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# Authors: Eric Larson <larson.eric.d@gmail.com>
#
# License: Simplified BSD
import numpy as np
import os.path as op
import itertools
from distutils.version import LooseVersion
from numpy.testing import assert_allclose
import pytest
from mne import read_events, pick_types, Annotations
from mne.datasets import testing
from mne.io import read_raw_fif, read_raw_ctf
from mne.utils import run_tests_if_main
from mne.viz.utils import _fake_click, _annotation_radio_clicked, _sync_onset
from mne.viz import plot_raw, plot_sensors
# Set our plotters to test mode
import matplotlib
matplotlib.use('Agg') # for testing don't use X server
ctf_dir = op.join(testing.data_path(download=False), 'CTF')
ctf_fname_continuous = op.join(ctf_dir, 'testdata_ctf.ds')
base_dir = op.join(op.dirname(__file__), '..', '..', 'io', 'tests', 'data')
raw_fname = op.join(base_dir, 'test_raw.fif')
event_name = op.join(base_dir, 'test-eve.fif')
cov_fname = op.join(base_dir, 'test-cov.fif')
def _get_raw():
"""Get raw data."""
raw = read_raw_fif(raw_fname, preload=True)
# Throws a warning about a changed unit.
with pytest.warns(RuntimeWarning, match='unit'):
raw.set_channel_types({raw.ch_names[0]: 'ias'})
raw.pick_channels(raw.ch_names[:9])
raw.info.normalize_proj() # Fix projectors after subselection
return raw
def _get_events():
"""Get events."""
return read_events(event_name)
def _annotation_helper(raw, events=False):
"""Test interactive annotations."""
import matplotlib.pyplot as plt
# Some of our checks here require modern mpl to work properly
mpl_good_enough = LooseVersion(matplotlib.__version__) >= '2.0'
n_anns = len(raw.annotations)
plt.close('all')
if events:
events = np.array([[raw.first_samp + 100, 0, 1],
[raw.first_samp + 300, 0, 3]])
n_events = len(events)
else:
events = None
n_events = 0
fig = raw.plot(events=events)
assert len(plt.get_fignums()) == 1
data_ax = fig.axes[0]
with pytest.warns(None): # on old mpl we warns about no modifications
fig.canvas.key_press_event('a') # annotation mode
assert len(plt.get_fignums()) == 2
assert len(fig.axes[0].texts) == n_anns + n_events
# modify description
ann_fig = plt.gcf()
for key in ' test':
ann_fig.canvas.key_press_event(key)
with pytest.warns(None): # old mpl
ann_fig.canvas.key_press_event('enter')
ann_fig = plt.gcf()
# XXX: _fake_click raises an error on Agg backend
_annotation_radio_clicked('', ann_fig.radio, data_ax.selector)
# draw annotation
_fake_click(fig, data_ax, [1., 1.], xform='data', button=1, kind='press')
_fake_click(fig, data_ax, [5., 1.], xform='data', button=1, kind='motion')
_fake_click(fig, data_ax, [5., 1.], xform='data', button=1, kind='release')
assert len(raw.annotations.onset) == n_anns + 1
assert len(raw.annotations.duration) == n_anns + 1
assert len(raw.annotations.description) == n_anns + 1
assert raw.annotations.description[n_anns] == 'BAD_ test'
assert len(fig.axes[0].texts) == n_anns + 1 + n_events
onset = raw.annotations.onset[n_anns]
want_onset = _sync_onset(raw, 1., inverse=True)
assert_allclose(onset, want_onset)
assert_allclose(raw.annotations.duration[n_anns], 4.)
