def segment(zstat_data):
"""
Segment a zstats img.
"""
seg_marker, seg_input, seg_result = bpsegment.watershed(zstat_data, 0, 2.3)
return seg_marker, seg_result
def _watershed(self):
sigma = self.sigma_edit.text()
thresh = self.thresh_edit.text()
sfx = self.sfx_edit.currentText()
out = self.out_edit.text()
if not sigma:
self.sigma_edit.setFocus()
return
if not thresh:
self.thresh_edit.setFocus()
return
if not sfx:
self.sfx_edit.setFocus()
return
if not out:
self.out_edit.setFocus()
return
try:
sigma = float(sigma)
except ValueError:
self.sigma_edit.selectAll()
return
try:
thresh = float(thresh)
except ValueError:
self.thresh_edit.selectAll()
return
try:
sfx = str(sfx)
except ValueError:
self.sfx_edit.setFocus()
return
try:
out = str(out)
except ValueError:
self.out_edit.setFocus()
return
vol_row = self.vol_combo.currentIndex()
seed_row = self.seed_combo.currentIndex()
vol_data = self._model.data(self._model.index(vol_row),
Qt.UserRole + 6)
if seed_row < self._model.rowCount():
seed_data = self._model.data(self._model.index(seed_row),
Qt.UserRole + 6)
else:
seed_data = None
if sfx == 'Inverse':
sfx = segment.inverse_transformation
elif sfx == 'Gradient':
sfx = segment.gradient_transformation
elif sfx == 'Distance':
sfx = segment.distance_transformation
else:
raise ValueError, "Unkown segmentation fucntion"
new_vol = segment.watershed(vol_data, sigma, thresh, seed_data, sfx)
self._model.addItem(new_vol[2], None, out,
self._model._data[0].get_header(), None, None, 255,
'rainbow')
#self._main_win.new_image_action()
self.done(0)
def _watershed(self):
sigma = self.sigma_edit.text()
thresh = self.thresh_edit.text()
sfx = self.sfx_edit.currentText()
out = self.out_edit.text()
if not sigma:
self.sigma_edit.setFocus()
return
if not thresh:
self.thresh_edit.setFocus()
return
if not sfx:
self.sfx_edit.setFocus()
return
if not out:
self.out_edit.setFocus()
return
try:
sigma = float(sigma)
except ValueError:
self.sigma_edit.selectAll()
return
try:
thresh = float(thresh)
except ValueError:
self.thresh_edit.selectAll()
return
try:
sfx = str(sfx)
except ValueError:
self.sfx_edit.setFocus()
return
try:
out = str(out)
except ValueError:
self.out_edit.setFocus()
return
vol_row = self.vol_combo.currentIndex()
seed_row = self.seed_combo.currentIndex()
vol_data = self._model.data(self._model.index(vol_row),
Qt.UserRole + 6)
if seed_row < self._model.rowCount():
seed_data = self._model.data(self._model.index(seed_row),
Qt.UserRole + 6)
else:
seed_data = None
if sfx == 'Inverse':
sfx = segment.inverse_transformation
elif sfx == 'Gradient':
sfx = segment.gradient_transformation
elif sfx == 'Distance':
sfx = segment.distance_transformation
else:
raise ValueError, "Unkown segmentation fucntion"
new_vol = segment.watershed(vol_data, sigma, thresh, seed_data, sfx)
self._model.addItem(new_vol[2],
None,
out,
self._model._data[0].get_header(),
None, None, 255, 'rainbow')
#self._main_win.new_image_action()
self.done(0)