from typing import Any, Dict, List, Optional

from django.conf import settings as s
from django.contrib.auth import get_user_model
from django.http import HttpResponse
from django.shortcuts import redirect
from ninja import Field, Form, Router, Schema

from utilities.chem import FormatConverter

from .logic import PackageManager, SettingManager, UserManager
from .models import (
    Compound,
    CompoundStructure,
    Edge,
    Node,
    Pathway,
    Reaction,
    Rule,
    Scenario,
    SimpleAmbitRule,
    User,
    UserPackagePermission,
)

Package = s.GET_PACKAGE_MODEL()


def _anonymous_or_real(request):
    if request.user.is_authenticated and not request.user.is_anonymous:
        return request.user
    return get_user_model().objects.get(username="anonymous")


# router = Router(auth=SessionAuth())
router = Router()


class Error(Schema):
    message: str


#################
# SimpleObjects #
#################
class SimpleUser(Schema):
    id: str = Field(None, alias="url")
    identifier: str = "user"
    name: str = Field(None, alias="username")
    email: str = Field(None, alias="email")


class SimpleGroup(Schema):
    id: str = Field(None, alias="url")
    identifier: str = "group"
    name: str = Field(None, alias="name")


class SimpleSetting(Schema):
    id: str = Field(None, alias="url")
    identifier: str = "setting"
    name: str = Field(None, alias="name")


class SimpleObject(Schema):
    id: str = Field(None, alias="url")
    name: str = Field(None, alias="name")
    reviewStatus: str = Field(None, alias="review_status")

    @staticmethod
    def resolve_review_status(obj):
        if isinstance(obj, Package):
            return "reviewed" if obj.reviewed else "unreviewed"
        elif hasattr(obj, "package"):
            return "reviewed" if obj.package.reviewed else "unreviewed"
        elif isinstance(obj, CompoundStructure):
            return "reviewed" if obj.compound.package.reviewed else "unreviewed"
        elif isinstance(obj, Node) or isinstance(obj, Edge):
            return "reviewed" if obj.pathway.package.reviewed else "unreviewed"
        else:
            raise ValueError("Object has no package")


class SimplePackage(SimpleObject):
    identifier: str = "package"


class SimpleCompound(SimpleObject):
    identifier: str = "compound"


class SimpleCompoundStructure(SimpleObject):
    identifier: str = "structure"


class SimpleRule(SimpleObject):
    identifier: str = "rule"

    @staticmethod
    def resolve_url(obj: Rule):
        return obj.url.replace("-ambit-", "-").replace("-rdkit-", "-")


class SimpleReaction(SimpleObject):
    identifier: str = "reaction"


class SimpleScenario(SimpleObject):
    identifier: str = "scenario"


class SimplePathway(SimpleObject):
    identifier: str = "pathway"


class SimpleNode(SimpleObject):
    identifier: str = "node"


class SimpleEdge(SimpleObject):
    identifier: str = "edge"


################
# Login/Logout #
################
@router.post("/", response={200: SimpleUser, 403: Error})
def login(request, loginusername: Form[str], loginpassword: Form[str]):
    from django.contrib.auth import authenticate, login

    email = User.objects.get(username=loginusername).email
    user = authenticate(username=email, password=loginpassword)
    if user:
        login(request, user)
        return user
    else:
        return 403, {"message": "Invalid username and/or password"}


########
# User #
########
class UserWrapper(Schema):
    user: List[SimpleUser]


class UserSchema(Schema):
    affiliation: Dict[str, str] = Field(None, alias="affiliation")
    defaultGroup: "SimpleGroup" = Field(None, alias="default_group")
    defaultPackage: "SimplePackage" = Field(None, alias="default_package")
    defaultSetting: "SimpleSetting" = Field(None, alias="default_setting")
    email: str = Field(None, alias="email")
    forename: str = "not specified"
    groups: List["SimpleGroup"] = Field([], alias="groups")
    id: str = Field(None, alias="url")
    identifier: str = "user"
    link: str = "empty"
    name: str = Field(None, alias="username")
    surname: str = "not specified"
    settings: List["SimpleSetting"] = Field([], alias="settings")

    @staticmethod
    def resolve_affiliation(obj: User):
        # TODO
        return {"city": "not specified", "country": "not specified", "workplace": "not specified"}

    @staticmethod
    def resolve_settings(obj: User):
        return SettingManager.get_all_settings(obj)


@router.get("/user", response={200: UserWrapper, 403: Error})
def get_users(request, whoami: str = None):
    if whoami:
        return {"user": [request.user]}
    else:
        return {"user": User.objects.all()}


@router.get("/user/{uuid:user_uuid}", response={200: UserSchema, 403: Error})
def get_user(request, user_uuid):
    try:
        u = UserManager.get_user_by_id(request.user, user_uuid)
        return u
    except ValueError:
        return 403, {
            "message": f"Getting User with id {user_uuid} failed due to insufficient rights!"
        }


