private int getSenderLevel(Node sender) {
for (int i = 0; i < levels.size(); i++) {
for (Node n : levels.get(i)) {
if (n.toString().equals(sender.toString())) {
return i;
}
}
}
return -1;
}
public boolean isLegalMapping(Node nq, Node nc) {
if (!notMapped(nc)) {
// System.out.println("Already Mapped ID: " + nc.getId());
return false;
}
if (!nq.getBpmnType().equals(nc.getBpmnType())) {
return false;
}
return true;
}
public void run() {
Node root = new Node(new Tetranucleotide("AAAA"));
long pick;
String time;
int cores = Runtime.getRuntime().availableProcessors();
// System.out.println("Votre machine a " + cores + " cpu(s).");
// System.out.println("Un même nombre de threads vas être utilisé pour être optimal.\n");
System.out.println("l\ttime\t\tresult");
System.out.println("");
// Calculate A (l = 1)
pick = System.currentTimeMillis();
for (Tetranucleotide key : this.dicoS12.keySet()) root.addA(key, null);
Case caseA = new Case(root.getASon(), Case.TypeCase.ABorder);
time = getInterval(pick, System.currentTimeMillis());
System.out.println(1 + "\t" + time + "\t" + caseA.count());
// Calculate B and A2 (l = 2)
pick = System.currentTimeMillis();
Graph g;
for (Tetranucleotide key : this.dicoS114.keySet()) {
g = Graph.createGraph(new Node(null, key));
if (g.isCircular()) root.addB(key, null);
}
Case caseB = new Case(root.getBSon(), Case.TypeCase.BBorder);
Case caseA2 = caseA.addEnsemble(Algorithm_tree.dicoS12, Case.TypeCase.ABorder);
time = getInterval(pick, System.currentTimeMillis());
System.out.println(2 + "\t" + time + "\t" + (caseA2.count() + caseB.count()));
// Calculate l = i until i == limit
Diagonal buffer = new Diagonal();
Diagonal bufferTemp;
buffer.add(caseB);
buffer.add(caseA2);
int limit = 5;
for (int i = 2; i < limit; i++) {
pick = System.currentTimeMillis();
bufferTemp = buffer.compute();
time = getInterval(pick, System.currentTimeMillis());
System.out.println(buffer.id + "\t" + time + "\t" + buffer.nbCIrcular);
buffer = bufferTemp;
}
}
private Node getSender(Node receiver) {
for (int i = 0; i < messages.size(); i++) {
SenderReceiverPairs pair = messages.elementAt(i);
if (pair.getReceiver().toString().equals(receiver.toString())) {
return pair.getSender();
}
}
return null;
}
public List<List<String>> findLadders(String beginWord, String endWord, Set<String> wordList) {
Queue<Node> queue = new LinkedList<>();
List<List<String>> res = new ArrayList<List<String>>();
queue.offer(new Node(beginWord, 1, null, 1)); // color = grey
int prevLevel = 0;
int minDist = Integer.MAX_VALUE;
Set<String> curLevelVisited = new HashSet<>();
while (!queue.isEmpty()) {
Node cur = queue.poll();
String word = cur.mNodeStr; // hit
int dist = cur.mDist;
if (dist != prevLevel) {
wordList.removeAll(curLevelVisited);
prevLevel = dist;
curLevelVisited.clear();
}
if (word.equals(endWord)) {
if (dist <= minDist) { // must be <=
minDist = dist;
constructResList(res, cur);
}
continue;
}
for (int i = 0; i < word.length(); i++) {
for (int j = 0; j < 26; j++) {
char[] chs = word.toCharArray();
char newch = (char) (j + 'a');
chs[i] = newch;
String newword = new String(chs);
if (wordList.contains(newword)) {
curLevelVisited.add(newword);
queue.offer(new Node(newword, dist + 1, cur, 1));
}
}
}
cur.mColor = 2;
}
return res;
}
/**
* run as <CODE>
* java -cp <classpath> graph.packing.DBBGASPPacker <graphfilename> <paramsfilename> [maxnumBBnodes] [numthreads]
* </CODE>. <br>
* args[0]: graph file name must adhere to the format specified in the description of the method
* <CODE>utils.DataMgr.readGraphFromFile2(String file)</CODE> <br>
* args[1]: params file name may define parameters in lines of the following form:
*
* <ul>
* <li>acchost, $string$ optional, the internet address of the DAccumulatorSrv that will be
* accumulating incumbents. Default is localhost.
