StateSubwidget Class Reference

#include <StateSubwidget.h>

Inheritance diagram for StateSubwidget:

Collaboration diagram for StateSubwidget:

Public Member Functions
void	clear ()
virtual bool	loadAll (const CSteadyStateTask *pTask)
virtual void	setFramework (int framework)
	StateSubwidget (QWidget *parent=0, const char *name=0)
virtual bool	update (ListViews::ObjectType objectType, ListViews::Action action, const std::string &key)
	~StateSubwidget ()
Public Member Functions inherited from CopasiWidget
	CopasiWidget (QWidget *parent=0, const char *name=0, Qt::WFlags f=0)
bool	enter (const std::string &key)
CCopasiDataModel *	getDataModel ()
bool	getIgnoreUpdates ()
virtual bool	leave ()
void	setIgnoreUpdates (bool v)

Protected Member Functions
virtual void	init ()
void	loadCompartments ()
void	loadJacobian ()
void	loadMetabolites ()
void	loadModelValues ()
void	loadReactions ()
void	showUnits ()
Protected Member Functions inherited from CopasiWidget
virtual bool	enterProtected ()

Protected Attributes
CModel *	mpModel
const CSteadyStateTask *	mpTask
Protected Attributes inherited from CopasiWidget
int	mFramework
bool	mIgnoreUpdates
std::string	mKey
CCopasiDataModel *	mpDataModel
ListViews *	mpListView
CCopasiObject *	mpObject

Additional Inherited Members
Protected Slots inherited from CopasiWidget
virtual bool	protectedNotify (ListViews::ObjectType objectType, ListViews::Action action, const std::string &key="")

Detailed Description

Definition at line 31 of file StateSubwidget.h.

Constructor & Destructor Documentation

StateSubwidget::StateSubwidget	(	QWidget *	parent = 0,
		const char *	name = 0
	)

Definition at line 44 of file StateSubwidget.cpp.

References init().

    : CopasiWidget(parent, name)
{
  setupUi(this);

  init();
}

StateSubwidget::~StateSubwidget

(

)

Definition at line 55 of file StateSubwidget.cpp.

{
  // no need to delete child widgets, Qt does it all for us
}

Member Function Documentation

void StateSubwidget::clear

(

)

Definition at line 364 of file StateSubwidget.cpp.

Referenced by loadAll(), and update().

{
  topLabel->setText("No result available, please execute the steady-state task.");

  mpTblMetabolites->setRowCount(0);
  mpTblCompartments->setRowCount(0);
  mpTblModelValues->setRowCount(0);
  mpTblReactions->setRowCount(0);

  mpJacobianAnnotationWidget->setArrayAnnotation(NULL);
  mpJacobianXAnnotationWidget->setArrayAnnotation(NULL);

  tableEigenValues->setRowCount(0);
  tableEigenValuesX->setRowCount(0);

  stabilityTextEdit->setText("");
  protocolTextEdit->setText("");
}

void StateSubwidget::init ( )

protectedvirtual

Definition at line 60 of file StateSubwidget.cpp.

References CopasiWidget::mFramework, mpModel, mpTask, and setFramework().

Referenced by StateSubwidget().

{
  topLabel->setText("");

  mpModel = NULL;
  mpTask = NULL;

  setFramework(mFramework);
}

bool StateSubwidget::loadAll ( const CSteadyStateTask *  pTask )

virtual

Definition at line 285 of file StateSubwidget.cpp.

References clear(), CSteadyStateMethod::found, CSteadyStateMethod::foundEquilibrium, CSteadyStateMethod::foundNegative, FROM_UTF8, CCopasiRootContainer::getDatamodelList(), CCopasiTask::getMethod(), CSteadyStateMethod::getMethodLog(), CCopasiTask::getProblem(), CSteadyStateTask::getResult(), CSteadyStateTask::getState(), CSteadyStateProblem::isJacobianRequested(), CSteadyStateProblem::isStabilityAnalysisRequested(), loadCompartments(), loadJacobian(), loadMetabolites(), loadModelValues(), loadReactions(), CopasiWidget::mFramework, mpModel, mpTask, CSteadyStateMethod::notFound, pTask, setFramework(), CModel::setState(), CModel::updateNonSimulatedValues(), and CModel::updateSimulatedValues().

