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Searched refs:kGapExtend (Results 1 – 8 of 8) sorted by relevance

/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/unit_tests/api/
H A Dstat_unit_test.cpp52 const int kGapExtend = 1; in BOOST_AUTO_TEST_CASE() local
63 Blast_KarlinBlkGappedCalc(kbp, kGapOpen, kGapExtend, kMatrix, &error); in BOOST_AUTO_TEST_CASE()
64 Blast_GumbelBlkCalc(gbp, kGapOpen, kGapExtend, kMatrix, &error); in BOOST_AUTO_TEST_CASE()
H A Doptionshandle_unit_test.cpp668 const int kGapExtend = 3; in BOOST_FIXTURE_TEST_CASE() local
671 m_OptsHandle->SetGapExtensionCost(kGapExtend); in BOOST_FIXTURE_TEST_CASE()
680 BOOST_REQUIRE_EQUAL(kGapExtend, m_OptsHandle->GetGapExtensionCost()); in BOOST_FIXTURE_TEST_CASE()
690 BOOST_REQUIRE_EQUAL(kGapExtend, m_OptsHandle->GetGapExtensionCost()); in BOOST_FIXTURE_TEST_CASE()
697 const int kGapExtend = 3; in BOOST_FIXTURE_TEST_CASE() local
700 m_OptsHandle->SetGapExtensionCost(kGapExtend); in BOOST_FIXTURE_TEST_CASE()
709 BOOST_REQUIRE_EQUAL(kGapExtend, m_OptsHandle->GetGapExtensionCost()); in BOOST_FIXTURE_TEST_CASE()
H A Dscoreblk_unit_test.cpp157 const int kGapExtend = 2; in BOOST_AUTO_TEST_CASE() local
190 scoring_opts->gap_extend = kGapExtend; in BOOST_AUTO_TEST_CASE()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/unit_tests/api/
H A Dstat_unit_test.cpp52 const int kGapExtend = 1; in BOOST_AUTO_TEST_CASE() local
63 Blast_KarlinBlkGappedCalc(kbp, kGapOpen, kGapExtend, kMatrix, &error); in BOOST_AUTO_TEST_CASE()
64 Blast_GumbelBlkCalc(gbp, kGapOpen, kGapExtend, kMatrix, &error); in BOOST_AUTO_TEST_CASE()
H A Doptionshandle_unit_test.cpp668 const int kGapExtend = 3; in BOOST_FIXTURE_TEST_CASE() local
671 m_OptsHandle->SetGapExtensionCost(kGapExtend); in BOOST_FIXTURE_TEST_CASE()
680 BOOST_REQUIRE_EQUAL(kGapExtend, m_OptsHandle->GetGapExtensionCost()); in BOOST_FIXTURE_TEST_CASE()
690 BOOST_REQUIRE_EQUAL(kGapExtend, m_OptsHandle->GetGapExtensionCost()); in BOOST_FIXTURE_TEST_CASE()
697 const int kGapExtend = 3; in BOOST_FIXTURE_TEST_CASE() local
700 m_OptsHandle->SetGapExtensionCost(kGapExtend); in BOOST_FIXTURE_TEST_CASE()
709 BOOST_REQUIRE_EQUAL(kGapExtend, m_OptsHandle->GetGapExtensionCost()); in BOOST_FIXTURE_TEST_CASE()
H A Dscoreblk_unit_test.cpp157 const int kGapExtend = 2; in BOOST_AUTO_TEST_CASE() local
190 scoring_opts->gap_extend = kGapExtend; in BOOST_AUTO_TEST_CASE()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/cobalt/
H A Dcobalt.cpp433 const Int4 kGapExtend = 1; in x_ComputeTree() local
434 if (Blast_KarlinBlkGappedLoadFromTables(&karlin_blk, kGapOpen, kGapExtend, in x_ComputeTree()
/dports/biology/hyphy/hyphy-2.5.33/src/core/
H A Dbatchlanruntime.cpp876 kGapExtend ("SEQ_ALIGN_GAP_EXTEND"), in HandleAlignSequences() local
995 gap_extend = _NumericValueFromKey (alignment_options, kGapExtend,1.), in HandleAlignSequences()