X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=parsimony.cpp;h=b12ca1fe742240a4c80e96d0d82bcb2ef612fa18;hp=6a0485c133b2868670e49e5873186e5d10df474d;hb=df7e3ff9f68ef157b0328a2d353c3258c5d45d89;hpb=90708fe9701e3827e477c82fb3652539c3bf2a0d

diff --git a/parsimony.cpp b/parsimony.cpp
index 6a0485c..b12ca1f 100644
--- a/parsimony.cpp
+++ b/parsimony.cpp
@@ -54,31 +54,18 @@ EstOutput Parsimony::getValues(Tree* t, int p, string o) {
 				namesOfGroupCombos.push_back(groups);
 			}
 		}
-		
-	#if defined (__APPLE__) || (__MACH__) || (linux) || (__linux) || (__linux__) || (__unix__) || (__unix)
-		if(processors == 1){
-			data = driver(t, namesOfGroupCombos, 0, namesOfGroupCombos.size(), ct);
-		}else{
-			lines.clear();
-			int numPairs = namesOfGroupCombos.size();
-			
-			int numPairsPerProcessor = numPairs / processors;
-			
-			for (int i = 0; i < processors; i++) {
-				int startPos = i * numPairsPerProcessor;
-				
-				if(i == processors - 1){
-					numPairsPerProcessor = numPairs - i * numPairsPerProcessor;
-				}
-				
-				lines.push_back(linePair(startPos, numPairsPerProcessor));
-			}
-			
-			data = createProcesses(t, namesOfGroupCombos, ct);
-		}
-	#else
-		data = driver(t, namesOfGroupCombos, 0, namesOfGroupCombos.size(), ct);
-	#endif
+        
+        lines.clear();
+        int numPairs = namesOfGroupCombos.size();
+        int numPairsPerProcessor = numPairs / processors;
+        
+        for (int i = 0; i < processors; i++) {
+            int startPos = i * numPairsPerProcessor;
+            if(i == processors - 1){ numPairsPerProcessor = numPairs - i * numPairsPerProcessor; }
+            lines.push_back(linePair(startPos, numPairsPerProcessor));
+        }
+        
+        data = createProcesses(t, namesOfGroupCombos, ct);
 		
 		return data;
 		
@@ -92,12 +79,13 @@ EstOutput Parsimony::getValues(Tree* t, int p, string o) {
 
 EstOutput Parsimony::createProcesses(Tree* t, vector< vector<string> > namesOfGroupCombos, CountTable* ct) {
 	try {
-#if defined (__APPLE__) || (__MACH__) || (linux) || (__linux) || (__linux__) || (__unix__) || (__unix)
-		int process = 1;
+        int process = 1;
 		vector<int> processIDS;
 		
 		EstOutput results;
-		
+
+#if defined (__APPLE__) || (__MACH__) || (linux) || (__linux) || (__linux__) || (__unix__) || (__unix)
+				
 		//loop through and create all the processes you want
 		while (process != processors) {
 			int pid = fork();
@@ -160,9 +148,47 @@ EstOutput Parsimony::createProcesses(Tree* t, vector< vector<string> > namesOfGr
 			in.close();
 			m->mothurRemove(s);
 		}
+#else
+        //fill in functions
+        vector<parsData*> pDataArray;
+		DWORD   dwThreadIdArray[processors-1];
+		HANDLE  hThreadArray[processors-1];
+        vector<CountTable*> cts;
+        vector<Tree*> trees;
+		
+		//Create processor worker threads.
+		for( int i=1; i<processors; i++ ){
+            CountTable* copyCount = new CountTable();
+            copyCount->copy(ct);
+            Tree* copyTree = new Tree(copyCount);
+            copyTree->getCopy(t);
+            
+            cts.push_back(copyCount);
+            trees.push_back(copyTree);
+            
+            parsData* temppars = new parsData(m, lines[i].start, lines[i].num, namesOfGroupCombos, copyTree, copyCount);
+			pDataArray.push_back(temppars);
+			processIDS.push_back(i);
+            
+			hThreadArray[i-1] = CreateThread(NULL, 0, MyParsimonyThreadFunction, pDataArray[i-1], 0, &dwThreadIdArray[i-1]);
+		}
+		
+		results = driver(t, namesOfGroupCombos, lines[0].start, lines[0].num, ct);
+		
+		//Wait until all threads have terminated.
+		WaitForMultipleObjects(processors-1, hThreadArray, TRUE, INFINITE);
+		
+		//Close all thread handles and free memory allocations.
+		for(int i=0; i < pDataArray.size(); i++){
+            for (int j = 0; j < pDataArray[i]->results.size(); j++) {  results.push_back(pDataArray[i]->results[j]);  }
+			delete cts[i];
+            delete trees[i];
+			CloseHandle(hThreadArray[i]);
+			delete pDataArray[i];
+		}
 		
-		return results;
 #endif		
+        return results;
 	}
 	catch(exception& e) {
 		m->errorOut(e, "Parsimony", "createProcesses");