Complete table renaming in cosmx and vizgen loaders (#92)

Author: LouisK92

src/datasets/loaders/bruker_cosmx/script.py

@@ -252,11 +252,11 @@
 ##############################
 # Add info to metadata table #
 ##############################
-print(datetime.now() - t0, "Add info to metadata table", flush=True)
+print(datetime.now() - t0, "Add metadata to table", flush=True)
 
 #TODO: values as input variables
 for key in ["dataset_id", "dataset_name", "dataset_url", "dataset_reference", "dataset_summary", "dataset_description", "dataset_organism", "segmentation_id"]:
-    sdata["metadata"].uns[key] = par[key]
+    sdata["table"].uns[key] = par[key]
 
 #########
 # Write #

src/datasets/loaders/bruker_cosmx_nsclc/script.py

@@ -195,11 +195,11 @@ def fixed_get_morphology_coords(images_dir: Path) -> list[str]:
 ##############################
 # Add info to metadata table #
 ##############################
-print(datetime.now() - t0, "Add info to metadata table", flush=True)
+print(datetime.now() - t0, "Add metadata to table", flush=True)
 
 #TODO: values as input variables
 for key in ["dataset_id", "dataset_name", "dataset_url", "dataset_reference", "dataset_summary", "dataset_description", "dataset_organism", "segmentation_id"]:
-    sdata["metadata"].uns[key] = par[key]
+    sdata["table"].uns[key] = par[key]
 
 #########
 # Write #

src/datasets/loaders/vizgen_merscope/script.py

@@ -273,7 +273,7 @@ def read_boundary_hdf5(folder):
 ##############################
 # Add info to metadata table #
 ##############################
-print(datetime.now() - t0, "Add info to metadata table", flush=True)
+print(datetime.now() - t0, "Add metadata to table", flush=True)
 
 # TODO: values as input variables
 for key in [
@@ -286,7 +286,7 @@ def read_boundary_hdf5(folder):
     "dataset_organism",
     "segmentation_id",
 ]:
-    sdata["metadata"].uns[key] = par[key]
+    sdata["table"].uns[key] = par[key]
 
 print(datetime.now() - t0, "Metadata updated", flush=True)