#ifndef SAMPLESTATS_HH_
#define SAMPLESTATS_HH_
/**
 * Project     : CASAVA
 * Module      : $RCSfile: SampleStats.hh,v $
 * @author     : Tony Cox
 * Copyright   : Copyright (c) Illumina 2008, 2009. All rights reserved.
 *
 ** This software is covered by the "Illumina Genome Analyzer Software
 ** License Agreement" and the "Illumina Source Code License Agreement",
 ** and certain third party copyright/licenses, and any user of this
 ** source file is bound by the terms therein (see accompanying files
 ** Illumina_Genome_Analyzer_Software_License_Agreement.pdf and
 ** Illumina_Source_Code_License_Agreement.pdf and third party
 ** copyright/license notices).
 *
 */
#include "variance/StatWidget.hh"

namespace ca {
namespace variance_detection {

/**
 * @struct SampleStats
 *
 * @brief TODO to class
 *
 * $Header $
 */

struct SampleStats {
	StatWidget qualStats_[2];
	StatWidget scoreStats_[2];
	StatWidget offsetStats_;
	StatWidget spanReadStats_[2];

	int qualThreshold_[2];
	int scoreThreshold_[2];
	int minOffset_;
	int maxOffset_;
	void print(void) const;
	void printOffsetStats(void) const;
  	void setThresholds(int numStandardDevs);

};
}
} // end namespace casava{ namespace { applications
#endif /*SAMPLESTATS_HH_*/