void CQExpandModelData::slotOK()
{
CModelExpansion::SetOfModelElements modelelements;
std::set<std::string> metabkeys;
std::map<QTreeWidgetItem*, const CCompartment*>::const_iterator it;
for (it=mItemCompartmentMap.begin(); it != mItemCompartmentMap.end(); ++it)
{
if (it->first->checkState(0)==Qt::Checked)
{ //the compartment is included
modelelements.addCompartment(it->second);
//check whether diffusion is requested for the metabolites inside
size_t i;
for (i=0; i<it->first->childCount(); ++i)
{
if (it->first->child(i)->checkState(1)==Qt::Checked)
{
std::map<QTreeWidgetItem*, const CMetab*>::const_iterator itMetab = mItemMetabMap.find(it->first->child(i));
const CMetab* pMetab=NULL;
if (itMetab != mItemMetabMap.end())
metabkeys.insert(itMetab->second->getKey());
}
}
}
}
CModelExpansion me(pModel);
modelelements.fillDependencies(pModel);
int multx, multy;
multx=mpLineEditSizeX->text().toInt();
multy=mpLineEditSizeY->text().toInt();
if (mpRadioButtonLin->isChecked())
me.createLinearArray(modelelements, multx, metabkeys);
else if (mpRadioButtonRec->isChecked())
me.createRectangularArray(modelelements, multx, multy, metabkeys);
accept();
// std::string name = static_cast<std::string >(mpBoxCompartmentName->currentText().toUtf8()); //toStdString();
}
void CQCompartment::copy()
{
CModel * pModel = mpDataModel->getModel();
CModelExpansion cModelExpObj = CModelExpansion(pModel);
CModelExpansion::SetOfModelElements compartmentObjectsToCopy;
CModelExpansion::ElementsMap origToCopyMappings;
CQCompartmentCopyOptions * pDialog = new CQCompartmentCopyOptions(this);
pDialog->exec();
bool success = false;
switch (pDialog->result())
{
case QDialog::Rejected:
break;
case CQCompartmentCopyOptions::COMP: //compartment only
compartmentObjectsToCopy.addObject(mpObject);
success = true;
break;
case CQCompartmentCopyOptions::SPECIES: // include the species
{
compartmentObjectsToCopy.addObject(mpObject);
CDataVectorNS < CMetab > & Metabolites = mpCompartment->getMetabolites();
CDataVectorNS < CMetab >::const_iterator itMetab;
for (itMetab = Metabolites.begin(); itMetab != Metabolites.end(); ++itMetab)
{
compartmentObjectsToCopy.addMetab(itMetab);
}
}
success = true;
break;
case CQCompartmentCopyOptions::INTREAC: //also include the internal reactions
{
compartmentObjectsToCopy.addObject(mpObject);
// Get all the compartment's species first
CDataVectorNS < CMetab > & Metabolites = mpCompartment->getMetabolites();
CDataVectorNS < CMetab >::const_iterator itMetab;
for (itMetab = Metabolites.begin(); itMetab != Metabolites.end(); ++itMetab)
{
compartmentObjectsToCopy.addMetab(itMetab);
}
// Now get the reactions which are not multi-compartment
CDataVectorN< CReaction >::const_iterator it = pModel->getReactions().begin();
CDataVectorN< CReaction >::const_iterator end = pModel->getReactions().end();
CReactionInterface * pRi = new CReactionInterface();
for (; it != end; ++it)
{
pRi->init(*it);
if (!pRi->isMulticompartment())
{
if (pRi->getChemEqInterface().getCompartment()->getCN() == mObjectCN)
compartmentObjectsToCopy.addReaction(it);
}
}
pdelete(pRi);
success = true;
break;
}
case CQCompartmentCopyOptions::ALLREAC: //get everything in compartment
compartmentObjectsToCopy.addObject(mpObject);
compartmentObjectsToCopy.fillDependencies(pModel);
success = true;
break;
}
pdelete(pDialog);
if (success)
{
CUndoData UndoData(cModelExpObj.duplicate(compartmentObjectsToCopy, "_copy", origToCopyMappings));
const CDataObject * pObject = origToCopyMappings.getDuplicateFromObject(mpObject);
ListViews::addUndoMetaData(this, UndoData);
UndoData.addMetaDataProperty("Widget Object CN (after)", pObject->getCN());
UndoData.addMetaDataProperty("Widget Object Name (after)", pObject->getObjectName());
slotNotifyChanges(mpDataModel->recordData(UndoData));
if (pObject != NULL)
{
mpListView->switchToOtherWidget(ListViews::WidgetType::CompartmentDetail, pObject->getCN());
}
}
}
void CQSpeciesDetail::copy()
{
if (mpMetab == NULL) return;
CModel * pModel = NULL;
if (mpMetab) pModel = mpDataModel->getModel();
if (pModel == NULL) return; // for getting compartments and initializing cModelExpObj
// Create and customize compartment choices dialog
CQNameSelectionDialog * pDialog = new CQNameSelectionDialog(this);
pDialog->setWindowTitle("Choose a compartment");
pDialog->mpLblName->setText("compartment");
pDialog->mpSelectionBox->clear();
pDialog->mpSelectionBox->setDuplicatesEnabled(false);
pDialog->mpSelectionBox->setEditable(false); // at least for now, unless we want to add new compartment creation here.
