from dicom.models import ( BaseShape, Circle, Coordinate, Dicom, FreeHand, Project, Roi, Ruler, ) from dicom.services import create_coordinate from drf_spectacular.utils import extend_schema_field from rest_framework import serializers from rest_framework.generics import get_object_or_404 class CoordinateSerializer(serializers.ModelSerializer): class Meta: model = Coordinate fields = ["x", "y"] class ListDicomSerializer(serializers.ModelSerializer): url = serializers.HyperlinkedIdentityField( view_name="get_update_delete_dicom", lookup_field="slug" ) file = serializers.FileField() class Meta: model = Dicom fields = ["file", "uploaded", "pathology_type", "url"] def create(self, validated_data): return Dicom.objects.create(**validated_data, user=self.context["request"].user) class BaseShapeSerializer(serializers.Serializer): model = BaseShape type = serializers.ChoiceField(choices=["circle", "roi", "free_hand"]) image_number = serializers.IntegerField() coordinates = CoordinateSerializer(many=True) def create(self, validated_data): if self.model.max_coordinates: if len(validated_data["coordinates"]) > self.model.max_coordinates: raise serializers.ValidationError if self.model.min_coordinates: if len(validated_data["coordinates"]) < self.model.min_coordinates: raise serializers.ValidationError dicom = get_object_or_404( Dicom, slug=self.context["request"].parser_context["kwargs"]["slug"] ) obj = self.model.objects.create( dicom=dicom, image_number=validated_data["image_number"] ) create_coordinate(validated_data["coordinates"], obj) return obj def update(self, obj, validated_data): Coordinate.objects.filter(shape=obj).delete() if self.model.max_coordinates: if len(validated_data["coordinates"]) > self.model.max_coordinates: raise serializers.ValidationError if self.model.min_coordinates: if len(validated_data["coordinates"]) < self.model.min_coordinates: raise serializers.ValidationError create_coordinate(validated_data["coordinates"], obj) return obj class BaseShapeLayerSerializer(serializers.Serializer): type = serializers.ChoiceField(choices=["circle", "roi", "free_hand"]) radius = serializers.FloatField(required=False) coordinates = CoordinateSerializer(many=True) class DicomSerializer(serializers.ModelSerializer): file = serializers.FileField() shapes = serializers.SerializerMethodField("get_dicom_shapes") @extend_schema_field(field=BaseShapeSerializer) def get_dicom_shapes(self, obj): return [x.serialize_self() for x in obj.shapes.all()] class Meta: model = Dicom fields = ["file", "uploaded", "pathology_type", "shapes"] class RoiSerializer(BaseShapeSerializer, serializers.ModelSerializer): coordinates = CoordinateSerializer(many=True) model = Roi class Meta: model = Roi fields = ["id", "image_number", "coordinates"] extra_kwargs = {"id": {"read_only": True}} class FreeHandSerializer(BaseShapeSerializer, serializers.ModelSerializer): coordinates = CoordinateSerializer(many=True) model = FreeHand class Meta: model = FreeHand fields = ["id", "image_number", "coordinates"] extra_kwargs = {"id": {"read_only": True}} class RulerSerializer(BaseShapeSerializer, serializers.ModelSerializer): coordinates = CoordinateSerializer(many=True) model = Ruler class Meta: model = FreeHand fields = ["id", "image_number", "coordinates"] extra_kwargs = {"id": {"read_only": True}} class CircleSerializer(serializers.ModelSerializer): coordinates = CoordinateSerializer(many=True) class Meta: model = Circle fields = ["id", "image_number", "radius", "coordinates"] extra_kwargs = {"id": {"read_only": True}} def create(self, validated_data): if ( "coordinates" not in validated_data and len(validated_data["coordinates"]) > 1 ): raise serializers.ValidationError dicom = get_object_or_404( Dicom, slug=self.context["request"].parser_context["kwargs"]["slug"] ) circle = Circle.objects.create( dicom=dicom, image_number=validated_data["image_number"], radius=validated_data["radius"], ) create_coordinate(validated_data["coordinates"], circle) return circle def update(self, obj: Circle, validated_data): Coordinate.objects.filter(shape=obj).delete() create_coordinate(validated_data["coordinates"], obj) if "radius" in validated_data: obj.radius = validated_data["radius"] obj.save() return obj class SmartFileUploadSerializer(serializers.Serializer): file = serializers.FileField() class ListProjectSerializer(serializers.ModelSerializer): url = serializers.HyperlinkedIdentityField( view_name="get_update_delete_project", lookup_field="slug" ) class Meta: model = Project fields = ["slug", "url", "created"] extra_kwargs = { "slug": {"read_only": True}, "created": {"read_only": True}, } def create(self, validated_data): return Project.objects.create(user=self.context["request"].user) class ProjectSerializer(serializers.ModelSerializer): files = ListDicomSerializer(many=True) class Meta: model = Project fields = ["files", "slug", "created"] class PatologyGenerateSerializer(serializers.Serializer): project_slug = serializers.CharField() points = serializers.ListField(child=CoordinateSerializer()) depth = serializers.ListField(child=serializers.IntegerField())