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How to process each frame of video using for loop and concatenate the result

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Hello.
I converted video to 3D image.
(180 x 144 x 84 = width x Height x frames)
I want to process each frame and concatenate the result. (M x M x frames)
If N and M have different values after the process, I want to reduce N and M to minimum values of them.
clear all
close all
%// read the video:
list = dir('*.avi')
% loop through the filenames in the list
for k = 1:length(list)
reader = VideoReader(list(k).name);
vid = {};
while hasFrame(reader)
vid{end+1} = readFrame(reader);
end
for i=1:25
fIdx(i) = i; %// do it for frame 1 ~ 25
frameGray{i} = rgb2gray(vid{fIdx(i)});
data{i} = frameGray{i}';
data{i} = double(data{i});
opt.init_num_secants = 180;
idx1{i} = random('unid',size(data{i}, 2), opt.init_num_secants, 1);
idx2{i} = random('unid',size(data{i}, 2), opt.init_num_secants, 1);
secants{i} = data{i}(:, idx1{i})-data{i}(:, idx2{i});
D1{i} = abs(secants{i});
numSecants = size(data{i},1);
options.landmarks = 1:180;
[geo{i}] = IsomapII(D1{i}, 'k', 3, options);
secants{i} = geo{i}/norm(geo{i},2);
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%%Parameter setting
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
opt.outer_iterations = 1000;
switch 'l-bfgs'
case 'grad'
opt.linear_solver = 'grad';
opt.tau = 1e-1; % gradient step size
opt.inner_iterations = 10;
opt.beta1 = 1e-1; opt.beta2 = 1e-1; %penalty parameters
opt.eta1 = 1; opt.eta2 = 1; %lagrangian update
case 'cgs'
opt.linear_solver = 'cgs';
opt.linear_iterations = 10;
opt.inner_iterations = 1;
opt.beta1 = 1; opt.beta2 = 1; %penalty parameters
opt.eta1 = 1.618; opt.eta2 = 1.618; %lagrangian update
case 'l-bfgs'
opt.linear_solver = 'l-bfgs';
opt.linear_iterations = 3;
opt.lbfgs_rank = 5;
opt.inner_iterations = 1;
opt.beta1 = 1; opt.beta2 = 1; %penalty parameters
opt.eta1 = 1.618; opt.eta2 = 1.618; %lagrangian update
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%End parameters
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
delta = 0.3; %max-margin parameter
funA = @(z) funA_secants_WY(z, secants{i});
funAT = @(z) funAT_secants_WY(z, secants{i});
b = ones(numSecants, 1);
ticID = tic;
[P{i}, L{i}, q{i}, Lambda{i}, w{i}] = NuMax(funA, funAT, b, delta, opt);
toc(ticID);
[U{i}, S{i}, V{i}] = svd(P{i});
r{i} = rank(P{i});
U1{i} = U{i}(:, 1:r{i});
U1{i} = (U1{i} - min(U1{i}(:)))/(max(U1{i}(:))-min(U1{i}(:)));
Phi_NuMax = (U{i}(:, 1:r{i})*(S{i}(1:r{i}, 1:r{i}).^(1/2)))';
data = data{i};
Y = Phi_NuMax * data;
end
end
X = cell2mat(Y');

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