/*************************************************************************
* *
* This file is part of the 20n/act project. *
* 20n/act enables DNA prediction for synthetic biology/bioengineering. *
* Copyright (C) 2017 20n Labs, Inc. *
* *
* Please direct all queries to act@20n.com. *
* *
* This program is free software: you can redistribute it and/or modify *
* it under the terms of the GNU General Public License as published by *
* the Free Software Foundation, either version 3 of the License, or *
* (at your option) any later version. *
* *
* This program is distributed in the hope that it will be useful, *
* but WITHOUT ANY WARRANTY; without even the implied warranty of *
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the *
* GNU General Public License for more details. *
* *
* You should have received a copy of the GNU General Public License *
* along with this program. If not, see <http://www.gnu.org/licenses/>. *
* *
*************************************************************************/
package act.installer.metacyc.entities;
import act.installer.metacyc.Resource;
import act.installer.metacyc.BPElement;
import act.installer.metacyc.entities.SmallMoleculeRef;
import act.installer.metacyc.OrganismComposition;
import act.installer.metacyc.NXT;
import act.installer.metacyc.JsonHelper;
import java.util.Set;
import java.util.HashSet;
import org.json.JSONObject;
public class SmallMolecule extends BPElement {
Resource smRef; // entityReference field pointing to a SmallMoleculeRef
Resource cellularLocation;
public Resource getSMRef() { return this.smRef; }
public Resource getCellularLocation() { return this.cellularLocation; }
public SmallMolecule(BPElement basics, Resource smRef, Resource loc) {
super(basics);
this.smRef = smRef;
this.cellularLocation = loc;
}
@Override
public Set<Resource> field(NXT typ) {
Set<Resource> s = new HashSet<Resource>();
if (typ == NXT.ref) {
s.add(this.smRef);
}
return s;
}
public JSONObject expandedJSON(OrganismComposition src) {
JsonHelper o = new JsonHelper(src);
o.add("ref", src.resolve(smRef).expandedJSON(src));
if (cellularLocation != null)
o.add("loc", src.resolve(cellularLocation).expandedJSON(src));
return o.getJSON();
}
}