havakv / havakv/pycox

Time to event prediction using Graph Neural Networks

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Python
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Description

Hi! I am trying to extend the tutorials 3 and 4 to implement the Logistic Hazard loss in a Graph Neural Network for Graph-level prediction of survival. This is the[ example](https://docs.dgl.ai/tutorials/blitz/5_graph_classification.html#sphx-glr-tutorials-blitz-5-graph-classification-py) I am following.

Nevertheless, I am getting some errors when training the network. Specifically in "model.fit_dataloader" where I get:

```
AttributeError Traceback (most recent call last)
in ()
2 epochs = 50
3 verbose = True
----> 4 log = model.fit_dataloader(dl_train, epochs, callbacks, verbose, val_dataloader=dl_test)

13 frames
/usr/local/lib/python3.7/dist-packages/torchtuples/tupletree.py in shapes_of(data)
109 def shapes_of(data):
110 """Apply x.shape to elemnts in data."""
--> 111 return data.shape
112
113 @apply_leaf

AttributeError: 'DGLHeteroGraph' object has no attribute 'shape'
```

Do you have any suggestions on how to fix this error and/or approach this issue?

Thanks!

Contributor guide

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Research direction

Start by reading tutorials 3 and 4 alongside the linked DGL graph-classification example. Reproduce the failure at model.fit_dataloader with the DGLHeteroGraph input and determine the scope of supporting Logistic Hazard loss for graph-level survival prediction. Done means the requested graph neural network training approach works without the reported shape error.

Written by the indexing model from the issue text.

Assessment

Tech stack
python, pytorch
Domain
machine-learning
Issue type
Feature
Difficulty
5/5
Estimated time
Over a week
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
20/100

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