Update create_series_list.py

Neurobiologist / EC601-Pulmonary-Embolism

Development of a Deep Learning Model to Diagnose Pulmonary Embolism

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Update create_series_list.py #14

Closed Neurobiologist closed 3 years ago

Neurobiologist commented 4 years ago

Does not generate pkl file for input into model

Neurobiologist commented 3 years ago

ct_data_loader.py:

""" Base class DataLoader for loading a 3d dataset. This data loader is designed to work with
sequential models, and takes care of sorting batches and padding them for the pytorch
recurrent networks. Note that the dataset MUST BE SORTED BY LENGTH for this to work."""

Neurobiologist commented 3 years ago

pip3 install opencv-python

conda install pytorch torchvision -c pytorch [Errno 122] Disk quota exceeded

Neurobiologist commented 3 years ago

Updated:

args
ct
datasets

Added:

rsna
run_test_rsna.sh
test_rsna.py

To do:

Update environment
Fix disk quota problem based on response from BU IT

Neurobiologist commented 3 years ago

Updated environment
Fixed disk quota problem

New Error with RSNA code:

CondaError: No package <> found in cache directories.

Error resolved by:

Resetting conda settings, conda clean, remove and re-create env

Neurobiologist commented 3 years ago

[Debug] To run parse_rsna_data.py: Add to PYTHONPATH: /projectnb/ece601/kaggle-pulmonary-embolism/meganmp/PENet/

Permission Error

Neurobiologist commented 3 years ago

Rerouted paths.

With new rsna scripts: Successfully generated series_list.pkl