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Diffusion FENNECS: Finite Element Non-Neutral Electron Cloud Simulator (breakdown) Browse

fennecs/matlab/helper_classes/splinequantity.m
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splinequantity.m
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classdef splinequantity < h5quantity
properties
knotsr
knotsz
femorder
index
postscale
rgrid
zgrid
invdr
invdz
rcenters
zcenters
fileversion
end
methods
function obj=splinequantity(filename, dataset, knotsr, knotsz, femorder, scale, postscale, index)
if nargin<6
scale=1;
end
if nargin<8
index=-1;
end
obj=obj@h5quantity(filename, dataset, length(knotsr)-2*femorder(2), length(knotsz)-2*femorder(1), scale);
obj.knotsr=knotsr;
obj.knotsz=knotsz;
obj.femorder=double(femorder);
if nargin < 7
obj.postscale=ones(length(knotsr)-2*femorder(2), length(knotsz)-2*femorder(1));
else
obj.postscale=postscale;
end
if nargin < 8
obj.index=-1;
else
obj.index=index;
end
try
obj.fileversion = h5readatt(filename,'/data','file_version');
catch
obj.fileversion=1;
end
obj.rgrid=obj.knotsr((1:obj.nr) +obj.femorder(2));
obj.zgrid=obj.knotsz((1:obj.nz) +obj.femorder(1));
[dz,dr]=meshgrid(obj.zgrid(3:end)-obj.zgrid(1:end-2),obj.rgrid(3:end)-obj.rgrid(1:end-2));
obj.invdr=1./dr;
obj.invdz=1./dz;
obj.rcenters=movmean(obj.knotsr,[femorder(2) 1]);
obj.zcenters=movmean(obj.knotsz,[femorder(1) 1]);
%if ~mod(femorder(2),2)
obj.rcenters=[obj.rgrid(1); obj.rcenters(femorder(2)+2:end-2); obj.rgrid(end)] ;
%else
% obj.rcenters=[obj.rgrid(1); obj.rcenters(femorder(2)+2:end-2); obj.rgrid(end)] ;
%end
%if ~mod(femorder(1),2)
%obj.zcenters=obj.zcenters(femorder(1):end-femorder(1));
obj.zcenters=[obj.zgrid(1); obj.zcenters(femorder(2)+2:end-2); obj.zgrid(end)] ;
%else
%obj.zcenters=[obj.zgrid(1); obj.zcenters(femorder(2)+1:end-femorder(2)); obj.zgrid(end)] ;
%end
end
function quantity=coeffs(obj,indices)
if strcmp(indices{1},':')
r=1:obj.nr+obj.femorder(2)-1;
else
r=indices{1};
end
if strcmp(indices{2},':')
z=1:obj.nz+obj.femorder(1)-1;
else
z=indices{2};
end
if strcmp(indices{3},':')
t=1:obj.nt;
else
t=indices{3};
end
temp=zeros((obj.nz+obj.femorder(1)-1)*(obj.nr+obj.femorder(2)-1),length(t));
if obj.index ~= -1
if(length(unique(diff(t))) == 1 && length(t)>1)
stride=t(2)-t(1);
temp = h5read(obj.filename, obj.dataset,[obj.index 1 t(1)],[1 Inf length(t)],[1 1 stride]);
else
for i=1:length(t)
temp(:,i) = h5read(obj.filename, obj.dataset,[obj.index 1 t(i)],[1 Inf 1]);
end
end
else
if(sum(diff(diff(t))) == 0 && length(t)>1)
stride=t(2)-t(1);
temp = h5read(obj.filename, obj.dataset,[1 t(1)],[Inf length(t)],[1 stride]);
else
for i=1:length(t)
temp(:,i) = h5read(obj.filename, obj.dataset,[1 t(i)],[Inf 1]) ;
end
end
end
if obj.fileversion>1
temp=reshape(squeeze(temp),obj.nr+obj.femorder(1)-1,obj.nz+obj.femorder(2)-1,[]);
else
temp=reshape(squeeze(temp),obj.nz+obj.femorder(1)-1,obj.nr+obj.femorder(2)-1,[]);
temp=permute(temp,[2,1,3]);
end
quantity=temp(r,z,:)*obj.scale;
end
function quantity=val(obj,indices)
if strcmp(indices{1},':')
r=1:obj.nr;
else
r=indices{1};
end
if strcmp(indices{2},':')
z=1:obj.nz;
else
z=indices{2};
end
if strcmp(indices{3},':')
t=1:obj.nt;
else
t=indices{3};
end
count=length(t);
temp=obj.coeffs({':',':',t});
quantity=zeros(length(r),length(z),count);
[Z,R]=ndgrid(obj.zcenters,obj.rcenters);
[zg,rg]=ndgrid(obj.zgrid,obj.rgrid);
valued=griddedInterpolant(Z,R,zeros(length(obj.rgrid)+obj.femorder(2)-1,length(obj.zgrid)+obj.femorder(1)-1)');
for i=1:size(temp,3)
%quantity(:,:,i)=obj.postscale(r,z).*fnval(spmak({obj.knotsr,obj.knotsz},temp(:,:,i)),{obj.knotsr(r+obj.femorder(2)),obj.knotsz(z+obj.femorder(1))});
%valued=interp2(Z,R,squeeze(temp(:,:,i))',zg,rg);
valued.Values=squeeze(temp(:,:,i))';
vals=valued(zg,rg)';
quantity(:,:,i)=vals(r,z);
end
end
function quantity=posval(obj,indices)
if strcmp(indices{1},':')
r=1:obj.nr;
else
r=indices{1};
end
if strcmp(indices{2},':')
z=1:obj.nz;
else
z=indices{2};
end
if strcmp(indices{3},':')
t=1:obj.nt;
else
t=indices{3};
end
count=length(t);
temp=obj.coeffs({':',':',t});
if(length(r) ~= length(z))
error("r and z array must be the same size")
end
quantity=zeros(min(length(r),length(z)),count);
for i=1:size(temp,3)
quantity(:,i)=fnval(spmak({obj.knotsr,obj.knotsz},temp(:,:,i)),[r(:)';z(:)']);
end
end
function quantity=der(obj,indices)
if strcmp(indices{1},':')
r=1:obj.nr;
else
r=indices{1};
end
if strcmp(indices{2},':')
z=1:obj.nz;
else
z=indices{2};
end
if strcmp(indices{3},':')
t=1:obj.nt;
else
t=indices{3};
end
order=indices{4};
count=length(t);
temp=obj.coeffs({':',':',t});
quantity=zeros(length(r),length(z),count);
for i=1:size(temp,3)
%f=spmak({obj.knotsr,obj.knotsz},temp(:,:,i));
%preder=fnval(f,{obj.knotsr(r+obj.femorder(2)),obj.knotsz(z+obj.femorder(1))});
preder=obj.val({r,z,t(i)});%
if order(1)>0
preder(2:end-1,2:end-1)=(preder(3:end,2:end-1)-preder(1:end-2,2:end-1)).*obj.invdr;
end
if order(2)>0
preder(2:end-1,2:end-1)=(preder(2:end-1,3:end)-preder(2:end-1,1:end-2)).*obj.invdz;
end
quantity(2:end-1,2:end-1,i)=preder(2:end-1,2:end-1);
end
end
end
end
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