BrainSegmentationTensorflow/commands.txt at master · rishub/BrainSegmentationTensorflow · GitHub

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# convert dicom to png
python mritopng.py -f <folder with dicom> <output_dir>


# TRAIN AND TEST WITH JUST ONE INPUT
# b is input_dir


# convert dicom to png
python mritopng.py -f <folder with dicom> b

rm -rf b_resized
rm -rf b_blank
rm -rf b_combined

python tools/process.py --input_dir b --operation resize --output_dir b_resized

python tools/process.py --input_dir b_resized --operation blank --output_dir b_blank

python tools/process.py --input_dir b_blank --b_dir b_resized --operation combine --output_dir b_combined

rm -rf c_test

python pix2pix.py --mode test --output_dir c_test --input_dir b_combined --checkpoint c_train

open c_test/index.html


# TRAIN AND TEST WITH BOTH INPUT AND TARGET
# a is target
# b is input


python tools/process.py   --input_dir a   --b_dir b   --operation combine   --output_dir c

python tools/split.py   --dir c

python pix2pix.py   --mode train   --output_dir c_train   --max_epochs 200   --input_dir c/train  --which_direction BtoA

rm -rf c_test

python pix2pix.py --mode test --output_dir c_test --input_dir c/val --checkpoint c_train

open c_test/index.html