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kiharalab / DOVE

A Deep-learning based dOcking decoy eValuation mEthod
GNU General Public License v3.0
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OSError: Unable to open file (unable to lock file, errno = 95, error message = 'Operation not supported') #9

Closed johnnytam100 closed 3 years ago

johnnytam100 commented 3 years ago

When I tried to run a python script that uses h5py, it returns an OSError:

Traceback (most recent call last): File "main.py", line 67, in record,input_path=run_pred_single(file_path,random_id,gpu_id) File "main.py", line 23, in run_pred_single result=Exec_Prediction(indicate,input_path) File "/bwfefs/home/cltam/20210511_NbX_DOVE_test_cluster/cluspro_1bzq/Prediction/Exec_Prediction.py", line 22, in Exec_Prediction model.load_weights(model_path) File "/home/cltam/.pyenv/versions/anaconda3-5.3.1/envs/tf012/lib/python3.5/site-packages/keras/models.py", line 724, in load_weights with h5py.File(filepath, mode='r') as f: File "/home/cltam/.pyenv/versions/anaconda3-5.3.1/envs/tf012/lib/python3.5/site-packages/h5py/_hl/files.py", line 408, in init swmr=swmr) File "/home/cltam/.pyenv/versions/anaconda3-5.3.1/envs/tf012/lib/python3.5/site-packages/h5py/_hl/files.py", line 173, in make_fid fid = h5f.open(name, flags, fapl=fapl) File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper File "h5py/h5f.pyx", line 88, in h5py.h5f.open OSError: Unable to open file (unable to lock file, errno = 95, error message = 'Operation not supported')

Wang, do you know the cause, possibly related to h5py?

wang3702 commented 3 years ago

I think it's not related to h5py. Instead, I think you failed to download the correct model files. Could you please check the model file in github and your local? I suspected what you downloaded is a file with a smaller size(which suggests it's broken).

johnnytam100 commented 3 years ago

Wang, I have used exactly the same model files that I successfully ran locally, but when I run on a cluster that failed. Anyway, if you come to mind why this might have happened, please tell me. :)

wang3702 commented 3 years ago

That's interesting! I think it should be exactly same for running on local or cluster. I suspected your cluster environment is a little different. Could you please check the version of h5py, keras and tensorflow to make sure cluster have the same env as you had locally.

import h5py
h5py.__version__
johnnytam100 commented 3 years ago

Hi Wang, I see! I have tried but both versions match. Anyway, it's probably other problems in the environment. So thanks for helping out!

wang3702 commented 3 years ago

My pleasure, feel free to open issues if encounter other questions.