VCFProgramMerge.java

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package edu.mayo.bior.pipeline.VCFProgramPipes;

import edu.mayo.pipes.history.History;
import edu.mayo.pipes.pipeFunctions.StitchPipeFunction;

/**
 *
 * @author m102417
 */
public class VCFProgramMerge implements StitchPipeFunction<History,History,History> {
    private String mProgram = "UNKNOWN"; //SNPEff or vep or whatever
    
    /**
     * default constructor will c
     */
    public VCFProgramMerge(){
        
    }
    
    public VCFProgramMerge(String programName){
    	mProgram = programName;
    }
    /**
     * Merge the two lists back together using whatever logic is needed (logic goes int the compute() method).
     * @param a - the array list coming out of the pipe
     * @param b - the array list before it went into the pipe
     * @return 
     */
    
    public History compute(History a, History b) {
        String lastFromA = a.get(a.size()-1);
        b.add(lastFromA);
        return b;
    }
}