{
  mpTask = pTask;
  assert(CCopasiRootContainer::getDatamodelList()->size() > 0);
  mpModel = (*CCopasiRootContainer::getDatamodelList())[0]->getModel();

  if (mpTask == NULL || mpModel == NULL)
    {
      clear();
      return false;
    }

  CState * pState = const_cast<CState *>(mpTask->getState());
  mpModel->setState(*pState);
  mpModel->updateSimulatedValues(true);
  mpModel->updateNonSimulatedValues();

  if (mpTask->getResult() == CSteadyStateMethod::found)
    topLabel->setText("A steady state with given resolution was found.");
  else if (mpTask->getResult() == CSteadyStateMethod::notFound)
    topLabel->setText("No steady state with given resolution was found!");
  else if (mpTask->getResult() == CSteadyStateMethod::foundEquilibrium)
    topLabel->setText("An equilibrium steady state (zero fluxes) was found.");
  else if (mpTask->getResult() == CSteadyStateMethod::foundNegative)
    topLabel->setText("An invalid steady state (negative concentrations) was found.");
  else
    topLabel->setText("A steady state with given resolution couldn't be found.");

  setFramework(mFramework);

  loadMetabolites();
  loadCompartments();
  loadModelValues();
  loadReactions();

  const CSteadyStateProblem* pProblem =
    dynamic_cast<const CSteadyStateProblem *>(mpTask->getProblem());
  assert(pProblem);

  int Last = mpTabWidget->count() - 1;

  // enable/disable tab widgets

  // jacobian and stability
  if (pProblem->isJacobianRequested() ||
      pProblem->isStabilityAnalysisRequested())
    {
      mpTabWidget->setTabEnabled(Last - 3, true);
      mpTabWidget->setTabEnabled(Last - 2, true);
      mpTabWidget->setTabEnabled(Last - 1, true);

      loadJacobian();
    }

  else
    {
      mpTabWidget->setTabEnabled(Last - 3, false);
      mpTabWidget->setTabEnabled(Last - 2, false);
      mpTabWidget->setTabEnabled(Last - 1, false);
    }

  // protocol
  if (true)
    {
      mpTabWidget->setTabEnabled(Last, true);

      const CSteadyStateMethod * pMethod =
        dynamic_cast<const CSteadyStateMethod *>(mpTask->getMethod());
      assert(pMethod);
      protocolTextEdit->setText(FROM_UTF8(pMethod->getMethodLog()));
    }
  else
    {
      mpTabWidget->setTabEnabled(Last, false);
    }

  return true;
}

void StateSubwidget::loadCompartments ( )

protected

Definition at line 99 of file StateSubwidget.cpp.

References CCopasiVector< T >::begin(), C_INT32, CCopasiVector< T >::end(), FROM_UTF8, CModel::getCompartments(), mpModel, CModelEntity::ODE, CCopasiVector< T >::size(), and CModelEntity::StatusName.

Referenced by loadAll().

{
  CCopasiVectorN< CCompartment >::const_iterator it = mpModel->getCompartments().begin();
  CCopasiVectorN< CCompartment >::const_iterator end = mpModel->getCompartments().end();
  C_INT32 i = 0;

  mpTblCompartments->setRowCount((int) mpModel->getCompartments().size());

  for (; it != end; ++it)
    if ((*it)->getStatus() == CModelEntity::ODE)
      {
        mpTblCompartments->setItem(i, 0, new QTableWidgetItem(FROM_UTF8((*it)->getObjectName())));
        mpTblCompartments->setItem(i, 1, new QTableWidgetItem(FROM_UTF8(CModelEntity::StatusName[(*it)->getStatus()])));
        mpTblCompartments->setItem(i, 2, new QTableWidgetItem(QString::number((*it)->getValue())));
        mpTblCompartments->setItem(i, 3, new QTableWidgetItem(QString::number((*it)->getRate())));
        i++;
      }

  mpTblCompartments->setRowCount(i);
  mpTblCompartments->resizeColumnsToContents();
  mpTblCompartments->resizeRowsToContents();
}

void StateSubwidget::loadJacobian ( )

protected

Definition at line 168 of file StateSubwidget.cpp.

References FROM_UTF8, CSteadyStateTask::getEigenValues(), CSteadyStateTask::getEigenValuesReduced(), CEigen::getI(), CSteadyStateTask::getJacobianAnnotated(), CSteadyStateTask::getJacobianXAnnotated(), CEigen::getR(), mpTask, and CVectorCore< CType >::size().

Referenced by loadAll().