# hover event
_fake_click(fig, data_ax, [4.5, 1.], xform='data', button=None,
kind='motion')
_fake_click(fig, data_ax, [4.7, 1.], xform='data', button=None,
kind='motion')
# modify annotation from end
_fake_click(fig, data_ax, [5., 1.], xform='data', button=1, kind='press')
_fake_click(fig, data_ax, [2.5, 1.], xform='data', button=1, kind='motion')
_fake_click(fig, data_ax, [2.5, 1.], xform='data', button=1,
kind='release')
if mpl_good_enough:
assert raw.annotations.onset[n_anns] == onset
assert_allclose(raw.annotations.duration[n_anns], 1.5)
# modify annotation from beginning
_fake_click(fig, data_ax, [1., 1.], xform='data', button=1, kind='press')
_fake_click(fig, data_ax, [0.5, 1.], xform='data', button=1, kind='motion')
_fake_click(fig, data_ax, [0.5, 1.], xform='data', button=1,
kind='release')
if mpl_good_enough:
assert_allclose(raw.annotations.onset[n_anns], onset - 0.5, atol=1e-10)
assert_allclose(raw.annotations.duration[n_anns], 2.0)
assert len(raw.annotations.onset) == n_anns + 1
assert len(raw.annotations.duration) == n_anns + 1
assert len(raw.annotations.description) == n_anns + 1
assert raw.annotations.description[n_anns] == 'BAD_ test'
assert len(fig.axes[0].texts) == n_anns + 1 + n_events
fig.canvas.key_press_event('shift+right')
assert len(fig.axes[0].texts) == 0
fig.canvas.key_press_event('shift+left')
assert len(fig.axes[0].texts) == n_anns + 1 + n_events
# draw another annotation merging the two
_fake_click(fig, data_ax, [5.5, 1.], xform='data', button=1, kind='press')
_fake_click(fig, data_ax, [2., 1.], xform='data', button=1, kind='motion')
_fake_click(fig, data_ax, [2., 1.], xform='data', button=1, kind='release')
# delete the annotation
assert len(raw.annotations.onset) == n_anns + 1
assert len(raw.annotations.duration) == n_anns + 1
assert len(raw.annotations.description) == n_anns + 1
if mpl_good_enough:
assert_allclose(raw.annotations.onset[n_anns], onset - 0.5, atol=1e-10)
assert_allclose(raw.annotations.duration[n_anns], 5.0)
assert len(fig.axes[0].texts) == n_anns + 1 + n_events
# Delete
with pytest.warns(None): # old mpl
_fake_click(fig, data_ax, [1.5, 1.], xform='data', button=3,
kind='press')
fig.canvas.key_press_event('a') # exit annotation mode
assert len(raw.annotations.onset) == n_anns
assert len(fig.axes[0].texts) == n_anns + n_events
with pytest.warns(None): # old mpl
fig.canvas.key_press_event('shift+right')
assert len(fig.axes[0].texts) == 0
with pytest.warns(None): # old mpl
fig.canvas.key_press_event('shift+left')
assert len(fig.axes[0].texts) == n_anns + n_events
plt.close('all')
def test_plot_raw():
"""Test plotting of raw data."""
import matplotlib.pyplot as plt
raw = _get_raw()
raw.info['lowpass'] = 10. # allow heavy decim during plotting
events = _get_events()
plt.close('all') # ensure all are closed
fig = raw.plot(events=events, show_options=True, order=[1, 7, 3],
group_by='original')
# test mouse clicks
x = fig.get_axes()[0].lines[1].get_xdata().mean()
y = fig.get_axes()[0].lines[1].get_ydata().mean()
data_ax = fig.axes[0]
_fake_click(fig, data_ax, [x, y], xform='data') # mark a bad channel
_fake_click(fig, data_ax, [x, y], xform='data') # unmark a bad channel
_fake_click(fig, data_ax, [0.5, 0.999]) # click elsewhere in 1st axes
_fake_click(fig, data_ax, [-0.1, 0.9]) # click on y-label
_fake_click(fig, fig.get_axes()[1], [0.5, 0.5]) # change time
_fake_click(fig, fig.get_axes()[2], [0.5, 0.5]) # change channels
_fake_click(fig, fig.get_axes()[3], [0.5, 0.5]) # open SSP window
fig.canvas.button_press_event(1, 1, 1) # outside any axes
fig.canvas.scroll_event(0.5, 0.5, -0.5) # scroll down
fig.canvas.scroll_event(0.5, 0.5, 0.5) # scroll up
