diff --git a/aliby/experiment.py b/aliby/experiment.py index 451a8d0621935172f292de50408b6305ca280421..6dcc953dc02f610366bce2d8902b5c9b97a45661 100644 --- a/aliby/experiment.py +++ b/aliby/experiment.py @@ -114,11 +114,15 @@ class MetaData: metadata_dict = self.load_logs() self.metadata_writer.write(path="/", meta=metadata_dict, overwrite=False) - def add_omero_id(self, omero_id): + def add_field(self, field_name, field_value): self.metadata_writer.write( - path="/", meta={"omero_id": omero_id}, overwrite=False + path="/", meta={field_name: field_value}, overwrite=False ) + def add_fields(self, fields_values: dict): + for field, value in field_values.items(): + self.add_field(field, value) + ########################### Old Objects #################################### diff --git a/aliby/pipeline.py b/aliby/pipeline.py index f572dc4e73b4bc38fa412b67bf40c8c04fd4d246..b6dabd6c0521c2cb562b353e1fb65f0da2a78cfd 100644 --- a/aliby/pipeline.py +++ b/aliby/pipeline.py @@ -196,7 +196,9 @@ class Pipeline(ProcessABC): # if True: # not Path(filename).exists(): meta = MetaData(directory, filename) meta.run() - meta.add_omero_id(config["general"]["id"]) + meta.add_fields( + {"omero_id,": config["general"]["id"], "image_id": image_id} + ) tiler = Tiler.from_image( image, TilerParameters.from_dict(config["tiler"]) ) diff --git a/aliby/tile/tiler.py b/aliby/tile/tiler.py index a0e795accd405b3dc3f99cffb721146917539e3e..cd5b91a8b1ffdae161e64fb00fa42e618741cc26 100644 --- a/aliby/tile/tiler.py +++ b/aliby/tile/tiler.py @@ -142,7 +142,7 @@ class TilerParameters(ParametersABC): @classmethod def default(cls): - return cls(96, "Brightfield", 0) + return cls(117, "Brightfield", 0) class Tiler(ProcessABC):