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2DCNN/src/shell/table3.sh
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1 | +#!/usr/bin/env sh | ||
2 | + | ||
3 | +# DEFINE | ||
4 | +DATA_ROOT_PATH="" | ||
5 | +DEVICE="cuda" | ||
6 | + | ||
7 | +############################## Table 3 ######################################### | ||
8 | +#### This commands Assumes that you have computed the best models for the architecture | ||
9 | +#### or table 1 commands are already run | ||
10 | +#### We show commands for k=2, | ||
11 | +#### for other values of k just modify the frame_keep_fraction parameter | ||
12 | +#### k=2 -> 0.5 | ||
13 | +#### k=4 -> 0.25 | ||
14 | +#### k=5 -> 0.2 | ||
15 | +#### k=10 -> 0.1 | ||
16 | +################################################################################ | ||
17 | + | ||
18 | +# 3d cnn with 50% frames (k=2), with imputation | ||
19 | +python3 -m src.scripts.main -c config/config.py \ | ||
20 | + --exp_name 3d_cnn_eval_k=2_imputed \ | ||
21 | + -r /tmp \ | ||
22 | + --mode test \ | ||
23 | + --device $DEVICE --wandb.use 0 \ | ||
24 | + --model.arch.file src/arch/brain_age_3d.py \ | ||
25 | + --data.root_path "$DATA_ROOT_PATH" \ | ||
26 | + --data.frame_keep_style random --data.frame_keep_fraction 0.5 \ | ||
27 | + --data.impute fill \ | ||
28 | + --statefile result/3d_cnn/run_0001/best_model.pt | ||
29 | + | ||
30 | +# 2d lstm with 50% frames (k=2), without imputation | ||
31 | +python3 -m src.scripts.main -c config/config.py \ | ||
32 | + --exp_name 2d_slice_lstm_eval_k=2 \ | ||
33 | + -r /tmp \ | ||
34 | + --mode test \ | ||
35 | + --device $DEVICE --wandb.use 0 \ | ||
36 | + --model.arch.file src/arch/brain_age_slice_lstm.py \ | ||
37 | + --data.root_path "$DATA_ROOT_PATH" \ | ||
38 | + --data.frame_keep_style random --data.frame_keep_fraction 0.5 \ | ||
39 | + --data.impute drop \ | ||
40 | + --statefile result/2d_slice_lstm/run_0001/best_model.pt | ||
41 | + | ||
42 | +# 2d lstm with 50% frames (k=2), with imputation | ||
43 | +python3 -m src.scripts.main -c config/config.py \ | ||
44 | + --exp_name 2d_slice_lstm_eval_k=2_imputed \ | ||
45 | + -r /tmp \ | ||
46 | + --mode test \ | ||
47 | + --device $DEVICE --wandb.use 0 \ | ||
48 | + --model.arch.file src/arch/brain_age_slice_lstm.py \ | ||
49 | + --data.root_path "$DATA_ROOT_PATH" \ | ||
50 | + --data.frame_keep_style random --data.frame_keep_fraction 0.5 \ | ||
51 | + --data.impute fill \ | ||
52 | + --statefile result/2d_slice_lstm/run_0001/best_model.pt | ||
53 | + | ||
54 | +# 2D-slice-attention with 50% frames (k=2), without imputation | ||
55 | +python3 -m src.scripts.main -c config/config.py \ | ||
56 | + --exp_name 2d_slice_attention_eval_k=2 \ | ||
57 | + -r /tmp \ | ||
58 | + --mode test \ | ||
59 | + --device $DEVICE --wandb.use 0 \ | ||
60 | + --model.arch.file src/arch/brain_age_slice_set.py \ | ||
61 | + --model.arch.attn_dim 32 --model.arch.attn_num_heads 1 \ | ||
62 | + --model.arch.attn_drop 1 --model.arch.agg_fn "attention" \ | ||
63 | + --data.root_path "$DATA_ROOT_PATH" \ | ||
64 | + --data.frame_keep_style random --data.frame_keep_fraction 0.5 \ | ||
65 | + --data.impute drop \ | ||
66 | + --statefile result/2d_slice_attention/run_0001/best_model.pt | ||
67 | + | ||
68 | +# 2D-slice-mean with 50% frames (k=2), without imputation | ||
69 | +python3 -m src.scripts.main -c config/config.py \ | ||
70 | + --exp_name 2d_slice_mean_eval_k=2 \ | ||
71 | + -r /tmp \ | ||
72 | + --mode test \ | ||
73 | + --device $DEVICE --wandb.use 0 \ | ||
74 | + --model.arch.file src/arch/brain_age_slice_set.py \ | ||
75 | + --model.arch.attn_dim 32 --model.arch.attn_num_heads 1 \ | ||
76 | + --model.arch.attn_drop 1 --model.arch.agg_fn "mean" \ | ||
77 | + --data.root_path "$DATA_ROOT_PATH" \ | ||
78 | + --data.frame_keep_style random --data.frame_keep_fraction 0.5 \ | ||
79 | + --data.impute drop \ | ||
80 | + --statefile result/2d_slice_attention/run_0001/best_model.pt | ||
81 | + | ||
82 | +# 2D-slice-max with 50% frames (k=2), without imputation | ||
83 | +python3 -m src.scripts.main -c config/config.py \ | ||
84 | + --exp_name 2d_slice_max_eval_k=2 \ | ||
85 | + -r /tmp \ | ||
86 | + --mode test \ | ||
87 | + --device $DEVICE --wandb.use 0 \ | ||
88 | + --model.arch.file src/arch/brain_age_slice_set.py \ | ||
89 | + --model.arch.attn_dim 32 --model.arch.attn_num_heads 1 \ | ||
90 | + --model.arch.attn_drop 1 --model.arch.agg_fn "max" \ | ||
91 | + --data.root_path "$DATA_ROOT_PATH" \ | ||
92 | + --data.frame_keep_style random --data.frame_keep_fraction 0.5 \ | ||
93 | + --data.impute drop \ | ||
94 | + --statefile result/2d_slice_attention/run_0001/best_model.pt |
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