###########
# Package #
###########
class PackageWrapper(Schema):
    package: List["PackageSchema"]


class PackageSchema(Schema):
    description: str = Field(None, alias="description")
    id: str = Field(None, alias="url")
    links: List[Dict[str, List[str | int]]] = Field([], alias="links")
    name: str = Field(None, alias="name")
    primaryGroup: Optional[SimpleGroup] = None
    readers: List[Dict[str, str]] = Field([], alias="readers")
    reviewComment: str = Field(None, alias="review_comment")
    reviewStatus: str = Field(None, alias="review_status")
    writers: List[Dict[str, str]] = Field([], alias="writers")

    @staticmethod
    def resolve_links(obj: Package):
        return [
            {"Pathways": [f"{obj.url}/pathway", obj.pathways.count()]},
            {"Rules": [f"{obj.url}/rule", obj.rules.count()]},
            {"Compounds": [f"{obj.url}/compound", obj.compounds.count()]},
            {"Reactions": [f"{obj.url}/reaction", obj.reactions.count()]},
            {"Relative Reasoning": [f"{obj.url}/relative-reasoning", obj.models.count()]},
            {"Scenarios": [f"{obj.url}/scenario", obj.scenarios.count()]},
        ]

    @staticmethod
    def resolve_readers(obj: Package):
        users = User.objects.filter(
            id__in=UserPackagePermission.objects.filter(
                package=obj, permission=UserPackagePermission.READ[0]
            ).values_list("user", flat=True)
        ).distinct()

        return [{u.id: u.name} for u in users]

    @staticmethod
    def resolve_writers(obj: Package):
        users = User.objects.filter(
            id__in=UserPackagePermission.objects.filter(
                package=obj, permission=UserPackagePermission.WRITE[0]
            ).values_list("user", flat=True)
        ).distinct()

        return [{u.id: u.name} for u in users]

    @staticmethod
    def resolve_review_comment(obj):
        return ""

    @staticmethod
    def resolve_review_status(obj):
        return "reviewed" if obj.reviewed else "unreviewed"


@router.get("/package", response={200: PackageWrapper, 403: Error})
def get_packages(request):
    return {
        "package": PackageManager.get_all_readable_packages(request.user, include_reviewed=True)
    }


@router.get("/package/{uuid:package_uuid}", response={200: PackageSchema, 403: Error})
def get_package(request, package_uuid):
    try:
        return PackageManager.get_package_by_id(request.user, package_uuid)
    except ValueError:
        return 403, {
            "message": f"Getting Package with id {package_uuid} failed due to insufficient rights!"
        }


@router.post("/package")
def create_packages(
    request, packageName: Form[str], packageDescription: Optional[str] = Form(None)
):
    try:
        if packageName.strip() == "":
            raise ValueError("Package name cannot be empty!")

        new_pacakge = PackageManager.create_package(request.user, packageName, packageDescription)
        return redirect(new_pacakge.url)
    except ValueError as e:
        return 400, {"message": str(e)}


@router.post("/package/{uuid:package_uuid}", response={200: PackageSchema | Any, 400: Error})
def update_package(
    request,
    package_uuid,
    packageDescription: Optional[str] = Form(None),
    hiddenMethod: Optional[str] = Form(None),
    exportAsJson: Optional[str] = Form(None),
    permissions: Optional[str] = Form(None),
    ppsURI: Optional[str] = Form(None),
    read: Optional[str] = Form(None),
    write: Optional[str] = Form(None),
):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)

        if hiddenMethod:
            if hiddenMethod == "DELETE":
                p.delete()

        elif packageDescription and packageDescription.strip() != "":
            p.description = packageDescription
            p.save()
            return
        elif exportAsJson == "true":
            pack_json = PackageManager.export_package(
                p, include_models=False, include_external_identifiers=False
            )
            return pack_json
        elif all([permissions, ppsURI, read]):
            PackageManager.update_permissions
        elif all([permissions, ppsURI, write]):
            pass

    except ValueError as e:
        return 400, {"message": str(e)}


################################
# Compound / CompoundStructure #
################################
class CompoundWrapper(Schema):
    compound: List["SimpleCompound"]


class CompoundPathwayScenario(Schema):
    scenarioId: str
    scenarioName: str
    scenarioType: str


class CompoundSchema(Schema):
    aliases: List[str] = Field([], alias="aliases")
    description: str = Field(None, alias="description")
    externalReferences: Dict[str, List[str]] = Field(None, alias="external_references")
    id: str = Field(None, alias="url")
    halflifes: List[Dict[str, str]] = Field([], alias="halflifes")
    identifier: str = "compound"
    imageSize: int = 600
    name: str = Field(None, alias="name")
    pathwayScenarios: List[CompoundPathwayScenario] = Field([], alias="pathway_scenarios")
    pathways: List["SimplePathway"] = Field([], alias="related_pathways")
    pubchemCompoundReferences: List[str] = Field([], alias="pubchem_compound_references")
    reactions: List["SimpleReaction"] = Field([], alias="related_reactions")
    reviewStatus: str = Field(False, alias="review_status")
    scenarios: List["SimpleScenario"] = Field([], alias="scenarios")
    structures: List["CompoundStructureSchema"] = []

