Skip to content

Commit

Permalink
Fix RuntimeError in DataAnalyzer (Project-MONAI#7310)
Browse files Browse the repository at this point in the history
Fixes Project-MONAI#7309

### Description

`DataAnalyzer` only catch error when data is on GPU, add catching error
when data is on CPU.

### Types of changes
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [x] Non-breaking change (fix or new feature that would not break
existing functionality).
- [ ] Breaking change (fix or new feature that would cause existing
functionality to change).
- [ ] New tests added to cover the changes.
- [ ] Integration tests passed locally by running `./runtests.sh -f -u
--net --coverage`.
- [ ] Quick tests passed locally by running `./runtests.sh --quick
--unittests --disttests`.
- [ ] In-line docstrings updated.
- [ ] Documentation updated, tested `make html` command in the `docs/`
folder.

---------

Signed-off-by: YunLiu <55491388+KumoLiu@users.noreply.github.com>
Signed-off-by: Yu0610 <612410030@alum.ccu.edu.tw>
  • Loading branch information
KumoLiu authored and Yu0610 committed Apr 11, 2024
1 parent 25c3d93 commit c99f3ca
Show file tree
Hide file tree
Showing 2 changed files with 17 additions and 11 deletions.
26 changes: 16 additions & 10 deletions monai/apps/auto3dseg/data_analyzer.py
Original file line number Diff line number Diff line change
Expand Up @@ -28,7 +28,7 @@
from monai.data import DataLoader, Dataset, partition_dataset
from monai.data.utils import no_collation
from monai.transforms import Compose, EnsureTyped, LoadImaged, Orientationd
from monai.utils import StrEnum, min_version, optional_import
from monai.utils import ImageMetaKey, StrEnum, min_version, optional_import
from monai.utils.enums import DataStatsKeys, ImageStatsKeys


Expand Down Expand Up @@ -343,19 +343,25 @@ def _get_all_case_stats(
d = summarizer(batch_data)
except BaseException as err:
if "image_meta_dict" in batch_data.keys():
filename = batch_data["image_meta_dict"]["filename_or_obj"]
filename = batch_data["image_meta_dict"][ImageMetaKey.FILENAME_OR_OBJ]
else:
filename = batch_data[self.image_key].meta["filename_or_obj"]
filename = batch_data[self.image_key].meta[ImageMetaKey.FILENAME_OR_OBJ]
logger.info(f"Unable to process data {filename} on {device}. {err}")
if self.device.type == "cuda":
logger.info("DataAnalyzer `device` set to GPU execution hit an exception. Falling back to `cpu`.")
batch_data[self.image_key] = batch_data[self.image_key].to("cpu")
if self.label_key is not None:
label = batch_data[self.label_key]
if not _label_argmax:
label = torch.argmax(label, dim=0) if label.shape[0] > 1 else label[0]
batch_data[self.label_key] = label.to("cpu")
d = summarizer(batch_data)
try:
batch_data[self.image_key] = batch_data[self.image_key].to("cpu")
if self.label_key is not None:
label = batch_data[self.label_key]
if not _label_argmax:
label = torch.argmax(label, dim=0) if label.shape[0] > 1 else label[0]
batch_data[self.label_key] = label.to("cpu")
d = summarizer(batch_data)
except BaseException as err:
logger.info(f"Unable to process data {filename} on {device}. {err}")
continue
else:
continue

stats_by_cases = {
DataStatsKeys.BY_CASE_IMAGE_PATH: d[DataStatsKeys.BY_CASE_IMAGE_PATH],
Expand Down
2 changes: 1 addition & 1 deletion monai/auto3dseg/analyzer.py
Original file line number Diff line number Diff line change
Expand Up @@ -460,7 +460,7 @@ def __call__(self, data: Mapping[Hashable, MetaTensor]) -> dict[Hashable, MetaTe
torch.set_grad_enabled(False)

ndas: list[MetaTensor] = [d[self.image_key][i] for i in range(d[self.image_key].shape[0])] # type: ignore
ndas_label: MetaTensor = d[self.label_key] # (H,W,D)
ndas_label: MetaTensor = d[self.label_key].astype(torch.int8) # (H,W,D)

if ndas_label.shape != ndas[0].shape:
raise ValueError(f"Label shape {ndas_label.shape} is different from image shape {ndas[0].shape}")
Expand Down

0 comments on commit c99f3ca

Please sign in to comment.