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# -*- coding: utf-8 -*-
# Author: Teon Brooks <teon.brooks@gmail.com>
# Stefan Appelhoff <stefan.appelhoff@mailbox.org>
#
# License: BSD (3-clause)
from functools import partial
import inspect
import os.path as op
import shutil
import numpy as np
from numpy.testing import (assert_array_almost_equal, assert_array_equal,
assert_allclose, assert_equal)
import pytest
from mne.utils import _TempDir, run_tests_if_main
from mne import pick_types, find_events, read_annotations
from mne.io.constants import FIFF
from mne.io import read_raw_fif, read_raw_brainvision
from mne.io.tests.test_raw import _test_raw_reader
from mne.datasets import testing
# Helper for deprecation
read_raw_brainvision_orig = read_raw_brainvision
read_raw_brainvision = partial(read_raw_brainvision_orig, stim_channel=False)
read_raw_brainvision_old = partial(read_raw_brainvision_orig,
stim_channel=True)
FILE = inspect.getfile(inspect.currentframe())
data_dir = op.join(op.dirname(op.abspath(FILE)), 'data')
vhdr_path = op.join(data_dir, 'test.vhdr')
vmrk_path = op.join(data_dir, 'test.vmrk')
eeg_path = op.join(data_dir, 'test.eeg')
vhdr_partially_disabled_hw_filter_path = op.join(data_dir,
'test_partially_disabled'
'_hw_filter.vhdr')
vhdr_old_path = op.join(data_dir,
'test_old_layout_latin1_software_filter.vhdr')
vhdr_v2_path = op.join(data_dir, 'testv2.vhdr')
vhdr_highpass_path = op.join(data_dir, 'test_highpass.vhdr')
vhdr_mixed_highpass_path = op.join(data_dir, 'test_mixed_highpass.vhdr')
vhdr_highpass_hz_path = op.join(data_dir, 'test_highpass_hz.vhdr')
vhdr_mixed_highpass_hz_path = op.join(data_dir, 'test_mixed_highpass_hz.vhdr')
# Not a typo: we can reuse the highpass file for the lowpass (Hz) test
vhdr_lowpass_path = op.join(data_dir, 'test_highpass.vhdr')
vhdr_mixed_lowpass_path = op.join(data_dir, 'test_mixed_lowpass.vhdr')
vhdr_lowpass_s_path = op.join(data_dir, 'test_lowpass_s.vhdr')
vhdr_mixed_lowpass_s_path = op.join(data_dir, 'test_mixed_lowpass_s.vhdr')
# VHDR exported with neuroone
data_path = testing.data_path(download=False)
neuroone_vhdr = op.join(data_path, 'Brainvision', 'test_NO.vhdr')
# Test for nanovolts as unit
vhdr_nV_path = op.join(data_dir, 'test_nV.vhdr')
montage = op.join(data_dir, 'test.hpts')
eeg_bin = op.join(data_dir, 'test_bin_raw.fif')
eog = ['HL', 'HR', 'Vb']
event_id = {'Sync On': 5}
def test_orig_units(recwarn):
"""Test exposure of original channel units."""
raw = read_raw_brainvision(vhdr_path)
orig_units = raw._orig_units
assert len(orig_units) == 32
assert orig_units['FP1'] == u'µV'
assert orig_units['CP5'] == 'n/a' # originally BS, not a valid unit
assert orig_units['CP6'] == u'µS'
assert orig_units['HL'] == 'n/a' # originally ARU, not a valid unit
assert orig_units['HR'] == 'n/a' # originally uS ...
assert orig_units['Vb'] == 'S'
assert orig_units['ReRef'] == 'C'
def test_vmrk_meas_date():
"""Test successful extraction of measurement date."""
