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1 #ifndef ALGO_ALIGN_SPLICEDALIGNER32__HPP
2 #define ALGO_ALIGN_SPLICEDALIGNER32__HPP
52 const char* seq2,
size_t len2);
57 static TScore GetDefaultWi (
unsigned char splice_type);
virtual TScore ScoreFromTranscript(const TTranscript &transcript, size_t start1=kMax_UInt, size_t start2=kMax_UInt) const
virtual TScore x_Align(CNWAligner::SAlignInOut *data)
void x_DoBackTrace(const CBacktraceMatrix4 &backtrace, CNWAligner::SAlignInOut *data)
virtual size_t GetSpliceTypeCount(void)
virtual size_t GetElemSize(void) const
static TScore GetDefaultWd1(void)
virtual TScore * x_GetSpliceScores(void)
static TScore GetDefaultWd2(void)
const size_t splice_type_count_32
uint32_t Uint4
4-byte (32-bit) unsigned integer
#define END_NCBI_SCOPE
End previously defined NCBI scope.
#define BEGIN_NCBI_SCOPE
Define ncbi namespace.
#define NCBI_XALGOALIGN_EXPORT