* <li>accport, $num$ optional, the port to which the DAccumulatorSrv listens. Default is 7900.
* <li>cchost, $string$ optional, the internet address of the DConditionCounterSrv that will be
* listening for distributed condition-counter requests. Default is localhost.
* <li>ccport, $num$ optional, the port to which the DAccumulatorSrv listens. Default is 7899.
* <li>pdahost, $string$ optional, the internet address of the PDAsynchBatchTaskExecutorSrv that
* will be listening for distributed tasks execution requests. Default is localhost.
* <li>pdaport, $num$ optional, the port to which the asynch distributed executor server
* listens. Default is 7981.
* <li>tightenboundlevel, $num$ optional, the depth in the B&B tree constructed at which a
* stronger computation of the upper bound will be started, default is 0.
* <li>cutnodes, $boolean$ optional, if true, then when the BBQueue of nodes is full, any new
* nodes created will be discarded instead of processed on the same thread. Default is
* false.
* <li>localsearch, $boolean$ optional, if true, then when an incumbent solution is found that
* cannot be further improved, a local search kicks in to try to improve it using (unless
* there is another explicit specification) the (default) N1RXP(FirstImproving) neighborhood
* concept that basically attempts to remove a single node from the solution and then see
* how many other nodes it can add to the reduced solution. This local search can become
* quite expensive and for this reason it is only applied to final incumbent solutions in
* the B & B-tree construction process. Default is false.
* <li>class,localsearchtype, <fullclassname>[,optionalarguments] optional if present,
* will utilize in the local-search procedure the <CODE>AllChromosomeMakerClonableIntf
* </CODE> specified in the classname, constructed using the arguments specified (if
* present). For example, the line could be:
* <PRE>
* class,localsearchtype,graph.packing.IntSetN2RXPGraphAllMovesMaker,1
* </PRE>
* which would be of use with MWIS problems, for random graphs in the class C(n,p),
* producing G_{|V|,p} type random graphs. On the other hand, by default, the <CODE>
* IntSetN1RXPFirstImprovingGraphAllMovesMakerMT</CODE> moves maker applies both for 1- and
* 2-packing problems local-search, which is also better suited when solving MWIS problems
* arising from duals of disk graphs (arising from wireless ad-hoc networks etc.) Currently
* works only with MWIS (k=1) type problems and is ignored for 2-packing problems.
* <li>usemaxsubsets, $boolean$ optional, if false, then each GASP process augmenting candidate
* packings will augment these sets one node at a time, leading to the possibility that many
* active nodes in the B&B tree will represent the same packing. In such a case, a
* "recent-nodes" queue will be used to safe-guard against the possibility of having the
* same nodes created and processed within a "short" interval. Default is true.
* <li>sortmaxsubsets, $boolean$ optional, if true, then the max subsets generated in method
* <CODE>getBestNodeSets2Add()</CODE> will be sorted in descending weight order so that if
* children <CODE>BBNode*</CODE> objects are "cut", they will be the "least" heavy-weight.
* Default is false.
* <li>maxitersinGBNS2A, $num$ optional, if present and also the "usemaxsubsets" key is true,
* then the number represents the max number of iterations the <CODE>getBestNodeSets2Add()
* </CODE> method of the <CODE>DBBNode1</CODE> class will be allowed to go through. Default
* is 100000 (specified in <CODE>DBBTree</CODE> class.)