# Test file that does have a specific date
raw = read_raw_brainvision(vhdr_path)
assert_allclose(raw.info['meas_date'], [1384359243, 794231])
assert '2013-11-13 16:14:03 GMT' in repr(raw.info)
# Test file with multiple dates ... we should only take the first
with pytest.warns(RuntimeWarning, match='software filter'):
raw = read_raw_brainvision(vhdr_old_path)
assert_allclose(raw.info['meas_date'], [1184588560, 937453])
assert '2007-07-16 12:22:40 GMT' in repr(raw.info)
# Test files with no date, we should get DATE_NONE from mne.io.write
with pytest.warns(RuntimeWarning, match='coordinate information'):
raw = read_raw_brainvision(vhdr_v2_path)
assert raw.info['meas_date'] is None
assert 'unspecified' in repr(raw.info)
def test_vhdr_codepage_ansi():
"""Test BV reading with ANSI codepage."""
raw_init = read_raw_brainvision(vhdr_path, event_id=event_id)
data_expected, times_expected = raw_init[:]
tempdir = _TempDir()
ansi_vhdr_path = op.join(tempdir, op.split(vhdr_path)[-1])
ansi_vmrk_path = op.join(tempdir, op.split(vmrk_path)[-1])
ansi_eeg_path = op.join(tempdir, op.split(eeg_path)[-1])
# copy data file
shutil.copy(eeg_path, ansi_eeg_path)
# modify header file
with open(ansi_vhdr_path, 'wb') as fout:
with open(vhdr_path, 'rb') as fin:
for line in fin:
# Common Infos section
if line.startswith(b'Codepage'):
line = b'Codepage=ANSI\n'
fout.write(line)
# modify marker file
with open(ansi_vmrk_path, 'wb') as fout:
with open(vmrk_path, 'rb') as fin:
for line in fin:
# Common Infos section
if line.startswith(b'Codepage'):
line = b'Codepage=ANSI\n'
fout.write(line)
raw = read_raw_brainvision(ansi_vhdr_path, event_id=event_id)
data_new, times_new = raw[:]
assert_equal(raw_init.ch_names, raw.ch_names)
assert_allclose(data_new, data_expected, atol=1e-15)
assert_allclose(times_new, times_expected, atol=1e-15)
def test_ascii():
"""Test ASCII BV reading."""
raw = read_raw_brainvision(vhdr_path, event_id=event_id)
tempdir = _TempDir()
ascii_vhdr_path = op.join(tempdir, op.split(vhdr_path)[-1])
# copy marker file
shutil.copy(vhdr_path.replace('.vhdr', '.vmrk'),
ascii_vhdr_path.replace('.vhdr', '.vmrk'))
# modify header file
skipping = False
with open(ascii_vhdr_path, 'wb') as fout:
with open(vhdr_path, 'rb') as fin:
for line in fin:
# Common Infos section
if line.startswith(b'DataFormat'):
line = b'DataFormat=ASCII\n'
elif line.startswith(b'DataFile='):
line = b'DataFile=test.dat\n'
# Replace the "'Binary Infos'" section
elif line.startswith(b'[Binary Infos]'):
skipping = True
fout.write(b'[ASCII Infos]\nDecimalSymbol=.\nSkipLines=1\n'
b'SkipColumns=0\n\n')
elif skipping and line.startswith(b'['):
skipping = False
if not skipping:
fout.write(line)
# create the .dat file
data, times = raw[:]
with open(ascii_vhdr_path.replace('.vhdr', '.dat'), 'wb') as fid:
fid.write(b' '.join(ch_name.encode('ASCII')
for ch_name in raw.ch_names) + b'\n')
fid.write(b'\n'.join(b' '.join(b'%.3f' % dd for dd in d)
for d in data.T / raw._cals))
raw = read_raw_brainvision(ascii_vhdr_path, event_id=event_id)
data_new, times_new = raw[:]
assert_allclose(data_new, data, atol=1e-15)
assert_allclose(times_new, times)
def test_brainvision_data_highpass_filters():
"""Test reading raw Brain Vision files with amplifier filter settings."""
# Homogeneous highpass in seconds (default measurement unit)
raw = _test_raw_reader(
read_raw_brainvision, vhdr_fname=vhdr_highpass_path,
montage=montage, eog=eog)
assert_equal(raw.info['highpass'], 1. / (2 * np.pi * 10))
assert_equal(raw.info['lowpass'], 250.)
