def read(self):
'''
:return:np.recarray representing tal struct array (originally defined in Matlab file)
'''
from ptsa.data.MatlabIO import read_single_matlab_matrix_as_numpy_structured_array
struct_names = ['bpTalStruct', 'subjTalEvents']
# struct_names = ['bpTalStruct']
if self.struct_name not in struct_names:
self.tal_struct_array = read_single_matlab_matrix_as_numpy_structured_array(
self.filename, self.struct_name, verbose=False)
if self.tal_struct_array is not None:
return self.tal_struct_array
else:
raise AttributeError(
'Could not read tal struct data for the specified struct_name='
+ self.struct_name)
else:
for sn in struct_names:
self.tal_struct_array = read_single_matlab_matrix_as_numpy_structured_array(
self.filename, sn, verbose=False)
if self.tal_struct_array is not None:
return self.tal_struct_array
raise AttributeError(
'Could not read tal struct data. Try specifying struct_name argument :'
'\nTalReader(filename=e_path, struct_name=<name_of_struc_to_read>)'
)
def read(self):
"""
:return:np.recarray representing tal struct array (originally defined in Matlab file)
"""
from ptsa.data.MatlabIO import read_single_matlab_matrix_as_numpy_structured_array
struct_names = ["bpTalStruct", "subjTalEvents"]
# struct_names = ['bpTalStruct']
if self.struct_name not in struct_names:
self.tal_struct_array = read_single_matlab_matrix_as_numpy_structured_array(
self.filename, self.struct_name, verbose=False
)
if self.tal_struct_array is not None:
return self.tal_struct_array
else:
raise AttributeError("Could not read tal struct data for the specified struct_name=" + self.struct_name)
else:
for sn in struct_names:
self.tal_struct_array = read_single_matlab_matrix_as_numpy_structured_array(
self.filename, sn, verbose=False
)
if self.tal_struct_array is not None:
return self.tal_struct_array
raise AttributeError(
"Could not read tal struct data. Try specifying struct_name argument :"
"\nTalReader(filename=e_path, struct_name=<name_of_struc_to_read>)"
)
def read(self):
"""
:return: np.recarray representing tal struct array (originally defined in Matlab file)
"""
if not self._json:
from ptsa.data.MatlabIO import read_single_matlab_matrix_as_numpy_structured_array
struct_names = ['bpTalStruct','subjTalEvents']
# struct_names = ['bpTalStruct']
if self.struct_name not in struct_names:
self.tal_struct_array = read_single_matlab_matrix_as_numpy_structured_array(self.filename, self.struct_name,verbose=False)
if self.tal_struct_array is not None:
return self.tal_struct_array
else:
raise AttributeError('Could not read tal struct data for the specified struct_name='+self.struct_name)
else:
for sn in struct_names:
self.tal_struct_array = read_single_matlab_matrix_as_numpy_structured_array(self.filename,sn,verbose=False)
if self.tal_struct_array is not None:
return self.tal_struct_array
else:
with open(self.filename) as fp:
pairs= json.load(fp)
self.tal_struct_array = self.from_dict(pairs)
return self.tal_struct_array
raise AttributeError('Could not read tal struct data. Try specifying struct_name argument :'
'\nTalReader(filename=e_path, struct_name=<name_of_struc_to_read>)')
def read(self):
"""
:return: np.recarray representing tal struct array
"""
if not self._json:
from ptsa.data.MatlabIO import read_single_matlab_matrix_as_numpy_structured_array
struct_names = ['bpTalStruct', 'subjTalEvents']
# struct_names = ['bpTalStruct']
if self.struct_name not in struct_names:
self.tal_struct_array = read_single_matlab_matrix_as_numpy_structured_array(
self.filename, self.struct_name, verbose=False)
if self.tal_struct_array is not None:
return self.tal_struct_array
else:
