def launch(self, sensors_file, sensors_type):
"""
Creates required sensors from the uploaded file.
:param sensors_file: the file containing sensor data
:param sensors_type: a string from "EEG Sensors", "MEG sensors", "Internal Sensors"
:returns: a list of sensors instances of the specified type
:raises LaunchException: when
* no sensors_file specified
* sensors_type is invalid (not one of the mentioned options)
* sensors_type is "MEG sensors" and no orientation is specified
"""
if sensors_file is None:
raise LaunchException(
"Please select sensors file which contains data to import")
self.logger.debug("Create sensors instance")
if sensors_type == SensorsEEG.sensors_type.default:
sensors_inst = SensorsEEG()
elif sensors_type == SensorsMEG.sensors_type.default:
sensors_inst = SensorsMEG()
elif sensors_type == SensorsInternal.sensors_type.default:
sensors_inst = SensorsInternal()
else:
exception_str = "Could not determine sensors type (selected option %s)" % sensors_type
raise LaunchException(exception_str)
locations = self.read_list_data(sensors_file, usecols=[1, 2, 3])
# NOTE: TVB has the nose pointing -y and left ear pointing +x
# If the sensors are in CTF coordinates : nose pointing +x left ear +y
# to rotate the sensors by -90 along z uncomment below
# locations = numpy.array([[0, 1, 0], [-1, 0, 0], [0, 0, 1]]).dot(locations.T).T
sensors_inst.locations = locations
sensors_inst.labels = self.read_list_data(sensors_file,
dtype=MEMORY_STRING,
usecols=[0])
sensors_inst.number_of_sensors = sensors_inst.labels.size
if isinstance(sensors_inst, SensorsMEG):
try:
sensors_inst.orientations = self.read_list_data(
sensors_file, usecols=[4, 5, 6])
sensors_inst.has_orientation = True
except IndexError:
raise LaunchException(
"Uploaded file does not contains sensors orientation.")
sensors_inst.configure()
self.logger.debug("Sensors instance ready to be stored")
sensors_idx = h5.store_complete(sensors_inst, self.storage_path)
self.generic_attributes.user_tag_1 = sensors_inst.sensors_type
return sensors_idx
def launch(self, sensors_file, sensors_type):
"""
Creates required sensors from the uploaded file.
:param sensors_file: the file containing sensor data
:param sensors_type: a string from "EEG Sensors", "MEG sensors", "Internal Sensors"
:returns: a list of sensors instances of the specified type
:raises LaunchException: when
* no sensors_file specified
* sensors_type is invalid (not one of the mentioned options)
* sensors_type is "MEG sensors" and no orientation is specified
"""
if sensors_file is None:
raise LaunchException(
"Please select sensors file which contains data to import")
self.logger.debug("Create sensors instance")
if sensors_type == self.EEG_SENSORS:
sensors_inst = SensorsEEG()
elif sensors_type == self.MEG_SENSORS:
sensors_inst = SensorsMEG()
elif sensors_type == self.INTERNAL_SENSORS:
sensors_inst = SensorsInternal()
else:
exception_str = "Could not determine sensors type (selected option %s)" % sensors_type
raise LaunchException(exception_str)
sensors_inst.storage_path = self.storage_path
locations = self.read_list_data(sensors_file, usecols=[1, 2, 3])
# NOTE: TVB has the nose pointing -y and left ear pointing +x
# If the sensors are in CTF coordinates : nose pointing +x left ear +y
# to rotate the sensors by -90 along z uncomment below
# locations = numpy.array([[0, 1, 0], [-1, 0, 0], [0, 0, 1]]).dot(locations.T).T
sensors_inst.locations = locations
sensors_inst.labels = self.read_list_data(sensors_file,
dtype=numpy.str,
usecols=[0])
if isinstance(sensors_inst, SensorsMEG):
try:
sensors_inst.orientations = self.read_list_data(
sensors_file, usecols=[4, 5, 6])
except IndexError:
raise LaunchException(
"Uploaded file does not contains sensors orientation.")
self.logger.debug("Sensors instance ready to be stored")
return [sensors_inst]
def launch(self, sensors_file, sensors_type):
"""
Creates required sensors from the uploaded file.
:param sensors_file: the file containing sensor data
:param sensors_type: a string from "EEG Sensors", "MEG sensors", "Internal Sensors"
:returns: a list of sensors instances of the specified type
:raises LaunchException: when
* no sensors_file specified
* sensors_type is invalid (not one of the mentioned options)
* sensors_type is "MEG sensors" and no orientation is specified
"""
if sensors_file is None:
raise LaunchException(
"Please select sensors file which contains data to import")
sensors_inst = None
self.logger.debug("Create sensors instance")
if sensors_type == self.EEG_SENSORS:
sensors_inst = SensorsEEG()
elif sensors_type == self.MEG_SENSORS:
sensors_inst = SensorsMEG()
elif sensors_type == self.INTERNAL_SENSORS:
sensors_inst = SensorsInternal()
else:
exception_str = "Could not determine sensors type (selected option %s)" % sensors_type
raise LaunchException(exception_str)
sensors_inst.storage_path = self.storage_path
sensors_inst.locations = read_list_data(sensors_file,
usecols=[1, 2, 3])
sensors_inst.labels = read_list_data(sensors_file,
dtype=numpy.str,
usecols=[0])
if isinstance(sensors_inst, SensorsMEG):
try:
sensors_inst.orientations = read_list_data(sensors_file,
usecols=[4, 5, 6])
except IndexError:
raise LaunchException(
"Uploaded file does not contains sensors orientation.")
self.logger.debug("Sensors instance ready to be stored")
return [sensors_inst]
def launch(self, sensors_file, sensors_type):
"""
Creates required sensors from the uploaded file.
