diff --git a/.gitattributes b/.gitattributes index a630b19f2..c5908f56b 100644 --- a/.gitattributes +++ b/.gitattributes @@ -25,7 +25,7 @@ *.coffee text *.config text *.cs text diff=csharp -*.csproj text merge=union +*.csproj text *.cshtml text *.css text *.dtd text diff --git a/PKSim.sln b/PKSim.sln index ec3f0b554..4952398eb 100644 --- a/PKSim.sln +++ b/PKSim.sln @@ -1,10 +1,11 @@  Microsoft Visual Studio Solution File, Format Version 12.00 -# Visual Studio Version 16 -VisualStudioVersion = 16.0.29025.244 +# Visual Studio Version 17 +VisualStudioVersion = 17.0.31912.275 MinimumVisualStudioVersion = 10.0.40219.1 Project("{2150E333-8FDC-42A3-9474-1A3956D46DE8}") = "Solution Items", "Solution Items", "{9B4D05BE-A0E7-41D6-8FCF-1C6005FBE801}" ProjectSection(SolutionItems) = preProject + .gitattributes = .gitattributes .gitignore = .gitignore appveyor-coverage.yml = appveyor-coverage.yml appveyor-nightly.yml = appveyor-nightly.yml @@ -136,8 +137,8 @@ Global HideSolutionNode = FALSE EndGlobalSection GlobalSection(ExtensibilityGlobals) = postSolution - SolutionGuid = {13620E23-1993-42C6-A4AB-468E29DD24DE} VisualSVNWorkingCopyRoot = + SolutionGuid = {13620E23-1993-42C6-A4AB-468E29DD24DE} EndGlobalSection GlobalSection(NDepend) = preSolution Project = ".\PKSim.ndproj" diff --git a/src/PKSim.Assets.Images/PKSim.Assets.Images.csproj b/src/PKSim.Assets.Images/PKSim.Assets.Images.csproj index b90a5cc9c..8ed8b0bb4 100644 --- a/src/PKSim.Assets.Images/PKSim.Assets.Images.csproj +++ b/src/PKSim.Assets.Images/PKSim.Assets.Images.csproj @@ -26,8 +26,8 @@ - - + + diff --git a/src/PKSim.Assets/PKSim.Assets.csproj b/src/PKSim.Assets/PKSim.Assets.csproj index f8c985624..b6b216f64 100644 --- a/src/PKSim.Assets/PKSim.Assets.csproj +++ b/src/PKSim.Assets/PKSim.Assets.csproj @@ -26,8 +26,8 @@ - - + + diff --git a/src/PKSim.BatchTool/PKSim.BatchTool.csproj b/src/PKSim.BatchTool/PKSim.BatchTool.csproj index 6de937d7e..a60b30bf3 100644 --- a/src/PKSim.BatchTool/PKSim.BatchTool.csproj +++ b/src/PKSim.BatchTool/PKSim.BatchTool.csproj @@ -63,7 +63,7 @@ - + diff --git a/src/PKSim.CLI.Core/PKSim.CLI.Core.csproj b/src/PKSim.CLI.Core/PKSim.CLI.Core.csproj index e18bb9fcd..c132baaa7 100644 --- a/src/PKSim.CLI.Core/PKSim.CLI.Core.csproj +++ b/src/PKSim.CLI.Core/PKSim.CLI.Core.csproj @@ -28,7 +28,7 @@ - + diff --git a/src/PKSim.CLI.Core/Services/ExportSimulationRunner.cs b/src/PKSim.CLI.Core/Services/ExportSimulationRunner.cs index a5d153331..f0fa1c112 100644 --- a/src/PKSim.CLI.Core/Services/ExportSimulationRunner.cs +++ b/src/PKSim.CLI.Core/Services/ExportSimulationRunner.cs @@ -3,6 +3,7 @@ using System.Linq; using System.Threading.Tasks; using OSPSuite.Core.Domain; +using OSPSuite.Core.Domain.Services; using OSPSuite.Core.Qualification; using OSPSuite.Core.Services; using OSPSuite.Utility; @@ -11,6 +12,7 @@ using PKSim.Core; using PKSim.Core.Model; using PKSim.Core.Services; +using ILazyLoadTask = PKSim.Core.Services.ILazyLoadTask; using SimulationRunOptions = PKSim.Core.Services.SimulationRunOptions; namespace PKSim.CLI.Core.Services diff --git a/src/PKSim.CLI/PKSim.CLI.csproj b/src/PKSim.CLI/PKSim.CLI.csproj index 4c9890fa1..de0dbf81e 100644 --- a/src/PKSim.CLI/PKSim.CLI.csproj +++ b/src/PKSim.CLI/PKSim.CLI.csproj @@ -61,8 +61,8 @@ - - + + diff --git a/src/PKSim.Core/Model/PKSimProject.cs b/src/PKSim.Core/Model/PKSimProject.cs index 02288f794..08c257ea9 100644 --- a/src/PKSim.Core/Model/PKSimProject.cs +++ b/src/PKSim.Core/Model/PKSimProject.cs @@ -115,9 +115,9 @@ public virtual void AddBuildingBlock(IPKSimBuildingBlock buildingBlockToAdd) { //that should never happen. Just in case var bbWithTheSameName = All(buildingBlockToAdd.BuildingBlockType) - .Where(bb => string.Equals(bb.Name, buildingBlockToAdd.Name)); + .Where(bb => bb.IsNamed(buildingBlockToAdd.Name)); - if (bbWithTheSameName.Count() != 0) + if (bbWithTheSameName.Any()) throw new BuildingBlockAlreadyExistsInProjectException(buildingBlockToAdd); _allBuildingBlocks.Add(buildingBlockToAdd); diff --git a/src/PKSim.Core/PKSim.Core.csproj b/src/PKSim.Core/PKSim.Core.csproj index 673a47101..f09183eb1 100644 --- a/src/PKSim.Core/PKSim.Core.csproj +++ b/src/PKSim.Core/PKSim.Core.csproj @@ -30,10 +30,10 @@ - - - - + + + + diff --git a/src/PKSim.Core/Snapshots/Mappers/ExpressionProfileMapper.cs b/src/PKSim.Core/Snapshots/Mappers/ExpressionProfileMapper.cs index e2fd10334..dc52ae782 100644 --- a/src/PKSim.Core/Snapshots/Mappers/ExpressionProfileMapper.cs +++ b/src/PKSim.Core/Snapshots/Mappers/ExpressionProfileMapper.cs @@ -90,7 +90,7 @@ public override async Task MapToModel(SnapshotExpression expressionProfile.Category = snapshot.Category; var (molecule, individual) = expressionProfile; - await _parameterMapper.MapLocalizedParameters(snapshot.Parameters, individual); + await _parameterMapper.MapLocalizedParameters(snapshot.Parameters, individual, !isV9Format(snapshot)); updateMoleculePropertiesToMolecule(molecule, snapshot, individual); diff --git a/src/PKSim.Core/Snapshots/Mappers/IndividualMapper.cs b/src/PKSim.Core/Snapshots/Mappers/IndividualMapper.cs index e865678ae..b4653990e 100644 --- a/src/PKSim.Core/Snapshots/Mappers/IndividualMapper.cs +++ b/src/PKSim.Core/Snapshots/Mappers/IndividualMapper.cs @@ -62,7 +62,7 @@ public override async Task MapToModel(SnapshotIndividual indivi await updateIndividualParameters(individualSnapshot, individual); if (isV10Format(individualSnapshot)) - await convertMoleculesToExpressionProfiles(individualSnapshot, project); + await convertMoleculesToExpressionProfiles(individualSnapshot, project); individualSnapshot.ExpressionProfiles?.Each(x => { @@ -74,7 +74,7 @@ public override async Task MapToModel(SnapshotIndividual indivi return individual; } - private async Task convertMoleculesToExpressionProfiles(SnapshotIndividual individualSnapshot, PKSimProject project) + private async Task convertMoleculesToExpressionProfiles(SnapshotIndividual individualSnapshot, PKSimProject project) { var expressionProfilesSnapshot = individualSnapshot.Molecules; expressionProfilesSnapshot.Each(x => @@ -84,11 +84,15 @@ private async Task convertMoleculesToExpressionProfiles(SnapshotIndividual indiv x.Molecule = x.Name; }); - var expressionProfiles = await _expressionProfileMapper.MapToModels(individualSnapshot.Molecules); + var expressionProfiles = await _expressionProfileMapper.MapToModels(expressionProfilesSnapshot); foreach (var expressionProfile in expressionProfiles) { - var (molecule, individual) = expressionProfile; - project.AddBuildingBlock(expressionProfile); + var (_, individual) = expressionProfile; + //Expression profile may have been added already to the project when converting a project with population + //and individual. So we only add if not available already + if (project.BuildingBlockByName(expressionProfile.Name) == null) + project.AddBuildingBlock(expressionProfile); + //this needs to happen here since