LLVMModelDataSymbols::LLVMModelDataSymbols(const libsbml::Model *model,
bool computeAndAssignConsevationLaws) :
linearlyIndependentFloatingSpeciesSize(0),
independentFloatingSpeciesSize(0),
independentBoundarySpeciesSize(0),
independentGlobalParameterSize(0),
independentCompartmentSize(0)
{
modelName = model->getName();
// first go through the rules, see if they determine other stuff
{
const ListOfRules * rules = model->getListOfRules();
for (unsigned i = 0; i < rules->size(); ++i)
{
const Rule *rule = rules->get(i);
if (dynamic_cast<const AssignmentRule*>(rule))
{
assigmentRules.insert(rule->getVariable());
}
else if (dynamic_cast<const RateRule*>(rule))
{
uint rri = rateRules.size();
rateRules[rule->getId()] = rri;
}
else if (dynamic_cast<const AlgebraicRule*>(rule))
{
poco_warning(getLogger(), string("encountered algegraic rule: ")
+ rule->getId() + string(", currently not handled"));
}
}
}
// get the compartments, need to reorder them to set the independent ones
// first
initCompartments(model);
// process the floating species
initFloatingSpecies(model, computeAndAssignConsevationLaws);
// display compartment info. We need to get the compartments before the
// so we can get the species compartments. But the struct anal dumps
// a bunch of stuff, so to keep things looking nice in the log, we
// display the compartment info here.
displayCompartmentInfo();
initBoundarySpecies(model);
initGlobalParameters(model);
initReactions(model);
initEvents(model);
}
void GraphDraw::doClickSelection(const QPointF &point)
{
const bool ctrlDown = QApplication::keyboardModifiers() & Qt::ControlModifier;
const auto objs = this->items(this->mapFromScene(point));
//nothing selected, clear the last selected endpoint
if (objs.empty()) _lastClickSelectEp = GraphConnectionEndpoint();
//connection creation logic
if (not ctrlDown and not objs.empty())
{
auto topObj = dynamic_cast<GraphObject *>(objs.front());
if (topObj == nullptr) return;
GraphConnectionEndpoint thisEp(topObj, topObj->isPointingToConnectable(topObj->mapFromParent(point)));
//valid keys, attempt to make a connection
QPointer<GraphConnection> conn;
if (thisEp.isValid() and _lastClickSelectEp.isValid() and not (thisEp == _lastClickSelectEp) and //end points valid
(_lastClickSelectEp.getConnectableAttrs().direction == GRAPH_CONN_OUTPUT or _lastClickSelectEp.getConnectableAttrs().direction == GRAPH_CONN_SIGNAL) and //last endpoint is output
(thisEp.getConnectableAttrs().direction == GRAPH_CONN_INPUT or thisEp.getConnectableAttrs().direction == GRAPH_CONN_SLOT)) //this click endpoint is input
{
try
{
conn = this->getGraphEditor()->makeConnection(thisEp, _lastClickSelectEp);
this->getGraphEditor()->handleStateChange(GraphState("connect-arrow", tr("Connect %1[%2] to %3[%4]").arg(
conn->getOutputEndpoint().getObj()->getId(),
conn->getOutputEndpoint().getKey().id,
conn->getInputEndpoint().getObj()->getId(),
conn->getInputEndpoint().getKey().id
)));
}
catch (const Pothos::Exception &ex)
{
poco_warning(Poco::Logger::get("PothosGui.GraphDraw.connect"), Poco::format("Cannot connect port %s[%s] to port %s[%s]: %s",
_lastClickSelectEp.getObj()->getId().toStdString(),
_lastClickSelectEp.getKey().id.toStdString(),
thisEp.getObj()->getId().toStdString(),
thisEp.getKey().id.toStdString(),
ex.message()));
}
}
//cleanup after new connection
if (not conn.isNull())
{
_lastClickSelectEp = GraphConnectionEndpoint();
this->deselectAllObjs();
}
//otherwise save the click select
else
{
_lastClickSelectEp = thisEp;
}
}
}