# sadly these fail when no renderer is used (i.e., when using Agg):
# ssp_fig = set(plt.get_fignums()) - set([fig.number])
# assert_equal(len(ssp_fig), 1)
# ssp_fig = plt.figure(list(ssp_fig)[0])
# ax = ssp_fig.get_axes()[0] # only one axis is used
# t = [c for c in ax.get_children() if isinstance(c,
# matplotlib.text.Text)]
# pos = np.array(t[0].get_position()) + 0.01
# _fake_click(ssp_fig, ssp_fig.get_axes()[0], pos, xform='data') # off
# _fake_click(ssp_fig, ssp_fig.get_axes()[0], pos, xform='data') # on
# test keypresses
for key in ['down', 'up', 'right', 'left', 'o', '-', '+', '=',
'pageup', 'pagedown', 'home', 'end', '?', 'f11', 'escape']:
fig.canvas.key_press_event(key)
fig = plot_raw(raw, events=events, group_by='selection')
for key in ['b', 'down', 'up', 'right', 'left', 'o', '-', '+', '=',
'pageup', 'pagedown', 'home', 'end', '?', 'f11', 'b',
'escape']:
fig.canvas.key_press_event(key)
# Color setting
pytest.raises(KeyError, raw.plot, event_color={0: 'r'})
pytest.raises(TypeError, raw.plot, event_color={'foo': 'r'})
annot = Annotations([10, 10 + raw.first_samp / raw.info['sfreq']],
[10, 10], ['test', 'test'], raw.info['meas_date'])
with pytest.warns(RuntimeWarning, match='outside data range'):
raw.set_annotations(annot)
fig = plot_raw(raw, events=events, event_color={-1: 'r', 998: 'b'})
plt.close('all')
for group_by, order in zip(['position', 'selection'],
[np.arange(len(raw.ch_names))[::-3],
[1, 2, 4, 6]]):
with pytest.warns(None): # sometimes projection
fig = raw.plot(group_by=group_by, order=order)
x = fig.get_axes()[0].lines[1].get_xdata()[10]
y = fig.get_axes()[0].lines[1].get_ydata()[10]
_fake_click(fig, data_ax, [x, y], xform='data') # mark bad
fig.canvas.key_press_event('down') # change selection
_fake_click(fig, fig.get_axes()[2], [0.5, 0.5]) # change channels
sel_fig = plt.figure(1)
topo_ax = sel_fig.axes[1]
_fake_click(sel_fig, topo_ax, [-0.425, 0.20223853],
xform='data')
fig.canvas.key_press_event('down')
fig.canvas.key_press_event('up')
fig.canvas.scroll_event(0.5, 0.5, -1) # scroll down
fig.canvas.scroll_event(0.5, 0.5, 1) # scroll up
_fake_click(sel_fig, topo_ax, [-0.5, 0.], xform='data')
_fake_click(sel_fig, topo_ax, [0.5, 0.], xform='data',
kind='motion')
_fake_click(sel_fig, topo_ax, [0.5, 0.5], xform='data',
kind='motion')
_fake_click(sel_fig, topo_ax, [-0.5, 0.5], xform='data',
kind='release')
plt.close('all')
# test if meas_date has only one element
raw.info['meas_date'] = (raw.info['meas_date'][0], 0)
annot = Annotations([1 + raw.first_samp / raw.info['sfreq']],
[5], ['bad'])
with pytest.warns(RuntimeWarning, match='outside data range'):
raw.set_annotations(annot)
with pytest.warns(None): # sometimes projection
raw.plot(group_by='position', order=np.arange(8))
for fig_num in plt.get_fignums():
fig = plt.figure(fig_num)
if hasattr(fig, 'radio'): # Get access to selection fig.
break
for key in ['down', 'up', 'escape']:
fig.canvas.key_press_event(key)
plt.close('all')
@testing.requires_testing_data
def test_plot_raw_white():
"""Test plotting whitened raw data."""
import matplotlib.pyplot as plt
raw = read_raw_fif(raw_fname).crop(0, 1).load_data()
raw.plot(noise_cov=cov_fname)
plt.close('all')
@testing.requires_testing_data
def test_plot_ref_meg():
"""Test plotting ref_meg."""
import matplotlib.pyplot as plt
raw_ctf = read_raw_ctf(ctf_fname_continuous).crop(0, 1).load_data()
raw_ctf.plot()
plt.close('all')
pytest.raises(ValueError, raw_ctf.plot, group_by='selection')
def test_plot_annotations():
"""Test annotation mode of the plotter."""
raw = _get_raw()
raw.info['lowpass'] = 10.
_annotation_helper(raw)
_annotation_helper(raw, events=True)
annot = Annotations([42], [1], 'test', raw.info['meas_date'])
with pytest.warns(RuntimeWarning, match='expanding outside'):
raw.set_annotations(annot)
_annotation_helper(raw)
def test_plot_raw_filtered():
"""Test filtering of raw plots."""
raw = _get_raw()
pytest.raises(ValueError, raw.plot, lowpass=raw.info['sfreq'] / 2.)