    @staticmethod
    def resolve_review_status(obj: CompoundStructure):
        return "reviewed" if obj.package.reviewed else "unreviewed"

    @staticmethod
    def resolve_external_references(obj: Compound):
        # TODO
        return {}

    @staticmethod
    def resolve_structures(obj: Compound):
        return CompoundStructure.objects.filter(compound=obj)

    @staticmethod
    def resolve_halflifes(obj: Compound):
        return []

    @staticmethod
    def resolve_pubchem_compound_references(obj: Compound):
        return []

    @staticmethod
    def resolve_pathway_scenarios(obj: Compound):
        return [
            {
                "scenarioId": "https://envipath.org/package/5882df9c-dae1-4d80-a40e-db4724271456/scenario/cd8350cd-4249-4111-ba9f-4e2209338501",
                "scenarioName": "Fritz, R. & Brauner, A. (1989) - (00004)",
                "scenarioType": "Soil",
            }
        ]


class CompoundStructureSchema(Schema):
    InChI: str = Field(None, alias="inchi")
    aliases: List[str] = Field([], alias="aliases")
    canonicalSmiles: str = Field(None, alias="canonical_smiles")
    charge: int = Field(None, alias="charge")
    description: str = Field(None, alias="description")
    externalReferences: Dict[str, List[str]] = Field(None, alias="external_references")
    formula: str = Field(None, alias="formula")
    halflifes: List[Dict[str, str]] = Field([], alias="halflifes")
    id: str = Field(None, alias="url")
    identifier: str = "structure"
    imageSize: int = 600
    inchikey: str = Field(None, alias="inchikey")
    isDefaultStructure: bool = Field(None, alias="is_default_structure")
    mass: float = Field(None, alias="mass")
    name: str = Field(None, alias="name")
    pathways: List["SimplePathway"] = Field([], alias="related_pathways")
    pubchemCompoundReferences: List[str] = Field([], alias="pubchem_compound_references")
    reactions: List["SimpleReaction"] = Field([], alias="related_reactions")
    reviewStatus: str = Field(None, alias="review_status")
    scenarios: List["SimpleScenario"] = Field([], alias="scenarios")
    smiles: str = Field(None, alias="smiles")

    @staticmethod
    def resolve_review_status(obj: CompoundStructure):
        return "reviewed" if obj.compound.package.reviewed else "unreviewed"

    @staticmethod
    def resolve_inchi(obj: CompoundStructure):
        return FormatConverter.InChI(obj.smiles)

    @staticmethod
    def resolve_charge(obj: CompoundStructure):
        return FormatConverter.charge(obj.smiles)

    @staticmethod
    def resolve_formula(obj: CompoundStructure):
        return FormatConverter.formula(obj.smiles)

    @staticmethod
    def resolve_mass(obj: CompoundStructure):
        return FormatConverter.mass(obj.smiles)

    @staticmethod
    def resolve_external_references(obj: CompoundStructure):
        # TODO
        return {}

    @staticmethod
    def resolve_halflifes(obj: CompoundStructure):
        return []

    @staticmethod
    def resolve_pubchem_compound_references(obj: CompoundStructure):
        return []

    @staticmethod
    def resolve_pathway_scenarios(obj: CompoundStructure):
        return [
            {
                "scenarioId": "https://envipath.org/package/5882df9c-dae1-4d80-a40e-db4724271456/scenario/cd8350cd-4249-4111-ba9f-4e2209338501",
                "scenarioName": "Fritz, R. & Brauner, A. (1989) - (00004)",
                "scenarioType": "Soil",
            }
        ]


class CompoundStructureWrapper(Schema):
    structure: List["SimpleCompoundStructure"]


@router.get("/compound", response={200: CompoundWrapper, 403: Error})
def get_compounds(request):
    return {
        "compound": Compound.objects.filter(
            package__in=PackageManager.get_reviewed_packages()
        ).prefetch_related("package")
    }


@router.get("/package/{uuid:package_uuid}/compound", response={200: CompoundWrapper, 403: Error})
def get_package_compounds(request, package_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return {"compound": Compound.objects.filter(package=p).prefetch_related("package")}
    except ValueError:
        return 403, {
            "message": f"Getting Compounds for Package with id {package_uuid} failed due to insufficient rights!"
        }


@router.get(
    "/package/{uuid:package_uuid}/compound/{uuid:compound_uuid}",
    response={200: CompoundSchema, 403: Error},
)
def get_package_compound(request, package_uuid, compound_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return Compound.objects.get(package=p, uuid=compound_uuid)
    except ValueError:
        return 403, {
            "message": f"Getting Compound with id {compound_uuid} failed due to insufficient rights!"
        }


@router.get(
    "/package/{uuid:package_uuid}/compound/{uuid:compound_uuid}/structure",
    response={200: CompoundStructureWrapper, 403: Error},
)
def get_package_compound_structures(request, package_uuid, compound_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return {"structure": Compound.objects.get(package=p, uuid=compound_uuid).structures.all()}
    except ValueError:
        return 403, {
            "message": f"Getting CompoundStructures for Compound with id {compound_uuid} failed due to insufficient rights!"
        }