# Heterogeneous highpass in seconds (default measurement unit)
with pytest.warns(RuntimeWarning, match='different .*pass filters') as w:
raw = _test_raw_reader(
read_raw_brainvision_old, vhdr_fname=vhdr_mixed_highpass_path,
montage=montage, eog=eog, event_id=event_id)
lowpass_warning = ['different lowpass filters' in str(ww.message)
for ww in w]
highpass_warning = ['different highpass filters' in str(ww.message)
for ww in w]
expected_warnings = zip(lowpass_warning, highpass_warning)
assert (all(any([lp, hp]) for lp, hp in expected_warnings))
assert_equal(raw.info['highpass'], 1. / (2 * np.pi * 10))
assert_equal(raw.info['lowpass'], 250.)
# Homogeneous highpass in Hertz
raw = _test_raw_reader(
read_raw_brainvision, vhdr_fname=vhdr_highpass_hz_path,
montage=montage, eog=eog, event_id=event_id)
assert_equal(raw.info['highpass'], 10.)
assert_equal(raw.info['lowpass'], 250.)
# Heterogeneous highpass in Hertz
with pytest.warns(RuntimeWarning, match='different .*pass filters') as w:
raw = _test_raw_reader(
read_raw_brainvision_old, vhdr_fname=vhdr_mixed_highpass_hz_path,
montage=montage, eog=eog, event_id=event_id)
trigger_warning = ['will be dropped' in str(ww.message)
for ww in w]
lowpass_warning = ['different lowpass filters' in str(ww.message)
for ww in w]
highpass_warning = ['different highpass filters' in str(ww.message)
for ww in w]
expected_warnings = zip(trigger_warning, lowpass_warning, highpass_warning)
assert (all(any([trg, lp, hp]) for trg, lp, hp in expected_warnings))
assert_equal(raw.info['highpass'], 5.)
assert_equal(raw.info['lowpass'], 250.)
def test_brainvision_data_lowpass_filters():
"""Test files with amplifier LP filter settings."""
# Homogeneous lowpass in Hertz (default measurement unit)
raw = _test_raw_reader(
read_raw_brainvision, vhdr_fname=vhdr_lowpass_path,
montage=montage, eog=eog, event_id=event_id)
assert_equal(raw.info['highpass'], 1. / (2 * np.pi * 10))
assert_equal(raw.info['lowpass'], 250.)
# Heterogeneous lowpass in Hertz (default measurement unit)
with pytest.warns(RuntimeWarning) as w: # event parsing
raw = _test_raw_reader(
read_raw_brainvision_old, vhdr_fname=vhdr_mixed_lowpass_path,
montage=montage, eog=eog, event_id=event_id)
lowpass_warning = ['different lowpass filters' in str(ww.message)
for ww in w]
highpass_warning = ['different highpass filters' in str(ww.message)
for ww in w]
expected_warnings = zip(lowpass_warning, highpass_warning)
assert (all(any([lp, hp]) for lp, hp in expected_warnings))
assert_equal(raw.info['highpass'], 1. / (2 * np.pi * 10))
assert_equal(raw.info['lowpass'], 250.)
# Homogeneous lowpass in seconds
raw = _test_raw_reader(
read_raw_brainvision, vhdr_fname=vhdr_lowpass_s_path,
montage=montage, eog=eog, event_id=event_id)
assert_equal(raw.info['highpass'], 1. / (2 * np.pi * 10))
assert_equal(raw.info['lowpass'], 1. / (2 * np.pi * 0.004))
# Heterogeneous lowpass in seconds
with pytest.warns(RuntimeWarning) as w: # filter settings
raw = _test_raw_reader(
read_raw_brainvision_old, vhdr_fname=vhdr_mixed_lowpass_s_path,
montage=montage, eog=eog, event_id=event_id)
lowpass_warning = ['different lowpass filters' in str(ww.message)
for ww in w]
highpass_warning = ['different highpass filters' in str(ww.message)
for ww in w]
expected_warnings = zip(lowpass_warning, highpass_warning)
assert (all(any([lp, hp]) for lp, hp in expected_warnings))
assert_equal(raw.info['highpass'], 1. / (2 * np.pi * 10))
assert_equal(raw.info['lowpass'], 1. / (2 * np.pi * 0.004))
def test_brainvision_data_partially_disabled_hw_filters():
"""Test heterogeneous filter settings including non-numeric values."""
