public void setNeuronIonicConductances(List conductances) {
for (int i = 0; i < conductances.size(); i++) {
ConductanceVO g = (ConductanceVO) conductances.get(i);
marcovTypes.put(g.getCdNucleus() + g.getCdConductanceType() + g.getPolarity(), g);
}
}
public void setSynapseTypes(List conductances) {
if (synapseTypes == null) synapseTypes = new Hashtable();
for (int i = 0; i < conductances.size(); i++) {
ConductanceVO g = (ConductanceVO) conductances.get(i);
synapseTypes.put(g.getCdNucleusPre() + g.getCdNucleus() + g.getCdConductanceType(), g);
}
}
public List getNeuronIonicConductances(String cdNucleus, String cdNeuronType) {
List list = new ArrayList();
Iterator it = marcovTypes.values().iterator();
while (it.hasNext()) {
ConductanceVO g = (ConductanceVO) it.next();
if (g.getCdNucleus().equals(cdNucleus)
&& g.getCdConductanceType().indexOf("-" + cdNeuronType) > 0) {
list.add(g);
}
}
return list;
}
public List getSynapticDynamics(String cdNucleus) {
List list = new ArrayList();
Iterator it = marcovTypes.values().iterator();
while (it.hasNext()) {
ConductanceVO g = (ConductanceVO) it.next();
if ((cdNucleus == null || cdNucleus.equals("") || cdNucleus.equals(g.getCdNucleus()))
&& g.getCdConductanceType().indexOf("g") != 0) {
list.add(g);
}
}
Collections.sort(list);
return list;
}
public double getSynapticConnectivity(ConductanceVO g) {
if (g != null) return g.getConnectivity() / 100.0;
else return 0;
}
public void setSynapseType(String cdConductance, ConductanceVO g) {
synapseTypes.put(g.getCdNucleusPre() + g.getCdNucleus() + g.getCdConductanceType(), g);
}
public List getAllActiveSynapticConductances() {
List list = new ArrayList();
String pre = ReMoto.ACTIVE;
String pos = ReMoto.ACTIVE;
Hashtable active = new Hashtable();
// Verify active neuronTypes
for (int i = 0; i < neuronTypes.size(); i++) {
NeuronVO nt = (NeuronVO) neuronTypes.get(i);
active.put(nt.getCategoryAndType() + " " + nt.getCdNucleus(), new Boolean(nt.isActive()));
}
Iterator it = synapseTypes.values().iterator();
while (it.hasNext()) {
ConductanceVO g = (ConductanceVO) it.next();
if ((pre.equals(ReMoto.ALL) || pre.equals(ReMoto.ACTIVE))
&& (g.getCdConductanceType().lastIndexOf(pos) > 0
|| pos.equals(ReMoto.ALL)
|| pos.equals(ReMoto.ACTIVE))) {
Boolean statePre = (Boolean) active.get(g.getPreSimple() + " " + g.getCdNucleusPre());
Boolean statePos = (Boolean) active.get(g.getPos() + " " + g.getCdNucleus());
if ((pre.equals(ReMoto.ALL)
|| (pre.equals(ReMoto.ACTIVE) && statePre != null && statePre.equals(Boolean.TRUE)))
&& (g.getPos().indexOf(pos) == 0
|| pos.equals(ReMoto.ALL)
|| (pos.equals(ReMoto.ACTIVE)
&& statePos != null
&& statePos.equals(Boolean.TRUE)))) {
// Set synaptic dynamics type (depressing, facilitating or none)
DynamicVO vo =
getDynamicType(g.getCdConductanceType(), g.getCdNucleusPre(), g.getCdNucleus());
g.setDynamics(vo);
list.add(g);
}
}
}
Collections.sort(list);
return list;
}