@router.get(
    "/package/{uuid:package_uuid}/compound/{uuid:compound_uuid}/structure/{uuid:structure_uuid}",
    response={200: CompoundStructureSchema, 403: Error},
)
def get_package_compound_structure(request, package_uuid, compound_uuid, structure_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return CompoundStructure.objects.get(
            uuid=structure_uuid, compound=Compound.objects.get(package=p, uuid=compound_uuid)
        )
    except ValueError:
        return 403, {
            "message": f"Getting CompoundStructure with id {structure_uuid} failed due to insufficient rights!"
        }


#########
# Rules #
#########
class RuleWrapper(Schema):
    rule: List["SimpleRule"]


class SimpleRuleSchema(Schema):
    aliases: List[str] = Field([], alias="aliases")
    description: str = Field(None, alias="description")
    ecNumbers: List[Dict[str, str]] = Field([], alias="ec_numbers")
    engine: str = "ambit"
    id: str = Field(None, alias="url")
    identifier: str = Field(None, alias="identifier")
    isCompositeRule: bool = False
    name: str = Field(None, alias="name")
    pathways: List["SimplePathway"] = Field([], alias="related_pathways")
    productFilterSmarts: str = Field("", alias="product_filter_smarts")
    productSmarts: str = Field(None, alias="products_smarts")
    reactantFilterSmarts: str = Field("", alias="reactant_filter_smarts")
    reactantSmarts: str = Field(None, alias="reactants_smarts")
    reactions: List["SimpleReaction"] = Field([], alias="related_reactions")
    reviewStatus: str = Field(None, alias="review_status")
    scenarios: List["SimpleScenario"] = Field([], alias="scenarios")
    smirks: str = Field("", alias="smirks")
    # TODO
    transformations: str = Field("", alias="transformations")

    @staticmethod
    def resolve_url(obj: Rule):
        return obj.url.replace("-ambit-", "-").replace("-rdkit-", "-")

    @staticmethod
    def resolve_identifier(obj: Rule):
        if "simple-rule" in obj.url:
            return "simple-rule"
        if "simple-ambit-rule" in obj.url:
            return "simple-rule"
        elif "parallel-rule" in obj.url:
            return "parallel-rule"
        elif "sequential-rule" in obj.url:
            return "sequential-rule"
        else:
            return None

    @staticmethod
    def resolve_review_status(obj: Rule):
        return "reviewed" if obj.package.reviewed else "unreviewed"

    @staticmethod
    def resolve_product_filter_smarts(obj: Rule):
        return obj.product_filter_smarts if obj.product_filter_smarts else ""

    @staticmethod
    def resolve_reactant_filter_smarts(obj: Rule):
        return obj.reactant_filter_smarts if obj.reactant_filter_smarts else ""


class CompositeRuleSchema(Schema):
    aliases: List[str] = Field([], alias="aliases")
    description: str = Field(None, alias="description")
    ecNumbers: List[Dict[str, str]] = Field([], alias="ec_numbers")
    id: str = Field(None, alias="url")
    identifier: str = Field(None, alias="identifier")
    isCompositeRule: bool = True
    name: str = Field(None, alias="name")
    pathways: List["SimplePathway"] = Field([], alias="related_pathways")
    productFilterSmarts: str = Field("", alias="product_filter_smarts")
    reactantFilterSmarts: str = Field("", alias="reactant_filter_smarts")
    reactions: List["SimpleReaction"] = Field([], alias="related_reactions")
    reviewStatus: str = Field(None, alias="review_status")
    scenarios: List["SimpleScenario"] = Field([], alias="scenarios")
    simpleRules: List["SimpleRule"] = Field([], alias="simple_rules")

    @staticmethod
    def resolve_ec_numbers(obj: Rule):
        return []

    @staticmethod
    def resolve_url(obj: Rule):
        return obj.url.replace("-ambit-", "-").replace("-rdkit-", "-")

    @staticmethod
    def resolve_identifier(obj: Rule):
        if "simple-rule" in obj.url:
            return "simple-rule"
        if "simple-ambit-rule" in obj.url:
            return "simple-rule"
        elif "parallel-rule" in obj.url:
            return "parallel-rule"
        elif "sequential-rule" in obj.url:
            return "sequential-rule"
        else:
            return None

    @staticmethod
    def resolve_review_status(obj: Rule):
        return "reviewed" if obj.package.reviewed else "unreviewed"

    @staticmethod
    def resolve_product_filter_smarts(obj: Rule):
        return obj.product_filter_smarts if obj.product_filter_smarts else ""

    @staticmethod
    def resolve_reactant_filter_smarts(obj: Rule):
        return obj.reactant_filter_smarts if obj.reactant_filter_smarts else ""


@router.get("/rule", response={200: RuleWrapper, 403: Error})
def get_rules(request):
    return {
        "rule": Rule.objects.filter(
            package__in=PackageManager.get_reviewed_packages()
        ).prefetch_related("package")
    }