with pytest.warns(RuntimeWarning) as w: # event parsing
raw = _test_raw_reader(
read_raw_brainvision,
vhdr_fname=vhdr_partially_disabled_hw_filter_path,
montage=montage, eog=eog)
trigger_warning = ['will be dropped' in str(ww.message)
for ww in w]
lowpass_warning = ['different lowpass filters' in str(ww.message)
for ww in w]
highpass_warning = ['different highpass filters' in str(ww.message)
for ww in w]
expected_warnings = zip(trigger_warning, lowpass_warning, highpass_warning)
assert (all(any([trg, lp, hp]) for trg, lp, hp in expected_warnings))
assert_equal(raw.info['highpass'], 0.)
assert_equal(raw.info['lowpass'], 500.)
def test_brainvision_data_software_filters_latin1_global_units():
"""Test reading raw Brain Vision files."""
with pytest.warns(RuntimeWarning, match='software filter'):
raw = _test_raw_reader(
read_raw_brainvision, vhdr_fname=vhdr_old_path,
eog=("VEOGo", "VEOGu", "HEOGli", "HEOGre"), misc=("A2",))
assert_equal(raw.info['highpass'], 1. / (2 * np.pi * 0.9))
assert_equal(raw.info['lowpass'], 50.)
def test_brainvision_data():
"""Test reading raw Brain Vision files."""
pytest.raises(IOError, read_raw_brainvision, vmrk_path)
pytest.raises(ValueError, read_raw_brainvision, vhdr_path, montage,
preload=True, scale="foo")
raw_py = _test_raw_reader(
read_raw_brainvision, vhdr_fname=vhdr_path, montage=montage,
eog=eog, misc='auto', event_id=event_id)
assert ('RawBrainVision' in repr(raw_py))
assert_equal(raw_py.info['highpass'], 0.)
assert_equal(raw_py.info['lowpass'], 250.)
picks = pick_types(raw_py.info, meg=False, eeg=True, exclude='bads')
data_py, times_py = raw_py[picks]
# compare with a file that was generated using MNE-C
raw_bin = read_raw_fif(eeg_bin, preload=True)
picks = pick_types(raw_py.info, meg=False, eeg=True, exclude='bads')
data_bin, times_bin = raw_bin[picks]
assert_array_almost_equal(data_py, data_bin)
assert_array_almost_equal(times_py, times_bin)
# Make sure EOG channels are marked correctly
for ch in raw_py.info['chs']:
if ch['ch_name'] in eog:
assert_equal(ch['kind'], FIFF.FIFFV_EOG_CH)
elif ch['ch_name'] == 'STI 014':
assert_equal(ch['kind'], FIFF.FIFFV_STIM_CH)
elif ch['ch_name'] in ('CP5', 'CP6'):
assert_equal(ch['kind'], FIFF.FIFFV_MISC_CH)
assert_equal(ch['unit'], FIFF.FIFF_UNIT_NONE)
elif ch['ch_name'] == 'ReRef':
assert_equal(ch['kind'], FIFF.FIFFV_MISC_CH)
assert_equal(ch['unit'], FIFF.FIFF_UNIT_CEL)
elif ch['ch_name'] in raw_py.info['ch_names']:
assert_equal(ch['kind'], FIFF.FIFFV_EEG_CH)
assert_equal(ch['unit'], FIFF.FIFF_UNIT_V)
else:
raise RuntimeError("Unknown Channel: %s" % ch['ch_name'])
# test loading v2
read_raw_brainvision(vhdr_v2_path, eog=eog, preload=True,
event_id=event_id,
trig_shift_by_type={'response': 1000},
verbose='error')
# For the nanovolt unit test we use the same data file with a different
# header file.
raw_nV = _test_raw_reader(
read_raw_brainvision, vhdr_fname=vhdr_nV_path, montage=montage,
eog=eog, misc='auto', event_id=event_id)
assert_equal(raw_nV.info['chs'][0]['ch_name'], 'FP1')
assert_equal(raw_nV.info['chs'][0]['kind'], FIFF.FIFFV_EEG_CH)
data_nanovolt, _ = raw_nV[0]
assert_array_almost_equal(data_py[0, :], data_nanovolt[0, :])
def test_brainvision_vectorized_data():
"""Test reading BrainVision data files with vectorized data."""
