BGI/soap_src/soap_builder/karlin.h

   1 /*
   2   see karlin.c for details.
   3 */
   4
   5 #ifndef _karlin_
   6 #define _karlin_
   7
   8 /*
   9 wss:
  10 The following definitions are added to remove dependency on blast.h
  11 */
  12 #include <stdint.h>
  13 #define int4 int32_t
  14 #define uint4 uint32_t
  15 #define int8 int64_t
  16 #define uint8 uint64_t
  17 #define int2 int16_t
  18 #define uint2 uint16_t
  19
  20 double BlastKarlin_lambda;
  21 double BlastKarlin_K;
  22 double BlastKarlin_H;
  23
  24 void BlastKarlinBlkCalc(double* scoreProbabilities, int4 min, int4 max);
  25
  26 int4 BlastComputeLengthAdjustment(double K,
  27                              double logK,
  28                              double alpha_d_lambda,
  29                              double beta,
  30                              int4 query_length,
  31                              uint4 db_length,
  32                              int4 db_num_seqs,
  33                              int4 *length_adjustment);
  34 #endif
  35