def make_viewer():
source_sig, source_filtered_sig = make_sig_sources()
#source_spike = make_spike_source()
win = MainViewer(debug=False, show_global_xsize=True, show_auto_scale=True)
view1 = TraceViewer(source=source_sig, name='trace')
view1.params['scale_mode'] = 'same_for_all'
view1.auto_scale()
view2 = TraceViewer(source=source_filtered_sig, name='trace filtred')
view2.params['scale_mode'] = 'same_for_all'
view2.auto_scale()
view3 = TimeFreqViewer(source=source_sig, name='tfr')
view3.params['show_axis'] = False
view3.params['timefreq', 'deltafreq'] = 1
#~ view3.by_channel_params['ch3', 'visible'] = True
#view4 = SpikeTrainViewer(source=source_spike)
win.add_view(view1)
win.add_view(view2, tabify_with='trace')
win.add_view(view3)
#win.add_view(view4)
return win
def test_mne_raw_source():
#reader = neo.MicromedIO(filename='File_micromed_1.TRC')
vhdr_fname = 'small_BrainAmp.vhdr'
raw = mne.io.read_raw_brainvision(
vhdr_fname,
montage='standard_1020',
eog=['EOG'],
preload=True,
)
# raw.set_montage
#~ raw = raw.crop(0, 10)
source = MneRawSource(raw)
#you must first create a main Qt application (for event loop)
app = mkQApp()
win = MainViewer(show_auto_scale=True)
view1 = TraceViewer(source=source, name='sigs')
win.add_view(view1)
#show main window and run Qapp
win.show()
app.exec_()
def test_open_topo_viewer():
#~ reader = neo.MicromedIO(filename='File_micromed_1.TRC')
#~ seg = reader.read_segment()
#~ n_chan = seg.analogsignals[0].shape[1]
#~ channel_positions = np.random.randn(n_chan, 2)
#~ source = NeoAnalogSignalSource(seg.analogsignals[0])
montage_name = 'standard_1020'
vhdr_fname = 'small_BrainAmp.vhdr'
raw = mne.io.read_raw_brainvision(vhdr_fname,
montage=montage_name,
eog=['EOG'],
preload=True)
raw = raw.pick('eeg')
source = MneRawSource(raw)
#~ montage = mne.channels.make_standard_montage('standard_1020')
#~ print(montage)
#~ pos = np.array(list(montage._get_ch_pos().values()))
#~ print(pos)
#~ n_chan = len(raw.info['ch_names'])
#~ channel_positions = np.random.randn(n_chan, 2)
channel_positions = _find_topomap_coords(raw.info, None)
#you must first create a main Qt application (for event loop)
app = mkQApp()
win = MainViewer(show_auto_scale=True)
view1 = TraceViewer(source=source, name='sigs')
win.add_view(view1)
view3 = TopoEegViewer(source=source,
name='topo',
channel_positions=channel_positions)
win.add_view(view3)
#show main window and run Qapp
win.show()
app.exec_()
#you must first create a main Qt application (for event loop) app = mkQApp() #create fake 16 signals with 100000 at 10kHz sigs = np.random.rand(100000,16) sample_rate = 1000. t_start = 0. #Create the main window that can contain several viewers win = MainViewer(debug=True, show_auto_scale=True) #Create a datasource for the viewer # here we use InMemoryAnalogSignalSource but # you can alose use your custum datasource by inheritance source = InMemoryAnalogSignalSource(sigs, sample_rate, t_start) #create a viewer for signal with TraceViewer # TraceViewer normally accept a AnalogSignalSource but # TraceViewer.from_numpy is facitilty function to bypass that view1 = TraceViewer(source=source) #put this veiwer in the main window win.add_view(view1) #show main window and run Qapp win.show() app.exec_()
# here we generate a segment with several objects
# (this is a bad example because it mimics old neo behavior for signals (one channel=one object))
neo_seg = generate_one_simple_segment(supported_objects=[
neo.Segment, neo.AnalogSignal, neo.Event, neo.Epoch, neo.SpikeTrain
])
# the global QT app
app = mkQApp()