{
  const CArrayAnnotation * JacAnn = mpTask->getJacobianAnnotated();

  CColorScaleBiLog * tcs = new CColorScaleBiLog();
  mpJacobianAnnotationWidget->setColorCoding(tcs);
  mpJacobianAnnotationWidget->setColorScalingAutomatic(true);
  mpJacobianAnnotationWidget->setLegendEnabled(false);
  mpJacobianAnnotationWidget->setArrayAnnotation(JacAnn);

  //Eigenvalues...
  const CVector< C_FLOAT64 > & eigen_i = mpTask->getEigenValues().getI();
  const CVector< C_FLOAT64 > & eigen_r = mpTask->getEigenValues().getR();

  size_t i, imax = eigen_i.size();
  tableEigenValues->setRowCount((int) imax);

  for (i = 0; i < imax; ++i)
    {
      tableEigenValues->setItem((int) i, 0, new QTableWidgetItem(QString::number(eigen_r[i])));
      tableEigenValues->setItem((int) i, 1, new QTableWidgetItem(QString::number(eigen_i[i])));
    }

  tableEigenValues->resizeColumnsToContents();
  tableEigenValues->resizeRowsToContents();

  //JacobianX

  const CArrayAnnotation * JacXAnn = mpTask->getJacobianXAnnotated();

  tcs = new CColorScaleBiLog();
  mpJacobianXAnnotationWidget->setColorCoding(tcs);
  mpJacobianXAnnotationWidget->setColorScalingAutomatic(true);
  mpJacobianXAnnotationWidget->setLegendEnabled(false);
  mpJacobianXAnnotationWidget->setArrayAnnotation(JacXAnn);

  //Eigenvalues...
  const CVector< C_FLOAT64 > & eigen_iX = mpTask->getEigenValuesReduced().getI();
  const CVector< C_FLOAT64 > & eigen_rX = mpTask->getEigenValuesReduced().getR();

  imax = eigen_iX.size();
  tableEigenValuesX->setRowCount((int) imax);

  for (i = 0; i < imax; ++i)
    {
      tableEigenValuesX->setItem((int) i, 0, new QTableWidgetItem(QString::number(eigen_rX[i])));
      tableEigenValuesX->setItem((int) i, 1, new QTableWidgetItem(QString::number(eigen_iX[i])));
    }

  tableEigenValuesX->resizeColumnsToContents();
  tableEigenValuesX->resizeRowsToContents();

  //stability report
  stabilityTextEdit->setReadOnly(true);

  std::ostringstream ss;
  ss << mpTask->getEigenValuesReduced();

  stabilityTextEdit->setText(FROM_UTF8(ss.str()));
  return;
}

void StateSubwidget::loadMetabolites ( )

protected

Definition at line 70 of file StateSubwidget.cpp.

References CCopasiVector< T >::begin(), CCopasiVector< T >::end(), FROM_UTF8, CMetabNameInterface::getDisplayName(), CModel::getMetabolites(), mpModel, CModelEntity::ODE, CModelEntity::REACTIONS, CCopasiVector< T >::size(), and CModelEntity::StatusName.

Referenced by loadAll().

{
  // Fill the table
  CCopasiVectorN< CMetab >::const_iterator it = mpModel->getMetabolites().begin();
  CCopasiVectorN< CMetab >::const_iterator end = mpModel->getMetabolites().end();
  int i = 0;

  mpTblMetabolites->setRowCount((int) mpModel->getMetabolites().size());

  for (; it != end; ++it)
    if ((*it)->getStatus() == CModelEntity::ODE ||
        ((*it)->getStatus() == CModelEntity::REACTIONS && (*it)->isUsed()))
      {
        mpTblMetabolites->setItem(i, 0, new QTableWidgetItem(FROM_UTF8(CMetabNameInterface::getDisplayName(mpModel, **it, false))));
        mpTblMetabolites->setItem(i, 1, new QTableWidgetItem(FROM_UTF8(CModelEntity::StatusName[(*it)->getStatus()])));
        mpTblMetabolites->setItem(i, 2, new QTableWidgetItem(QString::number((*it)->getConcentration())));
        mpTblMetabolites->setItem(i, 3, new QTableWidgetItem(QString::number((*it)->getValue())));
        mpTblMetabolites->setItem(i, 4, new QTableWidgetItem(QString::number((*it)->getConcentrationRate())));
        mpTblMetabolites->setItem(i, 5, new QTableWidgetItem(QString::number((*it)->getRate())));
        mpTblMetabolites->setItem(i, 6, new QTableWidgetItem(QString::number((*it)->getTransitionTime())));

        i++;
      }

  mpTblMetabolites->setRowCount(i);
  mpTblMetabolites->resizeColumnsToContents();
  mpTblMetabolites->resizeRowsToContents();
}

void StateSubwidget::loadModelValues ( )

protected

Definition at line 145 of file StateSubwidget.cpp.

