/dports/biology/ncbi-toolkit/ncbi/algo/blast/core/ |
H A D | blast_parameters.c | 605 params->gap_prob = BLAST_GAP_PROB; in BlastLinkHSPParametersNew() 608 params->gap_prob = BLAST_GAP_PROB_GAPPED; in BlastLinkHSPParametersNew() 998 double gap_prob, gap_decay_rate, x_variable, y_variable; in CalculateLinkHSPCutoffs() local 1010 gap_prob = link_hsp_params->gap_prob = BLAST_GAP_PROB; in CalculateLinkHSPCutoffs() 1054 x_variable /= (1.0 - gap_prob + kEpsilon); in CalculateLinkHSPCutoffs() 1058 x_variable /= (gap_prob + kEpsilon); in CalculateLinkHSPCutoffs() 1067 link_hsp_params->gap_prob = 0; in CalculateLinkHSPCutoffs()
|
H A D | link_hsps.c | 427 double gap_decay_rate, gap_prob, prob[2]; in s_BlastEvenGapLinkHSPs() local 468 gap_prob = link_hsp_params->gap_prob; in s_BlastEvenGapLinkHSPs() 919 if( gap_prob == 0 || (prob[0] /= gap_prob) > INT4_MAX ) { in s_BlastEvenGapLinkHSPs() 932 if( 1 - gap_prob == 0 || (prob[1] /= 1 - gap_prob) > INT4_MAX ) { in s_BlastEvenGapLinkHSPs()
|
H A D | blast_parameters.h | 138 double gap_prob; /**< Probability of decay for linking HSPs */ member
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/core/ |
H A D | blast_parameters.c | 609 params->gap_prob = BLAST_GAP_PROB; in BlastLinkHSPParametersNew() 612 params->gap_prob = BLAST_GAP_PROB_GAPPED; in BlastLinkHSPParametersNew() 1002 double gap_prob, gap_decay_rate, x_variable, y_variable; in CalculateLinkHSPCutoffs() local 1017 gap_prob = link_hsp_params->gap_prob = BLAST_GAP_PROB; in CalculateLinkHSPCutoffs() 1061 x_variable /= (1.0 - gap_prob + kEpsilon); in CalculateLinkHSPCutoffs() 1065 x_variable /= (gap_prob + kEpsilon); in CalculateLinkHSPCutoffs() 1074 link_hsp_params->gap_prob = 0; in CalculateLinkHSPCutoffs()
|
H A D | link_hsps.c | 427 double gap_decay_rate, gap_prob, prob[2]; in s_BlastEvenGapLinkHSPs() local 468 gap_prob = link_hsp_params->gap_prob; in s_BlastEvenGapLinkHSPs() 919 if( gap_prob == 0 || (prob[0] /= gap_prob) > INT4_MAX ) { in s_BlastEvenGapLinkHSPs() 932 if( 1 - gap_prob == 0 || (prob[1] /= 1 - gap_prob) > INT4_MAX ) { in s_BlastEvenGapLinkHSPs()
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/core/ |
H A D | blast_parameters.c | 609 params->gap_prob = BLAST_GAP_PROB; in BlastLinkHSPParametersNew() 612 params->gap_prob = BLAST_GAP_PROB_GAPPED; in BlastLinkHSPParametersNew() 1002 double gap_prob, gap_decay_rate, x_variable, y_variable; in CalculateLinkHSPCutoffs() local 1017 gap_prob = link_hsp_params->gap_prob = BLAST_GAP_PROB; in CalculateLinkHSPCutoffs() 1061 x_variable /= (1.0 - gap_prob + kEpsilon); in CalculateLinkHSPCutoffs() 1065 x_variable /= (gap_prob + kEpsilon); in CalculateLinkHSPCutoffs() 1074 link_hsp_params->gap_prob = 0; in CalculateLinkHSPCutoffs()
|
H A D | link_hsps.c | 427 double gap_decay_rate, gap_prob, prob[2]; in s_BlastEvenGapLinkHSPs() local 468 gap_prob = link_hsp_params->gap_prob; in s_BlastEvenGapLinkHSPs() 919 if( gap_prob == 0 || (prob[0] /= gap_prob) > INT4_MAX ) { in s_BlastEvenGapLinkHSPs() 932 if( 1 - gap_prob == 0 || (prob[1] /= 1 - gap_prob) > INT4_MAX ) { in s_BlastEvenGapLinkHSPs()
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/algo/blast/core/ |
H A D | blast_parameters.h | 138 double gap_prob; /**< Probability of decay for linking HSPs */ member
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/blast/core/ |
H A D | blast_parameters.h | 138 double gap_prob; /**< Probability of decay for linking HSPs */ member
|
/dports/biology/ncbi-toolkit/ncbi/tools/ |
H A D | blastdef.h | 1087 gap_prob; /* Prob of decay. */ member 1388 Nlm_FloatHi gap_prob; /* prob. of gap of size "gap" (above).*/ member
|
H A D | blast.c | 2847 Nlm_FloatHi gap_prob, gap_decay_rate, x_variable, y_variable; in CalculateSecondCutoffScore() local 2855 gap_prob = search->pbp->gap_prob; in CalculateSecondCutoffScore() 2882 x_variable /= (1.0 - gap_prob + MY_EPS); in CalculateSecondCutoffScore() 2885 x_variable /= (gap_prob + MY_EPS); in CalculateSecondCutoffScore() 5312 search->pbp->gap_prob = options->gap_prob; in BLASTSetUpSearchInternalByLoc() 11268 Nlm_FloatHi gap_decay_rate, gap_prob, prob[2]; in link_hsps() local 11331 gap_prob = search->pbp->gap_prob; in link_hsps() 11771 if( best[0]->hsp_link.num[0] > 1 && gap_prob == 0 ) { in link_hsps() 11800 prob[0] /= gap_prob; in link_hsps() 11808 if( 1 - gap_prob == 0.0 && best[1]->hsp_link.num[1] > 1 ) { in link_hsps() [all …]
|
H A D | blastool.c | 1522 options->gap_prob = 0.5; in BLASTOptionNewEx() 1583 options->gap_prob = 0.5; in BLASTOptionNewEx() 1635 options->gap_prob = 1.0; in BLASTOptionNewEx()
|
H A D | mblast.c | 1645 search->pbp->gap_prob = options->gap_prob; in MegaBlastSetUpSearchInternalByLoc()
|
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/unit_tests/api/ |
H A D | blastoptions_unit_test.cpp | 650 link_hsp_params->gap_prob = 0.0; in BOOST_AUTO_TEST_CASE() 657 BOOST_CHECK_EQUAL(5, (int) (10*link_hsp_params->gap_prob)); in BOOST_AUTO_TEST_CASE()
|
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/unit_tests/api/ |
H A D | blastoptions_unit_test.cpp | 650 link_hsp_params->gap_prob = 0.0; in BOOST_AUTO_TEST_CASE() 657 BOOST_CHECK_EQUAL(5, (int) (10*link_hsp_params->gap_prob)); in BOOST_AUTO_TEST_CASE()
|
/dports/biology/ncbi-toolkit/ncbi/biostruc/cdd/ |
H A D | cddposutil.c | 1814 search->pbp->gap_prob = options->gap_prob; in CddSetUpSearchInternalByLoc()
|