molecule parameters were defined in individual in v10 await updateIndividualParameters(individualSnapshot, individual); } @@ -103,6 +107,5 @@ private Task updateIndividualParameters(SnapshotIndividual snapshot, ModelIndivi //We do not show warning for v10 format as we will FOR SURE have missing parameters return _parameterMapper.MapLocalizedParameters(snapshot.Parameters, individual, showParameterNotFoundWarning: !isV10Format(snapshot)); } - } } \ No newline at end of file diff --git a/src/PKSim.Infrastructure/PKSim.Infrastructure.csproj b/src/PKSim.Infrastructure/PKSim.Infrastructure.csproj index 14852a0bb..e717487b4 100644 --- a/src/PKSim.Infrastructure/PKSim.Infrastructure.csproj +++ b/src/PKSim.Infrastructure/PKSim.Infrastructure.csproj @@ -41,14 +41,14 @@ - - - - - - - - + + + + + + + + diff --git a/src/PKSim.Matlab/PKSim.Matlab.csproj b/src/PKSim.Matlab/PKSim.Matlab.csproj index 1ea95c0e2..c2c0a1fc4 100644 --- a/src/PKSim.Matlab/PKSim.Matlab.csproj +++ b/src/PKSim.Matlab/PKSim.Matlab.csproj @@ -27,7 +27,7 @@ - + diff --git a/src/PKSim.Presentation/PKSim.Presentation.csproj b/src/PKSim.Presentation/PKSim.Presentation.csproj index bcd826bbb..5ce77adcd 100644 --- a/src/PKSim.Presentation/PKSim.Presentation.csproj +++ b/src/PKSim.Presentation/PKSim.Presentation.csproj @@ -29,8 +29,8 @@ - - + + diff --git a/src/PKSim.R/PKSim.R.csproj b/src/PKSim.R/PKSim.R.csproj index e9983109f..9e8e4586c 100644 --- a/src/PKSim.R/PKSim.R.csproj +++ b/src/PKSim.R/PKSim.R.csproj @@ -50,7 +50,7 @@ - + diff --git a/src/PKSim.UI/PKSim.UI.csproj b/src/PKSim.UI/PKSim.UI.csproj index 65d853e1a..c2f104f9c 100644 --- a/src/PKSim.UI/PKSim.UI.csproj +++ b/src/PKSim.UI/PKSim.UI.csproj @@ -51,9 +51,9 @@ - - - + + + diff --git a/src/PKSim.UI/Views/ExpressionProfiles/ExpressionProfileMoleculesView.Designer.cs b/src/PKSim.UI/Views/ExpressionProfiles/ExpressionProfileMoleculesView.Designer.cs index c6108cecf..055cee29b 100644 --- a/src/PKSim.UI/Views/ExpressionProfiles/ExpressionProfileMoleculesView.Designer.cs +++ b/src/PKSim.UI/Views/ExpressionProfiles/ExpressionProfileMoleculesView.Designer.cs @@ -196,4 +196,4 @@ private void InitializeComponent() private DevExpress.XtraEditors.LabelControl layoutItemSpecies; private DevExpress.XtraEditors.PanelControl panelExpression; } -} +} \ No newline at end of file diff --git a/src/PKSim/PKSim.csproj b/src/PKSim/PKSim.csproj index 25cce67d2..4089d5605 100644 --- a/src/PKSim/PKSim.csproj +++ b/src/PKSim/PKSim.csproj @@ -76,13 +76,13 @@ - + - + diff --git a/tests/PKSim.Matlab.Tests/PKSim.Matlab.Tests.csproj b/tests/PKSim.Matlab.Tests/PKSim.Matlab.Tests.csproj index faf7117da..f0d5b5c59 100644 --- a/tests/PKSim.Matlab.Tests/PKSim.Matlab.Tests.csproj +++ b/tests/PKSim.Matlab.Tests/PKSim.Matlab.Tests.csproj @@ -23,7 +23,7 @@ - + diff --git a/tests/PKSim.R.Tests/PKSim.R.Tests.csproj b/tests/PKSim.R.Tests/PKSim.R.Tests.csproj index b743924fd..1434266f1 100644 --- a/tests/PKSim.R.Tests/PKSim.R.Tests.csproj +++ b/tests/PKSim.R.Tests/PKSim.R.Tests.csproj @@ -23,7 +23,7 @@ - + diff --git a/tests/PKSim.Tests/CLI/ExportSimulationRunnerSpecs.cs b/tests/PKSim.Tests/CLI/ExportSimulationRunnerSpecs.cs index 0d843456c..ab9d097fc 100644 --- a/tests/PKSim.Tests/CLI/ExportSimulationRunnerSpecs.cs +++ b/tests/PKSim.Tests/CLI/ExportSimulationRunnerSpecs.cs @@ -7,6 +7,7 @@ using OSPSuite.BDDHelper.Extensions; using OSPSuite.Core.Domain; using OSPSuite.Core.Domain.Builder; +using