with pytest.warns(RuntimeWarning, match='software filter'):
raw = read_raw_brainvision(vhdr_old_path, preload=True)
assert_array_equal(raw._data.shape, (29, 251))
first_two_samples_all_chs = np.array([[+5.22000008e-06, +5.10000000e-06],
[+2.10000000e-06, +2.27000008e-06],
[+1.15000000e-06, +1.33000002e-06],
[+4.00000000e-07, +4.00000000e-07],
[-3.02999992e-06, -2.82000008e-06],
[+2.71000004e-06, +2.45000000e-06],
[+2.41000004e-06, +2.36000004e-06],
[+1.01999998e-06, +1.18000002e-06],
[-1.33999996e-06, -1.25000000e-06],
[-2.60000000e-06, -2.46000004e-06],
[+6.80000019e-07, +8.00000000e-07],
[+1.48000002e-06, +1.48999996e-06],
[+1.61000004e-06, +1.51000004e-06],
[+7.19999981e-07, +8.60000038e-07],
[-3.00000000e-07, -4.00000006e-08],
[-1.20000005e-07, +6.00000024e-08],
[+8.19999981e-07, +9.89999962e-07],
[+1.13000002e-06, +1.28000002e-06],
[+1.08000002e-06, +1.33999996e-06],
[+2.20000005e-07, +5.69999981e-07],
[-4.09999990e-07, +4.00000006e-08],
[+5.19999981e-07, +9.39999962e-07],
[+1.01000004e-06, +1.51999998e-06],
[+1.01000004e-06, +1.55000000e-06],
[-1.43000002e-06, -1.13999996e-06],
[+3.65000000e-06, +3.65999985e-06],
[+4.15999985e-06, +3.79000015e-06],
[+9.26999969e-06, +8.95999985e-06],
[-7.35999985e-06, -7.18000031e-06],
])
assert_array_almost_equal(raw._data[:, :2], first_two_samples_all_chs)
def test_events():
"""Test reading and modifying events."""
tempdir = _TempDir()
# Note: BrainVision event offsets are 1-based, mne offsets are 0-based.
# So in all tests below, the "onset" is 1 less than what's in the file
# check that events are read and stim channel is synthesized correctly
raw = read_raw_brainvision_old(vhdr_path, eog=eog, event_id=event_id)
events = raw._get_brainvision_events()
events = events[events[:, 2] != event_id['Sync On']]
assert_array_equal(events, [[486, 0, 253],
[496, 0, 255],
[1769, 0, 254],
[1779, 0, 255],
[3252, 0, 254],
[3262, 0, 255],
[4935, 0, 253],
[4945, 0, 255],
[5999, 0, 255],
[6619, 0, 254],
[6629, 0, 255],
[7699, 0, 1]])
