viterbi_cops.h File Reference

Functions
int	p7_ViterbiCOPS_word (DATA_COPS16 *dcops, SEQ **seqsdb, float *results)
void	p7_ViterbiCOPS_word_Setup (DATA_COPS16 *dcops, int maxL, int max_partition)
DATA_COPS16 *	p7_ViterbiCOPS_word_Create (P7_PROFILE *gm)
int	p7_ViterbiCOPS_float (DATA_COPS32 *dcops, SEQ **seqsdb, float *results)
void	p7_ViterbiCOPS_float_Setup (DATA_COPS32 *dcops, int maxL, int max_partition)
DATA_COPS32 *	p7_ViterbiCOPS_float_Create (P7_PROFILE *gm)

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Detailed Description

ViterbiCOPS public interface

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Function Documentation

int p7_ViterbiCOPS_float	(	DATA_COPS32 *	dcops,
		SEQ **	seqsdb,
		float *	results
	)

COPS processing function. Executes Viterbi algorithm on the 4-sequence batch

• COPS data
• Array with 4 sequences to score
• Result array with 4 float values [out]

DATA_COPS32* p7_ViterbiCOPS_float_Create

(

P7_PROFILE *

gm

)

Create COPS data structure for the 32-bit float implementation

• A valid P7_PROFILE

void p7_ViterbiCOPS_float_Setup	(	DATA_COPS32 *	dcops,
		int	maxL,
		int	max_partition
	)

Setup COPS. Needs to be called before calling the processing function

• COPS data
• Estimate of the maximum Sequences' length. Used to optimize the memory allocation. Defaults to 1000
• Maximum partition length allowed. Must be a multiple of 4. Defaults to 120

int p7_ViterbiCOPS_word	(	DATA_COPS16 *	dcops,
		SEQ **	seqsdb,
		float *	results
	)

COPS processing function. Executes Viterbi algorithm on the 8-sequence batch

• COPS data
• Array with 8 sequences to score
• Result array with 8 float values [out]

DATA_COPS16* p7_ViterbiCOPS_word_Create

(

P7_PROFILE *

gm

)

Create COPS data structure for the 16-bit integer implementation

• A valid P7_PROFILE

void p7_ViterbiCOPS_word_Setup	(	DATA_COPS16 *	dcops,
		int	maxL,
		int	max_partition
	)

Setup COPS. Needs to be called before calling the processing function

• COPS data
• Estimate of the maximum Sequences' length. Used to optimize the memory allocation. Defaults to 1000
• Maximum partition length allowed. Must be a multiple of 8. Defaults to 120