OSPSuite.Core.Domain.Services; using OSPSuite.Core.Qualification; using OSPSuite.Utility; using OSPSuite.Utility.Exceptions; @@ -17,6 +18,7 @@ using PKSim.Core.Model; using PKSim.Core.Services; using OSPSuite.Core.Services; +using ILazyLoadTask = PKSim.Core.Services.ILazyLoadTask; using SimulationRunOptions = PKSim.Core.Services.SimulationRunOptions; namespace PKSim.CLI @@ -24,10 +26,11 @@ namespace PKSim.CLI public abstract class concern_for_ExportSimulationRunner : ContextSpecificationAsync { protected IOSPSuiteLogger _logger; - protected IWorkspacePersistor _workspacePersitor; + protected IWorkspacePersistor _workspacePersistor; protected ICoreWorkspace _workspace; protected ISimulationExporter _simulationExporter; protected ILazyLoadTask _lazyLoadTask; + protected ExportRunOptions _exportRunOptions = new ExportRunOptions {ExportMode = SimulationExportMode.Json | SimulationExportMode.Xml}; private Func _oldFileExists; @@ -74,17 +77,17 @@ public override async Task GlobalContext() protected override Task Context() { _logger = A.Fake(); - _workspacePersitor = A.Fake(); + _workspacePersistor = A.Fake(); _workspace = A.Fake(); _simulationExporter = A.Fake(); _lazyLoadTask = A.Fake(); - sut = new ExportSimulationRunner(_logger, _workspacePersitor, _workspace, _simulationExporter, _lazyLoadTask); + sut = new ExportSimulationRunner(_logger, _workspacePersistor, _workspace, _simulationExporter, _lazyLoadTask); _project = new PKSimProject {Name = _projectName}; _simulation1 = createSimulationWithResults(_simulation1Name); _simulation2 = createSimulationWithResults(_simulation2Name); - A.CallTo(() => _workspacePersitor.LoadSession(_workspace, _projectFileName)).Invokes(x => { _workspace.Project = _project; }); + A.CallTo(() => _workspacePersistor.LoadSession(_workspace, _projectFileName)).Invokes(x => { _workspace.Project = _project; }); return _completed; diff --git a/tests/PKSim.Tests/Data/ind_pop_v9.json b/tests/PKSim.Tests/Data/ind_pop_v9.json new file mode 100644 index 000000000..365c2304a --- /dev/null +++ b/tests/PKSim.Tests/Data/ind_pop_v9.json @@ -0,0 +1,7517 @@ +{ + "Version": 75, + "Individuals": [ + { + "Name": "Ind", + "Seed": 30344955, + "OriginData": { + "CalculationMethods": [ + "SurfaceAreaPlsInt_VAR1", + "Body surface area - Mosteller" + ], + "Species": "Human", + "Population": "European_ICRP_2002", + "Gender": "MALE", + "Age": { + "Value": 30.0, + "Unit": "year(s)" + } + }, + "Parameters": [ + { + "Path": "Organism|Liver|EHC continuous fraction", + "Value": 1.0 + } + ], + "Molecules": [ + { + "Name": "CYP3A4", + "Type": "Enzyme", + "MembraneLocation": "Apical", + "TissueLocation": "Intracellular", + "IntracellularVascularEndoLocation": "Endosomal", + "Expression": [ + { + "Name": "Brain", + "Value": 0.0041682898325 + }, + { + "Name": "Gonads", + "Value": 0.00078691079081 + }, + { + "Name": "Kidney", + "Value": 0.0053603428126 + }, + { + "Name": "Periportal", + "Value": 1.0 + }, + { + "Name": "Pericentral", + "Value": 1.0 + }, + { + "Name": "Lung", + "Value": 0.00042695753798 + }, + { + "Name": "SmallIntestine", + "Value": 0.0727697702 + }, + { + "Name": "Duodenum", + "Value": 0.0727697702 + }, + { + "Name": "UpperJejunum", + "Value": 0.0727697702 + }, + { + "Name": "LowerJejunum", + "Value": 0.0727697702 + }, + { + "Name": "UpperIleum", + "Value": 0.0727697702 + }, + { + "Name": "LowerIleum", + "Value": 0.0727697702 + } + ], + "Ontogeny": { + "Name": "CYP3A4" + }, + "Parameters": [ + { + "Name": "t1/2 (liver)", + "Value": 36.0, + "Unit": "h" + }, + { + "Name": "Ontogeny factor GI", + "Value": 0.8 + } + ] + } + ] + } + ], + "Populations": [ + { + "Name": "Pop", + "Seed": 38956008, + "Settings": { + "NumberOfIndividuals": 100, + "ProportionOfFemales": 0, + "Age": { + "Min": 20.0, + "Max": 50.0, + "Unit": "year(s)" + }, + "Individual": { + "Name": "Ind", + "Seed": 38955883, + "OriginData": { + "CalculationMethods": [ + "SurfaceAreaPlsInt_VAR1", + "Body surface area - Mosteller" + ], + "Species": "Human", + "Population": "European_ICRP_2002", + "Gender": "MALE", + "Age": { + "Value": 30.0, + "Unit": "year(s)" + } + }, + "Parameters": [ + { + "Path": "Organism|Acidic phospholipids (blood cells) [mg/g] - RR", + "Value": 0.57 + }, + { + "Path": "Organism|Age", + "Value": 30.0, + "Unit": "year(s)" + }, + { + "Path": "Organism|ArterialBlood|Allometric scale factor", + "Value": 0.75 + }, + { + "Path": "Organism|ArterialBlood|Density (tissue)", + "Value": 1.0, + "Unit": "g/cm³" + }, + { + "Path": "Organism|ArterialBlood|Fraction vascular", + "Value": 1.0 + }, + { + "Path": "Organism|ArterialBlood|Peripheral blood flow fraction", + "Value": 0.0 + }, + { + "Path": "Organism|ArterialBlood|Volume", + "Value": 0.4191055043, + "Unit": "l" + }, + { + "Path": "Organism|ArterialBlood|Volume|Deviation", + "Value": 0.020954016, + "Unit": "l" + }, + { + "Path": "Organism|ArterialBlood|Volume|Mean", + "Value": 0.419080314, + "Unit": "l" + }, + { + "Path": "Organism|ArterialBlood|Volume|Percentile", + "Value": 0.5004795848 + }, + { + "Path": "Organism|ArterialBlood|Weight (tissue)", + "Value": 0.4191055043, + "Unit": "kg" + }, + { + "Path": "Organism|BMI", + "Value": 23.5666323468, + "Unit": "kg/m²" + }, + { + "Path": "Organism|Bone|Acidic phospholipids [mg/g] - RR", + "Value": 0.67 + }, + { + "Path": "Organism|Bone|Albumin ratio (tissue/plasma)", + "Value": 0.1 + }, + { + "Path": "Organism|Bone|Albumin ratio (tissue/plasma)-PT", + "Value": 0.5 + }, + { + "Path": "Organism|Bone|Allometric scale factor", + "Value": 2.0 + }, + { + "Path": "Organism|Bone|Blood flow rate", + "Value": 0.3249609413, + "Unit": "l/min" + }, + { + "Path": "Organism|Bone|Density (tissue)", + "Value": 1.0, + "Unit": "g/cm³" + }, + { + "Path": "Organism|Bone|Flow fraction via large pores", + "Value": 0.8 + }, + { + "Path": "Organism|Bone|Fluid recirculation flow rate", + "Value": 3.4186215758E-09, + "Unit": "l/min" + }, + { + "Path": "Organism|Bone|Fraction interstitial", + "Value": 0.1 + }, + { + "Path": "Organism|Bone|Fraction intracellular", + "Value": 0.866 + }, + { + "Path": "Organism|Bone|Fraction of blood for sampling", + "Value": 1.0 + }, + { + "Path": "Organism|Bone|Fraction vascular", + "Value": 0.034 + }, + { + "Path": "Organism|Bone|Hydraulic conductivity", + "Value": 0.0014, + "Unit": "ml/min/N" + }, + { + "Path": "Organism|Bone|Interstitial|pH", + "Value": 7.4 + }, + { + "Path": "Organism|Bone|Intracellular|pH", + "Value": 7.0 + }, + { + "Path": "Organism|Bone|Lipoprotein ratio (tissue/plasma)", + "Value": 0.05 + }, + { + "Path": "Organism|Bone|Lymph flow rate", + "Value": 0.0024820000121, + "Unit": "l/min" + }, + { + "Path": "Organism|Bone|Peripheral blood flow fraction", + "Value": 0.0 + }, + { + "Path": "Organism|Bone|Radius (large pores)", + "Value": 0.033, + "Unit": "µm" + }, + { + "Path": "Organism|Bone|Radius (small pores)", + "Value": 0.009, + "Unit": "µm" + }, + { + "Path": "Organism|Bone|Specific