@router.get("/package/{uuid:package_uuid}/rule", response={200: RuleWrapper, 403: Error})
def get_package_rules(request, package_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return {"rule": Rule.objects.filter(package=p).prefetch_related("package")}
    except ValueError:
        return 403, {
            "message": f"Getting Rules for Package with id {package_uuid} failed due to insufficient rights!"
        }


@router.get(
    "/package/{uuid:package_uuid}/rule/{uuid:rule_uuid}",
    response={200: SimpleRuleSchema | CompositeRuleSchema, 403: Error},
)
def get_package_rule(request, package_uuid, rule_uuid):
    return _get_package_rule(request, package_uuid, rule_uuid)


@router.get(
    "/package/{uuid:package_uuid}/simple-rule/{uuid:rule_uuid}",
    response={200: SimpleRuleSchema | CompositeRuleSchema, 403: Error},
)
def get_package_simple_rule(request, package_uuid, rule_uuid):
    return _get_package_rule(request, package_uuid, rule_uuid)


@router.get(
    "/package/{uuid:package_uuid}/parallel-rule/{uuid:rule_uuid}",
    response={200: SimpleRuleSchema | CompositeRuleSchema, 403: Error},
)
def get_package_parallel_rule(request, package_uuid, rule_uuid):
    return _get_package_rule(request, package_uuid, rule_uuid)


def _get_package_rule(request, package_uuid, rule_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return Rule.objects.get(package=p, uuid=rule_uuid)
    except ValueError:
        return 403, {
            "message": f"Getting Rule with id {rule_uuid} failed due to insufficient rights!"
        }


# POST
@router.post(
    "/package/{uuid:package_uuid}/rule/{uuid:rule_uuid}", response={200: str | Any, 403: Error}
)
def post_package_rule(request, package_uuid, rule_uuid, compound: Form[str] = None):
    return _post_package_rule(request, package_uuid, rule_uuid, compound=compound)


@router.post(
    "/package/{uuid:package_uuid}/simple-rule/{uuid:rule_uuid}",
    response={200: str | Any, 403: Error},
)
def post_package_simple_rule(request, package_uuid, rule_uuid, compound: Form[str] = None):
    return _post_package_rule(request, package_uuid, rule_uuid, compound=compound)


@router.post(
    "/package/{uuid:package_uuid}/parallel-rule/{uuid:rule_uuid}",
    response={200: str | Any, 403: Error},
)
def post_package_parallel_rule(request, package_uuid, rule_uuid, compound: Form[str] = None):
    return _post_package_rule(request, package_uuid, rule_uuid, compound=compound)


def _post_package_rule(request, package_uuid, rule_uuid, compound: Form[str]):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        r = Rule.objects.get(package=p, uuid=rule_uuid)

        if compound is not None:
            if not compound.split():
                return 400, {"message": "Compound is empty"}

            product_sets = r.apply(compound)

            res = []
            for p_set in product_sets:
                for product in p_set:
                    res.append(product)

            return HttpResponse("\n".join(res), content_type="text/plain")

        return r

    except ValueError:
        return 403, {
            "message": f"Getting Rule with id {rule_uuid} failed due to insufficient rights!"
        }


############
# Reaction #
############
class ReactionWrapper(Schema):
    reaction: List["SimpleReaction"]


class ReactionCompoundStructure(Schema):
    compoundName: str = Field(None, alias="name")
    id: str = Field(None, alias="url")
    smiles: str = Field(None, alias="smiles")


class ReactionSchema(Schema):
    aliases: List[str] = Field([], alias="aliases")
    description: str = Field(None, alias="description")
    ecNumbers: List[Dict[str, str]] = Field([], alias="ec_numbers")
    educts: List["ReactionCompoundStructure"] = Field([], alias="educts")
    id: str = Field(None, alias="url")
    identifier: str = "reaction"
    medlineRefs: List[str] = Field([], alias="medline_references")
    multistep: bool = Field(None, alias="multi_step")
    name: str = Field(None, alias="name")
    pathways: List["SimplePathway"] = Field([], alias="related_pathways")
    products: List["ReactionCompoundStructure"] = Field([], alias="products")
    references: List[Dict[str, List[str]]] = Field([], alias="references")
    reviewStatus: str = Field(None, alias="review_status")
    scenarios: List["SimpleScenario"] = Field([], alias="scenarios")
    smirks: str = Field("", alias="smirks")

    @staticmethod
    def resolve_smirks(obj: Reaction):
        return obj.smirks()

    @staticmethod
    def resolve_ec_numbers(obj: Reaction):
        # TODO fetch via scenario EnzymeAI
        return []

    @staticmethod
    def resolve_references(obj: Reaction):
        # TODO
        return []

    @staticmethod
    def resolve_medline_references(obj: Reaction):
        # TODO
        return []

    @staticmethod
    def resolve_review_status(obj: Rule):
        return "reviewed" if obj.package.reviewed else "unreviewed"


@router.get("/reaction", response={200: ReactionWrapper, 403: Error})
def get_reactions(request):
    return {
        "reaction": Reaction.objects.filter(
            package__in=PackageManager.get_reviewed_packages()
        ).prefetch_related("package")
    }