References CCopasiVector< T >::begin(), C_INT32, CCopasiVector< T >::end(), FROM_UTF8, CModel::getModelValues(), mpModel, CModelEntity::ODE, CCopasiVector< T >::size(), and CModelEntity::StatusName.

Referenced by loadAll().

{
  CCopasiVectorN< CModelValue >::const_iterator it = mpModel->getModelValues().begin();
  CCopasiVectorN< CModelValue >::const_iterator end = mpModel->getModelValues().end();
  C_INT32 i = 0;

  mpTblModelValues->setRowCount((int) mpModel->getModelValues().size());

  for (; it != end; ++it)
    if ((*it)->getStatus() == CModelEntity::ODE)
      {
        mpTblModelValues->setItem(i, 0, new QTableWidgetItem(FROM_UTF8((*it)->getObjectName())));
        mpTblModelValues->setItem(i, 1, new QTableWidgetItem(FROM_UTF8(CModelEntity::StatusName[(*it)->getStatus()])));
        mpTblModelValues->setItem(i, 2, new QTableWidgetItem(QString::number((*it)->getValue())));
        mpTblModelValues->setItem(i, 3, new QTableWidgetItem(QString::number((*it)->getRate())));
        i++;
      }

  mpTblModelValues->setRowCount(i);
  mpTblModelValues->resizeColumnsToContents();
  mpTblModelValues->resizeRowsToContents();
}

void StateSubwidget::loadReactions ( )

protected

Definition at line 122 of file StateSubwidget.cpp.

References CCopasiVector< T >::begin(), C_INT32, CCopasiVector< T >::end(), FROM_UTF8, CChemEqInterface::getChemEqString(), CModel::getReactions(), mpModel, and CCopasiVector< T >::size().

Referenced by loadAll().

{
  // Fill the table
  CCopasiVectorN< CReaction >::const_iterator it = mpModel->getReactions().begin();
  CCopasiVectorN< CReaction >::const_iterator end = mpModel->getReactions().end();
  C_INT32 i = 0;

  mpTblReactions->setRowCount((int) mpModel->getReactions().size());

  for (; it != end; ++it)
    {
      mpTblReactions->setItem(i, 0, new QTableWidgetItem(FROM_UTF8((*it)->getObjectName())));
      mpTblReactions->setItem(i, 1, new QTableWidgetItem(QString::number((*it)->getFlux())));
      mpTblReactions->setItem(i, 2, new QTableWidgetItem(QString::number((*it)->getParticleFlux())));
      mpTblReactions->setItem(i, 3, new QTableWidgetItem(FROM_UTF8(CChemEqInterface::getChemEqString(mpModel, **it, false))));

      i++;
    }

  mpTblReactions->resizeColumnsToContents();
  mpTblReactions->resizeRowsToContents();
}

void StateSubwidget::setFramework ( int  framework )

virtual

Reimplemented from CopasiWidget.

Definition at line 383 of file StateSubwidget.cpp.

References CopasiWidget::mFramework, CopasiWidget::setFramework(), and showUnits().

Referenced by init(), and loadAll().

{
  CopasiWidget::setFramework(framework);

  // TODO hide/show columns
  switch (mFramework)
    {
      case 0:
        mpTblMetabolites->showColumn(2);
        mpTblMetabolites->hideColumn(3);
        mpTblMetabolites->showColumn(4);
        mpTblMetabolites->hideColumn(5);
        mpTblReactions->showColumn(1);
        mpTblReactions->hideColumn(2);
        break;

      case 1:
        mpTblMetabolites->hideColumn(2);
        mpTblMetabolites->showColumn(3);
        mpTblMetabolites->hideColumn(4);
        mpTblMetabolites->showColumn(5);
        mpTblReactions->hideColumn(1);
        mpTblReactions->showColumn(2);
        break;
    }

  showUnits();
}

void StateSubwidget::showUnits ( )

protected

Definition at line 230 of file StateSubwidget.cpp.

References FROM_UTF8, CModel::getConcentrationRateUnitsDisplayString(), CModel::getConcentrationUnitsDisplayString(), CModel::getFrequencyUnitsDisplayString(), CModel::getQuantityRateUnitsDisplayString(), CModel::getTimeUnitsDisplayString(), CModel::getVolumeRateUnitsDisplayString(), CModel::getVolumeUnitsDisplayString(), and mpModel.

