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Open-Systems-Pharmacology / MoBi

MoBi® is a software tool for multiscale physiological modeling and simulation
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Error after changing enzymes #1592

Open rwmcintosh opened 1 hour ago

rwmcintosh commented 1 hour ago

See original reports https://github.com/Open-Systems-Pharmacology/MoBi/issues/1589 mixed with another reported issue.

Application: MoBi® 11.3.207

Object reference not set to an instance of an object.

Stack trace:

at MoBi.Presentation.MoBiApplicationController.CreatePresenterForSubject[TSubject](TSubject subject)
   at OSPSuite.Presentation.Core.ApplicationController.Open[TSubject](TSubject subject, ICommandCollector commandCollector)
   at MoBi.Presentation.MoBiApplicationController.Open[TSubject](TSubject subject, ICommandCollector commandCollector)
   at MoBi.Presentation.Tasks.Edit.EditTasksForBuildingBlock`1.editPresenterFor(T entity)
   at MoBi.Presentation.Tasks.Edit.EditTasksForBuildingBlock`1.editEntiy(T entity)
   at MoBi.Presentation.Tasks.Edit.EditTasksForBuildingBlock`1.Edit(T buildingBlock)
   at MoBi.Presentation.UICommand.EditCommandFor`1.PerformExecute()
   at OSPSuite.Presentation.UICommands.ObjectUICommand`1.Execute()
   at OSPSuite.Presentation.UICommands.UICommandExtensions.ExecuteWithinExceptionHandler(IUICommand uiCommand, IEventPublisher eventPublisher, IChangePropagator changePropagator)

Originally posted by @amdreaanampg in https://github.com/Open-Systems-Pharmacology/MoBi/issues/1589#issuecomment-2427706309

rwmcintosh commented 1 hour ago

@amdreaanampg

I made a mistake in the reaction setup. Instead of adding a molecule as an enzyme, I mistakenly added it as a transporter. I removed the components from the reaction to correct it and add new enzymes, but now the system won't allow me to edit anything. I’m not sure what the problem is. Any advice on how to fix this?

rwmcintosh commented 1 hour ago

@amdreaanampg

I cannot save my project because it shows me this

Application: MoBi® 11.3.207

Value cannot be null. Parameter name: key

Stack trace:

at System.ThrowHelper.ThrowArgumentNullException(ExceptionArgument argument)
   at System.Collections.Generic.Dictionary`2.Insert(TKey key, TValue value, Boolean add)
   at OSPSuite.Utility.Collections.Cache`2.Add(TKey key, TValue value)
   at OSPSuite.Core.Serialization.Xml.SerializationContext.IdForString(String stringToCache)
   at OSPSuite.Core.Serialization.Xml.FormulaUsablePathXmlSerializer.TypedSerialize(FormulaUsablePath objectPath, SerializationContext serializationContext)
   at OSPSuite.Serializer.Xml.XmlSerializer`2.Serialize(Object objectToSerialize, TContext context)
   at OSPSuite.Serializer.Xml.XmlEnumerationNodeMapper`3.childNodeFor(TProperty child, TContext context)
   at OSPSuite.Serializer.Xml.XmlEnumerationNodeMapper`3.<>c__DisplayClass13_0.<Serialize>b__0(TProperty child)
   at OSPSuite.Utility.Extensions.EnumerableExtensions.Each[T](IEnumerable`1 list, Action`1 action)
   at OSPSuite.Serializer.Xml.XmlEnumerationNodeMapper`3.Serialize(TObject objectToSerialize, TContext context)
   at OSPSuite.Serializer.Xml.XmlSerializer`2.TypedSerialize(TObject objectToSerialize, TContext context)
   at OSPSuite.Serializer.Xml.XmlSerializer`2.Serialize(Object objectToSerialize, TContext context)
   at OSPSuite.Serializer.Xml.XmlEnumerationNodeMapper`3.childNodeFor(TProperty child, TContext context)
   at OSPSuite.Serializer.Xml.XmlEnumerationNodeMapper`3.<>c__DisplayClass13_0.<Serialize>b__0(TProperty child)
   at OSPSuite.Utility.Extensions.EnumerableExtensions.Each[T](IEnumerable`1 list, Action`1 action)
   at OSPSuite.Serializer.Xml.XmlEnumerationNodeMapper`3.Serialize(TObject objectToSerialize, TContext context)
   at OSPSuite.Serializer.Xml.XmlSerializer`2.TypedSerialize(TObject objectToSerialize, TContext context)
   at OSPSuite.Core.Serialization.Xml.FormulaCacheXmlSerializer.TypedSerialize(FormulaCache formulaCache, SerializationContext serializationContext)
   at OSPSuite.Serializer.Xml.XmlSerializer`2.Serialize(Object objectToSerialize, TContext context)
   at OSPSuite.Core.Serialization.Xml.Extensions.XmlSerializerRepositoryExtensions.AddFormulaCacheElement(IXmlSerializerRepository`1 serializerRepository, XElement element, SerializationContext serializationContext)
   at OSPSuite.Core.Serialization.Xml.BuildingBlockXmlSerializer`1.TypedSerialize(TBuildingBlock bb, SerializationContext serializationContext)
   at OSPSuite.Serializer.Xml.XmlSerializer`2.Serialize(Object objectToSerialize, TContext context)
   at MoBi.Core.Serialization.Xml.Services.XmlSerializationService.SerializeModelPart[T](T entityToSerialize)
   at MoBi.Core.Serialization.Xml.Services.XmlSerializationService.SerializeAsBytes[T](T entityToSerialize)
   at MoBi.Core.Serialization.ORM.Mappers.ProjectToProjectMetaDataMapper.serializeContent[T](MetaDataWithContent`1 metaDataWithContent, Object entity)
   at MoBi.Core.Serialization.ORM.Mappers.ProjectToProjectMetaDataMapper.serialize(EntityMetaData entityMetaData, Object entity)
   at MoBi.Core.Serialization.ORM.Mappers.ProjectToProjectMetaDataMapper.mapFrom(IWithId entityWithId)
   at MoBi.Core.Serialization.ORM.Mappers.ProjectToProjectMetaDataMapper.<>c__DisplayClass2_0.<MapFrom>b__0(IBuildingBlock x)
   at OSPSuite.Utility.Extensions.EnumerableExtensions.Each[T](IEnumerable`1 list, Action`1 action)
   at MoBi.Core.Serialization.ORM.Mappers.ProjectToProjectMetaDataMapper.MapFrom(IMoBiProject project)
   at MoBi.Core.Serialization.ORM.ProjectPersistor.projectMetaDataFrom(IMoBiProject project)
   at MoBi.Core.Serialization.ORM.ProjectPersistor.Save(IMoBiProject project, IMoBiContext context)
   at MoBi.Core.Serialization.ORM.ContextPersistor.Save(IMoBiContext context)
   at MoBi.Presentation.Tasks.SerializationTask.SaveProject()
   at MoBi.Presentation.Tasks.ProjectTask.saveProject()
   at MoBi.Presentation.Tasks.ProjectTask.Save()
   at MoBi.Presentation.UICommand.SaveProjectCommand.Execute()
   at OSPSuite.Presentation.UICommands.UICommandExtensions.ExecuteWithinExceptionHandler(IUICommand uiCommand, IEventPublisher eventPublisher, IChangePropagator changePropagator)