@router.get("/package/{uuid:package_uuid}/reaction", response={200: ReactionWrapper, 403: Error})
def get_package_reactions(request, package_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return {"reaction": Reaction.objects.filter(package=p).prefetch_related("package")}
    except ValueError:
        return 403, {
            "message": f"Getting Reactions for Package with id {package_uuid} failed due to insufficient rights!"
        }


@router.get(
    "/package/{uuid:package_uuid}/reaction/{uuid:reaction_uuid}",
    response={200: ReactionSchema, 403: Error},
)
def get_package_reaction(request, package_uuid, reaction_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return Reaction.objects.get(package=p, uuid=reaction_uuid)
    except ValueError:
        return 403, {
            "message": f"Getting Reaction with id {reaction_uuid} failed due to insufficient rights!"
        }


############
# Scenario #
############
class ScenarioWrapper(Schema):
    scenario: List["SimpleScenario"]


class ScenarioSchema(Schema):
    aliases: List[str] = Field([], alias="aliases")
    collection: Dict["str", List[Dict[str, Any]]] = Field([], alias="collection")
    collectionID: Optional[str] = None
    description: str = Field(None, alias="description")
    id: str = Field(None, alias="url")
    identifier: str = "scenario"
    linkedTo: List[Dict[str, str]] = Field({}, alias="linked_to")
    name: str = Field(None, alias="name")
    pathways: List["SimplePathway"] = Field([], alias="related_pathways")
    relatedScenarios: List[Dict[str, str]] = Field([], alias="related_scenarios")
    reviewStatus: str = Field(None, alias="review_status")
    scenarios: List["SimpleScenario"] = Field([], alias="scenarios")
    type: str = Field(None, alias="scenario_type")

    @staticmethod
    def resolve_collection(obj: Scenario):
        return obj.additional_information

    @staticmethod
    def resolve_review_status(obj: Rule):
        return "reviewed" if obj.package.reviewed else "unreviewed"


@router.get("/scenario", response={200: ScenarioWrapper, 403: Error})
def get_scenarios(request):
    return {
        "scenario": Scenario.objects.filter(
            package__in=PackageManager.get_reviewed_packages()
        ).prefetch_related("package")
    }


@router.get("/package/{uuid:package_uuid}/scenario", response={200: ScenarioWrapper, 403: Error})
def get_package_scenarios(request, package_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return {"scenario": Scenario.objects.filter(package=p).prefetch_related("package")}
    except ValueError:
        return 403, {
            "message": f"Getting Scenarios for Package with id {package_uuid} failed due to insufficient rights!"
        }


@router.get(
    "/package/{uuid:package_uuid}/scenario/{uuid:scenario_uuid}",
    response={200: ScenarioSchema, 403: Error},
)
def get_package_scenario(request, package_uuid, scenario_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return Scenario.objects.get(package=p, uuid=scenario_uuid)
    except ValueError:
        return 403, {
            "message": f"Getting Scenario with id {scenario_uuid} failed due to insufficient rights!"
        }


###########
# Pathway #
###########
class PathwayWrapper(Schema):
    pathway: List["SimplePathway"]


class PathwayEdge(Schema):
    ecNumbers: List[str] = Field([], alias="ec_numbers")
    id: str = Field(None, alias="url")
    idreaction: str = Field(None, alias="edge_label.url")
    multstep: bool = Field(None, alias="edge_label.multi_step")
    name: str = Field(None, alias="name")
    pseudo: bool = False
    rule: Optional[str] = Field(None, alias="rule")
    scenarios: List[SimpleScenario] = Field([], alias="scenarios")
    source: int = -1
    target: int = -1

    @staticmethod
    def resolve_rule(obj: Edge):
        if obj.edge_label.rules.all().exists():
            r = obj.edge_label.rules.all()[0]
            if isinstance(r, SimpleAmbitRule):
                return r.smirks
        return None


class PathwayNode(Schema):
    atomCount: int = Field(None, alias="atom_count")
    depth: int = Field(None, alias="depth")
    dt50s: List[Dict[str, str]] = Field([], alias="dt50s")
    engineeredIntermediate: bool = Field(None, alias="engineered_intermediate")
    id: str = Field(None, alias="url")
    idcomp: str = Field(None, alias="default_node_label.url")
    idreact: str = Field(None, alias="default_node_label.url")
    image: str = Field(None, alias="image")
    imageSize: int = Field(None, alias="image_size")
    name: str = Field(None, alias="name")
    proposed: List[Dict[str, str]] = Field([], alias="proposed_intermediate")
    smiles: str = Field(None, alias="default_node_label.smiles")

    @staticmethod
    def resolve_atom_count(obj: Node):
        from rdkit import Chem

        return Chem.MolFromSmiles(obj.default_node_label.smiles).GetNumAtoms()

    @staticmethod
    def resolve_dt50s(obj: Node):
        # TODO
        return []

    @staticmethod
    def resolve_engineered_intermediate(obj: Node):
        # TODO
        return False

    @staticmethod
    def resolve_image(obj: Node):
        return f"{obj.default_node_label.url}?image=svg"