blood flow rate", + "Value": 2.7495, + "Unit": "ml/min/100g organ" + }, + { + "Path": "Organism|Bone|Specific blood flow rate|Deviation", + "Value": 0.137475, + "Unit": "ml/min/100g organ" + }, + { + "Path": "Organism|Bone|Specific blood flow rate|Mean", + "Value": 2.7495, + "Unit": "ml/min/100g organ" + }, + { + "Path": "Organism|Bone|Specific blood flow rate|Percentile", + "Value": 0.5 + }, + { + "Path": "Organism|Bone|Vf (acidic phospholipids)-WS", + "Value": 0.0008 + }, + { + "Path": "Organism|Bone|Vf (extracellular water)-RR", + "Value": 0.1 + }, + { + "Path": "Organism|Bone|Vf (intracellular water)-RR", + "Value": 0.317 + }, + { + "Path": "Organism|Bone|Vf (lipid)", + "Value": 0.268 + }, + { + "Path": "Organism|Bone|Vf (neutral lipid)-PT", + "Value": 0.074 + }, + { + "Path": "Organism|Bone|Vf (neutral lipid)-RR", + "Value": 0.0174 + }, + { + "Path": "Organism|Bone|Vf (neutral lipid)-WS", + "Value": 0.017 + }, + { + "Path": "Organism|Bone|Vf (neutral phospholipid)-RR", + "Value": 0.0016 + }, + { + "Path": "Organism|Bone|Vf (neutral phospholipid, plasma)-WS", + "Value": 0.0022 + }, + { + "Path": "Organism|Bone|Vf (phospholipid)-PT", + "Value": 0.0011 + }, + { + "Path": "Organism|Bone|Vf (protein)", + "Value": 0.268 + }, + { + "Path": "Organism|Bone|Vf (protein)-WS", + "Value": 0.21 + }, + { + "Path": "Organism|Bone|Vf (water)", + "Value": 0.465 + }, + { + "Path": "Organism|Bone|Vf (water)-PT", + "Value": 0.439 + }, + { + "Path": "Organism|Bone|Vf (water)-WS", + "Value": 0.26 + }, + { + "Path": "Organism|Bone|Volume", + "Value": 11.818910393, + "Unit": "l" + }, + { + "Path": "Organism|Bone|Volume (endothelium)", + "Value": 0.0114525242, + "Unit": "l" + }, + { + "Path": "Organism|Bone|Volume|Deviation", + "Value": 0.1306933606, + "Unit": "l" + }, + { + "Path": "Organism|Bone|Volume|Mean", + "Value": 11.817828072, + "Unit": "l" + }, + { + "Path": "Organism|Bone|Volume|Percentile", + "Value": 0.5033033648 + }, + { + "Path": "Organism|Bone|Weight (tissue)", + "Value": 11.818910393, + "Unit": "kg" + }, + { + "Path": "Organism|Brain|Acidic phospholipids [mg/g] - RR", + "Value": 0.4 + }, + { + "Path": "Organism|Brain|Albumin ratio (tissue/plasma)", + "Value": 0.048 + }, + { + "Path": "Organism|Brain|Albumin ratio (tissue/plasma)-PT", + "Value": 0.5 + }, + { + "Path": "Organism|Brain|Allometric scale factor", + "Value": 0.0 + }, + { + "Path": "Organism|Brain|Blood flow rate", + "Value": 0.7798363562, + "Unit": "l/min" + }, + { + "Path": "Organism|Brain|Density (tissue)", + "Value": 1.0, + "Unit": "g/cm³" + }, + { + "Path": "Organism|Brain|Flow fraction via large pores", + "Value": 0.05 + }, + { + "Path": "Organism|Brain|Fluid recirculation flow rate", + "Value": 7.2786585749E-12, + "Unit": "l/min" + }, + { + "Path": "Organism|Brain|Fraction interstitial", + "Value": 0.004 + }, + { + "Path": "Organism|Brain|Fraction intracellular", + "Value": 0.957 + }, + { + "Path": "Organism|Brain|Fraction of blood for sampling", + "Value": 1.0 + }, + { + "Path": "Organism|Brain|Fraction vascular", + "Value": 0.039 + }, + { + "Path": "Organism|Brain|Hydraulic conductivity", + "Value": 1.8E-06, + "Unit": "ml/min/N" + }, + { + "Path": "Organism|Brain|Interstitial|pH", + "Value": 7.4 + }, + { + "Path": "Organism|Brain|Intracellular|pH", + "Value": 7.1 + }, + { + "Path": "Organism|Brain|Lipoprotein ratio (tissue/plasma)", + "Value": 0.041 + }, + { + "Path": "Organism|Brain|Lymph flow rate", + "Value": 