# check that events are read and stim channel is synthesized correctly and
# response triggers are shifted using the deprecated response_trig_shift.
with pytest.deprecated_call():
raw = read_raw_brainvision_old(vhdr_path, eog=eog,
response_trig_shift=1000,
event_id=event_id)
events = raw._get_brainvision_events()
assert_array_equal(events, [[486, 0, 253],
[496, 0, 255],
[1769, 0, 254],
[1779, 0, 255],
[3252, 0, 254],
[3262, 0, 255],
[4935, 0, 253],
[4945, 0, 255],
[5999, 0, 1255],
[6619, 0, 254],
[6629, 0, 255],
[7629, 0, 5],
[7699, 0, 1]])
# check that trig_shift_by_type works as well
raw = read_raw_brainvision_old(vhdr_path, eog=eog,
trig_shift_by_type={'response': 1000,
'Optic': 2000},
event_id=event_id)
events = raw._get_brainvision_events()
assert_array_equal(events, [[486, 0, 253],
[496, 0, 255],
[1769, 0, 254],
[1779, 0, 255],
[3252, 0, 254],
[3262, 0, 255],
[4935, 0, 253],
[4945, 0, 255],
[5999, 0, 1255],
[6619, 0, 254],
[6629, 0, 255],
[7629, 0, 5],
[7699, 0, 2001]])
# Check that we warn if a trigger is dropped
with pytest.warns(RuntimeWarning, match='will be dropped'):
raw = read_raw_brainvision_old(vhdr_path)
# check that events are read and stim channel is synthesized correctly and
# response triggers are ignored.
raw = read_raw_brainvision_old(vhdr_path, eog=eog, event_id=event_id,
trig_shift_by_type={'response': None})
events = raw._get_brainvision_events()
events = events[events[:, 2] != event_id['Sync On']]
assert_array_equal(events, [[486, 0, 253],
[496, 0, 255],
[1769, 0, 254],
[1779, 0, 255],
[3252, 0, 254],
[3262, 0, 255],
[4935, 0, 253],
[4945, 0, 255],
[6619, 0, 254],
[6629, 0, 255],
[7699, 0, 1]])
# Error handling of trig_shift_by_type
pytest.raises(TypeError, read_raw_brainvision_old, vhdr_path, eog=eog,
preload=True, trig_shift_by_type=1)
pytest.raises(TypeError, read_raw_brainvision_old, vhdr_path, eog=eog,
preload=True, trig_shift_by_type={'response': 0.1})
pytest.raises(TypeError, read_raw_brainvision_old, vhdr_path, eog=eog,
preload=True, trig_shift_by_type={'response': np.nan})
pytest.raises(ValueError, read_raw_brainvision_old, vhdr_path, eog=eog,
preload=True, trig_shift_by_type={'response': 1000,
'Response': 1001})
with pytest.warns(DeprecationWarning):
pytest.raises(ValueError, read_raw_brainvision_old, vhdr_path, eog=eog,
preload=True, trig_shift_by_type={'response': 1000},
response_trig_shift=1001)
# Check that events of type "Comment" are read if they contain square
# brackets (which usually signify a new section within a BrainVision file)
# If no event_id specified, skip the marker and continue as planned
with pytest.warns(RuntimeWarning, match='channel types to misc'):
raw = read_raw_brainvision_old(vhdr_v2_path)
events = raw._get_brainvision_events()
assert events.shape == (11, 3) # shape of events without comment
# with event_id specified, get that comment and assert it's there
tmp_event_id = {'comment using [square] brackets': 999}
with pytest.warns(RuntimeWarning, match='channel types to misc'):
raw = read_raw_brainvision_old(vhdr_v2_path, event_id=tmp_event_id)
events = raw._get_brainvision_events()
assert 999 in events[:, -1]
assert events.shape == (12, 3) # shape of events with comment
# check that events are read properly when event_id is specified for
# auxiliary events
raw = read_raw_brainvision_old(vhdr_path, eog=eog, preload=True,
trig_shift_by_type={'response': None},
event_id=event_id)
events = raw._get_brainvision_events()
expected_events = np.array([[486, 0, 253],
[496, 0, 255],
[1769, 0, 254],
[1779, 0, 255],
[3252, 0, 254],
[3262, 0, 255],
[4935, 0, 253],
[4945, 0, 255],
[6619, 0, 254],
[6629, 0, 255],
[7629, 0, 5],
[7699, 0, 1]])
assert_array_equal(events, expected_events)
# Test that both trig_shift_by_type and event_id can be set
read_raw_brainvision(vhdr_path, eog=eog, preload=False,
trig_shift_by_type={'response': 100},
event_id=event_id)
mne_events = find_events(raw, stim_channel='STI 014')
assert_array_equal(events[:, [0, 2]], mne_events[:, [0, 2]])
# modify events and check that stim channel is updated
index = events[:, 2] == 255
events = events[index]
raw._set_brainvision_events(events)
mne_events = find_events(raw, stim_channel='STI 014')
assert_array_equal(events[:, [0, 2]], mne_events[:, [0, 2]])
# remove events
nchan = raw.info['nchan']
ch_name = raw.info['chs'][-2]['ch_name']
events = np.empty((0, 3))
raw._set_brainvision_events(events)
assert_equal(raw.info['nchan'], nchan)
assert_equal(len(raw._data), nchan)
assert_equal(raw.info['chs'][-2]['ch_name'], ch_name)
assert_equal(len(find_events(raw, 'STI 014')), 0)
assert_allclose(raw[-1][0], 0.)
