def test_meas_date_convert(tmpdir):
"""Test conversions of meas_date to datetime objects."""
meas_date = (1346981585, 835782)
meas_datetime = _stamp_to_dt(meas_date)
meas_date2 = _dt_to_stamp(meas_datetime)
assert (meas_date == meas_date2)
assert (meas_datetime == datetime(2012,
9,
7,
1,
33,
5,
835782,
tzinfo=timezone.utc))
# test old dates for BIDS anonymization
meas_date = (-1533443343, 24382)
meas_datetime = _stamp_to_dt(meas_date)
meas_date2 = _dt_to_stamp(meas_datetime)
assert (meas_date == meas_date2)
assert (meas_datetime == datetime(1921,
5,
29,
19,
30,
57,
24382,
tzinfo=timezone.utc))
def test_meas_date_convert(stamp, dt):
"""Test conversions of meas_date to datetime objects."""
meas_datetime = _stamp_to_dt(stamp)
stamp2 = _dt_to_stamp(meas_datetime)
assert stamp == stamp2
assert meas_datetime == datetime(*dt, tzinfo=timezone.utc)
# smoke test for info __repr__
info = create_info(1, 1000., 'eeg')
info['meas_date'] = meas_datetime
assert str(dt[0]) in repr(info)
def test_meas_date_convert(tmpdir):
"""Test conversions of meas_date to datetime objects."""
meas_date = (1346981585, 835782)
meas_datetime = _stamp_to_dt(meas_date)
meas_date2 = _dt_to_stamp(meas_datetime)
assert (meas_date == meas_date2)
assert (meas_datetime == datetime(2012,
9,
7,
1,
33,
5,
835782,
tzinfo=timezone.utc))
def test_anonymize(tmpdir):
"""Test that sensitive information can be anonymized."""
pytest.raises(TypeError, anonymize_info, 'foo')
# Fake some subject data
raw = read_raw_fif(raw_fname)
raw.set_annotations(
Annotations(onset=[0, 1],
duration=[1, 1],
description='dummy',
orig_time=None))
first_samp = raw.first_samp
expected_onset = np.arange(2) + raw._first_time
assert raw.first_samp == first_samp
assert_allclose(raw.annotations.onset, expected_onset)
# Test instance method
events = read_events(event_name)
epochs = Epochs(raw, events[:1], 2, 0., 0.1, baseline=None)
_test_anonymize_info(raw.info.copy())
_test_anonymize_info(epochs.info.copy())
# test that annotations are correctly zeroed
raw.anonymize()
assert raw.first_samp == first_samp
assert_allclose(raw.annotations.onset, expected_onset)
assert raw.annotations.orig_time == raw.info['meas_date']
stamp = _dt_to_stamp(raw.info['meas_date'])
assert raw.annotations.orig_time == _stamp_to_dt(stamp)
raw.info['meas_date'] = None
with pytest.warns(RuntimeWarning, match='None'):
raw.anonymize()
assert raw.annotations.orig_time is None
assert raw.first_samp == first_samp
assert_allclose(raw.annotations.onset, expected_onset)
def test_anonymize(tmp_path):
"""Test that sensitive information can be anonymized."""
