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getGLRLM_M13.m
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getGLRLM_M13.m
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function GLRLM = getGLRLM_M13(ROIonly,levels)
% AUTHOR(S):
% - Lijun Lu <[email protected]>
% - Martin Vallieres <[email protected]>
% - Xunkai Wei <[email protected]>
% -------------------------------------------------------------------------
% HISTORY:
% - Creation: January 2013
% - Revision: May 2015
% - Revision: Oct 2017
% PRELIMINARY
nLevel = length(levels);
if nLevel > 100
adjust = 10000;
else
adjust = 1000;
end
levelTemp = max(levels)+1;
ROIonly(isnan(ROIonly)) = levelTemp; % Last row needs to be taken out of the GLRLM
levels = [levels,levelTemp];
% QUANTIZATION EFFECTS CORRECTION
% In case (for example) we initially wanted to have 64 levels, but due to
% quantization, only 60 resulted.
uniqueVol = round(levels*adjust)/adjust;
ROIonly=round(ROIonly*adjust)/adjust;
NL = length(levels) - 1;
%INITIALIZATION
sizeV = size(ROIonly);
numInit = ceil(max(sizeV)*sqrt(3)); % Max run length
GLRLM_1 = zeros(NL+1,numInit);
GLRLM_2 = zeros(NL+1,numInit);
GLRLM_3 = zeros(NL+1,numInit);
GLRLM_4 = zeros(NL+1,numInit);
GLRLM_5 = zeros(NL+1,numInit);
GLRLM_6 = zeros(NL+1,numInit);
GLRLM_7 = zeros(NL+1,numInit);
GLRLM_8 = zeros(NL+1,numInit);
GLRLM_9 = zeros(NL+1,numInit);
GLRLM_10 = zeros(NL+1,numInit);
GLRLM_11 = zeros(NL+1,numInit);
GLRLM_12 = zeros(NL+1,numInit);
GLRLM_13 = zeros(NL+1,numInit);
% START COMPUTATION
% Directions [1,0,0], [0 1 0], [1 1 0] and [-1 1 0] : 2D directions
% (x:right-left, y:top-bottom, z:3rd dimension)
if numel(size(ROIonly)) == 3
nComp = sizeV(3); % We can add-up the GLRLMs taken separately in every image in the x-y plane
else
nComp = 1;
end
for i = 1:nComp
image = ROIonly(:,:,i);
uniqueIm = unique(image);
NLtemp = length(uniqueIm);
indexRow = zeros(NLtemp,1);
temp = image;
for j = 1:NLtemp
indexRow(j) = find(uniqueIm(j)==uniqueVol);
image(temp==uniqueIm(j)) = j;
end
% [1,0,0]
GLRLMtemp = rle_0(image,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_1(indexRow(1:NLtemp),1:nRun) = GLRLM_1(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
% [0 1 0]
GLRLMtemp = rle_0(image',NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_2(indexRow(1:NLtemp),1:nRun) = GLRLM_2(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
% [1 1 0]
seq = zigzag(image);
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_3(indexRow(1:NLtemp),1:nRun) = GLRLM_3(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
% [-1 1 0]
seq = zigzag(fliplr(image));
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_4(indexRow(1:NLtemp),1:nRun) = GLRLM_4(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
end
if numel(size(ROIonly)) == 3 % 3D DIRECTIONS
% Directions [0,0,1], [1 0 1] and [-1 0 1]
% (x:right-left, y:top-bottom, z:3rd dimension)
nComp = sizeV(1); % We can add-up the GLRLMs taken separately in every image in the x-z plane
image = zeros(sizeV(3),sizeV(2));
for i = 1:nComp
for j = 1:sizeV(3)
image(j,1:end) = ROIonly(i,1:end,j);
end
uniqueIm = unique(image);
NLtemp = length(uniqueIm);
indexRow = zeros(NLtemp,1);
temp = image;
for j=1:NLtemp
indexRow(j) = find(uniqueIm(j)==uniqueVol);
image(temp==uniqueIm(j)) = j;
end
% [0,0,1]
GLRLMtemp = rle_0(image',NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_5(indexRow(1:NLtemp),1:nRun) = GLRLM_5(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
% [1 0 1]
seq = zigzag(image);
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_6(indexRow(1:NLtemp),1:nRun) = GLRLM_6(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
% [-1 0 1]
seq = zigzag(fliplr(image));
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_7(indexRow(1:NLtemp),1:nRun) = GLRLM_7(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