* <li>useGWMIN2criterion, $boolean$ optional, if true, then when computing the best nodes to
* consider as a partial solution is being expanded, the "GWMIN2-heuristic" criterion
* (described in Sakai et. al. 2003: "A note on greedy algorithms for the MWIS problem",
* Discr. Appl. Math., 126:313-322) will be used for nodes selection in 1-packing problems.
* Default is false.
* <li>maxnodechildren, $num$ optional, specify an upper bound on the number of children any
* node is allowed to create. Default is Integer.MAX_VALUE.
* <li>class,dbbnodecomparator, <fullclassname> optional, the full class name of a class
* implementing the <CODE>graph.packing.DBBNodeComparatorIntf</CODE> that is used to define
* the order in which B&B nodes in the tree are picked for processing. Default is <CODE>
* graph.packing.DefDBBNodeComparator</CODE>.
* <li>ff, $num$ optional, specify the "fudge factor" used in determining what constitutes the
* list of "best nodes" in the 1-packing problem (a.k.a. the MWIS problem) where it makes
* much more sense to have a "fudge factor" by which to multiply the best cost in order to
* determine if a node is "close enough" to the best cost to be included in the
* best-candidate-nodes list. Default value is <CODE>DBBNode1._ff</CODE> (currently set to
* 0.85). The smaller this value, the longer it will take for the search to complete, with
* potentially better solutions found.
* <li>minknownbound, $num$ optional, a known bound to the problem at hand, which will be used
* to fathom B&B nodes having smaller bounds than this number. Currently only applies to
* 1-packing problems. Default is -infinity.
* <li>expandlocalsearchfactor, $num$ optional, if present, then when a solution is found within
* the specified factor of the best known solution, a local search kicks in. Default is 1.0
* (only when a best solution is found does local search kicks in). Currently only applies
* to 1-packing problems.
* </ul>
*
* <br>
* args[2]: [optional] override max num nodes in params_file to create in B&B procedure
*
* <p>This implementation writes the solution in a text file called "sol.out" in the current
* directory, whose lines contain one number each, the id of each "active" node in the solution
* (id in the set {1,...graph_num_nodes}).
*
* @param args String[]
*/
public static void main(String[] args) {
try {
if (args.length < 2) {
System.err.println(
"usage: java -cp <classpath> graph.packing.DBBGASPPacker <graphfilename> <paramsfilename> [maxnumBBnodes]");
System.exit(-1);
}
long start = System.currentTimeMillis();
Graph g = DataMgr.readGraphFromFile2(args[0]);
// print out total value weight of the nodes
{
double totw = 0.0;
for (int i = 0; i < g.getNumNodes(); i++) {
Double w = g.getNode(i).getWeightValue("value");
totw += w == null ? 1.0 : w.doubleValue();
}
System.err.println("Graph total nodes' weight=" + totw);
}
HashMap params = DataMgr.readPropsFromFile(args[1]);
int maxnodes = -1;
if (args.length > 2) maxnodes = Integer.parseInt(args[2]); // override max num nodes
Graph[] graphs = null;
if (g.getNumComponents() > 1) {
// graphs = g.getGraphComponents();
System.err.println(
"Distributed BBGASPPacker does not currently support breaking graphs into disconnected components...");
System.exit(-1);
} else { // optimize when there is only one component in the graph