    @staticmethod
    def resolve_image_size(obj: Node):
        return 400

    @staticmethod
    def resolve_proposed_intermediate(obj: Node):
        # TODO
        return []


class PathwaySchema(Schema):
    aliases: List[str] = Field([], alias="aliases")
    completed: str = Field(None, alias="completed")
    description: str = Field(None, alias="description")
    id: str = Field(None, alias="url")
    isIncremental: bool = Field(None, alias="is_incremental")
    isPredicted: bool = Field(None, alias="is_predicted")
    lastModified: int = Field(None, alias="last_modified")
    links: List[PathwayEdge] = Field([], alias="edges")
    name: str = Field(None, alias="name")
    nodes: List[PathwayNode] = Field([], alias="nodes")
    pathwayName: str = Field(None, alias="name")
    reviewStatus: str = Field(None, alias="review_status")
    scenarios: List["SimpleScenario"] = Field([], alias="scenarios")
    upToDate: bool = Field(None, alias="up_to_date")

    @staticmethod
    def resolve_review_status(obj: Pathway):
        return "reviewed" if obj.package.reviewed else "unreviewed"

    @staticmethod
    def resolve_completed(obj: Pathway):
        return str(obj.completed()).lower()

    @staticmethod
    def resolve_up_to_date(obj: Pathway):
        return "true"

    @staticmethod
    def resolve_last_modified(obj: Pathway):
        return int(obj.modified.timestamp())


@router.get("/pathway", response={200: PathwayWrapper, 403: Error})
def get_pathways(request):
    return {
        "pathway": Pathway.objects.filter(
            package__in=PackageManager.get_reviewed_packages()
        ).prefetch_related("package")
    }


@router.get("/package/{uuid:package_uuid}/pathway", response={200: PathwayWrapper, 403: Error})
def get_package_pathways(request, package_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return {"pathway": Pathway.objects.filter(package=p).prefetch_related("package")}
    except ValueError:
        return 403, {
            "message": f"Getting Pathways for Package with id {package_uuid} failed due to insufficient rights!"
        }


@router.get(
    "/package/{uuid:package_uuid}/pathway/{uuid:pathway_uuid}",
    response={200: PathwaySchema, 403: Error},
)
def get_package_pathway(request, package_uuid, pathway_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return Pathway.objects.get(package=p, uuid=pathway_uuid)
    except ValueError:
        return 403, {
            "message": f"Getting Pathway with id {pathway_uuid} failed due to insufficient rights!"
        }


@router.post("/package/{uuid:package_uuid}/pathway")
def create_pathway(
    request,
    package_uuid,
    smilesinput: Form[str],
    name: Optional[str] = Form(None),
    description: Optional[str] = Form(None),
    rootOnly: Optional[str] = Form(None),
    selectedSetting: Optional[str] = Form(None),
):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)

        stand_smiles = FormatConverter.standardize(smilesinput.strip())

        pw = Pathway.create(p, stand_smiles, name=name, description=description)

        pw_mode = "predict"
        if rootOnly and rootOnly == "true":
            pw_mode = "build"

        pw.kv.update({"mode": pw_mode})
        pw.save()

        if pw_mode == "predict":
            setting = request.user.prediction_settings()

            if selectedSetting:
                setting = SettingManager.get_setting_by_url(request.user, selectedSetting)

            pw.setting = setting
            pw.save()

            from .tasks import predict

            predict.delay(pw.pk, setting.pk, limit=-1)

        return redirect(pw.url)
    except ValueError as e:
        print(e)


########
# Node #
########
class NodeWrapper(Schema):
    node: List["SimpleNode"]


class NodeCompoundStructure(Schema):
    id: str = Field(None, alias="url")
    image: str = Field(None, alias="image")
    smiles: str = Field(None, alias="smiles")
    name: str = Field(None, alias="name")

    @staticmethod
    def resolve_image(obj: CompoundStructure):
        return f"{obj.url}?image=svg"


class NodeSchema(Schema):
    aliases: List[str] = Field([], alias="aliases")
    confidenceScenarios: List[SimpleScenario] = Field([], alias="confidence_scenarios")
    defaultStructure: NodeCompoundStructure = Field(None, alias="default_node_label")
    depth: int = Field(None, alias="depth")
    description: str = Field(None, alias="description")
    engineeredIntermediate: bool = Field(None, alias="engineered_intermediate")
    halflifes: Dict[str, str] = Field({}, alias="halflife")
    id: str = Field(None, alias="url")
    identifier: str = "node"
    image: str = Field(None, alias="image")
    name: str = Field(None, alias="name")
    proposedValues: List[Dict[str, str]] = Field([], alias="proposed_values")
    reviewStatus: str = Field(None, alias="review_status")
    scenarios: List["SimpleScenario"] = Field([], alias="scenarios")
    smiles: str = Field(None, alias="default_node_label.smiles")
    structures: List["CompoundStructureSchema"] = Field([], alias="node_labels")

    @staticmethod
    def resolve_engineered_intermediate(obj: Node):
        # TODO
        return False

    @staticmethod
    def resolve_image(obj: Node):
        return f"{obj.default_node_label.url}?image=svg"

