Initial example

src/prototree/train.py

@@ -83,25 +83,30 @@ def update_leaf_distributions(
     """
     batch_size, num_classes = logits.shape
 
-    y_true_one_hot = F.one_hot(y_true, num_classes=num_classes)
-    y_true_logits = torch.log(y_true_one_hot)
+    # Other sparse formats may be better than COO.
+    # TODO: This is a bit convoluted. Why is there no sparse version of torch.nn.functional.one_hot ?
+    y_true_range = torch.arange(0, batch_size)
+    y_true_indices = torch.stack((y_true_range, y_true))
+    y_true_one_hot = torch.sparse_coo_tensor(
+        y_true_indices, torch.ones_like(y_true, dtype=torch.bool), logits.shape
+    )
 
     for leaf in root.leaves:
-        update_leaf(leaf, node_to_prob, logits, y_true_logits, smoothing_factor)
+        update_leaf(leaf, node_to_prob, logits, y_true_one_hot, smoothing_factor)
 
 
 def update_leaf(
     leaf: Leaf,
     node_to_prob: dict[Node, NodeProbabilities],
     logits: torch.Tensor,
-    y_true_logits: torch.Tensor,
+    y_true_one_hot: torch.Tensor,
     smoothing_factor: float,
 ):
     """
     :param leaf:
     :param node_to_prob:
     :param logits: of shape (batch_size, num_classes)
-    :param y_true_logits: of shape (batch_size, num_classes)
+    :param y_true_one_hot: boolean tensor of shape (batch_size, num_classes)
     :param smoothing_factor:
     :return:
     """
@@ -110,15 +115,15 @@ def update_leaf(
     # shape (num_classes). Not the same as logits, which has (batch_size, num_classes)
     leaf_logits = leaf.y_logits()
 
-    # TODO: y_true_logits is mostly -Inf terms (the rest being 0s) that won't contribute to the total, and we are also
-    #  summing together tensors of different shapes. We should be able to express this more clearly and efficiently by
-    #  taking advantage of this sparsity.
-    log_dist_update = torch.logsumexp(
-        log_p_arrival + leaf_logits + y_true_logits - logits,
-        dim=0,
-    )
+    masked_logits = logits.sparse_mask(y_true_one_hot)
+    masked_log_p_arrival = y_true_one_hot * log_p_arrival
+    masked_leaf_logits = y_true_one_hot * leaf_logits
+    masked_log_combined = masked_log_p_arrival + masked_leaf_logits - masked_logits
+
+    # TODO: Can't use logsumexp because masked tensors don't support it.
+    masked_dist_update = torch.logsumexp(masked_log_combined, dim=0)
 
-    dist_update = torch.exp(log_dist_update)
+    dist_update = masked_dist_update.to_tensor(0.0)
 
     # This scaling (subtraction of `-1/n_batches * c` in the ProtoTree paper) seems to be a form of exponentially
     # weighted moving average, designed to ensure stability of the leaf class probability distributions (