package nloc; import java.util.List; import java.util.ArrayList; import java.util.ListIterator; import java.util.Arrays; public class Nloc { public static final int MIN_TIMEDIFF = 6; private List<Channel> chanlist; private List<Droplet> dropletList; public Nloc (List<Channel> chanlist) { this.chanlist = chanlist; this.dropletList = new ArrayList<Droplet>(); } public void addChannel(Channel chan) { chanlist.add(chan); } public Pump getPump() { Pump pump = null; for (Channel chan : chanlist) { if (chan instanceof Pump) pump = (Pump)chan; } return pump; } public boolean simulate() { boolean works = true; while (!allDropletsInSink()) { try { this.moveDroplets(); } catch (CoalescedDropletException e) { works = false; System.out.println(e.getDroplet()); break; } } return works; } public List<Droplet> getDropletList() { return dropletList; } public void moveDroplets() throws CoalescedDropletException { for (Droplet dr : dropletList) { dr.move(); } for (Droplet dr: dropletList) { if (dr.coalesce()) throw new CoalescedDropletException(dr); } } public Pump generateDropletSequence(List<String> modules) throws BifurcationTooShortException { Pump pump = this.getPump(); int timediff = MIN_TIMEDIFF + 1; List<Channel> modPath = this.getModulesByName(modules); List<List<Channel>> pathlist = this.getAllPaths(); List<Channel> desiredPath = getDesiredPath(modPath, pathlist); int noOfDroplets = this.getNumberOfDroplets(desiredPath); pump.setSteps(noOfDroplets + (noOfDroplets - 1) * timediff); for (int i = 0; i < noOfDroplets; i++){ if (!pump.containsDroplets()) { dropletList.add(new Droplet(DropletType.PAYLOAD, new Position(pump,1))); } else { dropletList.add(new Droplet(DropletType.HEADER, new Position(pump,i + i * timediff + 1))); } } return pump; } public boolean allDropletsInSink() { boolean allInSink = true; for (Droplet dr : dropletList) { allInSink &= dr.isInSink(); } return allInSink; } public int getNumberOfDroplets(List<Channel> desiredPath) throws BifurcationTooShortException { int numOfDroplets = 1; ListIterator<Channel> iter = desiredPath.listIterator(); while(iter.hasNext()) { Channel current = iter.next(); if (current.isBifurcation()) { Channel following = iter.next(); int neededMinLength = numOfDroplets * Nloc.MIN_TIMEDIFF + numOfDroplets - 1; int prio = current.getChildrenList().indexOf(following) + 1; iter.previous(); for (int i = 1; i < prio; i++) { int bifurcChildHSteps = current.getChildrenList().get(i).getHSteps(); if (bifurcChildHSteps < neededMinLength) { throw new BifurcationTooShortException(current, neededMinLength); } } numOfDroplets *= (current.getChildrenList().indexOf(following) + 1); } } return numOfDroplets; } public List<Channel> getDesiredPath(List<Channel> modules, List<List<Channel>> pathlist) { List<Channel> found = new ArrayList<Channel>(); for (List<Channel> path : pathlist) { if (path.containsAll(modules)) { found = path; } } return found; } private List<Channel> getModulesByName(List<String> names) { List<Channel> ret = new ArrayList<Channel>(); for (String name : names) { for (Channel ch : chanlist) { if (ch instanceof Module && ch.getName().equals(name)) { ret.add(ch); } } } return ret; } public List<List<Channel>> getAllPaths() { List<List<Channel>> pl = new ArrayList<List<Channel>>(); List<Channel> path = new ArrayList<Channel>(); getAllPathsRecursive(this.getPump(), path, pl); return pl; } private void getAllPathsRecursive(Channel chan, List<Channel> path, List<List<Channel>> pathlist) { path.add(chan); if (chan.getChildrenList().isEmpty()) { pathlist.add(path); } else { for (Channel ch : chan.getChildrenList()) { getAllPathsRecursive(ch, new ArrayList<Channel>(path), pathlist); } } } }