md=triangle(model,'../Exp/Square.exp',600000);%180000
md=setmask(md,'all','');

% Use of ispdd and isdelta18o methods
md.surfaceforcings.ispdd=1;
md.surfaceforcings.isdelta18o=1;

md=parameterize(md,'../Par/SquareShelf.par');

% Add temperature, precipitation and delta18o needed to measure the surface mass balance
% creating delta18o
load '../Data/delta18o.data'
md.surfaceforcings.delta18o=delta18o;
%  creating delta18oSurface
md.surfaceforcings.delta18o_surface(1,1:(length(delta18o))) = 0;
md.surfaceforcings.delta18o_surface(2,:) = delta18o(2,:);

% creating Present day and lgm temperatures
% Same temperature over the all region :
imonth=0:11;
tmonth(1:12)=238.15+20;
for imonth=0:11
    md.surfaceforcings.temperatures_presentday(1:md.mesh.numberofvertices,imonth+1)=tmonth(imonth+1);
    md.surfaceforcings.temperatures_lgm(1:md.mesh.numberofvertices,imonth+1)=tmonth(imonth+1)-20;
    % Time for the last line:
    md.surfaceforcings.temperatures_presentday(md.mesh.numberofvertices+1,imonth+1)=((imonth+1)/12);
    md.surfaceforcings.temperatures_lgm(md.mesh.numberofvertices+1,imonth+1)=((imonth+1)/12);
end

% creating initialization and spc temperatures initialization and spc
md.thermal.spctemperature=mean(md.surfaceforcings.temperatures_lgm(1:md.mesh.numberofvertices,1:12),2); %-10*ones(md.mesh.numberofvertices,1);
md.thermal.spctemperature=repmat(md.thermal.spctemperature,1,md.timestepping.final_time/md.timestepping.time_step);
itemp = 0:md.timestepping.time_step:md.timestepping.final_time-md.timestepping.time_step;
md.thermal.spctemperature(md.mesh.numberofvertices+1,:)=itemp;

md.initialization.temperature=md.surfaceforcings.temperatures_lgm(1:md.mesh.numberofvertices,1); %*ones(md.mesh.numberofvertices,1);

% creating precipitation
for imonth=0:11
    md.surfaceforcings.precipitations_presentday(1:md.mesh.numberofvertices,imonth+1)=-0.4*10^(-6)*md.mesh.y+0.5;
    md.surfaceforcings.precipitations_presentday(md.mesh.numberofvertices+1,imonth+1)=((imonth+1)/12);
end

% time steps and resolution
md.timestepping.time_step=20;
md.settings.output_frequency=1;
md.timestepping.final_time= 60;

%
md=extrude(md,3,1);
md=setflowequation(md,'macayeal','all');
md.cluster=generic('name',oshostname(),'np',3);
md=solve(md,TransientSolutionEnum);

%Fields and tolerances to track changes
field_names     ={'Vx1','Vy1','Vz1','Vel1','Pressure1','Bed1','Surface1','Thickness1','Temperature1','BasalforcingsMeltingRate1', ...
				      'Vx2','Vy2','Vz2','Vel2','Pressure2','Bed2','Surface2','Thickness2','Temperature2','BasalforcingsMeltingRate2', ...
					   'Vx3','Vy3','Vz3','Vel3','Pressure3','Bed3','Surface3','Thickness3','Temperature3','BasalforcingsMeltingRate3'};
field_tolerances={...
	1e-13,1e-13,1e-13,1e-13,1e-13,1e-13,1e-13,1e-13,1e-13,1e-8,...
	1e-13,1e-13,1e-13,1e-13,1e-13,1e-13,1e-13,1e-13,1e-13,1e-8,...
	1e-13,1e-13,1e-08,1e-13,1e-13,1e-10,1e-10,1e-10,1e-13,1e-8};

field_values={...
	(md.results.TransientSolution(1).Vx),...
	(md.results.TransientSolution(1).Vy),...
	(md.results.TransientSolution(1).Vz),...
	(md.results.TransientSolution(1).Vel),...
	(md.results.TransientSolution(1).Pressure),...
	(md.results.TransientSolution(1).Bed),...
	(md.results.TransientSolution(1).Surface),...
	(md.results.TransientSolution(1).Thickness),...
	(md.results.TransientSolution(1).Temperature),...
	(md.results.TransientSolution(1).BasalforcingsMeltingRate),...
	(md.results.TransientSolution(1).SurfaceforcingsMonthlytemperatures),...
	(md.results.TransientSolution(1).SurfaceforcingsMassBalance),...
	(md.results.TransientSolution(2).Vx),...
	(md.results.TransientSolution(2).Vy),...
	(md.results.TransientSolution(2).Vz),...
	(md.results.TransientSolution(2).Vel),...
	(md.results.TransientSolution(2).Pressure),...
	(md.results.TransientSolution(2).Bed),...
	(md.results.TransientSolution(2).Surface),...
	(md.results.TransientSolution(2).Thickness),...
	(md.results.TransientSolution(2).Temperature),...
	(md.results.TransientSolution(2).BasalforcingsMeltingRate),...
	(md.results.TransientSolution(2).SurfaceforcingsMonthlytemperatures),...
	(md.results.TransientSolution(2).SurfaceforcingsMassBalance),...
	(md.results.TransientSolution(3).Vx),...
	(md.results.TransientSolution(3).Vy),...
	(md.results.TransientSolution(3).Vz),...
	(md.results.TransientSolution(3).Vel),...
	(md.results.TransientSolution(3).Pressure),...
	(md.results.TransientSolution(3).Bed),...
	(md.results.TransientSolution(3).Surface),...
	(md.results.TransientSolution(3).Thickness),...
	(md.results.TransientSolution(3).Temperature),...
	(md.results.TransientSolution(3).BasalforcingsMeltingRate),...
	(md.results.TransientSolution(3).SurfaceforcingsMonthlytemperatures),...
	(md.results.TransientSolution(3).SurfaceforcingsMassBalance),...
	};