def coronal_slice_all( grids, grid_types, subjects_dir=None, subject=None,
dpi=150, size=(200, 200) ):
'''
takes a dictionary with grid assignments and creates a pdf with
the coronal slices for these grids
'''
pdf_file = ask_user_for_savefile('save pdf file with coronal slice images')
if pdf_file is None:
return
from matplotlib.backends.backend_pdf import PdfPages
with PdfPages(pdf_file) as pdf:
for grid in grids:
if grid_types[grid] != 'depth':
continue
electrodes = grids[grid]
if len(electrodes) == 0:
continue
fig = coronal_slice_grid( electrodes, title=grid,
subjects_dir=subjects_dir, subject=subject,
dpi=dpi, size=size )
pdf.savefig(fig)
def do_coronal_slice(self, info):
savefile = ask_user_for_savefile('save png file with slice image')
from electrode_group import coronal_slice_grid
coronal_slice_grid(self.electrodes, savefile=savefile,
subjects_dir=self.model.subjects_dir, subject=self.model.subject,
dpi=self.model.coronal_dpi,
size=tuple(self.model.coronal_size),
title=self.name_stem)
def save_coordinates( electrodes, grid_types, snapping_completed=False,
file_type='csv'):
savefile = ask_user_for_savefile(title='save %s file'%file_type)
if savefile is None:
return
if file_type == 'csv':
save_file_continuation = _save_csv_file
elif file_type == 'montage':
save_file_continuation = _save_montage_file
save_file_continuation(savefile, electrodes, grid_types,
snapping_completed=snapping_completed)
