class MetadataSerializer(ma.ModelSchema):
cell_compartment = ma.Nested(CellCompartmentSerializer, many=True)
taxon = ma.Nested(TaxonSerializer, many=True)
class Meta:
fields = ['cell_compartment', "taxon"]
model = models.Metadata
class ProteinComplexSerializer(ma.ModelSchema):
_metadata = ma.Nested(MetadataSerializer)
protein_subunit = ma.Nested(ProteinSubunitSerializer, many=True)
class Meta:
exclude = ["simple_search_vector"]
model = models.ProteinComplex
class ObservedResultMetadataSerializer(ma.Schema):
genetics = ma.Nested(GeneticsSerializer)
environment = ma.Nested(EnvironmentSerializer)
class Meta:
fields = ['genetics', 'environment']
class ObservableSerializer(ma.Schema):
interaction = ma.Nested(InteractionSerializer)
specie = ma.Nested(SpecieSerializer)
# compartment = ma.Nested(CompartmentSerializer)
class Meta:
# Fields to expose
fields = ['property', 'interaction', 'specie']
class MetaboliteSerializer(ma.ModelSchema):
_metadata = ma.Nested(MetadataSerializer)
structure = ma.Nested(StructureSerializer)
class Meta:
exclude = [
"simple_search_vector", 'complex_search_vector', "parameter",
"reaction", "_is_name_ambiguous", "concentration"
]
model = models.Metabolite
class ObservedValueSerializer(ObservedResultSerializer):
observable = ma.Nested(ObservableSerializer)
class Meta(ObservedResultSerializer):
fields = ObservedResultSerializer.Meta.fields + [
'observable', 'value', 'error', 'units'
]
class ReactionSerializer(InteractionSerializer):
participants = ma.Nested(ReactionParticipantSerializer, many=True)
class Meta(InteractionSerializer):
fields = InteractionSerializer.Meta.fields + [
'kinetic_law_id', 'reversible', 'participants'
]
class EntityInteractionOrPropertySerializer(ma.Schema):
cross_references = ma.Nested(ResourceSerializer, many=True)
class Meta:
fields = ['id', 'name', 'cross_references']
class ProteinSubunitSerializer(ma.ModelSchema):
_metadata = ma.Nested(MetadataSerializer)
class Meta:
exclude = ["simple_search_vector", 'complex_search_vector']
model = models.ProteinSubunit
class ObservedComplexSpecieSerializer(ObservedResultSerializer):
specie = ma.Nested(ProteinComplexSpecieSerializer)
class Meta(ObservedResultSerializer):
fields = ObservedResultSerializer.Meta.fields + ['specie']
class ObservedSpecieSerializer(ObservedResultSerializer):
specie = ma.Nested(SpecieSerializer)
class Meta(ObservedResultSerializer):
fields = ObservedResultSerializer.Meta.fields + ['specie']
class ObservedInteractionSerializer(ObservedResultSerializer):
interaction = ma.Nested(InteractionSerializer)
class Meta(ObservedResultSerializer):
fields = ObservedResultSerializer.Meta.fields + ['interaction']
class ObservedResultSerializer(ma.Schema):
metadata = ma.Nested(ObservedResultMetadataSerializer)
class Meta:
fields = ['metadata']
class ReactionParticipantSerializer(ma.Schema):
specie = ma.Nested(SpecieSerializer)
class Meta:
fields = ['specie', 'coefficient', 'order']
