import enum import marshmallow from marshmallow import EXCLUDE,fields from marshmallow_sqlalchemy import SQLAlchemyAutoSchema from sqlalchemy import func from sqlalchemy.orm import backref from crc import db from crc.models.file import FileModel, FileDataModel class WorkflowSpecCategoryModel(db.Model): __tablename__ = 'workflow_spec_category' id = db.Column(db.Integer, primary_key=True) name = db.Column(db.String) display_name = db.Column(db.String) display_order = db.Column(db.Integer) class WorkflowSpecCategoryModelSchema(SQLAlchemyAutoSchema): class Meta: model = WorkflowSpecCategoryModel load_instance = True include_relationships = True class WorkflowSpecModel(db.Model): __tablename__ = 'workflow_spec' id = db.Column(db.String, primary_key=True) name = db.Column(db.String) display_name = db.Column(db.String) display_order = db.Column(db.Integer, nullable=True) description = db.Column(db.Text) category_id = db.Column(db.Integer, db.ForeignKey('workflow_spec_category.id'), nullable=True) category = db.relationship("WorkflowSpecCategoryModel") is_master_spec = db.Column(db.Boolean, default=False) standalone = db.Column(db.Boolean, default=False) library = db.Column(db.Boolean, default=False) class WorkflowLibraryModel(db.Model): __tablename__ = 'workflow_library' id = db.Column(db.Integer, primary_key=True) workflow_spec_id = db.Column(db.String, db.ForeignKey('workflow_spec.id'), nullable=True) library_spec_id = db.Column(db.String, db.ForeignKey('workflow_spec.id'), nullable=True) parent = db.relationship(WorkflowSpecModel, primaryjoin=workflow_spec_id==WorkflowSpecModel.id, backref=backref('libraries',cascade='all, delete')) library = db.relationship(WorkflowSpecModel,primaryjoin=library_spec_id==WorkflowSpecModel.id, backref=backref('parents',cascade='all, delete')) class WorkflowSpecModelSchema(SQLAlchemyAutoSchema): class Meta: model = WorkflowSpecModel load_instance = True include_relationships = True include_fk = True # Includes foreign keys unknown = EXCLUDE category = marshmallow.fields.Nested(WorkflowSpecCategoryModelSchema, dump_only=True) libraries = marshmallow.fields.Function(lambda obj: [{'id':x.library.id, 'name':x.library.name, 'display_name':x.library.display_name} for x in obj.libraries] ) parents = marshmallow.fields.Function(lambda obj: [{'id':x.parent.id, 'name':x.parent.name, 'display_name':x.parent.display_name} for x in obj.parents] ) class WorkflowState(enum.Enum): hidden = "hidden" disabled = "disabled" required = "required" optional = "optional" @classmethod def has_value(cls, value): return value in cls._value2member_map_ @staticmethod def list(): return list(map(lambda c: c.value, WorkflowState)) class WorkflowStatus(enum.Enum): not_started = "not_started" user_input_required = "user_input_required" waiting = "waiting" complete = "complete" class WorkflowSpecDependencyFile(db.Model): """Connects to a workflow to test the version of the specification files it depends on to execute""" file_data_id = db.Column(db.Integer, db.ForeignKey(FileDataModel.id), primary_key=True) workflow_id = db.Column(db.Integer, db.ForeignKey("workflow.id"), primary_key=True) file_data = db.relationship(FileDataModel) class WorkflowLibraryModelSchema(SQLAlchemyAutoSchema): class Meta: model = WorkflowLibraryModel load_instance = True include_relationships = True library = marshmallow.fields.Nested('WorkflowSpecModelSchema') class WorkflowModel(db.Model): __tablename__ = 'workflow' id = db.Column(db.Integer, primary_key=True) bpmn_workflow_json = db.Column(db.JSON) status = db.Column(db.Enum(WorkflowStatus)) study_id = db.Column(db.Integer, db.ForeignKey('study.id')) study = db.relationship("StudyModel", backref='workflow') workflow_spec_id = db.Column(db.String, db.ForeignKey('workflow_spec.id')) workflow_spec = db.relationship("WorkflowSpecModel") total_tasks = db.Column(db.Integer, default=0) completed_tasks = db.Column(db.Integer, default=0) last_updated = db.Column(db.DateTime(timezone=True), server_default=func.now()) user_id = db.Column(db.String, default=None) # Order By is important or generating hashes on reviews. dependencies = db.relationship(WorkflowSpecDependencyFile, cascade="all, delete, delete-orphan", order_by="WorkflowSpecDependencyFile.file_data_id") def spec_version(self): dep_ids = list(dep.file_data_id for dep in self.dependencies) return "-".join(str(dep_ids))