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Restructure source files.
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@gholste
gholste committed Aug 30, 2022
1 parent d041601 commit 24fd922
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Showing 6 changed files with 26 additions and 26 deletions.
26 changes: 13 additions & 13 deletions run_mimic-cxr-lt_experiments.sh
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Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
#!/bin/bash

echo "Training CE on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ce \
Expand All @@ -11,7 +11,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training class-balanced CE on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ce \
Expand All @@ -22,7 +22,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training sklearn re-weighted CE on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ce \
Expand All @@ -33,7 +33,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training focal loss on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss focal \
Expand All @@ -43,7 +43,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training class-balanced focal loss on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss focal \
Expand All @@ -54,7 +54,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training sklearn re-weighted focal loss on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss focal \
Expand All @@ -65,7 +65,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training LDAM loss on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ldam \
Expand All @@ -75,7 +75,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training class-balanced LDAM loss on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ldam \
Expand All @@ -86,7 +86,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training class-balanced LDAM loss w/ DRW on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ldam \
Expand All @@ -98,7 +98,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training sklearn re-weighted LDAM loss on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ldam \
Expand All @@ -109,7 +109,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training sklearn re-weighted LDAM loss w/ DRW on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ldam \
Expand All @@ -121,7 +121,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--lr 1e-4 \

echo "Training mixup on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ce \
Expand All @@ -133,7 +133,7 @@ python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--mixup_alpha 0.2 \

echo "Training balanced mixup on mimic-cxr-lt..."
python main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
python src/main.py --data_dir /ssd1/greg/physionet.org/files/mimic-cxr-jpg/2.0.0 \
--out_dir mimic_results \
--dataset mimic-cxr-lt \
--loss ce \
Expand Down
26 changes: 13 additions & 13 deletions run_nih-lt_experiments.sh
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Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
#!/bin/bash

echo "Training CE on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ce \
Expand All @@ -11,7 +11,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training class-balanced CE on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ce \
Expand All @@ -22,7 +22,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training sklearn re-weighted CE on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ce \
Expand All @@ -33,7 +33,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training focal loss on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss focal \
Expand All @@ -43,7 +43,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training class-balanced focal loss on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss focal \
Expand All @@ -54,7 +54,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training sklearn re-weighted focal loss on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss focal \
Expand All @@ -65,7 +65,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training LDAM loss on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ldam \
Expand All @@ -75,7 +75,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training class-balanced LDAM loss on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ldam \
Expand All @@ -86,7 +86,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training class-balanced LDAM loss w/ DRW on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ldam \
Expand All @@ -98,7 +98,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training sklearn re-weighted LDAM loss on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ldam \
Expand All @@ -109,7 +109,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training sklearn re-weighted LDAM loss w/ DRW on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ldam \
Expand All @@ -121,7 +121,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--lr 1e-4 \

echo "Training mixup on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ce \
Expand All @@ -133,7 +133,7 @@ python main.py --data_dir /ssd1/greg/NIH_CXR/images \
--mixup_alpha 0.2 \

echo "Training balanced mixup on NIH-LT..."
python main.py --data_dir /ssd1/greg/NIH_CXR/images \
python src/main.py --data_dir /ssd1/greg/NIH_CXR/images \
--out_dir nih_results \
--dataset nih-lt \
--loss ce \
Expand Down
0 datasets.py → src/datasets.py
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0 losses.py → src/losses.py
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0 main.py → src/main.py
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0 utils.py → src/utils.py
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