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/usr/include/clustalo/clustal/weights.h is in libclustalo-dev 1.2.1-2.

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/*********************************************************************
 * Clustal Omega - Multiple sequence alignment
 *
 * Copyright (C) 2010 University College Dublin
 *
 * Clustal-Omega 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.
 *
 * This file is part of Clustal-Omega.
 *
 ********************************************************************/

/*
 *  RCS $Id: weights.h 193 2011-02-07 15:45:21Z andreas $
 */

#ifndef CLUSTALO_WEIGHTS_H
#define CLUSTALO_WEIGHTS_H

extern int
CalcClustalWeights(double **pdWeights_p, tree_t *prTree);


#endif