// Use CModelExpansion for duplication
CModelExpansion cModelExpObj = CModelExpansion(pModel);
CModelExpansion::SetOfModelElements sourceObjects;
CModelExpansion::ElementsMap origToCopyMapping;
// for comboBox compartment list and setting compartment
CCopasiVectorNS< CCompartment > & Compartments = pModel->getCompartments();
CCopasiVectorN< CCompartment >::const_iterator it = Compartments.begin();
CCopasiVectorN< CCompartment >::const_iterator end = Compartments.end();
QStringList SelectionList;
// Collect and load list of compartment names in comboBox
for (; it != end; ++it)
{
SelectionList.append(FROM_UTF8((*it)->getObjectName()));
}
pDialog->setSelectionList(SelectionList);
//Set the current compartment as the default
mpCurrentCompartment = mpMetab->getCompartment();
// to use here, and for testing if compartment changed after executing the dialog
int origCompartmentIndex = pDialog->mpSelectionBox->findText(FROM_UTF8(mpCurrentCompartment->getObjectName()));
pDialog->mpSelectionBox->setCurrentIndex(origCompartmentIndex);
it = Compartments.begin(); // Reuse Compartments iterator to set compartment choice
if (pDialog->exec() != QDialog::Rejected)
{
// Put species in different compartment (without name modification) by making
// duplicateMetab think the other compartment was duplicated from the original
if(origCompartmentIndex != pDialog->mpSelectionBox->currentIndex())
{
sourceObjects.addCompartment(mpMetab->getCompartment());
origToCopyMapping.add(mpMetab->getCompartment(),*(it + pDialog->mpSelectionBox->currentIndex()));
}
sourceObjects.addMetab(mpMetab);
cModelExpObj.duplicateMetab(mpMetab, "_copy", sourceObjects, origToCopyMapping);
protectedNotify(ListViews::COMPARTMENT, ListViews::DELETE, "");//Refresh all
protectedNotify(ListViews::METABOLITE, ListViews::DELETE, ""); //Refresh all
protectedNotify(ListViews::REACTION, ListViews::DELETE, ""); //Refresh all
mpListView->switchToOtherWidget(C_INVALID_INDEX, origToCopyMapping.getDuplicateKey(mKey));
}
pdelete(pDialog);
}
void CQCompartment::copy()
{
CModel * pModel = mpDataModel->getModel();
CModelExpansion cModelExpObj = CModelExpansion(pModel);
CModelExpansion::SetOfModelElements compartmentObjectsToCopy;
CModelExpansion::ElementsMap origToCopyMappings;
CQCompartmentCopyOptions * pDialog = new CQCompartmentCopyOptions(this);
pDialog->exec();
bool success = false;
switch (pDialog->result())
{
case QDialog::Rejected:
break;
case CQCompartmentCopyOptions::COMP: //compartment only
compartmentObjectsToCopy.addObject(mpObject);
success = true;
break;
case CQCompartmentCopyOptions::SPECIES: // include the species
{
compartmentObjectsToCopy.addObject(mpObject);
CCopasiVectorNS < CMetab > & Metabolites = mpCompartment->getMetabolites();
CCopasiVectorNS < CMetab >::const_iterator itMetab;
for (itMetab = Metabolites.begin(); itMetab != Metabolites.end(); ++itMetab)
{
compartmentObjectsToCopy.addMetab(*itMetab);
}
}
success = true;
break;
case CQCompartmentCopyOptions::INTREAC: //also include the internal reactions
{
compartmentObjectsToCopy.addObject(mpObject);
// Get all the compartment's species first
CCopasiVectorNS < CMetab > & Metabolites = mpCompartment->getMetabolites();
CCopasiVectorNS < CMetab >::const_iterator itMetab;
for (itMetab = Metabolites.begin(); itMetab != Metabolites.end(); ++itMetab)
{
compartmentObjectsToCopy.addMetab(*itMetab);
}
// Now get the reactions which are not multi-compartment
CCopasiVectorN< CReaction >::const_iterator it = pModel->getReactions().begin();
CCopasiVectorN< CReaction >::const_iterator end = pModel->getReactions().end();
CReactionInterface * pRi = new CReactionInterface(pModel);
for (; it != end; ++it)
{
pRi->initFromReaction((*it)->getKey());
if (!pRi->isMulticompartment())
{
if (pRi->getChemEqInterface().getCompartment()->getKey() == mKey)
compartmentObjectsToCopy.addReaction(*it);
}
}
pdelete(pRi);
success = true;
break;
}
case CQCompartmentCopyOptions::ALLREAC: //get everything in compartment
compartmentObjectsToCopy.addObject(mpObject);
compartmentObjectsToCopy.fillDependencies(pModel);
success = true;
break;
}
pdelete(pDialog);
if (success)
{
cModelExpObj.duplicate(compartmentObjectsToCopy, "_copy", origToCopyMappings);
protectedNotify(ListViews::COMPARTMENT, ListViews::DELETE, "");//Refresh all
protectedNotify(ListViews::METABOLITE, ListViews::DELETE, ""); //Refresh all
protectedNotify(ListViews::REACTION, ListViews::DELETE, ""); //Refresh all
mpListView->switchToOtherWidget(C_INVALID_INDEX, origToCopyMappings.getDuplicateKey(mKey));
}
}