Referenced by setFramework(), and update().

{
  if (mpModel == NULL)
    return;

  // Update the column titles

  QString TimeUnits = FROM_UTF8(mpModel->getTimeUnitsDisplayString());

  if (!TimeUnits.isEmpty())
    TimeUnits = "\n(" + TimeUnits + ")";

  QString FrequencyUnits = FROM_UTF8(mpModel->getFrequencyUnitsDisplayString());

  if (!FrequencyUnits.isEmpty())
    FrequencyUnits = "\n(" + FrequencyUnits + ")";

  QString ConcentrationUnits = FROM_UTF8(mpModel->getConcentrationUnitsDisplayString());

  if (!ConcentrationUnits.isEmpty())
    ConcentrationUnits = "\n(" + ConcentrationUnits + ")";

  QString ConcentrationRateUnits = FROM_UTF8(mpModel->getConcentrationRateUnitsDisplayString());

  if (!ConcentrationRateUnits.isEmpty())
    ConcentrationRateUnits = "\n(" + ConcentrationRateUnits + ")";

  QString VolumeUnits = FROM_UTF8(mpModel->getVolumeUnitsDisplayString());

  if (!VolumeUnits.isEmpty())
    VolumeUnits = "\n(" + VolumeUnits + ")";

  QString VolumeRateUnits = FROM_UTF8(mpModel->getVolumeRateUnitsDisplayString());

  if (!VolumeRateUnits.isEmpty())
    VolumeRateUnits = "\n(" + VolumeRateUnits + ")";

  QString QuantityRateUnits = FROM_UTF8(mpModel->getQuantityRateUnitsDisplayString());

  if (!QuantityRateUnits.isEmpty())
    QuantityRateUnits = "\n(" + QuantityRateUnits + ")";

  mpTblCompartments->horizontalHeaderItem(2)->setText("Volume" + VolumeUnits);
  mpTblCompartments->horizontalHeaderItem(3)->setText("Rate" + VolumeRateUnits);

  mpTblMetabolites->horizontalHeaderItem(2)->setText("Concentration" + ConcentrationUnits);
  mpTblMetabolites->horizontalHeaderItem(3)->setText("Particle Numbers");
  mpTblMetabolites->horizontalHeaderItem(4)->setText("Rate" + ConcentrationRateUnits);
  mpTblMetabolites->horizontalHeaderItem(5)->setText("Rate" + FrequencyUnits);
  mpTblMetabolites->horizontalHeaderItem(6)->setText("Transition Time" + TimeUnits);

  mpTblReactions->horizontalHeaderItem(1)->setText("Flux" + QuantityRateUnits);
  mpTblReactions->horizontalHeaderItem(2)->setText("Particle Flux" + FrequencyUnits);
}

bool StateSubwidget::update ( ListViews::ObjectType  objectType, ListViews::Action  action, const std::string &  key  )

virtual

Reimplemented from CopasiWidget.

Definition at line 412 of file StateSubwidget.cpp.

References ListViews::ADD, ListViews::CHANGE, clear(), CCopasiRootContainer::getDatamodelList(), ListViews::MODEL, mpModel, mpTask, and showUnits().

{
  switch (objectType)
    {
      case ListViews::MODEL:

        // For a new model we need to remove references to no longer existing metabolites
        switch (action)
          {
            case ListViews::ADD:
              assert(CCopasiRootContainer::getDatamodelList()->size() > 0);
              mpModel = (*CCopasiRootContainer::getDatamodelList())[0]->getModel();
              clear();
              showUnits();
              mpTask = NULL;
              break;

            case ListViews::CHANGE:
              showUnits();
              break;

            default:
              break;
          }

        break;

      default:
        break;
    }

  return true;
}

Member Data Documentation

CModel* StateSubwidget::mpModel

protected

Definition at line 46 of file StateSubwidget.h.

Referenced by init(), loadAll(), loadCompartments(), loadMetabolites(), loadModelValues(), loadReactions(), showUnits(), and update().

const CSteadyStateTask* StateSubwidget::mpTask

protected

Definition at line 45 of file StateSubwidget.h.

Referenced by init(), loadAll(), loadJacobian(), and update().

---

The documentation for this class was generated from the following files:

• StateSubwidget.h
• StateSubwidget.cpp