fname = op.join(tempdir, 'evt_raw.fif')
raw.save(fname)
# add events back in
events = [[10, 1, 2]]
raw._set_brainvision_events(events)
assert_equal(raw.info['nchan'], nchan)
assert_equal(len(raw._data), nchan)
assert_equal(raw.info['chs'][-1]['ch_name'], 'STI 014')
# degenerate
with pytest.raises(TypeError, match='stim_channel must be an instance of'):
read_raw_brainvision(vhdr_path, stim_channel='foo')
def test_brainvision_with_montage():
"""Test reading embedded montage information."""
with pytest.warns(RuntimeWarning, match='Omitted 3 annot'):
raw = read_raw_brainvision(vhdr_v2_path, eog=eog, misc=['ReRef'])
for i, d in enumerate(raw.info['dig'], 1):
assert_equal(d['coord_frame'], FIFF.FIFFV_COORD_HEAD)
assert_equal(d['ident'], i)
assert_equal(d['kind'], FIFF.FIFFV_POINT_EEG)
assert_equal(len(d['r']), 3)
raw_none = read_raw_brainvision(vhdr_v2_path, verbose='error')
for r, n in zip(raw.info['chs'], raw_none.info['chs']):
if r['kind'] != n['kind']:
assert_array_equal(r['loc'], n['loc'])
@testing.requires_testing_data
def test_brainvision_neuroone_export():
"""Test Brainvision file exported with neuroone system."""
raw = read_raw_brainvision(neuroone_vhdr, verbose='error')
assert raw.info['meas_date'] is None
assert len(raw.info['chs']) == 65
assert raw.info['sfreq'] == 5000.
@testing.requires_testing_data
def test_read_vmrk_annotations():
"""Test load brainvision annotations."""
sfreq = 1000.0
annotations = read_annotations(vmrk_path, sfreq=sfreq)
assert annotations.orig_time == 1384359243.794231
expected = np.array([0, 486., 496., 1769., 1779., 3252., 3262., 4935.,
4945., 5999., 6619., 6629., 7629., 7699.]) / sfreq
description = ['New Segment/',
'Stimulus/S253', 'Stimulus/S255', 'Stimulus/S254',
'Stimulus/S255', 'Stimulus/S254', 'Stimulus/S255',
'Stimulus/S253', 'Stimulus/S255', 'Response/R255',
'Stimulus/S254', 'Stimulus/S255',
'SyncStatus/Sync On', 'Optic/O 1']
assert_array_almost_equal(annotations.onset,
expected, decimal=7)
assert_array_equal(annotations.description, description)
# Test automatic detection of sfreq from header file
annotations_auto = read_annotations(vmrk_path)
assert_array_equal(annotations.onset, annotations_auto.onset)
def test_read_raw_brainvision_warn_on_marker_drop():
"""Test that loading test.vhdr warns a summary of each dropped type."""
EXPECTED_WARN_MSG = (r"1 event\(s\) will be dropped, such as "
r"\[\'SyncStatus\/Sync On\'\]. Consider using the "
r"event\_id parameter to parse events that do not "
r"follow the BrainVision format. For more "
r"information, see the docstring of "
r"read_raw_brainvision.")
with pytest.warns(RuntimeWarning, match=EXPECTED_WARN_MSG) as recwarn:
read_raw_brainvision_old(vhdr_path, verbose=True)
assert len(recwarn) == 1
run_tests_if_main()
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