when i exercute the command 'bash run_alphafold.sh -d ~/data_2/Data_Files/AlphaFold2/genetic_databases/ -o ./dummy_test/ -f ./example/query.fasta -t 2020-05-14', it reported an error：
I0730 18:44:05.567088 140602220536896 templates.py:857] Using precomputed obsolete pdbs ~/data_2/Data_Files/AlphaFold2/genetic_databases//pdb_mmcif/obsolete.dat.
Traceback (most recent call last):
File "~/Program_Files/biosoft/alphafold-2.3.1/run_alphafold.py", line 432, in
app.run(main)
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/absl/app.py", line 312, in run
_run_main(main, args)
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/absl/app.py", line 258, in _run_main
sys.exit(main(argv))
File "~/Program_Files/biosoft/alphafold-2.3.1/run_alphafold.py", line 380, in main
model_params = data.get_model_haiku_params(
File "~/Program_Files/biosoft/alphafold-2.3.1/alphafold/model/data.py", line 31, in get_model_haiku_params
params = np.load(io.BytesIO(f.read()), allow_pickle=False)
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/numpy/lib/npyio.py", line 432, in load
ret = NpzFile(fid, own_fid=own_fid, allow_pickle=allow_pickle,
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/numpy/lib/npyio.py", line 189, in init
_zip = zipfile_factory(fid)
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/numpy/lib/npyio.py", line 112, in zipfile_factory
return zipfile.ZipFile(file, *args, **kwargs)
File "~/anaconda3/envs/alphafold/lib/python3.8/zipfile.py", line 1269, in init
self._RealGetContents()
File "~/anaconda3/envs/alphafold/lib/python3.8/zipfile.py", line 1336, in _RealGetContents
raise BadZipFile("File is not a zip file")
zipfile.BadZipFile: File is not a zip file.
What does it mean? And How can I deal with it？ Is it caused by my databases corruption?
when i exercute the command 'bash run_alphafold.sh -d ~/data_2/Data_Files/AlphaFold2/genetic_databases/ -o ./dummy_test/ -f ./example/query.fasta -t 2020-05-14', it reported an error： I0730 18:44:05.567088 140602220536896 templates.py:857] Using precomputed obsolete pdbs ~/data_2/Data_Files/AlphaFold2/genetic_databases//pdb_mmcif/obsolete.dat. Traceback (most recent call last): File "~/Program_Files/biosoft/alphafold-2.3.1/run_alphafold.py", line 432, in
app.run(main)
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/absl/app.py", line 312, in run
_run_main(main, args)
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/absl/app.py", line 258, in _run_main
sys.exit(main(argv))
File "~/Program_Files/biosoft/alphafold-2.3.1/run_alphafold.py", line 380, in main
model_params = data.get_model_haiku_params(
File "~/Program_Files/biosoft/alphafold-2.3.1/alphafold/model/data.py", line 31, in get_model_haiku_params
params = np.load(io.BytesIO(f.read()), allow_pickle=False)
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/numpy/lib/npyio.py", line 432, in load
ret = NpzFile(fid, own_fid=own_fid, allow_pickle=allow_pickle,
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/numpy/lib/npyio.py", line 189, in init
_zip = zipfile_factory(fid)
File "~/anaconda3/envs/alphafold/lib/python3.8/site-packages/numpy/lib/npyio.py", line 112, in zipfile_factory
return zipfile.ZipFile(file, *args, **kwargs)
File "~/anaconda3/envs/alphafold/lib/python3.8/zipfile.py", line 1269, in init
self._RealGetContents()
File "~/anaconda3/envs/alphafold/lib/python3.8/zipfile.py", line 1336, in _RealGetContents
raise BadZipFile("File is not a zip file")
zipfile.BadZipFile: File is not a zip file.
What does it mean? And How can I deal with it？ Is it caused by my databases corruption?