//////////////////////////////////////////////////////////////////////////////////

//

// STAMP version 1.3

//

// Written By: Shaun Mahony

//

// PlatformTesting.h

//

// Started: 18th Nov 2005

//

// Copyright 2007-2015 Shaun Mahony

//

// This file is part of STAMP.

//

// STAMP is free software; you can redistribute it and/or modify

// it under the terms of the GNU General Public License as published by

// the Free Software Foundation; either version 2 of the License, or

// (at your option) any later version.

//

// STAMP is distributed in the hope that it will be useful,

// but WITHOUT ANY WARRANTY; without even the implied warranty of

// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the

// GNU General Public License for more details.

//

// You should have received a copy of the GNU General Public License

// along with STAMP; if not, write to the Free Software

// Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA

//

////////////////////////////////////////////////////////////////////////////////////

#ifndef TEST_MARK

#define TEST_MARK

#include <stdio.h>

#include <stdlib.h>

#include <math.h>

#include <string.h>

#include "globals.h"

#include "Motif.h"

#include "Alignment.h"

#include "PlatformSupport.h"

//Testing class that contains classes without general applicability

class PlatformTesting

{

private:

ColumnComp* Metric;

public:

//Constructor

PlatformTesting(ColumnComp* c){Metric = c;}

//Create random columns for a given information content

void RandColumns(PlatformSupport* PS, double infoContent);

//Distribution of all column scores

void ColumnScoreDist(Motif** motifSet, int numMotifs, double interval);

//Distribution of all column instance depths

void ColumnDepthDist(Motif** motifSet, int numMotifs);

//Test pairwise accuracy

void PairwisePredictionAccuracy(PlatformSupport* PS);

};

#endif