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code/getframe.m
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1 | +inputheader = '..\data\MICCAI_BraTS_2019_Data_Training\HGG_seg_flair\'; | ||
2 | +outfolder = '..\data\MICCAI_BraTS_2019_Data_Training\frame\'; | ||
3 | + | ||
4 | +files = dir(inputheader); | ||
5 | +id = {files.name}; | ||
6 | +% files + dir file | ||
7 | +flag = ~strcmp(id, '.') & ~strcmp(id, '..'); | ||
8 | +files = files(flag); | ||
9 | + | ||
10 | + | ||
11 | +for i = 1 : length(files) | ||
12 | + | ||
13 | + id = split(files(i).name, '.nii'); | ||
14 | + id = char(id(1)); | ||
15 | + fprintf('ID #%d = %s\n', i, id); | ||
16 | + filename = id; % BraTS19_2013_2_1_seg_flair.nii | ||
17 | + data_path = strcat(inputheader,'\', filename); | ||
18 | + data = niftiread(data_path); %size 240x240x155 | ||
19 | + | ||
20 | + [x,y,z] = size(data); | ||
21 | + | ||
22 | + for i = 1 : z | ||
23 | + [row, col] = find(data(:,:,i) ~= 0); | ||
24 | + if(size(row) > 0) | ||
25 | + st = i; | ||
26 | + break; | ||
27 | + end | ||
28 | + end | ||
29 | + | ||
30 | + for i = z : -1 : 1 | ||
31 | + [row, col] = find(data(:,:,i) ~= 0); | ||
32 | + if(size(row) > 0) | ||
33 | + en = i; | ||
34 | + break; | ||
35 | + end | ||
36 | + end | ||
37 | + | ||
38 | + c = 0; | ||
39 | + step = round(((en) - (st))/11); | ||
40 | + for k = st + step : step : st + step*10 | ||
41 | + c = c+ 1; | ||
42 | + | ||
43 | + type = '.png'; | ||
44 | + filename = strcat(id, '_', int2str(c), type); % BraTS19_2013_2_1_seg_flair_c.png | ||
45 | + outpath = strcat(outfolder, filename); | ||
46 | + % typecase int16 to double, range[0, 1], rotate 90 and filp updown | ||
47 | + cp_data = flipud(rot90(mat2gray(double(data(:,:,k))))); | ||
48 | + imwrite(cp_data, outpath); | ||
49 | + end | ||
50 | + | ||
51 | +end | ||
52 | + | ||
53 | + | ||
54 | +% p = 'st: %d\n'; | ||
55 | +% fprintf(p, st); | ||
56 | +% p = 'en: %d\n'; | ||
57 | +% fprintf(p, en); | ||
58 | + |
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