pytest.raises(TypeError, anonymize_info, 'foo')
# Fake some subject data
raw = read_raw_fif(raw_fname)
raw.set_annotations(
Annotations(onset=[0, 1],
duration=[1, 1],
description='dummy',
orig_time=None))
first_samp = raw.first_samp
expected_onset = np.arange(2) + raw._first_time
assert raw.first_samp == first_samp
assert_allclose(raw.annotations.onset, expected_onset)
# test mne.anonymize_info()
events = read_events(event_name)
epochs = Epochs(raw, events[:1], 2, 0., 0.1, baseline=None)
_test_anonymize_info(raw.info.copy())
_test_anonymize_info(epochs.info.copy())
# test instance methods & I/O roundtrip
for inst, keep_his in zip((raw, epochs), (True, False)):
inst = inst.copy()
subject_info = dict(his_id='Volunteer', sex=2, hand=1)
inst.info['subject_info'] = subject_info
inst.anonymize(keep_his=keep_his)
si = inst.info['subject_info']
if keep_his:
assert si == subject_info
else:
assert si['his_id'] == '0'
assert si['sex'] == 0
assert 'hand' not in si
# write to disk & read back
inst_type = 'raw' if isinstance(inst, BaseRaw) else 'epo'
fname = 'tmp_raw.fif' if inst_type == 'raw' else 'tmp_epo.fif'
out_path = tmp_path / fname
inst.save(out_path, overwrite=True)
if inst_type == 'raw':
read_raw_fif(out_path)
else:
read_epochs(out_path)
# test that annotations are correctly zeroed
raw.anonymize()
assert raw.first_samp == first_samp
assert_allclose(raw.annotations.onset, expected_onset)
assert raw.annotations.orig_time == raw.info['meas_date']
stamp = _dt_to_stamp(raw.info['meas_date'])
assert raw.annotations.orig_time == _stamp_to_dt(stamp)
with raw.info._unlock():
raw.info['meas_date'] = None
raw.anonymize(daysback=None)
with pytest.warns(RuntimeWarning, match='None'):
raw.anonymize(daysback=123)
assert raw.annotations.orig_time is None
assert raw.first_samp == first_samp
assert_allclose(raw.annotations.onset, expected_onset)
def _test_anonymize_info(base_info):
"""Test that sensitive information can be anonymized."""
pytest.raises(TypeError, anonymize_info, 'foo')
default_anon_dos = datetime(2000, 1, 1, 0, 0, 0, tzinfo=timezone.utc)
default_str = "mne_anonymize"
default_subject_id = 0
default_desc = ("Anonymized using a time shift" +
" to preserve age at acquisition")
# Test no error for incomplete info
info = base_info.copy()
info.pop('file_id')
anonymize_info(info)
# Fake some subject data
meas_date = datetime(2010, 1, 1, 0, 0, 0, tzinfo=timezone.utc)
base_info['meas_date'] = _dt_to_stamp(meas_date)
base_info['subject_info'] = dict(id=1,
his_id='foobar',
last_name='bar',
first_name='bar',
birthday=(1987, 4, 8),
sex=0,
hand=1)
# generate expected info...
# first expected result with no options.
# will move DOS from 2010/1/1 to 2000/1/1 which is 3653 days.
exp_info = base_info.copy()
exp_info['description'] = default_desc
exp_info['experimenter'] = default_str
exp_info['proj_name'] = default_str
exp_info['proj_id'][:] = 0
exp_info['subject_info']['first_name'] = default_str
exp_info['subject_info']['last_name'] = default_str
exp_info['subject_info']['id'] = default_subject_id
exp_info['subject_info']['his_id'] = str(default_subject_id)
# this bday is 3653 days different. the change in day is due to a
# different number of leap days between 1987 and 1977 than between
# 2010 and 2000.
exp_info['subject_info']['birthday'] = (1977, 4, 7)
exp_info['meas_date'] = _dt_to_stamp(default_anon_dos)
for key in ('file_id', 'meas_id'):
value = exp_info.get(key)
if value is not None:
assert 'msecs' not in value
value['secs'] = exp_info['meas_date'][0]
value['usecs'] = exp_info['meas_date'][1]
value['machid'][:] = 0
# exp 2 tests the keep_his option
exp_info_2 = exp_info.copy()
exp_info_2['subject_info']['his_id'] = 'foobar'
# exp 3 tests is a supplied daysback
dt = timedelta(days=43)
exp_info_3 = exp_info.copy()
exp_info_3['subject_info']['birthday'] = (1987, 2, 24)
exp_info_3['meas_date'] = _dt_to_stamp(meas_date - dt)
for key in ('file_id', 'meas_id'):
value = exp_info_3.get(key)
if value is not None:
assert 'msecs' not in value
value['secs'] = exp_info_3['meas_date'][0]
value['usecs'] = exp_info_3['meas_date'][1]
value['machid'][:] = 0
new_info = anonymize_info(base_info.copy())
assert_object_equal(new_info, exp_info)
new_info = anonymize_info(base_info.copy(), keep_his=True)
assert_object_equal(new_info, exp_info_2)
new_info = anonymize_info(base_info.copy(), daysback=dt.days)
assert_object_equal(new_info, exp_info_3)
