| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/data_loaders/blastdb/ |
| H A D | local_blastdb_adapter.cpp | 137 TSeqPos length = m_SeqDB->GetAmbigSeq(oid, &buffer, kNuclCode); in GetSequence()
154 m_SeqDB->GetAmbigSeq(oid, &buffer, kNuclCode, begin, end); in GetSequence()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/data_loaders/blastdb/ |
| H A D | local_blastdb_adapter.cpp | 137 TSeqPos length = m_SeqDB->GetAmbigSeq(oid, &buffer, kNuclCode); in GetSequence()
154 m_SeqDB->GetAmbigSeq(oid, &buffer, kNuclCode, begin, end); in GetSequence()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/blast/seqdb_reader/ |
| H A D | seqdb.cpp | 545 int CSeqDB::GetAmbigSeq(int oid, const char ** buffer, int nucl_code) const in GetAmbigSeq() function in CSeqDB
548 int rv = m_Impl->GetAmbigSeq(oid, in GetAmbigSeq()
565 int CSeqDB::GetAmbigSeq(int oid, in GetAmbigSeq() function in CSeqDB
575 int rv = m_Impl->GetAmbigSeq(oid, in GetAmbigSeq()
600 int rv = m_Impl->GetAmbigSeq(oid, buffer, nucl_code, 0, strategy, masks); in GetAmbigSeqAlloc()
1149 length = GetAmbigSeq(oid, & buffer, kSeqDBNuclNcbiNA8, in GetSequenceAsString()
1152 length = GetAmbigSeq(oid, & buffer, kSeqDBNuclNcbiNA8); in GetSequenceAsString()
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| H A D | seqdbimpl.hpp | 378 int GetAmbigSeq(int oid,
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| H A D | seqdbimpl.cpp | 752 int CSeqDBImpl::GetAmbigSeq(int oid, in GetAmbigSeq() function in CSeqDBImpl
763 return vol->GetAmbigSeq(vol_oid, in GetAmbigSeq()
1847 int base_len = GetAmbigSeq(oid, in GetSequenceHash()
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| H A D | seqdbvol.cpp | 1482 int CSeqDBVol::GetAmbigSeq(int oid, in GetAmbigSeq() function in CSeqDBVol
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/blast/seqdb_reader/ |
| H A D | seqdb.cpp | 545 int CSeqDB::GetAmbigSeq(int oid, const char ** buffer, int nucl_code) const in GetAmbigSeq() function in CSeqDB
548 int rv = m_Impl->GetAmbigSeq(oid, in GetAmbigSeq()
565 int CSeqDB::GetAmbigSeq(int oid, in GetAmbigSeq() function in CSeqDB
575 int rv = m_Impl->GetAmbigSeq(oid, in GetAmbigSeq()
600 int rv = m_Impl->GetAmbigSeq(oid, buffer, nucl_code, 0, strategy, masks); in GetAmbigSeqAlloc()
1149 length = GetAmbigSeq(oid, & buffer, kSeqDBNuclNcbiNA8, in GetSequenceAsString()
1152 length = GetAmbigSeq(oid, & buffer, kSeqDBNuclNcbiNA8); in GetSequenceAsString()
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| H A D | seqdbimpl.hpp | 378 int GetAmbigSeq(int oid,
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| H A D | seqdbimpl.cpp | 752 int CSeqDBImpl::GetAmbigSeq(int oid, in GetAmbigSeq() function in CSeqDBImpl
763 return vol->GetAmbigSeq(vol_oid, in GetAmbigSeq()
1847 int base_len = GetAmbigSeq(oid, in GetSequenceHash()
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| H A D | seqdbvol.cpp | 1482 int CSeqDBVol::GetAmbigSeq(int oid, in GetAmbigSeq() function in CSeqDBVol
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/blast/seqdb_reader/ |
| H A D | seqdb.hpp | 706 int GetAmbigSeq(int oid, const char ** buffer, int nucl_code) const;
727 int GetAmbigSeq(int oid,
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/blast/seqdb_reader/ |
| H A D | seqdb.hpp | 706 int GetAmbigSeq(int oid, const char ** buffer, int nucl_code) const;
