void InsertCompartmentRowsCommand::redo() { if (firstTime) { mpCompartmentDM->insertNewCompartmentRow(mPosition, mRows, QModelIndex()); assert(CCopasiRootContainer::getDatamodelList()->size() > 0); CCopasiDataModel* pDataModel = (*CCopasiRootContainer::getDatamodelList())[0]; assert(pDataModel != NULL); CModel * pModel = pDataModel->getModel(); assert(pModel != NULL); CCompartment *pCompartment = pModel->getCompartments()[mPosition]; mpCompartmentData->setName(pCompartment->getObjectName()); mpCompartmentData->setStatus(pCompartment->getStatus()); mpCompartmentData->setInitialValue(pCompartment->getInitialValue()); firstTime = false; } else { mpCompartmentDM->addCompartmentRow(mpCompartmentData); } setUndoState(true); setAction("Add to list"); setName(mpCompartmentData->getName()); }
bool CODEExporterC::preprocess(const CModel* copasiModel) { size_t n[3] = {0, 0, 0}; size_t n_c[3] = {0, 0, 0}; size_t i, j; size_t dependent; setReservedNames(); NameMap[timeKey] = translateTimeVariableName(); const CCopasiVector< CMetab > & metabs = copasiModel->getMetabolitesX(); size_t metabs_size = metabs.size(); for (i = 0; i < metabs_size; i++) { CMetab * metab = metabs[i]; //if (metab->isUsed()) { std::string smname; std::string name; dependent = metab->isDependent(); smname = setExportName(metab->getStatus(), n, dependent); name = setConcentrationName(metab->getStatus(), n_c, dependent); NameMap[metab->getKey()] = name; std::ostringstream smKey; smKey << "sm_" << metab->getKey(); NameMap[smKey.str()] = smname; if ((metab->getStatus() == CModelEntity::REACTIONS && !metab->isDependent()) || metab->getStatus() == CModelEntity::ODE) { std::ostringstream odeKey; odeKey << "ode_" << metab->getKey(); NameMap[odeKey.str()] = setODEName(smname); } } } size_t comps_size = copasiModel->getCompartments().size(); const CCopasiVector< CCompartment > & comps = copasiModel->getCompartments(); for (i = 0; i < comps_size; i++) { CCompartment * comp = comps[i]; std::string name; dependent = 0; name = setExportName(comp->getStatus(), n, dependent); NameMap[comp->getKey()] = name; if (comp->getStatus() == CModelEntity::ODE) { std::ostringstream odeKey; odeKey << "ode_" << comp->getKey(); NameMap[odeKey.str()] = setODEName(name); } } size_t modvals_size = copasiModel->getModelValues().size(); const CCopasiVector< CModelValue > & modvals = copasiModel->getModelValues(); for (i = 0; i < modvals_size; i++) { CModelValue* modval = modvals[i]; std::string name = setExportName(modval->getStatus(), n, 0); NameMap[modval->getKey()] = name; if (modval->getStatus() == CModelEntity::ODE) { std::ostringstream odeKey; odeKey << "ode_" << modval->getKey(); NameMap[odeKey.str()] = setODEName(name); } } size_t reacs_size = copasiModel->getReactions().size(); const CCopasiVector< CReaction > & reacs = copasiModel->getReactions(); std::set<std::string> tmpset; for (i = 0; i < reacs_size; ++i) { size_t params_size; params_size = reacs[i]->getParameters().size(); for (j = 0; j < params_size; ++j) { if (!reacs[i]->isLocalParameter(reacs[i]->getParameters().getParameter(j)->getObjectName())) continue; std::ostringstream name; name << "p[" << n[0] << "]"; n[0] ++; NameMap[reacs[i]->getParameters().getParameter(j)->getKey()] = name.str(); } const CFunction* func = reacs[i]->getFunction(); std::string name = func->getObjectName(); if (func->getRoot()) setExportNameOfFunction(func->getRoot(), tmpset); if (func->getType() != CEvaluationTree::MassAction) if (tmpset.find(name) == tmpset.end()) { NameMap[func->getKey()] = translateObjectName(name); tmpset.insert(name); } } return true; }