIG_Control_drag md;
end 

if any(steps==5) %Plot #5 
        md = loadmodel('./Models/PIG_Control_drag');

        plotmodel(md,...
                '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 

if any(steps==6) %Higher-Order #6 
        % Load Model

        % Disable inversion

        % Extrude Mesh

        % Set Flowequation

        % Solve

        % Save Model

end % step 6 end

if any(steps==7) %Plot #7 
        mdHO = loadmodel('./Models/PIG_ModelHO');
        mdSSA = loadmodel('./Models/PIG_Control_drag');

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

        plotmodel(mdHO,'nlines',3,'ncols',2,'axis#all','equal',...
                '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