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# Authors: The MNE-Python contributors.
# License: BSD-3-Clause
# Copyright the MNE-Python contributors.
"""Import KIT / NYU data to fif file.
Examples
--------
.. code-block:: console
$ mne kit2fiff --input input.sqd --output output.fif
Use without arguments to invoke GUI:
.. code-block:: console
$ mne kt2fiff
"""
import sys
import mne
from mne.io import read_raw_kit
def run():
"""Run command."""
from mne.commands.utils import get_optparser
parser = get_optparser(__file__)
parser.add_option(
"--input", dest="input_fname", help="Input data file name", metavar="filename"
)
parser.add_option(
"--mrk", dest="mrk_fname", help="MEG Marker file name", metavar="filename"
)
parser.add_option(
"--elp", dest="elp_fname", help="Headshape points file name", metavar="filename"
)
parser.add_option(
"--hsp", dest="hsp_fname", help="Headshape file name", metavar="filename"
)
parser.add_option(
"--stim",
dest="stim",
help="Colon Separated Stimulus Trigger Channels",
metavar="chs",
)
parser.add_option("--slope", dest="slope", help="Slope direction", metavar="slope")
parser.add_option(
"--stimthresh",
dest="stimthresh",
default=1,
help="Threshold value for trigger channels",
metavar="value",
)
parser.add_option(
"--output",
dest="out_fname",
help="Name of the resulting fiff file",
metavar="filename",
)
parser.add_option(
"--debug",
dest="debug",
action="store_true",
default=False,
help="Set logging level for terminal output to debug",
)
options, args = parser.parse_args()
if options.debug:
mne.set_log_level("debug")
input_fname = options.input_fname
if input_fname is None:
try:
from mne_kit_gui import kit2fiff # noqa
except ImportError:
raise ImportError(
"The mne-kit-gui package is required, install it using conda or pip"
) from None
kit2fiff()
sys.exit(0)
hsp_fname = options.hsp_fname
elp_fname = options.elp_fname
mrk_fname = options.mrk_fname
stim = options.stim
slope = options.slope
stimthresh = options.stimthresh
out_fname = options.out_fname
if isinstance(stim, str):
stim = map(int, stim.split(":"))
raw = read_raw_kit(
input_fname=input_fname,
mrk=mrk_fname,
elp=elp_fname,
hsp=hsp_fname,
stim=stim,
slope=slope,
stimthresh=stimthresh,
)
raw.save(out_fname)
raw.close()
mne.utils.run_command_if_main()
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