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Make initial training pipeline #7

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VemundFredriksen wants to merge 15 commits into main from make_initial_training_pipeline

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VemundFredriksen commented Nov 13, 2023

Pull Request

Description

This PR implements an initial training pipeline along with some useful tools for organizing different networks, losses and optimizers.

Type of Change

Checklist

I have reviewed the code to ensure it follows the project's coding standards.
I have tested the changes locally to verify that they work as expected.
I have updated the documentation if necessary.

Screenshots

sosevle and others added 15 commits

November 10, 2023 14:00


          Add first train pipeline. Along with reformating of the Json generator

8ae2310


          Added network code structure and a working network. This as simple as…

c8a4dca

… possible


          Change training to be made on source dataset

48ac779


          Send model and tensors to cuda during training

70ea424


          Add param for config path rather than dataset argument for synthlung …

e0bbb4e

…train


          Remove required argument for dataset for synthlung generate

bca649c


          Remvoe debugging print statement


          Rename CustomDataset to SynthlungDataset

eeea58c


          Remove debugging print statement

af12299


          Removed extra layer of network initialization

adbf8cf


          Place all images in assets/ in assets/images/

900b34c


          Merge branch 'make_initial_training_pipeline' of https://github.com/V…

422408e

…emundFredriksen/SynthLung into make_initial_training_pipeline


          Added remote fetching of config files


          Fixed merge conflicts

7dc8c7d


          Add transform to scale down input image in dataset + define BasicUNet…

da11694

… from Monai

- As per now the scaling is hardcoded to 64x64xN, this however is way to small to get anything interessting happening. Most likely we will need to crop around the lungs or do some sort of sliding window method to fit this into our GPUs

sonarqubecloud bot commented Nov 20, 2023

SonarCloud Quality Gate failed.

0 Bugs
0 Vulnerabilities
0 Security Hotspots
17 Code Smells

8.9% Coverage
0.0% Duplication

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VemundFredriksen closed this

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