-
Notifications
You must be signed in to change notification settings - Fork 5
/
Copy pathtrain_cfg.json
202 lines (202 loc) · 19.1 KB
/
train_cfg.json
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
{
"n_epochs" : 100,
"steps_per_epoch" : 20,
"batch_size" : 64,
"val_batch_size" : 20,
"patch_size" : 29,
"val_patch_size" : 72,
"learning_rate" : 1e-3,
"model_kwargs" : {"n_kernels_ind":10, "n_kernels_common": 25},
"data_aug_kwargs" : {},
"output_suffix" : "test",
"masterlogdir" : "../cnn_logs",
"internal_voxsize": 1.0,
"training_files" : [
["../data/training_data/mMR/Tim-Patients/Tim-Patient-61_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-61_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-61_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-61_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-61_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-61_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-61_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-61_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-61_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-64_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-64_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-64_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-64_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-64_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-64_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-64_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-64_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-64_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-65_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-65_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-65_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-65_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-65_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-65_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-65_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-65_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-65_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-66_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-66_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-66_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-66_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-66_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-66_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-66_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-66_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-66_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-71_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-71_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-71_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-71_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-71_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-71_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-71_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-71_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-71_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-77_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-77_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-77_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-77_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-77_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-77_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-77_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-77_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-77_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-79_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-79_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-79_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-79_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-79_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-79_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-79_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-79_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-79_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-80_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-80_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-80_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-80_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-80_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-80_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-80_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-80_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-80_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-82_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-82_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-82_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-82_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-82_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-82_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-82_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-82_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-82_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-83_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-83_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-83_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-83_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-83_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-83_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-83_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-83_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-83_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-84_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-84_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-84_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-84_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-84_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-84_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-84_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-84_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-84_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-85_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-85_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-85_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-85_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-85_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-85_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-85_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-85_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-85_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-86_hq/01_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-86_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-86_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-86_hq/03_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-86_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-86_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/mMR/Tim-Patients/Tim-Patient-86_hq/20_min/mlem_3_21.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-86_hq/aligned_t1.nii",
"../data/training_data/mMR/Tim-Patients/Tim-Patient-86_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/training_data/signa/FDG_Leuven/C-1/20_min/mlem.nii",
"../data/training_data/signa/FDG_Leuven/C-1/aligned_t1.nii",
"../data/training_data/signa/FDG_Leuven/C-1/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/FDG_Leuven/C-2/20_min/mlem.nii",
"../data/training_data/signa/FDG_Leuven/C-2/aligned_t1.nii",
"../data/training_data/signa/FDG_Leuven/C-2/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/FDG_Leuven/C-3/20_min/mlem.nii",
"../data/training_data/signa/FDG_Leuven/C-3/aligned_t1.nii",
"../data/training_data/signa/FDG_Leuven/C-3/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0802/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0802/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0802/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0803/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0803/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0803/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0851/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0851/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0851/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0852/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0852/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0852/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0864/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0864/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0864/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0875/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0875/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0875/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0892/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0892/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0892/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0981/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0981/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0981/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0992/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0992/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0992/20_min/bow_bet_1.0E+01.nii"],
["../data/training_data/signa/signa-pe2i/ANON0999/20_min/mlem.nii",
"../data/training_data/signa/signa-pe2i/ANON0999/aligned_t1.nii",
"../data/training_data/signa/signa-pe2i/ANON0999/20_min/bow_bet_1.0E+01.nii"]],
"validation_files": [
["../data/validation_data/mMR/Tim-Patients/Tim-Patient-67_hq/01_min/mlem_3_21.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-67_hq/aligned_t1.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-67_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/validation_data/mMR/Tim-Patients/Tim-Patient-67_hq/03_min/mlem_3_21.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-67_hq/aligned_t1.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-67_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/validation_data/mMR/Tim-Patients/Tim-Patient-67_hq/20_min/mlem_3_21.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-67_hq/aligned_t1.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-67_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/validation_data/mMR/Tim-Patients/Tim-Patient-76_hq/01_min/mlem_3_21.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-76_hq/aligned_t1.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-76_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/validation_data/mMR/Tim-Patients/Tim-Patient-76_hq/03_min/mlem_3_21.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-76_hq/aligned_t1.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-76_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/validation_data/mMR/Tim-Patients/Tim-Patient-76_hq/20_min/mlem_3_21.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-76_hq/aligned_t1.nii",
"../data/validation_data/mMR/Tim-Patients/Tim-Patient-76_hq/20_min/bow_bet_1.00E+01.nii"],
["../data/validation_data/signa/FDG_Leuven/C-4/20_min/mlem.nii",
"../data/validation_data/signa/FDG_Leuven/C-4/aligned_t1.nii",
"../data/validation_data/signa/FDG_Leuven/C-4/20_min/bow_bet_1.0E+01.nii"],
["../data/validation_data/signa/signa-pe2i/ANON1000/20_min/mlem.nii",
"../data/validation_data/signa/signa-pe2i/ANON1000/aligned_t1.nii",
"../data/validation_data/signa/signa-pe2i/ANON1000/20_min/bow_bet_1.0E+01.nii"],
["../data/validation_data/signa/signa-pe2i/ANON1023/20_min/mlem.nii",
"../data/validation_data/signa/signa-pe2i/ANON1023/aligned_t1.nii",
"../data/validation_data/signa/signa-pe2i/ANON1023/20_min/bow_bet_1.0E+01.nii"],
["../data/validation_data/signa/signa-pe2i/ANON1024/20_min/mlem.nii",
"../data/validation_data/signa/signa-pe2i/ANON1024/aligned_t1.nii",
"../data/validation_data/signa/signa-pe2i/ANON1024/20_min/bow_bet_1.0E+01.nii"]]
}