end
% Directions [0,1,1] and [0 -1 1]
% (x:right-left, y:top-bottom, z:3rd dimension)
nComp = sizeV(2); % We can add-up the GLRLMs taken separately in every image in the y-z plane
image = zeros(sizeV(1),sizeV(3));
for i = 1:nComp
for j = 1:sizeV(3)
image(1:end,j) = ROIonly(1:end,i,j);
end
uniqueIm = unique(image);
NLtemp = length(uniqueIm);
indexRow = zeros(NLtemp,1);
temp = image;
for j = 1:NLtemp
indexRow(j) = find(uniqueIm(j)==uniqueVol);
image(temp==uniqueIm(j)) = j;
end
% [0,1,1]
seq = zigzag(image);
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_8(indexRow(1:NLtemp),1:nRun) = GLRLM_8(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
% [0 -1 1]
seq = zigzag(fliplr(image));
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_9(indexRow(1:NLtemp),1:nRun) = GLRLM_9(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
end
% Four corners: [1,1,1], [-1,1,1], [-1,1,-1], [1,1,-1]
% (x:right-left, y:top-bottom, z:3rd dimension)
image = zeros(sizeV(3),sizeV(2));
temp = rand(sizeV(3),sizeV(2));
diagTemp = spdiags(temp);
szDiag = size(diagTemp);
diagMat1 = zeros(szDiag(1),szDiag(2),sizeV(1));
diagMat2 = zeros(size(diagTemp,1),size(diagTemp,2),sizeV(1));
for i = 1:sizeV(1)
for j = 1:sizeV(3)
image(j,1:end) = ROIonly(i,1:end,j);
end
try
diagMat1(:,:,i)=spdiags(image);
catch
% Add a column at the beginning to prevent errors
temp=spdiags(image);
numberDiff=abs(size(temp,2)-size(diagMat1,2));
if mod(numberDiff,2) % Odd difference number
temp=padarray(temp,[0,(numberDiff+1)/2,0],0);
diagMat1(:,:,i)=temp(:,1:end-1);
else
diagMat1(:,:,i)=padarray(temp,[0,numberDiff/2,0],0);
end
end
try
diagMat2(:,:,i)=spdiags(fliplr(image));
catch
% Add a column at the beginning to prevent errors
temp = spdiags(fliplr(image));
numberDiff = abs(size(temp,2)-size(diagMat2,2));
if mod(numberDiff,2) % Odd difference number
temp = padarray(temp,[0,(numberDiff+1)/2,0],0);
diagMat2(:,:,i) = temp(:,1:end-1);
else
diagMat2(:,:,i) = padarray(temp,[0,numberDiff/2,0],0);
end
end
end
for j = 1:szDiag(2)
index = (diagMat1(:,j,1)~=0);
nTemp = sum(index);
image1 = zeros(sizeV(1),nTemp);
image2 = zeros(sizeV(1),nTemp);
for k = 1:sizeV(1)
image1(k,1:nTemp) = diagMat1(index(1:end),j,k)';
image2(k,1:nTemp) = diagMat1(index(1:end),j,k)';
end
% 2 first corners
uniqueIm = unique(image1);
NLtemp = length(uniqueIm);
indexRow = zeros(NLtemp,1);
temp = image1;
for i = 1:NLtemp
indexRow(i) = find(uniqueIm(i)==uniqueVol);
image1(temp==uniqueIm(i)) = i;
end
seq = zigzag(image1);
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_10(indexRow(1:NLtemp),1:nRun) = GLRLM_10(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
seq = zigzag(fliplr(image1));
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_11(indexRow(1:NLtemp),1:nRun) = GLRLM_11(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
% 2 last corners
uniqueIm = unique(image2);
NLtemp = length(uniqueIm);
indexRow = zeros(NLtemp,1);
temp = image2;
for i = 1:NLtemp
indexRow(i) = find(uniqueIm(i)==uniqueVol);
image2(temp==uniqueIm(i)) = i;
end
seq = zigzag(image2);
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_12(indexRow(1:NLtemp),1:nRun) = GLRLM_12(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
seq = zigzag(fliplr(image2));
GLRLMtemp = rle_45(seq,NLtemp);
nRun = size(GLRLMtemp,2);
GLRLM_13(indexRow(1:NLtemp),1:nRun) = GLRLM_13(indexRow(1:NLtemp),1:nRun) + GLRLMtemp(1:NLtemp,1:nRun); % Cumulative addition into the GLRLM
end
end
% REMOVE UNECESSARY COLUMNS
for i = 1:13
GLRLMall = strcat('GLRLM_',int2str(i));
GLRLMall(end,:) = [];
stop = find(sum(GLRLMall),1,'last');
GLRLMall(:,(stop+1):end) = [];
end
GLRLM = {GLRLM_1, GLRLM_2, GLRLM_3, GLRLM_4, GLRLM_5, GLRLM_6, ...
GLRLM_7, GLRLM_8, GLRLM_9, GLRLM_10, GLRLM_11, GLRLM_12, GLRLM_13};