Hello Team,
I did a submission as part of team - pins_reloaded, I don't see any relevant logs in the logs under files section for my submission (id 9760992).
Will you be able to provide some details regarding my submission if there is anything I'm missing..!
Thanks in advance,
Regards,
Team pins_reloaded
Created by vijay kumar narsapuram narsapvi @narsapvi ,
Unfortunately, for this challenge, we cannot share the container logs directly. This is a necessary security measure to ensure models are not attempting to output sensitive information back into the STDOUT. Providing a sample or mock dataset for local testing is a great idea, though! We will forward that suggestion to the challenge organizers for consideration for next time.
As for your submissions, here are the logs:
9761247:
```
Traceback (most recent call last):
File "run_model.py", line 205, in
X, y, donor_id = preprocess_data(df)
File "run_model.py", line 192, in preprocess_data
known_cols = metadata_cols_present + excluded_cols + list(y.columns)
AttributeError: 'list' object has no attribute 'columns'
```
9761248:
```
File "/home/user/.local/lib/python3.8/site-packages/xgboost/core.py", line 3079, in _validate_features
raise ValueError(msg.format(self.feature_names, feature_names))
ValueError: feature_names mismatch: ['prop_Class_Neuronal: GABAergic', 'prop_Class_Neuronal: Glutamatergic', 'prop_Class_Non-neuronal and Non-neural', 'prop_Subclass_Astrocyte', 'prop_Subclass_Chandelier', 'prop_Subclass_Endothelial',...
```
Hello @vchung,
We saw there is a lot of wait time in the queue once the job is received, may be due to the fact that today is the last day for submission. I did multiple submissions like 9761248 and 9761247 and got invalid again, could you please provide a way to view the logs for our submissions in your absence. Without logs it's hard to debug our code. As the code is working fine locally, not sure what's the issue everytime. Also there is a time difference in working hours so hard to wait for a day long to receive the logs. Also, where do we find the sample data.h5ad dataset for local testing, which is in similar formatting to the one used in leaderboard round. This will help us in testing it locally and upload the validated code.
Thanks,
Vijay N
Hi @narsapvi ,
subID 9761195 has the following traceback:
```
Traceback (most recent call last):
File "/home/user/run_model.py", line 62, in
obs_df = adata.obs[feature_columns + pathology_cols + celltype_levels].copy()
~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/user/.local/lib/python3.12/site-packages/pandas/core/frame.py", line 4113, in __getitem__
indexer = self.columns._get_indexer_strict(key, "columns")[1]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/user/.local/lib/python3.12/site-packages/pandas/core/indexes/base.py", line 6212, in _get_indexer_strict
self._raise_if_missing(keyarr, indexer, axis_name)
File "/home/user/.local/lib/python3.12/site-packages/pandas/core/indexes/base.py", line 6264, in _raise_if_missing
raise KeyError(f"{not_found} not in index")
KeyError: "['Thal', 'Braak', 'CERAD', 'ADNC'] not in index"
```
Hope this helps!
Edit: tag OP Hello @vchung
I did make the changes and uploaded the script again, here is my submission id - 9761195. Could you please let me know what's the associated error this time.
Thanks Hi @narsapvi ,
Due to the current sensitivity of the data, container logs are not made available to participants. However, we can share snippets of the logs to help with debugging. For subID 9760992, the model encountered the following error:
```
Traceback (most recent call last):
File "/home/user/run_model.py", line 60, in
obs_df = adata.obs[feature_columns + pathology_cols + celltype_levels].copy()
~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/user/.local/lib/python3.12/site-packages/pandas/core/frame.py", line 4113, in __getitem__
indexer = self.columns._get_indexer_strict(key, "columns")[1]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/user/.local/lib/python3.12/site-packages/pandas/core/indexes/base.py", line 6212, in _get_indexer_strict
self._raise_if_missing(keyarr, indexer, axis_name)
File "/home/user/.local/lib/python3.12/site-packages/pandas/core/indexes/base.py", line 6264, in _raise_if_missing
raise KeyError(f"{not_found} not in index")
KeyError: "['percent 6e10 positive area', 'percent AT8 positive area', 'percent GFAP positive area', 'percent aSyn positive area', 'percent pTDP43 positive area', 'Thal', 'Braak', 'CERAD', 'ADNC'] not in index"
```
Based on the traceback, it seems your model is dependent on columns that you will be predicting for and so, are not part of the validation dataset.
Hope this helps!