pytest.raises(ValueError, raw.plot, highpass=0)
pytest.raises(ValueError, raw.plot, lowpass=1, highpass=1)
pytest.raises(ValueError, raw.plot, lowpass=1, filtorder=0)
pytest.raises(ValueError, raw.plot, clipping='foo')
raw.plot(lowpass=1, clipping='transparent')
raw.plot(highpass=1, clipping='clamp')
raw.plot(highpass=1, lowpass=2, butterfly=True)
def test_plot_raw_psd():
"""Test plotting of raw psds."""
import matplotlib.pyplot as plt
raw = _get_raw()
# normal mode
raw.plot_psd(average=False)
# specific mode
picks = pick_types(raw.info, meg='mag', eeg=False)[:4]
raw.plot_psd(tmax=np.inf, picks=picks, area_mode='range', average=False,
spatial_colors=True)
raw.plot_psd(tmax=20., color='yellow', dB=False, line_alpha=0.4,
n_overlap=0.1, average=False)
plt.close('all')
ax = plt.axes()
# if ax is supplied:
pytest.raises(ValueError, raw.plot_psd, ax=ax, average=True)
pytest.raises(ValueError, raw.plot_psd, average=True, spatial_colors=True)
raw.plot_psd(tmax=np.inf, picks=picks, ax=ax, average=True)
plt.close('all')
ax = plt.axes()
pytest.raises(ValueError, raw.plot_psd, ax=ax, average=True)
plt.close('all')
ax = plt.subplots(2)[1]
raw.plot_psd(tmax=np.inf, ax=ax, average=True)
plt.close('all')
# topo psd
ax = plt.subplot()
raw.plot_psd_topo(axes=ax)
plt.close('all')
# with channel information not available
for idx in range(len(raw.info['chs'])):
raw.info['chs'][idx]['loc'] = np.zeros(12)
with pytest.warns(RuntimeWarning, match='locations not available'):
raw.plot_psd(spatial_colors=True, average=False)
# with a flat channel
raw[5, :] = 0
for dB, estimate in itertools.product((True, False),
('power', 'amplitude')):
with pytest.warns(UserWarning, match='[Infinite|Zero]'):
raw.plot_psd(average=True, dB=dB, estimate=estimate)
# test reject_by_annotation
raw = _get_raw()
raw.set_annotations(Annotations([1, 5], [3, 3], ['test', 'test']))
raw.plot_psd(reject_by_annotation=True)
raw.plot_psd(reject_by_annotation=False)
# gh-5046
raw = read_raw_fif(raw_fname, preload=True).crop(0, 1)
picks = pick_types(raw.info)
raw.plot_psd(picks=picks, average=False)
raw.plot_psd(picks=picks, average=True)
plt.close('all')
def test_plot_sensors():
"""Test plotting of sensor array."""
import matplotlib.pyplot as plt
raw = _get_raw()
fig = raw.plot_sensors('3d')
_fake_click(fig, fig.gca(), (-0.08, 0.67))
raw.plot_sensors('topomap', ch_type='mag',
show_names=['MEG 0111', 'MEG 0131'])
plt.close('all')
ax = plt.subplot(111)
raw.plot_sensors(ch_groups='position', axes=ax)
raw.plot_sensors(ch_groups='selection', to_sphere=False)
raw.plot_sensors(ch_groups=[[0, 1, 2], [3, 4]])
pytest.raises(ValueError, raw.plot_sensors, ch_groups='asd')
pytest.raises(TypeError, plot_sensors, raw) # needs to be info
pytest.raises(ValueError, plot_sensors, raw.info, kind='sasaasd')
plt.close('all')
fig, sels = raw.plot_sensors('select', show_names=True)
ax = fig.axes[0]
# Click with no sensors
_fake_click(fig, ax, (0., 0.), xform='data')
_fake_click(fig, ax, (0, 0.), xform='data', kind='release')
assert len(fig.lasso.selection) == 0
# Lasso with 1 sensor
_fake_click(fig, ax, (-0.5, 0.5), xform='data')
plt.draw()
_fake_click(fig, ax, (0., 0.5), xform='data', kind='motion')
_fake_click(fig, ax, (0., 0.), xform='data', kind='motion')
fig.canvas.key_press_event('control')
_fake_click(fig, ax, (-0.5, 0.), xform='data', kind='release')
assert len(fig.lasso.selection) == 1
_fake_click(fig, ax, (-0.09, -0.43), xform='data') # single selection
assert len(fig.lasso.selection) == 2
_fake_click(fig, ax, (-0.09, -0.43), xform='data') # deselect
assert len(fig.lasso.selection) == 1
plt.close('all')
run_tests_if_main()
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