def create_thumbnails(label_session: LabelSession):
dataset = backend.get_dataset(label_session.dataset)
slices = sampling.get_slices_from_session(label_session)
session_thumbs_dir_path = get_session_thumbnails_dir_path(label_session)
os.makedirs(session_thumbs_dir_path, exist_ok=True)
for sl in slices:
d_img = backend.get_image(dataset, sl.image_name)
slice_thumb_path = os.path.join(session_thumbs_dir_path,
backend.slice_name(sl) + '.jpg')
backend.get_slice(d_img, sl.slice_index, sl.slice_type, 0,
None).save(slice_thumb_path)
print('Created {} thumbnails for session {}'.format(
len(slices), label_session.session_name))
def export_slices(session_id: int):
with application.app_context():
label_session = sessions.get_session_by_id(db.session, session_id)
if label_session is None:
print('Session with id {} not found'.format(session_id))
return
session_slices_dir_path = os.path.join(
EXPORTED_SLICES_DIR_PATH, label_session.session_name + ' Slices')
session_slices_dir_path = inc_dir_name(session_slices_dir_path)
os.makedirs(session_slices_dir_path, exist_ok=True)
slices = sampling.get_slices_from_session(label_session)
dataset = backend.get_dataset(label_session.dataset)
for sl in slices:
d_img = backend.get_image(dataset, sl.image_name)
sl_max = backend.get_image_info(d_img)[1]
sl_img = backend.get_slice(d_img, sl.slice_index, sl.slice_type, 0,
sl_max)
save_name = '{}_{}_{}.png'.format(sl.image_name,
sl.slice_type.name,
sl.slice_index)
save_path = os.path.join(session_slices_dir_path, save_name)
sl_img.save(save_path)
print('Saved {}'.format(save_path))
def thumbnail(dataset_name: str, image_name: str):
dataset = backend.get_dataset(dataset_name)
d_img = backend.get_image(dataset, image_name)
slice_index = request.args.get('slice_index', default=0, type=int)
slice_type_name = request.args.get('slice_type', default='AXIAL', type=str)
intensity_min = request.args.get('min', default=0, type=int)
intensity_max = request.args.get('max', default=0, type=int)
slice_type = backend.SliceType[slice_type_name]
slice_image = backend.get_slice(d_img, slice_index, slice_type, intensity_min, intensity_max)
img_io = BytesIO()
slice_image.save(img_io, 'PNG')
img_io.seek(0)
return send_file(img_io, mimetype='image/png')
def create_thumbnails(label_session: LabelSession):
dataset = backend.get_dataset(label_session.dataset)
slices = sampling.get_slices_from_session(label_session)
dataset_thumbs_path = get_dataset_thumbnails_path(dataset)
os.makedirs(dataset_thumbs_path, exist_ok=True)
created = 0
for sl in slices:
d_img = backend.get_image(dataset, sl.image_name)
slice_thumb_path = os.path.join(dataset_thumbs_path,
get_thumbnail_name(sl))
if not os.path.exists(slice_thumb_path):
img = backend.get_slice(d_img, sl.slice_index, sl.slice_type, 0,
None, THUMB_MAX_PERCENTILE)
img.save(slice_thumb_path)
created += 1
print('Created {} thumbnails for session {} (skipped {}, total {})'.format(
created, label_session.session_name,
len(slices) - created, len(slices)))