diff options
Diffstat (limited to 'algo/blast/composition_adjustment/optimize_target_freq.h')
| -rw-r--r-- | algo/blast/composition_adjustment/optimize_target_freq.h | 101 |
1 files changed, 51 insertions, 50 deletions
diff --git a/algo/blast/composition_adjustment/optimize_target_freq.h b/algo/blast/composition_adjustment/optimize_target_freq.h index f9684418..5b56b000 100644 --- a/algo/blast/composition_adjustment/optimize_target_freq.h +++ b/algo/blast/composition_adjustment/optimize_target_freq.h @@ -1,58 +1,59 @@ -/* =========================================================================== -* -* PUBLIC DOMAIN NOTICE -* National Center for Biotechnology Information -* -* This software/database is a "United States Government Work" under the -* terms of the United States Copyright Act. It was written as part of -* the author's official duties as a United States Government employee and -* thus cannot be copyrighted. This software/database is freely available -* to the public for use. The National Library of Medicine and the U.S. -* Government have not placed any restriction on its use or reproduction. -* -* Although all reasonable efforts have been taken to ensure the accuracy -* and reliability of the software and data, the NLM and the U.S. -* Government do not and cannot warrant the performance or results that -* may be obtained by using this software or data. The NLM and the U.S. -* Government disclaim all warranties, express or implied, including -* warranties of performance, merchantability or fitness for any particular -* purpose. -* -* Please cite the author in any work or product based on this material. -* -* ===========================================================================*/ +/* $Id: optimize_target_freq.h,v 1.6 2005/12/01 13:54:04 gertz Exp $ + * =========================================================================== + * + * PUBLIC DOMAIN NOTICE + * National Center for Biotechnology Information + * + * This software/database is a "United States Government Work" under the + * terms of the United States Copyright Act. It was written as part of + * the author's official duties as a United States Government employee and + * thus cannot be copyrighted. This software/database is freely available + * to the public for use. The National Library of Medicine and the U.S. + * Government have not placed any restriction on its use or reproduction. + * + * Although all reasonable efforts have been taken to ensure the accuracy + * and reliability of the software and data, the NLM and the U.S. + * Government do not and cannot warrant the performance or results that + * may be obtained by using this software or data. The NLM and the U.S. + * Government disclaim all warranties, express or implied, including + * warranties of performance, merchantability or fitness for any particular + * purpose. + * + * Please cite the author in any work or product based on this material. + * + * ===========================================================================*/ -/***************************************************************************** +/** + * @file optimize_target_freq.h + * @author E. Michael Gertz + * + * Exports for optimized_target_freq.c + */ -File name: re_newton.h +#ifndef __OPTIMIZE_TARGET_FREQ__ +#define __OPTIMIZE_TARGET_FREQ__ -Author: E. Michael Gertz +#include <algo/blast/core/blast_export.h> -Contents: Exports for re_newton.c - Mid-level functions that directly solve the optimization - problem for compositional score matrix adjustment. - Used in conjunction with Newton_procedures.c and nlm_numerics +#ifdef __cplusplus +extern "C" { +#endif -******************************************************************************/ -/* - * $Log: re_newton.h,v $ - * Revision 1.1 2005/05/16 16:11:41 papadopo - * Initial revision - * - */ +NCBI_XBLAST_EXPORT +int +Blast_OptimizeTargetFrequencies(double x[], + int alphsize, + int * iterations, + const double q[], + const double row_sums[], + const double col_sums[], + int constrain_rel_entropy, + double relative_entropy, + double tol, + int maxits); -#ifndef RE_NEWTON -#define RE_NEWTON +#ifdef __cplusplus +} +#endif -Int4 -OptimizeTargetFrequencies(Nlm_FloatHiPtr x, - Int4 alphsize, - const Nlm_FloatHi PNTR q, - const Nlm_FloatHi PNTR row_sums, - const Nlm_FloatHi PNTR col_sums, - Int4 constrain_rel_entropy, - Nlm_FloatHi relative_entropy, - Nlm_FloatHi tol, - Int4 maxits); - #endif |