    @staticmethod
    def resolve_proposed_values(obj: Node):
        # TODO
        # {
        #     "scenarioId": "https://envipath.org/package/5882df9c-dae1-4d80-a40e-db4724271456/scenario/1f1a0b67-ce57-4f5a-929c-4fabf3a791fd",
        #     "scenarioName": "Annex IIA 7.1.1 a), Brumhard (2003) - (00000)"
        # }
        return []

    @staticmethod
    def resolve_review_status(obj: Node):
        return "reviewed" if obj.pathway.package.reviewed else "unreviewed"


@router.get(
    "/package/{uuid:package_uuid}/pathway/{uuid:pathway_uuid}/node",
    response={200: NodeWrapper, 403: Error},
)
def get_package_pathway_nodes(request, package_uuid, pathway_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return {"node": Pathway.objects.get(package=p, uuid=pathway_uuid).nodes}
    except ValueError:
        return 403, {
            "message": f"Getting Nodes for Pathway with id {pathway_uuid} failed due to insufficient rights!"
        }


@router.get(
    "/package/{uuid:package_uuid}/pathway/{uuid:pathway_uuid}/node/{uuid:node_uuid}",
    response={200: NodeSchema, 403: Error},
)
def get_package_pathway_node(request, package_uuid, pathway_uuid, node_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        pw = Pathway.objects.get(package=p, uuid=pathway_uuid)
        return Node.objects.get(pathway=pw, uuid=node_uuid)
    except ValueError:
        return 403, {
            "message": f"Getting Node with id {node_uuid} failed due to insufficient rights!"
        }


########
# Edge #
########
class EdgeWrapper(Schema):
    edge: List["SimpleEdge"]


class EdgeNode(SimpleNode):
    image: str = Field(None, alias="image")

    @staticmethod
    def resolve_image(obj: Node):
        return f"{obj.default_node_label.url}?image=svg"


class EdgeSchema(Schema):
    aliases: List[str] = Field([], alias="aliases")
    description: str = Field(None, alias="description")
    ecNumbers: List[str] = Field([], alias="ec_numbers")
    endNodes: List["EdgeNode"] = Field([], alias="end_nodes")
    id: str = Field(None, alias="url")
    identifier: str = "edge"
    name: str = Field(None, alias="name")
    reactionName: str = Field(None, alias="edge_label.name")
    reactionURI: str = Field(None, alias="edge_label.url")
    reviewStatus: str = Field(None, alias="review_status")
    scenarios: List["SimpleScenario"] = Field([], alias="scenarios")
    startNodes: List["EdgeNode"] = Field([], alias="start_nodes")

    @staticmethod
    def resolve_review_status(obj: Node):
        return "reviewed" if obj.pathway.package.reviewed else "unreviewed"


@router.get(
    "/package/{uuid:package_uuid}/pathway/{uuid:pathway_uuid}/edge",
    response={200: EdgeWrapper, 403: Error},
)
def get_package_pathway_edges(request, package_uuid, pathway_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        return {"edge": Pathway.objects.get(package=p, uuid=pathway_uuid).edges}
    except ValueError:
        return 403, {
            "message": f"Getting Edges for Pathway with id {pathway_uuid} failed due to insufficient rights!"
        }


@router.get(
    "/package/{uuid:package_uuid}/pathway/{uuid:pathway_uuid}/edge/{uuid:edge_uuid}",
    response={200: EdgeSchema, 403: Error},
)
def get_package_pathway_edge(request, package_uuid, pathway_uuid, edge_uuid):
    try:
        p = PackageManager.get_package_by_id(request.user, package_uuid)
        pw = Pathway.objects.get(package=p, uuid=pathway_uuid)
        return Edge.objects.get(pathway=pw, uuid=edge_uuid)
    except ValueError:
        return 403, {
            "message": f"Getting Edge with id {edge_uuid} failed due to insufficient rights!"
        }


###########
# Setting #
###########
class SettingWrapper(Schema):
    setting: List["SimpleSetting"]


class SettingSchema(Schema):
    duplicationHash: int = -1
    id: str = Field(None, alias="url")
    identifier: str = "setting"
    includedPackages: List["SimplePackage"] = Field([], alias="rule_packages")
    isPublic: bool = Field(None, alias="public")
    name: str = Field(None, alias="name")
    normalizationRules: List["SimpleRule"] = Field([], alias="normalization_rules")
    propertyPlugins: List[str] = Field([], alias="property_plugins")
    truncationstrategy: Optional[str] = Field(None, alias="truncation_strategy")


@router.get("/setting", response={200: SettingWrapper, 403: Error})
def get_settings(request):
    return {"setting": SettingManager.get_all_settings(request.user)}


@router.get("/setting/{uuid:setting_uuid}", response={200: SettingSchema, 403: Error})
def get_setting(request, setting_uuid):
    try:
        return SettingManager.get_setting_by_id(request.user, setting_uuid)
    except ValueError:
        return 403, {
            "message": f"Getting Setting with id {setting_uuid} failed due to insufficient rights!"
        }