Polish

app.py

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+import bfabric_web_apps
+
+# Initialize the Dash app
+app = bfabric_web_apps.create_app()

backend/__init__.py

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+from .app_state import AppState
+from .models import Plate, PlateWell, Sample, Measurement, AppSpecificFile

backend/app_state.py

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+from pydantic import BaseModel, Field
+from typing import List, Dict, Any
+from .models import Plate, PlateWell, Sample
+
+
+class AppState(BaseModel):
+
+    plate_registry: List[Plate] = Field(default_factory=list)
+    sample_registry: List[Sample] = Field(default_factory=list)
+    uploaded_files_base64: Dict[str, str] = Field(default_factory=dict) # dict key is filename/id, value is base64 encoded content
+
+
+    # to and from json need to respect the model structure
+    def to_json(self) -> str:
+        return self.model_dump_json()
+
+
+    @classmethod
+    def from_json(cls, json_str: str) -> "AppState":
+        return cls.model_validate_json(json_str)
+
+
+    @property
+    def plate_well_by_id(self) -> Dict[str, Dict[str, PlateWell]]:
+        out = {}
+        for plate in self.plate_registry:
+            out[plate.plate_id] = {well.well_position_id: well for well in plate.plate_wells}
+        return out
+
+
+    @property
+    def plate_by_id(self) -> Dict[str, Plate]:
+        return {plate.plate_id: plate for plate in self.plate_registry}
+
+
+    @property
+    def sample_by_id(self) -> Dict[str, Sample]:
+        return {sample.file_sample_identifier: sample for sample in self.sample_registry}
+
+
+    @property
+    def all_samples_by_bfabric_id(self) -> Dict[str, List[Sample]]:
+        return {sample.sample_id: sample for sample in self.sample_registry if sample.sample_id}
+
+
+    @property
+    def platewells_by_sample_id(self) -> Dict[str, List[PlateWell]]:
+        result = {}
+        for plate in self.plate_registry:
+            for well in plate.plate_wells:
+                sid = well.get_sample(self).file_sample_identifier
+                if sid:
+                    result.setdefault(sid, []).append(well)
+        return result
+