RemoveAllReactionRowsCommand::RemoveAllReactionRowsCommand(CQReactionDM * pReaDM, const QModelIndex&)
{
mpReactionDM = pReaDM;
assert(CCopasiRootContainer::getDatamodelList()->size() > 0);
CCopasiDataModel* pDataModel = (*CCopasiRootContainer::getDatamodelList())[0];
assert(pDataModel != NULL);
CModel * pModel = pDataModel->getModel();
assert(pModel != NULL);
for (int i = 0; i != pReaDM->rowCount() - 1; ++i)
{
UndoReactionData *data = new UndoReactionData();
CReactionInterface* ri = new CReactionInterface((*CCopasiRootContainer::getDatamodelList())[0]->getModel());
if (pModel->getReactions()[i])
{
data->setName(pModel->getReactions()[i]->getObjectName());
ri->initFromReaction(pModel->getReactions()[i]->getKey());
data->setRi(ri);
mpReaData.append(data);
}
}
mType = REACTIONREMOVEALL;
setEntityType("Reaction");
this->setText(removeAllReactionRowsText());
}
void insertReactionRowsCommand::redo()
{
mpReactionDM->insertNewReactionRow(mPosition, mRows, QModelIndex());
assert(CCopasiRootContainer::getDatamodelList()->size() > 0);
CCopasiDataModel* pDataModel = (*CCopasiRootContainer::getDatamodelList())[0];
assert(pDataModel != NULL);
CModel * pModel = pDataModel->getModel();
assert(pModel != NULL);
mpReaction = pModel->getReactions()[mPosition];
std::string sName = mpReaction->getObjectName();
if (mpReactionData != NULL)
mpReactionData->setName(sName);
CReactionInterface* ri = new CReactionInterface((*CCopasiRootContainer::getDatamodelList())[0]->getModel());
ri->initFromReaction(mpReaction);
if (mpReactionData != NULL)
mpReactionData->setRi(ri);
setUndoState(true);
setAction("Add to list");
if (mpReactionData != NULL)
setName(mpReactionData->getName());
else setName(sName);
}
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));
}
}
