Beispiel #1
0
        protected override Task Context()
        {
            _parameterMapper                   = A.Fake <ParameterMapper>();
            _expressionContainerMapper         = A.Fake <ExpressionContainerMapper>();
            _executionContext                  = A.Fake <IExecutionContext>();
            _individualMoleculeFactoryResolver = A.Fake <IIndividualMoleculeFactoryResolver>();
            _ontogenyMapper = A.Fake <OntogenyMapper>();
            _ontogenyTask   = A.Fake <IOntogenyTask <Individual> >();
            _individualMoleculeParametersTask = A.Fake <IMoleculeParameterTask>();

            sut = new MoleculeMapper(_parameterMapper, _expressionContainerMapper,
                                     _ontogenyMapper, _individualMoleculeFactoryResolver, _executionContext, _ontogenyTask, _individualMoleculeParametersTask);

            _ontogeny = new DatabaseOntogeny
            {
                Name = "Ontogeny"
            };

            _enzyme = new IndividualEnzyme
            {
                Name        = "Enzyme",
                Description = "Help",
                Ontogeny    = _ontogeny,
            };

            _transporter = new IndividualTransporter
            {
                Name        = "Transporter",
                Description = "Help"
            };

            _otherProtein = new IndividualOtherProtein
            {
                Name        = "OtherProtein",
                Description = "Help"
            };

            _enzymeGlobalParameter         = DomainHelperForSpecs.ConstantParameterWithValue(5, isDefault: true).WithName(CoreConstants.Parameters.HALF_LIFE_LIVER);
            _enzymeGlobalParameterSnapshot = new Parameter();

            A.CallTo(() => _parameterMapper.MapToSnapshot(_enzymeGlobalParameter)).Returns(_enzymeGlobalParameterSnapshot);

            _expressionContainer1 = new MoleculeExpressionContainer {
                Name = "Exp Container1"
            };
            _expressionContainer2 = new MoleculeExpressionContainer {
                Name = "Exp Container2"
            };
            _enzyme.AddChildren(_expressionContainer1, _expressionContainer2, _enzymeGlobalParameter);

            _relativeExpressionParameter1     = DomainHelperForSpecs.ConstantParameterWithValue(0.5).WithName(CoreConstants.Parameters.REL_EXP);
            _relativeExpressionParameterNorm1 = DomainHelperForSpecs.ConstantParameterWithValue(1).WithName(CoreConstants.Parameters.REL_EXP_NORM);
            _expressionContainer1.Add(_relativeExpressionParameter1);
            _expressionContainer1.Add(_relativeExpressionParameterNorm1);

            _relativeExpressionParameterNotSet     = DomainHelperForSpecs.ConstantParameterWithValue(0).WithName(CoreConstants.Parameters.REL_EXP);
            _relativeExpressionParameterNotSetNorm = DomainHelperForSpecs.ConstantParameterWithValue(0).WithName(CoreConstants.Parameters.REL_EXP_NORM);
            _expressionContainer2.Add(_relativeExpressionParameterNotSet);
            _expressionContainer2.Add(_relativeExpressionParameterNotSetNorm);

            _relativeExpressionContainerSnapshot1 = new ExpressionContainer();
            _relativeExpressionContainerSnapshot2 = new ExpressionContainer();

            A.CallTo(() => _expressionContainerMapper.MapToSnapshot(_expressionContainer1)).Returns(_relativeExpressionContainerSnapshot1);
            A.CallTo(() => _expressionContainerMapper.MapToSnapshot(_expressionContainer2)).Returns(_relativeExpressionContainerSnapshot2);

            _snapshotOntogeny = new Snapshots.Ontogeny();
            A.CallTo(() => _ontogenyMapper.MapToSnapshot(_ontogeny)).Returns(_snapshotOntogeny);
            _individual = new Individual();

            return(_completed);
        }
        protected override Task Context()
        {
            _parameterMapper           = A.Fake <ParameterMapper>();
            _expressionContainerMapper = A.Fake <ExpressionContainerMapper>();
            _expressionProfileFactory  = A.Fake <IExpressionProfileFactory>();
            _ontogenyMapper            = A.Fake <OntogenyMapper>();
            _ontogenyTask           = A.Fake <IOntogenyTask>();
            _moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <Individual> >();
            _moleculeParameterTask  = A.Fake <IMoleculeParameterTask>();
            sut = new ExpressionProfileMapper(
                _parameterMapper,
                _expressionContainerMapper,
                _ontogenyMapper,
                _ontogenyTask,
                _moleculeExpressionTask,
                _expressionProfileFactory,
                _moleculeParameterTask);

            _ontogeny = new DatabaseOntogeny
            {
                Name = "Ontogeny"
            };

            _expressionProfileEnzyme = DomainHelperForSpecs.CreateExpressionProfile <IndividualEnzyme>("Enzyme");
            _expressionProfileEnzyme.Molecule.Ontogeny = _ontogeny;
            _expressionProfileEnzyme.Description       = "Help";

            _expressionProfileTransporter             = DomainHelperForSpecs.CreateExpressionProfile <IndividualTransporter>("Transporter");
            _expressionProfileTransporter.Description = "Help";

            _expressionProfileOtherProtein = DomainHelperForSpecs.CreateExpressionProfile <IndividualOtherProtein>("OtherProtein");

            _enzymeGlobalParameter = DomainHelperForSpecs.ConstantParameterWithValue(5, isDefault: true)
                                     .WithName(CoreConstants.Parameters.HALF_LIFE_LIVER);
            _enzymeGlobalParameterSnapshot = new Parameter();

            A.CallTo(() => _parameterMapper.MapToSnapshot(_enzymeGlobalParameter)).Returns(_enzymeGlobalParameterSnapshot);

            _expressionContainer1 = new MoleculeExpressionContainer {
                Name = "Exp Container1"
            };
            _expressionContainer2 = new MoleculeExpressionContainer {
                Name = "Exp Container2"
            };
            _expressionProfileEnzyme.Individual.AddChildren(_expressionContainer1, _expressionContainer2, _enzymeGlobalParameter);
            _expressionProfileEnzyme.Molecule.DowncastTo <IndividualEnzyme>().Localization = Localization.Intracellular | Localization.BloodCellsMembrane;

            _relativeExpressionParameter1 = DomainHelperForSpecs.ConstantParameterWithValue(0.5).WithName(CoreConstants.Parameters.REL_EXP);
            _expressionContainer1.Add(_relativeExpressionParameter1);

            _relativeExpressionParameterNotSet = DomainHelperForSpecs.ConstantParameterWithValue(0).WithName(CoreConstants.Parameters.REL_EXP);
            _expressionContainer2.Add(_relativeExpressionParameterNotSet);

            _relativeExpressionContainerSnapshot1 = new ExpressionContainer();
            _relativeExpressionContainerSnapshot2 = new ExpressionContainer();

            A.CallTo(() => _expressionContainerMapper.MapToSnapshot(_expressionContainer1)).Returns(_relativeExpressionContainerSnapshot1);
            A.CallTo(() => _expressionContainerMapper.MapToSnapshot(_expressionContainer2)).Returns(_relativeExpressionContainerSnapshot2);

            _snapshotOntogeny = new Snapshots.Ontogeny();
            A.CallTo(() => _ontogenyMapper.MapToSnapshot(_ontogeny)).Returns(_snapshotOntogeny);
            _individual = new Individual();

            return(_completed);
        }