@ejolly, just tried using the new hdf5 loading for an older file and encoutered this error message:
---------------------------------------------------------------------------
TypeError Traceback (most recent call last)
Cell In[33], line 16
12 f = file_list[0]
14 sub = os.path.basename(f).split('_')[0]
---> 16 fmri_data = Brain_Data(f)
File ~/Github/nltools/nltools/data/brain_data.py:206, in Brain_Data.__init__(self, data, Y, X, mask, **kwargs)
203 else:
204 # Load X and Y dataframes
205 with pd.HDFStore(to_load, "r") as f:
--> 206 self.X = f["X"]
207 self.Y = f["Y"]
209 # Load data and masker stuffs
File ~/opt/anaconda3/lib/python3.11/site-packages/pandas/io/pytables.py:602, in HDFStore.__getitem__(self, key)
601 def __getitem__(self, key: str):
--> 602 return self.get(key)
File ~/opt/anaconda3/lib/python3.11/site-packages/pandas/io/pytables.py:813, in HDFStore.get(self, key)
811 if group is None:
812 raise KeyError(f"No object named {key} in the file")
--> 813 return self._read_group(group)
File ~/opt/anaconda3/lib/python3.11/site-packages/pandas/io/pytables.py:1878, in HDFStore._read_group(self, group)
1877 def _read_group(self, group: Node):
-> 1878 s = self._create_storer(group)
1879 s.infer_axes()
1880 return s.read()
File ~/opt/anaconda3/lib/python3.11/site-packages/pandas/io/pytables.py:1752, in HDFStore._create_storer(self, group, format, value, encoding, errors)
1750 tt = "generic_table"
1751 else:
-> 1752 raise TypeError(
1753 "cannot create a storer if the object is not existing "
1754 "nor a value are passed"
1755 )
1756 else:
1757 if isinstance(value, Series):
TypeError: cannot create a storer if the object is not existing nor a value are passedI don't believe there should be any metadata stored in these files. Is this something is simple as just checking and initializing with an empty value?
@ejolly, just tried using the new hdf5 loading for an older file and encoutered this error message:
I don't believe there should be any metadata stored in these files. Is this something is simple as just checking and initializing with an empty value?