lalafreguete
commented
3 years ago Have you solve your question yet? I got assistance from the Dr. Bruder and she showed that I was missing one step. What you need it to create a "struct" type variable which will have the XYZ, time stack, and time, I believe. the pixel instrument will contain some of those info. I don't if it is permitted here, but I can share here my snippet code that deals with it.
function [fn] = savestack(pixInst,outdir,info) % one T for all data. but what is it? ASSUME -- starts at info.time and % increments by 0.5 seconds. USER? Igray = pixInst(1).Igray; t = 0:size(Igray,3)-1; t = t .* 0.5; %%% assumption!!!! t = t + info.time; fn = []; for p =1:length(pixInst)
% This part removes nans in the image and puts an average instead
Igray = pixInst(p).Igray;
%Remove Nans
[r c tt]=size(Igray);
for k=1:r
for j=1:c
bind =find(isnan(Igray(k,j,:))==1);
gind =find(isnan(Igray(k,j,:))==0);
%sometimes this is a better filter
%bind =find(Igray(k,j,:)<=10);
%gind =find(Igray(k,j,:)>10);
Igray(k,j,bind)=nanmean(Igray(k,j,gind));
end
end
xyz=[pixInst(1).X(:) pixInst(1).Y(:) pixInst(1).Z(:)]; % Note these need to be in local coordinates!
m = size(Igray,1);
n = size(Igray,2);
tt = size(Igray,3);
data=zeros(tt,m*n);
[xindgrid,yindgrid]=meshgrid(1:n,1:m);
rowIND=yindgrid(:);
colIND=xindgrid(:);
for i=1:length(rowIND(:))
data(:,i)=reshape(Igray(rowIND(i),colIND(i),:),tt,1);
endinfo.type = string(pixInst(p).type); name = info.type; fn{p} = [argusFilename(info)]; filename = strcat(outdir,'output\',fn{p}); save( filename, 'data', 't','xyz', 'name', '-V7.3' );
end
sivaiahborra
RobHolman
bergsmaE
KateBrodie
SRHarrison
Dear All, As I started newly working on CIRN-Quantitative-Coastal-Imaging-Toolbox, I have a query that how CIRN-Quantitative-Coastal-Imaging-Toolbox is connected to cBathy?. Currently , I am working on CIRN-Quantitative-Coastal-Imaging-Toolbox. Do I need to finish this in order to work with cBathy or is it individual? I mean I understood bit but, still have a confusion that is output of CIRN-Quantitative-Coastal-Imaging-Toolbox essential to run cBathy or can we run as it's own?
I came to know that some statistical image products such as timex, dark, bright and variance images will be produced, pixel instruments .mat file will also be created. So, do we use these outputs as inputs for cBathy?..
Thank you