2020-1-capstone-design2 / 2016104167

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bcee2c00 1 parent 37352494

mv getframe codes

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Showing 3 changed files with 7 additions and 102 deletions
1 inputheader = '..\data\MICCAI_BraTS_2019_Data_Training\HGG_seg_flair\'; 1 inputheader = '..\data\MICCAI_BraTS_2019_Data_Training\HGG_seg_flair\';
2 -outfolder = '..\data\MICCAI_BraTS_2019_Data_Training\total_frame\'; 2 +outfolder = '..\data\MICCAI_BraTS_2019_Data_Training\total_frame_m255\';
3 3
4 files = dir(inputheader); 4 files = dir(inputheader);
5 id = {files.name}; 5 id = {files.name};
...@@ -8,7 +8,7 @@ flag = ~strcmp(id, '.') & ~strcmp(id, '..'); ...@@ -8,7 +8,7 @@ flag = ~strcmp(id, '.') & ~strcmp(id, '..');
8 files = files(flag); 8 files = files(flag);
9 9
10 10
11 -for i = 1 : length(files) 11 +for i = 1 : 1%length(files)
12 12
13 id = split(files(i).name, '.nii'); 13 id = split(files(i).name, '.nii');
14 id = char(id(1)); 14 id = char(id(1));
...@@ -42,7 +42,11 @@ for i = 1 : length(files) ...@@ -42,7 +42,11 @@ for i = 1 : length(files)
42 filename = strcat(id, '_', int2str(c), type); % BraTS19_2013_2_1_seg_flair_c.png 42 filename = strcat(id, '_', int2str(c), type); % BraTS19_2013_2_1_seg_flair_c.png
43 outpath = strcat(outfolder, filename); 43 outpath = strcat(outfolder, filename);
44 % typecase int16 to double, range[0, 1], rotate 90 and filp updown 44 % typecase int16 to double, range[0, 1], rotate 90 and filp updown
45 - cp_data = flipud(rot90(mat2gray(double(data(:,:,k))))); 45 + % range [0, 1]
46 + %cp_data = flipud(rot90(mat2gray(double(data(:,:,k)))));
47 + cp_data = flipud(rot90(mat2gray(double(data(:,:,k))))).*255;
48 +% M = max(cp_data(:));
49 +% disp(M);
46 imwrite(cp_data, outpath); 50 imwrite(cp_data, outpath);
47 51
48 c = c+ 1; 52 c = c+ 1;
......
1 -data_path = '..\data\MICCAI_BraTS_2019_Data_Training\HGG_seg_flair\BraTS19_CBICA_AVG_1_seg_flair.nii';
2 -data = niftiread(data_path);
3 -
4 -cp_data = flipud(rot90(mat2gray(double(data(:,:,82)))));
5 -
6 -type = '.png';
7 -filename = strcat('BraTS19_CBICA_AVG_1_seg_flair_8', type); % BraTS19_2013_2_1_seg_flair_c.png
8 -outpath = strcat('..\data\MICCAI_BraTS_2019_Data_Training\zero to valid\', filename);
9 -imwrite(cp_data, outpath);
10 -
11 -
12 -% st, end 10
13 -
14 -%% (circle 0, ellipse 0)
15 -% BraTS19_CBICA_AOP_1_seg_flair_0
16 -% BraTS19_CBICA_ASF_1_seg_flair_9 -> 8
17 -% BraTS19_CBICA_ASR_1_seg_flair_8
18 -% BraTS19_CBICA_ASR_1_seg_flair_9
19 -% BraTS19_CBICA_AVG_1_seg_flair_9 -> 8
20 -%
21 -%
22 -%
23 -%
24 -%
25 -%
26 -%
27 -%
28 -%
29 -%
30 -%
31 -%
...\ No newline at end of file ...\ No newline at end of file
1 -getname_path = '..\data\MICCAI_BraTS_2019_Data_Training\zero2\';
2 -inputheader = '..\data\MICCAI_BraTS_2019_Data_Training\HGG_seg_flair\';
3 -outfolder = '..\data\MICCAI_BraTS_2019_Data_Training\zero to valid2\';
4 -
5 -files = dir(getname_path);
6 -id = {files.name};
7 -% files + dir file
8 -flag = ~strcmp(id, '.') & ~strcmp(id, '..');
9 -files = files(flag);
10 -
11 -% get filenames in getname_path folder
12 -for i = 1 : length(files)
13 - %id = split(files(i).name, '.nii');
14 - fname = files(i).name;
15 - id = reverse(extractBetween(reverse(fname), 7, strlength(fname)));
16 -
17 - data_path = convertCharsToStrings(strcat(inputheader,'\', id, '.nii'));
18 - data = niftiread(data_path);
19 -
20 - fprintf('ID #%d = %s\n', i, data_path);
21 -
22 - idx = 1;
23 - frames = zeros(1,1);
24 - for j = 1 : z
25 - n_nonblack = numel(find(data(:,:,j) > 0));
26 - if(n_nonblack > 70)
27 - frames(idx,1) = j;
28 - idx = idx + 1;
29 - end
30 - end
31 -
32 -% for j = z : -1 : 1
33 -% n_nonblack = numel(find(data(:,:,j) > 0));
34 -% if(n_nonblack > 50)
35 -% fprintf('%s: %d\n ','number: ', n_nonblack);
36 -% en = j;
37 -% break;
38 -% end
39 -% end
40 -
41 -
42 - c = 0;
43 - [nrow, ncol] = size(frames);
44 - step = round(nrow/11);
45 -% fprintf('%s: %d \n', 'nrow', nrow);
46 -% fprintf('%s: %d\n ','st: ', frames(1, 1));
47 -% fprintf('%s: %d\n ','end: ', frames(nrow, 1));
48 - %disp(frames);
49 -
50 - for k = 1 : step : step*10
51 - %fprintf('%d ', k);
52 - fprintf('%d ', frames(k, 1));
53 - type = '.png';
54 - filename = strcat(id, '_', int2str(c), type); % BraTS19_2013_2_1_seg_flair_c.png
55 - outpath = convertCharsToStrings(strcat(outfolder, filename));
56 - % typecase int16 to double, range[0, 1], rotate 90 and filp updown
57 - % range [0, 1]
58 - cp_data = flipud(rot90(mat2gray(double(data(:,:,frames(k, 1))))));
59 -% M = max(cp_data(:));
60 -% disp(M);
61 - imwrite(cp_data, outpath);
62 -
63 - c = c+ 1;
64 - end
65 -
66 -
67 -end
68 -