External Email - Use Caution
Dear group,
I would like to know whether it is possible to append a new figure to an
offline html report that generated by mne_report.
For example, say we have a report_raw_to_first_phase.html (e.g., html) .
Then, in other run, I would like to append a new figure (e.g., Fig1) to the
report_raw_to_first_phase.html and save a new html file.
I am thinking of something lime rep.ANY_FUNCTION_APPEND_FIG1(html_old ,Fig1
) as shown in the function second_run() below.
import mne
from mne.datasets import sample
from mne.report import Report
data_path = sample.data_path()
raw_fname = data_path + '/MEG/sample/sample_audvis_raw.fif'
raw = mne.io.read_raw_fif(raw_fname, preload=True)
def first_run():
raw1 = raw.copy().crop(0, 20)
raw1.save(data_path + '/MEG/sample/sub-01_raw.fif', overwrite=True)
event_id = {'Auditory/Left': 3, 'Auditory/Right': 4}
def raw_to_evoked(raw_fname, tmin=-0.1, tmax=0.5):
raw = mne.io.read_raw_fif(data_path + '/MEG/sample/' + raw_fname,
preload=True)
raw.filter(0, 40.)
events = mne.find_events(raw, stim_channel='STI 014')
epochs = mne.Epochs(raw, events, event_id, tmin, tmax)
fig2 = epochs.plot();
evoked_l = epochs['Left'].average();
fig3 = evoked_l.plot_topomap()
fig4 = evoked_l.plot();
return [fig2, fig3, fig4]
rep = Report()
rep.add_figs_to_section(raw_to_evoked('sub-01_raw.fif'),
captions=['Epochs', 'Topomap', 'Butterfly'])
rep.save('report_raw_to_first_phase.html')
def second_run():
fig1 = raw.plot();
html_old = open('report_raw_to_first_phase.html')
rep = Report()
rep.ANY_FUNCTION_APPEND_FIG1(html_old ,Fig1 )
rep.save('report_raw_to_second_run.html')
first_run()
second_run()
If this is not possible, what is the best advice to generate a
pre_processing report given that I would like to monitor the quality of the
pre_processing at each step.
Regards
Rodney
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