Added 'number_of_members' as a parameter to register for a series

Author: tieneupin

src/murfey/util/db.py

@@ -269,9 +269,12 @@ class CLEMImageSeries(SQLModel, table=True):  # type: ignore
     )  # One to many
 
     # Process checklist for series
-    images_aligned: bool = False  # Image stacks aligned to reference image
-    rgbs_created: bool = False  # Image stacks all colorised
-    composite_created: bool = False  # Composite flattened image created
+    number_of_members: int = (
+        0  # Expected number of image stacks belonging to this series
+    )
+    images_aligned: bool = False  # Have all members been aligned?
+    rgbs_created: bool = False  # Have all members been colourised?
+    composite_created: bool = False  # Has a composite image been created?
     composite_image: Optional[str] = None  # Full path to composite image
 
 

src/murfey/util/models.py

@@ -165,6 +165,7 @@ class LIFPreprocessingResult(BaseModel):
     metadata: Path
     series_name: str
     channel: str
+    number_of_members: int
     parent_lif: Path
 
 
@@ -173,6 +174,7 @@ class TIFFPreprocessingResult(BaseModel):
     metadata: Path
     series_name: str
     channel: str
+    number_of_members: int
     parent_tiffs: List[Path]
 
 

src/murfey/workflows/clem/register_results.py

@@ -275,6 +275,7 @@ def register_lif_preprocessing_result(
 
         clem_img_series.associated_metadata = clem_metadata
         clem_img_series.parent_lif = clem_lif_file
+        clem_img_series.number_of_members = result.number_of_members
         db.add(clem_img_series)
         db.commit()
         db.refresh()