swps3
DynProgr_PPU.h
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1 
5 /*
6  * Copyright (c) 2007-2008 ETH Zürich, Institute of Computational Science
7  *
8  * Permission is hereby granted, free of charge, to any person
9  * obtaining a copy of this software and associated documentation
10  * files (the "Software"), to deal in the Software without
11  * restriction, including without limitation the rights to use,
12  * copy, modify, merge, publish, distribute, sublicense, and/or sell
13  * copies of the Software, and to permit persons to whom the
14  * Software is furnished to do so, subject to the following
15  * conditions:
16  *
17  * The above copyright notice and this permission notice shall be
18  * included in all copies or substantial portions of the Software.
19  *
20  * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
21  * EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES
22  * OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
23  * NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT
24  * HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
25  * WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
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28  */
29 
30 #ifndef DYNPROGR_PPU_H_
31 #define DYNPROGR_PPU_H_
32 
33 #include "swps3.h"
34 #include "matrix.h"
35 #include "DynProgr_SPE.h"
36 
37 double swps3_alignmentProfileSPE( const char * db, int dbLen );
38 double swps3_alignmentByteSPE( const SBMatrix matrix, const char * query, int queryLen, const char * db, int dbLen, Options * options );
39 double swps3_alignmentShortSPE( const SBMatrix matrix, const char * query, int queryLen, const char * db, int dbLen, Options * options );
40 double swps3_alignmentFloatSPE( const SBMatrix matrix, const char * query, int queryLen, const char * db, int dbLen, Options * options );
44 SPEProfile * swps3_createProfileBytePPU( const char * query, int queryLen, const SBMatrix matrix, int maxDbLen );
45 SPEProfile * swps3_createProfileShortPPU( const char * query, int queryLen, const SBMatrix matrix, int maxDbLen );
46 SPEProfile * swps3_createProfileFloatPPU( const char * query, int queryLen, const SBMatrix matrix, int maxDbLen );
48 
49 #endif /* PS3_PPU_H_ */
50