1.1680000057E-09, + "Unit": "l/min" + }, + { + "Path": "Organism|Brain|Radius (large pores)", + "Value": 0.025, + "Unit": "µm" + }, + { + "Path": "Organism|Brain|Radius (small pores)", + "Value": 0.0045, + "Unit": "µm" + }, + { + "Path": "Organism|Brain|Specific blood flow rate", + "Value": 51.675, + "Unit": "ml/min/100g organ" + }, + { + "Path": "Organism|Brain|Specific blood flow rate|Deviation", + "Value": 2.58375, + "Unit": "ml/min/100g organ" + }, + { + "Path": "Organism|Brain|Specific blood flow rate|Mean", + "Value": 51.675, + "Unit": "ml/min/100g organ" + }, + { + "Path": "Organism|Brain|Specific blood flow rate|Percentile", + "Value": 0.5 + }, + { + "Path": "Organism|Brain|Vf (acidic phospholipids)-WS", + "Value": 0.0143 + }, + { + "Path": "Organism|Brain|Vf (extracellular water)-RR", + "Value": 0.162 + }, + { + "Path": "Organism|Brain|Vf (intracellular water)-RR", + "Value": 0.591 + }, + { + "Path": "Organism|Brain|Vf (lipid)", + "Value": 0.11 + }, + { + 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(lipid, blood cells)", + "Value": 0.005 + }, + { + "Path": "Organism|Vf (lipid, plasma)", + "Value": 0.007 + }, + { + "Path": "Organism|Vf (neutral lipid, blood cells)-RR", + "Value": 0.0012 + }, + { + "Path": "Organism|Vf (neutral lipid, blood cells)-WS", + "Value": 0.003 + }, + { + "Path": "Organism|Vf (neutral lipid, plasma)-PT", + "Value": 0.0035 + }, + { + "Path": "Organism|Vf (neutral lipid, plasma)-RR", + "Value": 0.0032 + }, + { + "Path": "Organism|Vf (neutral phospholipid, blood cells)-RR", + "Value": 0.0033 + }, + { + "Path": "Organism|Vf (neutral phospholipid, blood cells)-WS", + "Value": 0.0059 + }, + { + "Path": "Organism|Vf (neutral phospholipid, plasma)-RR", + "Value": 0.0021 + }, + { + "Path": "Organism|Vf (phospholipid, plasma)-PT", + "Value": 0.00225 + }, + { + "Path": "Organism|Vf (protein,blood cells)", + "Value": 0.325 + }, + { + "Path": "Organism|Vf (protein,plasma)", + "Value": 0.067 + }, + { + "Path": "Organism|Vf (water,blood cells)", + "Value": 0.625 + }, + { + "Path": "Organism|Vf (water,interstitial)", + "Value": 0.935 + }, + { + "Path": "Organism|Vf (water,plasma)", + "Value": 0.926 + }, + { + "Path": "Organism|Vf (water,plasma)-PT", + "Value": 0.945 + }, + { + "Path": "Organism|Weight", + "Value": 73.0000003573, + "Unit": "kg" + } + ], + "Molecules": [ + { + "Name": "CYP3A4", + "Type": "Enzyme", + "MembraneLocation": "Apical", + "TissueLocation": "Intracellular", + "IntracellularVascularEndoLocation": "Endosomal", + "Expression": [ + { + "Name": "BloodCells", + "Value": 0.0 + }, + { + "Name": "Plasma", + "Value": 0.0 + }, + { + "Name": "VascularEndothelium", + "Value": 0.0 + }, + { + "Name": "Bone", + "Value": 0.0 + }, + { + "Name": "Brain", + "Value": 0.0041682898325 + }, + { + "Name": "Fat", + "Value": 0.0 + }, + { + "Name": "Gonads", + "Value": 0.00078691079081 + }, + { + "Name": "Heart", + "Value": 0.0 + }, + { + "Name": "Kidney", + "Value": 0.0053603428126 + }, + { + "Name": "Periportal", + "Value": 1.0 + }, + { + "Name": "Pericentral", + "Value": 1.0 + }, + { + "Name": "Lung", + "Value": 0.00042695753798 + }, + { + "Name": "Muscle", + "Value": 0.0 + }, + { + "Name": "Pancreas", + "Value": 0.0 + }, + { + "Name": "Skin", + "Value": 0.0 + }, + { + "Name": "Spleen", + "Value": 0.0 + }, + { + "Name": "Stomach", + "Value": 0.0 + }, + { + "Name": "SmallIntestine", + "Value": 0.0727697702 + }, + { + "Name": "LargeIntestine", + "Value": 0.0 + }, + { + "Name": "Lumen-Stomach", + "Value": 0.0 + }, + { + "Name": "Lumen-Duodenum", + "Value": 0.0 + }, + { + "Name": "Lumen-UpperJejunum", + "Value": 0.0 + }, + { + "Name": "Lumen-LowerJejunum", + "Value": 0.0 + }, + { + "Name": "Lumen-UpperIleum", + "Value": 0.0 + }, + { + "Name": "Lumen-LowerIleum", + "Value": 0.0 + }, + { + "Name": "Lumen-Caecum", + "Value": 0.0 + }, + { + "Name": "Lumen-ColonAscendens", + "Value": 0.0 + }, + { + "Name": "Lumen-ColonTransversum", + "Value": 0.0 + }, + { + "Name": "Lumen-ColonDescendens", + "Value": 0.0 + }, + { + "Name": "Lumen-ColonSigmoid", + "Value": 0.0 + }, + { + "Name": "Lumen-Rectum", + "Value": 0.0 + }, + { + "Name": "Duodenum", + "Value": 0.0727697702 + }, + { + "Name": "UpperJejunum", + "Value": 0.0727697702 + }, + { + "Name": "LowerJejunum", + "Value": 0.0727697702 + }, + { + "Name": "UpperIleum", + "Value": 0.0727697702 + }, + { + "Name": "LowerIleum", + "Value": 0.0727697702 + }, + { + "Name": "Caecum", + "Value": 0.0 + }, + { + "Name": "ColonAscendens", + "Value": 0.0 + }, + { + "Name": "ColonTransversum", + "Value": 0.0 + }, + { + "Name": "ColonDescendens", + "Value": 0.0 + }, + { + "Name": "ColonSigmoid", + "Value": 0.0 + }, + { + "Name": "Rectum", + "Value": 0.0 + } + ], + "Ontogeny": { + "Name": "CYP3A4" + }, + "Parameters": [ + { + "Name": "Reference concentration", + "Value": 4.32, + "Unit": "µmol/l" + }, + { + "Name": "t1/2 (liver)", + "Value": 36.0, + "Unit": "h" + }, + { + "Name": "t1/2 (intestine)", + "Value": 23.0, + "Unit": "h" + }, + { + "Name": "Ontogeny factor GI", + "Value": 0.9741260583 + }, + { + "Name": "Ontogeny factor", + "Value": 1.0 + } + ] + } + ] + } + } + } + ] +} \ No newline at end of file diff --git a/tests/PKSim.Tests/IntegrationTests/IndividualMapperSpecs.cs b/tests/PKSim.Tests/IntegrationTests/IndividualMapperSpecs.cs index a13fa9441..63da0fbe2 100644 --- a/tests/PKSim.Tests/IntegrationTests/IndividualMapperSpecs.cs +++ b/tests/PKSim.Tests/IntegrationTests/IndividualMapperSpecs.cs @@ -138,4 +138,24 @@ public void should_have_added_the_newly_created_expression_profile_as_reference_ } } + public class When_loading_a_snapshot_file_containing_expression_created_in_v9_with_individual_and_population : ContextWithLoadedSnapshot + { + private Individual _individual; + private Population _pop; + + public override void GlobalContext() + { + base.GlobalContext(); + LoadSnapshot("ind_pop_v9"); + _individual = FindByName("Ind"); + _pop = FindByName("Pop"); + } + + [Observation] + public void should_have_been_able_to_load_the_individual_and_the_population() + { + _individual.ShouldNotBeNull(); + _pop.ShouldNotBeNull(); + } + } } \ No newline at end of file diff --git a/tests/PKSim.Tests/PKSim.Tests.csproj b/tests/PKSim.Tests/PKSim.Tests.csproj index 4ad7a66b3..3e2aa4b53 100644 --- a/tests/PKSim.Tests/PKSim.Tests.csproj +++ b/tests/PKSim.Tests/PKSim.Tests.csproj @@ -21,7 +21,7 @@ - + diff --git a/tests/PKSim.UI.Starter/PKSim.UI.Starter.csproj b/tests/PKSim.UI.Starter/PKSim.UI.Starter.csproj index d0330b61d..dfcd70b07 100644 --- a/tests/PKSim.UI.Starter/PKSim.UI.Starter.csproj +++ b/tests/PKSim.UI.Starter/PKSim.UI.Starter.csproj @@ -56,13 +56,13 @@ - + - + diff --git a/tests/PKSim.UI.Tests/PKSim.UI.Tests.csproj b/tests/PKSim.UI.Tests/PKSim.UI.Tests.csproj index ddd0d74de..c317d8d8f 100644 --- a/tests/PKSim.UI.Tests/PKSim.UI.Tests.csproj +++ b/tests/PKSim.UI.Tests/PKSim.UI.Tests.csproj @@ -18,8 +18,8 @@ - - + +