:param sensors_file: the file containing sensor data
:param sensors_type: a string from "EEG Sensors", "MEG sensors", "Internal Sensors"
:returns: a list of sensors instances of the specified type
:raises LaunchException: when
* no sensors_file specified
* sensors_type is invalid (not one of the mentioned options)
* sensors_type is "MEG sensors" and no orientation is specified
"""
if sensors_file is None:
raise LaunchException("Please select sensors file which contains data to import")
self.logger.debug("Create sensors instance")
if sensors_type == self.EEG_SENSORS:
sensors_inst = SensorsEEG()
elif sensors_type == self.MEG_SENSORS:
sensors_inst = SensorsMEG()
elif sensors_type == self.INTERNAL_SENSORS:
sensors_inst = SensorsInternal()
else:
exception_str = "Could not determine sensors type (selected option %s)" % sensors_type
raise LaunchException(exception_str)
sensors_inst.storage_path = self.storage_path
locations = self.read_list_data(sensors_file, usecols=[1, 2, 3])
# NOTE: TVB has the nose pointing -y and left ear pointing +x
# If the sensors are in CTF coordinates : nose pointing +x left ear +y
# to rotate the sensors by -90 along z uncomment below
# locations = numpy.array([[0, 1, 0], [-1, 0, 0], [0, 0, 1]]).dot(locations.T).T
sensors_inst.locations = locations
sensors_inst.labels = self.read_list_data(sensors_file, dtype=numpy.str, usecols=[0])
if isinstance(sensors_inst, SensorsMEG):
try:
sensors_inst.orientations = self.read_list_data(sensors_file, usecols=[4, 5, 6])
except IndexError:
raise LaunchException("Uploaded file does not contains sensors orientation.")
self.logger.debug("Sensors instance ready to be stored")
return [sensors_inst]
def launch(self, sensors_file, sensors_type):
"""
Creates required sensors from the uploaded file.
:param sensors_file: the file containing sensor data
:param sensors_type: a string from "EEG Sensors", "MEG sensors", "Internal Sensors"
:returns: a list of sensors instances of the specified type
:raises LaunchException: when
* no sensors_file specified
* sensors_type is invalid (not one of the mentioned options)
* sensors_type is "MEG sensors" and no orientation is specified
"""
if sensors_file is None:
raise LaunchException ("Please select sensors file which contains data to import")
sensors_inst = None
self.logger.debug("Create sensors instance")
if sensors_type == self.EEG_SENSORS:
sensors_inst = SensorsEEG()
elif sensors_type == self.MEG_SENSORS:
sensors_inst = SensorsMEG()
elif sensors_type == self.INTERNAL_SENSORS:
sensors_inst = SensorsInternal()
else:
exception_str = "Could not determine sensors type (selected option %s)" % sensors_type
raise LaunchException(exception_str)
sensors_inst.storage_path = self.storage_path
sensors_inst.locations = read_list_data(sensors_file, usecols=[1,2,3])
sensors_inst.labels = read_list_data(sensors_file, dtype=numpy.str, usecols=[0])
if isinstance(sensors_inst, SensorsMEG):
try:
sensors_inst.orientations = read_list_data(sensors_file, usecols=[4,5,6])
except IndexError:
raise LaunchException("Uploaded file does not contains sensors orientation.")
self.logger.debug("Sensors instance ready to be stored")
return [sensors_inst]
def launch(self, sensors_file, sensors_type):
"""
Created required sensors from the uploaded file.
"""
if sensors_file is None:
raise LaunchException(
"Please select sensors file which contains data to import")
sensors_inst = None
self.logger.debug("Create sensors instance")
if sensors_type == self.EEG_SENSORS:
sensors_inst = SensorsEEG()
elif sensors_type == self.MEG_SENSORS:
sensors_inst = SensorsMEG()
elif sensors_type == self.INTERNAL_SENSORS:
sensors_inst = SensorsInternal()
else:
exception_str = "Could not determine sensors type (selected option %s)" % sensors_type
raise LaunchException(exception_str)
sensors_inst.storage_path = self.storage_path
sensors_inst.locations = read_list_data(sensors_file,
usecols=[1, 2, 3])
sensors_inst.labels = read_list_data(sensors_file,
dtype=numpy.str,
usecols=[0])
if isinstance(sensors_inst, SensorsMEG):
try:
sensors_inst.orientations = read_list_data(sensors_file,
usecols=[4, 5, 6])
except IndexError:
raise LaunchException(
"Uploaded file does not contains sensors orientation.")
self.logger.debug("Sensors instance ready to be stored")
return [sensors_inst]
