protected override void Context()
{
base.Context();
_pvv1 = new ParameterValueVersion().WithName("PV1");
_pvv2 = new ParameterValueVersion().WithName("PV2");
_parameterHeight = A.Fake <ParameterDTO>();
A.CallTo(() => _parameterHeight.KernelValue).Returns(5);
_parameterWeight = A.Fake <ParameterDTO>();
A.CallTo(() => _parameterWeight.KernelValue).Returns(6);
_parameterAge = A.Fake <ParameterDTO>();
A.CallTo(() => _parameterAge.KernelValue).Returns(7);
_parameterBMI = A.Fake <ParameterDTO>();
A.CallTo(() => _parameterBMI.KernelValue).Returns(10);
_parameterGestationalAge = A.Fake <ParameterDTO>();
A.CallTo(() => _parameterGestationalAge.KernelValue).Returns(25);
_individualSettingsDTO.SetDefaultParameters(_parameterAge, _parameterHeight, _parameterWeight, _parameterBMI, _parameterGestationalAge);
_individualSettingsDTO.CalculationMethods = new List <CategoryCalculationMethodDTO>();
_species = A.Fake <Species>();
_speciesPopulation = A.Fake <SpeciesPopulation>();
_gender = A.Fake <Gender>();
_subPopulationDTO = new List <CategoryParameterValueVersionDTO> {
new CategoryParameterValueVersionDTO {
ParameterValueVersion = _pvv1
}, new CategoryParameterValueVersionDTO {
ParameterValueVersion = _pvv2
}
};
_individualSettingsDTO.Species = _species;
_individualSettingsDTO.SubPopulation = _subPopulationDTO;
_individualSettingsDTO.SpeciesPopulation = _speciesPopulation;
_individualSettingsDTO.Gender = _gender;
}
public void AddParameterValueVersion(ParameterValueVersion parameterValueVersion)
{
if (parameterValueVersion == null)
{
return;
}
_allParameterValueVersions.Add(parameterValueVersion);
}
protected override void Context()
{
base.Context();
_pvv = new ParameterValueVersion();
_categoryRepInfo = new RepresentationInfo {
Description = "CatDesc", DisplayName = "CatDisplay"
};
_pvv.Category = "tralala";
A.CallTo(() => _representationInfoRepository.InfoFor(RepresentationObjectType.CATEGORY, _pvv.Category)).Returns(_categoryRepInfo);
}
protected override void Context()
{
base.Context();
_parameterValueVersion1 = new ParameterValueVersion {
Name = "pv1"
};
_parameterValueVersion2 = new ParameterValueVersion {
Name = "pv2"
};
}
protected override void Context()
{
base.Context();
_parameterValueVersionThatDoesNotExist = new ParameterValueVersion {
Name = "doesnotexist"
};
_existingParameterValueVersion = new ParameterValueVersion {
Name = "exists"
};
sut.AddParameterValueVersion(_existingParameterValueVersion);
}
public CategoryParameterValueVersionDTO MapFrom(ParameterValueVersion parameterValueVersion)
{
var repInfo = _representationInfoRepository.InfoFor(RepresentationObjectType.CATEGORY, parameterValueVersion.Category);
return(new CategoryParameterValueVersionDTO
{
DisplayName = repInfo.DisplayName,
Description = repInfo.Description,
Category = parameterValueVersion.Category,
ParameterValueVersion = parameterValueVersion
});
}
protected override void Context()
{
base.Context();
_species = A.Fake <Species>();
var pvvc1 = A.Fake <ParameterValueVersionCategory>();
var pvvc2 = A.Fake <ParameterValueVersionCategory>();
_pvv1 = new ParameterValueVersion().WithName("toto");
_pvv2 = new ParameterValueVersion().WithName("tata");
A.CallTo(() => pvvc1.DefaultItem).Returns(_pvv1);
A.CallTo(() => pvvc2.DefaultItem).Returns(_pvv2);
A.CallTo(() => _species.PVVCategories).Returns(new[] { pvvc1, pvvc2 });
}
protected override void Context()
{
base.Context();
_category = new ParameterValueVersionCategory();
_pvv1 = new ParameterValueVersion();
_pvv2 = new ParameterValueVersion();
_category.Name = "toto";
_category.Add(_pvv1);
_category.Add(_pvv2);
_individualSettingsDTO.Species = _species;
A.CallTo(() => _species.PVVCategoryByName(_category.Name)).Returns(_category);
sut.PrepareForCreating();
}
public static Individual CreateIndividual()
{
var originData = new OriginData();
originData.SubPopulation = new SubPopulation();
originData.Species = new Species().WithName("Species");
originData.Gender = new Gender().WithName("Gender");
originData.SpeciesPopulation = new SpeciesPopulation().WithName("Population");
var pvv = new ParameterValueVersion().WithName("PVVName");
var category = new ParameterValueVersionCategory().WithName("CategoryName");
category.Add(pvv);
originData.SubPopulation.AddParameterValueVersion(pvv);
var organism = new Organism().WithName("Organism").WithId("OrganismId");
var organLiver = new Organ().WithName(CoreConstants.Organ.Liver).WithId("LiverId");
organLiver.OrganType = OrganType.Liver;
var periportal = new Compartment().WithName(CoreConstants.Compartment.Periportal).WithId("PeriportalId");
periportal.Add(new Container().WithName(CoreConstants.Compartment.Intracellular).WithId("PeriportalIntracellular"));
var pericentral = new Compartment().WithName(CoreConstants.Compartment.Pericentral).WithId("PericentralId");