graphs = new Graph[1];
graphs[0] = g;
}
// now run the B&B algorithm for each sub-graph
PrintWriter pw = new PrintWriter(new FileWriter("sol.out"));
for (int j = 0; j < graphs.length; j++) {
Graph gj = graphs[j];
System.err.println(
"Solving for subgraph "
+ (j + 1)
+ " w/ sz="
+ gj.getNumNodes()
+ " (/"
+ graphs.length
+ ")");
if (gj.getNumNodes() == 3 && gj.getNumArcs() == 2) {
_totActiveNodes += 2;
++_totLeafNodes;
// figure out which node is the connecting one
int best_node_id = -1;
for (int m = 0; m < 3; m++) {
Node nm = gj.getNode(m);
if (nm.getNbors().size() == 1) {
Double nmwD = nm.getWeightValue("value");
double w = nmwD == null ? 1.0 : nmwD.doubleValue();
_totActiveNodeWeights += w;
Integer mI = (Integer) gj.getNodeLabel(m);
best_node_id = mI == null ? m : mI.intValue(); // null mI -> g connected
pw.println((best_node_id + 1));
}
}
continue;
} else if (gj.getNumNodes() <= 2) {
++_totActiveNodes;
++_totLeafNodes;
// figure out max. node-weight
int best_node_id = -1;
double maxw = Double.NEGATIVE_INFINITY;
for (int m = 0; m < gj.getNumNodes(); m++) {
Double nmwD = gj.getNode(m).getWeightValue("value");
double nmw = nmwD == null ? 1.0 : nmwD.doubleValue();
if (nmw > maxw) {
maxw = nmw;
Integer mI = (Integer) gj.getNodeLabel(m);
best_node_id = mI == null ? m : mI.intValue(); // null mI -> g connected
}
}
_totActiveNodeWeights += maxw;
pw.println((best_node_id + 1));
continue;
}
// double bound = Double.MAX_VALUE;
double bound = 0;
String pdahost = "localhost";
if (params.containsKey("pdahost")) pdahost = (String) params.get("pdahost");
int pdaport = 7981;
if (params.containsKey("pdaport")) pdaport = ((Integer) params.get("pdaport")).intValue();
String cchost = "localhost";
if (params.containsKey("cchost")) cchost = (String) params.get("cchost");
int ccport = 7899;
if (params.containsKey("ccport")) ccport = ((Integer) params.get("ccport")).intValue();
String acchost = "localhost";
if (params.containsKey("acchost")) acchost = (String) params.get("acchost");
int accport = 7900;
if (params.containsKey("accport")) accport = ((Integer) params.get("accport")).intValue();
// DBBTree.init(g, bound, pdahost, pdaport, cchost, ccport, acchost, accport);
// DBBTree t = DBBTree.getInstance();
Boolean localSearchB = (Boolean) params.get("localsearch");
// if (localSearchB != null) t.setLocalSearch(localSearchB.booleanValue());
boolean localsearch = false;
if (localSearchB != null) localsearch = localSearchB.booleanValue();
AllChromosomeMakerClonableIntf maker =
(AllChromosomeMakerClonableIntf) params.get("localsearchtype");
// if (maker!=null) t.setLocalSearchType(maker);
Double ffD = (Double) params.get("ff");
/*
if (ffD!=null) {
DBBNode1.setFF(ffD.doubleValue());
DBBNode1.disallowFFChanges();
}
*/
double ff = 0.85;
if (ffD != null) ff = ffD.doubleValue();
Integer tlvlI = (Integer) params.get("tightenboundlevel");
/*
if (tlvlI != null && tlvlI.intValue() >= 1) t.setTightenUpperBoundLvl(
tlvlI.intValue());
*/
int tlvl = Integer.MAX_VALUE;
if (tlvlI != null && tlvlI.intValue() >= 1) tlvl = tlvlI.intValue();
Boolean usemaxsubsetsB = (Boolean) params.get("usemaxsubsets");
boolean usemaxsubsets = true;
if (usemaxsubsetsB != null)
// t.setUseMaxSubsets(usemaxsubsetsB.booleanValue());
usemaxsubsets = usemaxsubsetsB.booleanValue();
