“ValueError: Unsupported option 'image_stats',”

[absbracketb]

I am following the auto3dseg "Run with Minimal Input" tutorial and the input yaml contains only three lines, remains the same as the tutorial.
But the code encountered the following error "ValueError: Unsupported option 'image_stats'"
I was wondering if someone knew how to solve the problem.

[KumoLiu]

Hi @absbracketb, which tutorial did you refer to?

[absbracketb]

2024-03-11 18:18:33,231 - INFO - AutoRunner using work directory ./work_dir
2024-03-11 18:18:33,232 - INFO - Loading input config /mnt/ssd_storage/songzhiyun/project/Angeioma/PVATtest/code/input.yaml
2024-03-11 18:18:33,232 - INFO - Datalist was copied to work_dir: /mnt/ssd_storage/songzhiyun/work_dir/dataset.json
2024-03-11 18:18:33,232 - INFO - Setting num_fold 1 based on the input datalist /mnt/ssd_storage/songzhiyun/work_dir/dataset.json.
2024-03-11 18:18:33,248 - INFO - Using user defined command running prefix , will override other settings
2024-03-11 18:18:33,248 - INFO - Skipping data analysis...
2024-03-11 18:18:33,248 - INFO - BundleGen from https://github.com/Project-MONAI/research-contributions/releases/download/algo_templates/249bf4b.tar.gz
algo_templates.tar.gz: 104kB [00:02, 43.1kB/s]
2024-03-11 18:18:35,721 - INFO - Downloaded: /tmp/tmp69k2w1nu/algo_templates.tar.gz
2024-03-11 18:18:35,721 - INFO - Expected md5 is None, skip md5 check for file /tmp/tmp69k2w1nu/algo_templates.tar.gz.
2024-03-11 18:18:35,721 - INFO - Writing into directory: /mnt/ssd_storage/songzhiyun/work_dir.
Traceback (most recent call last):
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/monai/bundle/config_parser.py", line 158, in getitem
look_up_option(k, config, print_all_options=False) if isinstance(config, dict) else config[int(k)]
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/monai/utils/module.py", line 143, in look_up_option
raise ValueError(f"Unsupported option '{opt_str}', " + supported_msg)
ValueError: Unsupported option 'image_stats',

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/runpy.py", line 197, in _run_module_as_main
return _run_code(code, main_globals, None,
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/runpy.py", line 87, in _run_code
exec(code, run_globals)
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/monai/apps/auto3dseg/main.py", line 24, in
fire.Fire(
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/fire/core.py", line 141, in Fire
component_trace = _Fire(component, args, parsed_flag_args, context, name)
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/fire/core.py", line 475, in _Fire
component, remaining_args = _CallAndUpdateTrace(
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/fire/core.py", line 691, in _CallAndUpdateTrace
component = fn(*varargs, **kwargs)
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/monai/apps/auto3dseg/auto_runner.py", line 777, in run
bundle_generator.generate(self.work_dir, num_fold=self.num_fold, allow_skip=self.allow_skip)
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/monai/apps/auto3dseg/bundle_gen.py", line 598, in generate
gen_algo.export_to_disk(output_folder, name, fold=f_id)
File "/mnt/ssd_storage/songzhiyun/work_dir/algorithm_templates/segresnet/scripts/algo.py", line 294, in export_to_disk
super().export_to_disk(output_path=output_path, algo_name=algo_name, **kwargs)
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/monai/apps/auto3dseg/bundle_gen.py", line 171, in export_to_disk
self.fill_records = self.fill_template_config(self.data_stats_files, self.output_path, **kwargs)
File "/mnt/ssd_storage/songzhiyun/work_dir/algorithm_templates/segresnet/scripts/algo.py", line 89, in fill_template_config
input_channels = int(data_stats["stats_summary#image_stats#channels#max"]) + len(
File "/home/songzhiyun/anaconda3/anaconda3/envs/PVAT/lib/python3.9/site-packages/monai/bundle/config_parser.py", line 161, in getitem
raise KeyError(f"query key: {k}") from e
KeyError: 'query key: image_stats'

[KumoLiu]

Did you have a "datastats.yaml" under your workdir? I noticed "Skipping data analysis..." in your log.

[absbracketb]

seems that I have "datastats.yaml" in the generated directory "./workdir"

[KumoLiu]

Could you please check the content, particularly whether it contains "image_stats"? If not, delete this one and create a new one.
https://github.com/Project-MONAI/tutorials/blob/main/auto3dseg/docs/data_analyzer.md

[godspeedlucip]

I have met the just same error，the content of datastats.yaml is：

stats_summary: {n_cases: 0}
stats_by_cases: []

as you reminded, it seems like the data analysis is skiped. I wonder know how to solve it