X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=chimeracheckrdp.h;fp=chimeracheckrdp.h;h=0000000000000000000000000000000000000000;hp=cc23c2e9e8b0b794339a0dfa8fa91bae50f28c00;hb=4a877efa127e56e81a21f53cfdbbfd3bfbe8c4ff;hpb=a6cf29fa4dac0909c7582cb1094151d34093ee76

diff --git a/chimeracheckrdp.h b/chimeracheckrdp.h
deleted file mode 100644
index cc23c2e..0000000
--- a/chimeracheckrdp.h
+++ /dev/null
@@ -1,60 +0,0 @@
-#ifndef CHIMERACHECK_H
-#define CHIMERACHECK_H
-
-/*
- *  chimeracheckrdp.h
- *  Mothur
- *
- *  Created by westcott on 9/8/09.
- *  Copyright 2009 Schloss Lab. All rights reserved.
- *
- */
-
-
-#include "chimera.h"
-#include "kmer.hpp"
-#include "kmerdb.hpp"
-#include "alignmentdb.h"
-
-/***********************************************************/
-//This class was created using the algorythms described in 
-//CHIMERA_CHECK version 2.7 written by Niels Larsen. 
-
-/***********************************************************/
-
-class ChimeraCheckRDP : public Chimera {
-	
-	public:
-		ChimeraCheckRDP(string, string, string, bool, int, int, string); //fasta, template, name, svg, increment, ksize, outputDir	
-		~ChimeraCheckRDP();
-		
-		int getChimeras(Sequence*);
-		Sequence print(ostream&, ostream&);
-		
-		#ifdef USE_MPI
-		Sequence print(MPI_File&, MPI_File&);
-		#endif
-		
-	private:
-		
-		Sequence* querySeq;
-		AlignmentDB* templateDB;
-		Kmer* kmer;
-		Sequence closest;		//closest is the closest overall seq to query
-
-		vector<sim>  IS;  //IS is the vector of IS values for each window for query
-		string fastafile;
-		map<string, string> names;
-		string name;
-		bool svg;
-		int kmerSize, increment;
-		
-		vector<sim> findIS();
-		int calcKmers(map<int, int>, map<int, int>);
-		void makeSVGpic(vector<sim>);
-		void readName(string);
-};
-/***********************************************************/
-
-#endif
-