##############################
# case 1 : create viewers one at a time directly from neo objects in memory
win = MainViewer(show_auto_scale=True)
# from one neo.AnalogSignal
view1 = TraceViewer.from_neo_analogsignal(neo_seg.analogsignals[0], 'sigs')
win.add_view(view1)
# from several neo.SpikeTrains (3 spiketrains here)
view2 = SpikeTrainViewer.from_neo_spiketrains(neo_seg.spiketrains[0:3],
'spikes')
win.add_view(view2)
# from several neo.Epoch
view3 = EpochViewer.from_neo_epochs(neo_seg.epochs, 'epochs')
win.add_view(view3)
# from several neo.Event
view4 = EventList.from_neo_events(neo_seg.events, 'events')
win.add_view(view4, location='bottom', orientation='horizontal')
duration = 10. times = np.arange(0, duration, 1. / sample_rate, dtype='float64') sigs = np.random.rand(times.size, 1) t_start = 0. instantaneous_freqs = np.linspace(500, 3000, times.size) instantaneous_phase = np.cumsum(instantaneous_freqs / sample_rate) * 2 * np.pi sigs[:, 0] += np.sin(instantaneous_phase) #Create the main window that can contain several viewers win = MainViewer(debug=True, show_auto_scale=True) #Create a signal source for the viewer source = InMemoryAnalogSignalSource(sigs, sample_rate, t_start) #create a viewer for signal with TraceViewer view1 = TraceViewer(source=source, name='trace') view1.params['scale_mode'] = 'same_for_all' view1.params['xsize'] = 5. view1.auto_scale() #create a SpectrogramViewer on the same source view2 = SpectrogramViewer(source=source, name='spectrogram') view2.params['xsize'] = 5. view2.params['colormap'] = 'inferno' view2.params['scalogram', 'binsize'] = .1 view2.params['scalogram', 'scale'] = 'dB' view2.params['scalogram', 'scaling'] = 'spectrum' #add them to mainwindow win.add_view(view1)
#you must first create a main Qt application (for event loop) app = mkQApp() #create fake 16 signals with 100000 at 10kHz sigs = np.random.rand(100000,16) sample_rate = 1000. t_start = 0. #Create the main window that can contain several viewers win = MainViewer(debug=True, show_auto_scale=True) #create a viewer for signal with TraceViewer # TraceViewer normally accept a AnalogSignalSource but # TraceViewer.from_numpy is facitilty function to bypass that view1 = TraceViewer.from_numpy(sigs, sample_rate, t_start, 'Signals') #Parameters can be set in script view1.params['scale_mode'] = 'same_for_all' view1.params['display_labels'] = True #And also parameters for each channel view1.by_channel_params['ch0', 'visible'] = False view1.by_channel_params['ch15', 'color'] = '#FF00AA' #This is needed when scale_mode='same_for_all' #to recompute the gain #this avoid to push auto_scale button view1.auto_scale() #put this veiwer in the main window
#detect some crossing zeros
s0 = signals[:-2, 0]
s1 = signals[1:-1,0]
s2 = signals[2:,0]
peaks0, = np.nonzero((s0<s1) & (s2<s1))
peaks1, = np.nonzero((s0>s1) & (s2>s1))
#create 2 familly scatters from theses 2 indexes
scatter_indexes = {0: peaks0, 1: peaks1}
#and asign them to some channels each
scatter_channels = {0: [0, 5, 8], 1: [0, 5, 10]}
source = AnalogSignalSourceWithScatter(signals, sample_rate, t_start, scatter_indexes, scatter_channels)
#Create the main window that can contain several viewers
win = MainViewer(debug=True, show_auto_scale=True)
#create a viewer for signal with TraceViewer
#connected to the signal source
view1 = TraceViewer(source=source)
view1.params['scale_mode'] = 'same_for_all'
view1.auto_scale()
#put this veiwer in the main window
win.add_view(view1)
#show main window and run Qapp
win.show()
app.exec_()