int kmax = Integer.MAX_VALUE;
Integer kmaxI = (Integer) params.get("maxitersinGBNS2A");
if (kmaxI != null && kmaxI.intValue() > 0)
// t.setMaxAllowedItersInGBNS2A(kmaxI.intValue());
kmax = kmaxI.intValue();
Boolean sortmaxsubsetsB = (Boolean) params.get("sortmaxsubsets");
boolean sortmaxsubsets = false;
if (sortmaxsubsetsB != null)
// t.setSortBestCandsInGBNS2A(sortmaxsubsetsB.booleanValue());
sortmaxsubsets = sortmaxsubsetsB.booleanValue();
Double avgpercextranodes2addD = (Double) params.get("avgpercextranodes2add");
double apen2a = 0.0;
if (avgpercextranodes2addD != null)
// t.setAvgPercExtraNodes2Add(avgpercextranodes2addD.doubleValue());
apen2a = avgpercextranodes2addD.doubleValue();
Boolean useGWMIN24BN2AB = (Boolean) params.get("useGWMIN2criterion");
boolean ugwm2 = false;
if (useGWMIN24BN2AB != null)
// t.setUseGWMIN24BestNodes2Add(useGWMIN24BN2AB.booleanValue());
ugwm2 = useGWMIN24BN2AB.booleanValue();
Double expandlocalsearchfactorD = (Double) params.get("expandlocalsearchfactor");
double elsf = 1.0;
if (expandlocalsearchfactorD != null)
// t.setLocalSearchExpandFactor(expandlocalsearchfactorD.doubleValue());
elsf = expandlocalsearchfactorD.doubleValue();
double mkb = Double.NEGATIVE_INFINITY;
Double minknownboundD = (Double) params.get("minknownbound");
if (minknownboundD != null) // t.setMinKnownBound(minknownboundD.doubleValue());
mkb = minknownboundD.doubleValue();
int maxchildren = Integer.MAX_VALUE;
Integer maxchildrenI = (Integer) params.get("maxnodechildren");
if (maxchildrenI != null && maxchildrenI.intValue() > 0)
// t.setMaxChildrenNodesAllowed(maxchildrenI.intValue());
maxchildren = maxchildrenI.intValue();
DBBNodeComparatorIntf bbcomp = (DBBNodeComparatorIntf) params.get("dbbnodecomparator");
// if (bbcomp!=null) t.setDBBNodeComparator(bbcomp);
DBBTree.init(
g,
bound,
pdahost,
pdaport,
cchost,
ccport,
acchost,
accport,
localsearch,
maker,
ff,
tlvl,
usemaxsubsets,
kmax,
sortmaxsubsets,
apen2a,
ugwm2,
elsf,
mkb,
maxchildren,
bbcomp);
DBBTree t = DBBTree.getInstance();
t.run();
int orsoln[] = t.getSolution();
int tan = 0;
double tanw = 0.0;
for (int i = 0; i < orsoln.length; i++) {
if (orsoln[i] == 1) {
Integer miI = (Integer) gj.getNodeLabel(i);
int mi = (miI == null) ? i : miI.intValue(); // null miI -> g connected
// System.out.print( mi + " ");
pw.println((mi + 1));
++tan;
Double twD = gj.getNode(i).getWeightValue("value");
tanw += (twD == null ? 1.0 : twD.doubleValue());
}
}
// tanw == t.getBound()
System.err.println("Total BB-nodes=" + t.getCounter());
System.err.println("Total leaf BB-nodes=" + t.getTotLeafNodes());
_totActiveNodes += tan;
_totActiveNodeWeights += tanw;
_totLeafNodes += t.getTotLeafNodes();
System.err.println(
"Total active nodes so far: "
+ _totActiveNodes
+ " active node weights="
+ _totActiveNodeWeights
+ " total overall trees leaf BB nodes="
+ _totLeafNodes);
System.err.println(
"Total #DLS searched performed: "
+ t.getNumDLSPerformed()
+ " Total time spent on DLS: "
+ t.getTimeSpentOnDLS());
}
pw.flush();
pw.close();
long time = System.currentTimeMillis() - start;
System.out.println("Best Soln = " + _totActiveNodeWeights);
System.out.println("\nWall-clock Time (msecs): " + time);
System.out.println("Done.");
System.exit(0);
} catch (Exception e) {
e.printStackTrace();
System.exit(-1);
}
}