X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=distancecommand.h;h=2cb653f790aeb970f2a8f9ba7e1122d2f8ef4c57;hb=bede5752eaeedb5a7e339439b6ba2f6670bca2b9;hp=1f43856f43a033473a62c420e5c0bfce191fb182;hpb=4f4070ac3fbb5da75f834b48062e9123364b006e;p=mothur.git

diff --git a/distancecommand.h b/distancecommand.h
index 1f43856..2cb653f 100644
--- a/distancecommand.h
+++ b/distancecommand.h
@@ -17,6 +17,11 @@
 #include "dist.h"
 #include "sequencedb.h"
 
+struct linePair {
+	int start;
+	int end;
+};
+
 class DistanceCommand : public Command {
 
 public:
@@ -29,15 +34,18 @@ private:
 	ValidCalculators* validCalculator;
 	Dist* distCalculator;
 	SequenceDB* seqDB;
-	ofstream out, phylipOut;
+	ofstream out, outFile;
 	ifstream in;
-	string outputFileName;
-	string countends;
+	string countends, phylip;
 	int processors;
 	float cutoff;
+	map<int, int> processIDS;   //end line, processid
+	map<int, int>::iterator it;
+	vector<linePair*> lines;
 	
 	void appendFiles(string, string);
-	int driver(Dist*, SequenceDB*, int, int, string, string, float);
+	void createProcesses(string);
+	int driver(Dist*, SequenceDB*, int, int, string, float);
 
 };