diff --git a/aliby/baby_client.py b/aliby/baby_client.py index f7b9c9788be5fe31eb0793781f9f0b7bf893cffe..f6ff623eb103d2816b5571e3dda0ad5437f492b6 100644 --- a/aliby/baby_client.py +++ b/aliby/baby_client.py @@ -142,7 +142,11 @@ class BabyRunner: def get_data(self, tp): # Swap axes x and z, probably shouldn't swap, just move z - return self.tiler.get_tp_data(tp, self.bf_channel).swapaxes(1, 3).swapaxes(1, 2) + return ( + self.tiler.get_tp_data(tp, self.bf_channel) + .swapaxes(1, 3) + .swapaxes(1, 2) + ) def run_tp(self, tp, with_edgemasks=True, assign_mothers=True, **kwargs): """Simulating processing time with sleep""" @@ -152,7 +156,10 @@ class BabyRunner: logging.debug(f"Timing:BF_fetch:{perf_counter()-t}s") t = perf_counter() segmentation = self.crawler.step( - img, with_edgemasks=with_edgemasks, assign_mothers=assign_mothers, **kwargs + img, + with_edgemasks=with_edgemasks, + assign_mothers=assign_mothers, + **kwargs, ) logging.debug(f"Timing:crawler_step:{perf_counter()-t}s") return format_segmentation(segmentation, tp) @@ -240,8 +247,6 @@ def choose_model_from_params( Parameters ---------- - valid_models: List[str] - The names of the models that are available. modelset_filter: str A regex filter to apply on the models to start. camera: str @@ -273,6 +278,8 @@ def choose_model_from_params( valid_models = list(filter(params_re.search, valid_models)) # Check that there are valid models if len(valid_models) == 0: - raise KeyError("No model sets found matching {}".format(", ".join(params))) + raise KeyError( + "No model sets found matching {}".format(", ".join(params)) + ) # Pick the first model return valid_models[0]