727 int GetAmbigSeq(int oid,
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/unit_tests/api/ |
| H A D | subj_ranges_unit_test.cpp | 130 TSeqPos len = db.GetAmbigSeq(kSubjectId, &buf, kSeqDBNuclBlastNA8); in BOOST_AUTO_TEST_CASE()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/unit_tests/api/ |
| H A D | subj_ranges_unit_test.cpp | 130 TSeqPos len = db.GetAmbigSeq(kSubjectId, &buf, kSeqDBNuclBlastNA8); in BOOST_AUTO_TEST_CASE()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/blast/seqdb_reader/test/ |
| H A D | seqdb_perf.cpp | 159 m_DbHandles[thread_id]->GetAmbigSeq(oid, &buffer, encoding); in x_ScanDatabase()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/blast/seqdb_reader/test/ |
| H A D | seqdb_perf.cpp | 160 m_DbHandles[thread_id]->GetAmbigSeq(oid, &buffer, encoding); in x_ScanDatabase()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/blast/seqdb_reader/impl/ |
| H A D | seqdbvol.hpp | 384 int GetAmbigSeq(int oid,
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objtools/blast/seqdb_reader/impl/ |
| H A D | seqdbvol.hpp | 384 int GetAmbigSeq(int oid,
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/unit_tests/seqdb_reader/ |
| H A D | seqdb_unit_test.cpp | 84 sliceL = db.GetAmbigSeq(oid, & slice, kSeqDBNuclNcbiNA8, begin, end); in s_TestPartialAmbigRange()
85 wholeL = db.GetAmbigSeq(oid, & whole, kSeqDBNuclNcbiNA8); in s_TestPartialAmbigRange()
502 Uint4 length1 = seqp.GetAmbigSeq(0, & bufp1, kSeqDBNuclBlastNA8); in BOOST_AUTO_TEST_CASE()
503 Uint4 length2 = seqp.GetAmbigSeq(0, & bufp2, kSeqDBNuclNcbiNA8); in BOOST_AUTO_TEST_CASE()
521 Uint4 length1 = seqp.GetAmbigSeq(0, & bufp1, kSeqDBNuclBlastNA8); in BOOST_AUTO_TEST_CASE()
522 Uint4 length2 = seqp.GetAmbigSeq(0, & bufp2, kSeqDBNuclNcbiNA8); in BOOST_AUTO_TEST_CASE()
2991 BOOST_REQUIRE_THROW(db.GetAmbigSeq(0, & buffer, kSeqDBNuclBlastNA8), in BOOST_AUTO_TEST_CASE()
2993 BOOST_REQUIRE_THROW(db.GetAmbigSeq(0, & buffer, kSeqDBNuclBlastNA8, 10, 20), in BOOST_AUTO_TEST_CASE()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/unit_tests/seqdb_reader/ |
| H A D | seqdb_unit_test.cpp | 84 sliceL = db.GetAmbigSeq(oid, & slice, kSeqDBNuclNcbiNA8, begin, end); in s_TestPartialAmbigRange()
85 wholeL = db.GetAmbigSeq(oid, & whole, kSeqDBNuclNcbiNA8); in s_TestPartialAmbigRange()
502 Uint4 length1 = seqp.GetAmbigSeq(0, & bufp1, kSeqDBNuclBlastNA8); in BOOST_AUTO_TEST_CASE()
503 Uint4 length2 = seqp.GetAmbigSeq(0, & bufp2, kSeqDBNuclNcbiNA8); in BOOST_AUTO_TEST_CASE()
521 Uint4 length1 = seqp.GetAmbigSeq(0, & bufp1, kSeqDBNuclBlastNA8); in BOOST_AUTO_TEST_CASE()
522 Uint4 length2 = seqp.GetAmbigSeq(0, & bufp2, kSeqDBNuclNcbiNA8); in BOOST_AUTO_TEST_CASE()
2992 BOOST_REQUIRE_THROW(db.GetAmbigSeq(0, & buffer, kSeqDBNuclBlastNA8), in BOOST_AUTO_TEST_CASE()
2994 BOOST_REQUIRE_THROW(db.GetAmbigSeq(0, & buffer, kSeqDBNuclBlastNA8, 10, 20), in BOOST_AUTO_TEST_CASE()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/blast/seqdb_reader/demo/ |
| H A D | seqdb_demo.cpp | 348 int length = sm_sp->GetAmbigSeq(oid, &buffer, kNuclCode); in x_UseOID()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/blast/seqdb_reader/demo/ |
| H A D | seqdb_demo.cpp | 348 int length = sm_sp->GetAmbigSeq(oid, &buffer, kNuclCode); in x_UseOID()
|