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Filter instances while generating indices #138

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merged 1 commit into from
Feb 12, 2025
Merged

Filter instances while generating indices #138

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17 changes: 8 additions & 9 deletions sleap_nn/data/custom_datasets.py
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Original file line number Diff line number Diff line change
Expand Up @@ -347,11 +347,6 @@ def _fill_cache(self):
lf = self.labels[lf_idx]
video_idx = self._get_video_idx(lf)

# Filter to user instances
if self.data_config.user_instances_only:
if lf.user_instances is not None and len(lf.user_instances) > 0:
lf.instances = lf.user_instances

if lf_idx == self.cache_lf[0]:
img = self.cache_lf[1]
else:
Expand All @@ -362,8 +357,7 @@ def _fill_cache(self):

instances = []
for inst in lf:
if not inst.is_empty:
instances.append(inst.numpy())
instances.append(inst.numpy())
instances = np.stack(instances, axis=0)

# Add singleton time dimension for single frames.
Expand Down Expand Up @@ -443,8 +437,13 @@ def _get_instance_idx_list(self) -> List[Tuple[int]]:
"""Return list of tuples with indices of labelled frames and instances."""
instance_idx_list = []
for lf_idx, lf in enumerate(self.labels):
for inst_idx, _ in enumerate(lf.instances):
instance_idx_list.append((lf_idx, inst_idx))
# Filter to user instances
if self.data_config.user_instances_only:
if lf.user_instances is not None and len(lf.user_instances) > 0:
lf.instances = lf.user_instances
for inst_idx, inst in enumerate(lf.instances):
if not inst.is_empty: # filter all NaN instances.
instance_idx_list.append((lf_idx, inst_idx))
return instance_idx_list

def __len__(self) -> int:
Expand Down