pericentral.Add(new Container().WithName(CoreConstants.Compartment.Intracellular).WithId("PericentralIntracellular"));
organLiver.Add(periportal);
organLiver.Add(pericentral);
var organKidney = new Organ().WithName(CoreConstants.Organ.Kidney).WithId("KidneyId");
organKidney.OrganType = OrganType.Kidney;
organKidney.Add(new Compartment {
Visible = true
}.WithName(CoreConstants.Compartment.Plasma).WithId("KidneyPlasma"));
var lumen = new Organ().WithName("GiTract").WithId("GiTract");
lumen.OrganType = OrganType.Lumen;
var duodenum = new Compartment().WithName("Duodenum").WithId("Duodenum");
var caecum = new Compartment().WithName("Caecum").WithId("Caecum");
var dimension = Constants.Dimension.NO_DIMENSION;
var parameterLiver = new PKSimParameter().WithName("PLiver").WithId("PLiverId").WithFormula(new ExplicitFormula("1").WithId("1")).WithDimension(dimension);
parameterLiver.Info = new ParameterValueMetaData {
DefaultValue = 1
};
var parameterKidney = new PKSimParameter().WithName("PKidney").WithId("PKidneyId").WithFormula(new ExplicitFormula("2").WithId("2")).WithDimension(dimension);
parameterKidney.Info = new ParameterValueMetaData {
DefaultValue = 2
};
var parameterOrganism = new PKSimParameter().WithName(ParameterInOrganism).WithId("POrganismId").WithFormula(new ExplicitFormula("3").WithId("3")).WithDimension(dimension);
parameterOrganism.Info = new ParameterValueMetaData {
DefaultValue = 3
};
organLiver.Add(parameterLiver);
organKidney.Add(parameterKidney);
organism.Add(organLiver);
organism.Add(organKidney);
organism.Add(lumen);
organism.Add(parameterOrganism);
lumen.Add(duodenum);
lumen.Add(caecum);
var individual = new Individual {
OriginData = originData
}.WithName("Individual").WithId("IndividualId");
individual.Add(organism);
return(individual);
}
public static Individual CreateIndividual(string speciesName = "Species")
{
var originData = new OriginData
{
SubPopulation = new SubPopulation(),
Species = new Species {
DisplayName = speciesName, Id = speciesName
}.WithName(speciesName),
Gender = new Gender().WithName("Gender"),
Population = new SpeciesPopulation().WithName("Population"),
};
var pvv = new ParameterValueVersion().WithName("PVVName");
var category = new ParameterValueVersionCategory().WithName("CategoryName");
category.Add(pvv);
originData.SubPopulation.AddParameterValueVersion(pvv);
var organism = new Organism().WithName(Constants.ORGANISM).WithId("OrganismId");
var organLiver = new Organ().WithName(CoreConstants.Organ.LIVER).WithId("LiverId");
organLiver.OrganType = OrganType.TissueOrgansNotInGiTract;
var periportal = new Compartment().WithName(CoreConstants.Compartment.PERIPORTAL).WithId("PeriportalId");
periportal.Add(new Container().WithName(CoreConstants.Compartment.INTRACELLULAR).WithId("PeriportalIntracellular"));
var pericentral = new Compartment().WithName(CoreConstants.Compartment.PERICENTRAL).WithId("PericentralId");
pericentral.Add(new Container().WithName(CoreConstants.Compartment.INTRACELLULAR).WithId("PericentralIntracellular"));
organLiver.Add(periportal);
organLiver.Add(pericentral);
var organKidney = new Organ().WithName(CoreConstants.Organ.KIDNEY).WithId("KidneyId");
organKidney.OrganType = OrganType.TissueOrgansNotInGiTract;
organKidney.Add(new Compartment {
Visible = true
}.WithName(CoreConstants.Compartment.PLASMA).WithId("KidneyPlasma"));
var lumen = new Organ().WithName("GiTract").WithId("GiTract");
lumen.OrganType = OrganType.Lumen;
var duodenum = new Compartment().WithName("Duodenum").WithId("Duodenum");
var caecum = new Compartment().WithName("Caecum").WithId("Caecum");
var dimension = Constants.Dimension.NO_DIMENSION;
var parameterLiver = new PKSimParameter().WithName("PLiver").WithId("PLiverId").WithFormula(new ExplicitFormula("1").WithId("1")).WithDimension(dimension);
parameterLiver.Info = new ParameterValueMetaData {
DefaultValue = 1
};
var parameterKidney = new PKSimParameter().WithName("PKidney").WithId("PKidneyId").WithFormula(new ExplicitFormula("2").WithId("2")).WithDimension(dimension);
parameterKidney.Info = new ParameterValueMetaData {
DefaultValue = 2
};
var parameterOrganism = new PKSimParameter().WithName(ParameterInOrganism).WithId("POrganismId").WithFormula(new ExplicitFormula("3").WithId("3")).WithDimension(dimension);
parameterOrganism.Info = new ParameterValueMetaData {
DefaultValue = 3
};
organLiver.Add(parameterLiver);
organKidney.Add(parameterKidney);
organism.Add(organLiver);
organism.Add(organKidney);
organism.Add(lumen);
organism.Add(parameterOrganism);
lumen.Add(duodenum);
lumen.Add(caecum);
var individual = new Individual {
OriginData = originData
}.WithName("Individual").WithId("IndividualId");
individual.Add(organism);
return(individual);
}
