GraphAlignment/src/GA_matrix.h

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#ifndef GA_MATRIX
#define GA_MATRIX
/* ----------------------------------------------------------------------------
 * R package for graph alignment
 * ----------------------------------------------------------------------------
 *
 * Author: Joern P. Meier <mail@ionflux.org>
 * 
 * The package can be used freely for non-commercial purposes. If you use this 
 * package, the appropriate paper to cite is J. Berg and M. Lässig, 
 * "Cross-species analysis of biological networks by Bayesian alignment", 
 * PNAS 103 (29), 10967-10972 (2006)
 * 
 * This software is made available 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.
 * 
 * This software contains code for solving linear assignment problems which was 
 * written by Roy Jonker, MagicLogic Optimization Inc.. Please note that this 
 * code is copyrighted, &copy; 2003 MagicLogic Systems Inc., Canada and may be 
 * used for non-commercial purposes only. See 
 * https://www.magiclogic.com/assignment.html for the latest version of the LAP 
 * code and details on licensing.
 *
 * ----------------------------------------------------------------------------
 * Matrix types.
 * ----------------------------------------------------------------------------
 */

#include "GA_vector.h"

#ifdef __cplusplus
extern "C"
{
#endif

struct GAMatrixInt_Impl
{
        int** elts;
        int rows;
        int cols;
        int refs;
};

typedef struct GAMatrixInt_Impl GAMatrixInt;

GAMatrixInt* GA_matrix_create_int(int rows, int cols);

GAMatrixInt* GA_matrix_create_square_int(int size);

GAMatrixInt* GA_matrix_ref_int(GAMatrixInt* matrix);

void GA_matrix_destroy_int(GAMatrixInt* matrix);

int* GA_matrix_get_elt_int(GAMatrixInt* matrix, int row, int col);

GAMatrixInt* GA_matrix_init_from_array_int(GAMatrixInt* matrix, int* source, 
        int srcSize);

GAMatrixInt* GA_matrix_create_from_array_int(int* source, int rows, int cols);

GAMatrixInt* GA_matrix_init_zero_int(GAMatrixInt* matrix);

GAMatrixInt* GA_matrix_init_unit_int(GAMatrixInt* matrix);

GAMatrixInt* GA_matrix_print_int(GAMatrixInt* matrix);

struct GAMatrixReal_Impl
{
        double** elts;
        int rows;
        int cols;
        int refs;
};

typedef struct GAMatrixReal_Impl GAMatrixReal;

GAMatrixReal* GA_matrix_create_real(int rows, int cols);

GAMatrixReal* GA_matrix_create_square_real(int size);

GAMatrixReal* GA_matrix_ref_real(GAMatrixReal* matrix);

void GA_matrix_destroy_real(GAMatrixReal* matrix);

double* GA_matrix_get_elt_real(GAMatrixReal* matrix, int row, int col);

GAMatrixReal* GA_matrix_init_from_array_real(GAMatrixReal* matrix, 
        double* source, int srcSize);

GAMatrixReal* GA_matrix_create_from_array_real(double* source, int rows, 
        int cols);

GAMatrixReal* GA_matrix_init_zero_real(GAMatrixReal* matrix);

GAMatrixReal* GA_matrix_init_unit_real(GAMatrixReal* matrix);

GAMatrixInt* GA_matrix_to_bin_real(GAMatrixReal* matrix, GAVectorReal* lookup, 
        GAClampMode clamp);

GAMatrixReal* GA_matrix_print_real(GAMatrixReal* matrix);

#ifdef __cplusplus
}
#endif
#endif

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