raise AttributeError(
'Could not read tal struct data for the specified struct_name='
+ self.struct_name)
else:
for sn in struct_names:
self.tal_struct_array = read_single_matlab_matrix_as_numpy_structured_array(
self.filename, sn, verbose=False)
if self.tal_struct_array is not None:
return self.tal_struct_array
else:
with open(self.filename) as fp:
pairs = json.load(fp)
self.tal_struct_array = self.from_dict(pairs, unpack=self.unpack)
return self.tal_struct_array
raise AttributeError(
'Could not read tal struct data. Try specifying struct_name argument :'
'\nTalReader(filename=e_path, struct_name=<name_of_struc_to_read>)'
)
def read_matlab(self):
"""
Reads Matlab event file and returns corresponging np.recarray. Path to the eegfile is changed
w.r.t original Matlab code to account for the following:
1. /data dir of the database might have been mounted under different mount point e.g. /Users/m/data
2. use_reref_eeg is set to True in which case we replaces 'eeg.reref' with 'eeg.noreref' in eegfile path
:return: np.recarray representing events
"""
# extract matlab matrix (called 'events') as numpy structured array
struct_array = read_single_matlab_matrix_as_numpy_structured_array(
self.filename, 'events')
evs = struct_array
if 'eegfile' in evs.dtype.names:
if self.eliminate_events_with_no_eeg:
# eliminating events that have no eeg file
indicator = np.empty(len(evs), dtype=bool)
indicator[:] = False
for i, ev in enumerate(evs):
# MAKE THIS CHECK STRONGER
indicator[i] = (len(str(evs[i].eegfile)) > 3)
# indicator[i] = (type(evs[i].eegfile).__name__.startswith('unicode')) & (len(str(evs[i].eegfile)) > 3)
evs = evs[indicator]
# determining data_dir_prefix in case rhino /data filesystem was mounted under different root
if self.normalize_eeg_path:
data_dir_prefix = self.find_data_dir_prefix()
for i, ev in enumerate(evs):
ev.eegfile = join(
data_dir_prefix,
str(pathlib.Path(str(ev.eegfile)).parts[1:]))
evs = self.normalize_paths(evs)
# if not self.use_reref_eeg:
if self._alter_eeg_path_flag:
evs = self.modify_eeg_path(evs)
if self.eliminate_nans:
# this is
evs = self.replace_nans(evs)
return evs
def read_matlab(self):
"""
Reads Matlab event file and returns corresponging np.recarray. Path to the eegfile is changed
w.r.t original Matlab code to account for the following:
1. /data dir of the database might have been mounted under different mount point e.g. /Users/m/data
2. use_reref_eeg is set to True in which case we replaces 'eeg.reref' with 'eeg.noreref' in eegfile path
:return: np.recarray representing events
"""
# extract matlab matrix (called 'events') as numpy structured array
struct_array = read_single_matlab_matrix_as_numpy_structured_array(self.filename, 'events')
evs = struct_array
if 'eegfile' in evs.dtype.names:
if self.eliminate_events_with_no_eeg:
# eliminating events that have no eeg file
indicator = np.empty(len(evs), dtype=bool)
indicator[:] = False
for i, ev in enumerate(evs):
# MAKE THIS CHECK STRONGER
indicator[i] = (len(str(evs[i].eegfile)) > 3)
# indicator[i] = (type(evs[i].eegfile).__name__.startswith('unicode')) & (len(str(evs[i].eegfile)) > 3)
evs = evs[indicator]
# determining data_dir_prefix in case rhino /data filesystem was mounted under different root
if self.normalize_eeg_path:
data_dir_prefix = self.find_data_dir_prefix()
for i, ev in enumerate(evs):
ev.eegfile = join(data_dir_prefix, str(pathlib.Path(str(ev.eegfile)).parts[1:]))
evs = self.normalize_paths(evs)
# if not self.use_reref_eeg:
if self._alter_eeg_path_flag:
evs = self.modify_eeg_path(evs)
if self.eliminate_nans:
# this is
evs = self.replace_nans(evs)
return evs
