/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/unit_tests/seqdb_reader/ |
H A D | seqdb_lmdb_unit_test.cpp | 308 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in BOOST_AUTO_TEST_CASE() local 309 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 328 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in BOOST_AUTO_TEST_CASE() local 329 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 346 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 366 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in BOOST_AUTO_TEST_CASE() local 367 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 382 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 441 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in BOOST_AUTO_TEST_CASE() local 442 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() [all …]
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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_lmdb_unit_test.cpp | 308 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in BOOST_AUTO_TEST_CASE() local 309 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 328 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in BOOST_AUTO_TEST_CASE() local 329 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 346 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 366 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in BOOST_AUTO_TEST_CASE() local 367 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 382 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() 441 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in BOOST_AUTO_TEST_CASE() local 442 taxid_list->AddTaxIds(tax_ids); in BOOST_AUTO_TEST_CASE() [all …]
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/blastdb/unit_test/ |
H A D | defline_unit_test.cpp | 285 list<int> taxid_list; // initially empty in BOOST_AUTO_TEST_CASE() local 288 taxid_list.push_back(200003); in BOOST_AUTO_TEST_CASE() 289 taxid_list.push_back(200002); in BOOST_AUTO_TEST_CASE() 290 taxid_list.push_back(200001); in BOOST_AUTO_TEST_CASE() 292 def_line.SetLinks() = taxid_list; in BOOST_AUTO_TEST_CASE()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/blast/seqdb_reader/ |
H A D | seqdb_lmdb.cpp | 656 inline void GetTaxIdListForOid(blastdb::TOid oid, vector<TTaxId> & taxid_list); 663 void CLookupTaxIds::GetTaxIdListForOid(blastdb::TOid oid, vector<TTaxId> & taxid_list) in GetTaxIdListForOid() argument 665 taxid_list.clear(); in GetTaxIdListForOid() 671 taxid_list.push_back(TAX_ID_FROM(Int4, *begin)); in GetTaxIdListForOid() 711 vector<TTaxId> taxid_list; in GetTaxIdsForOids() local 712 lookup.GetTaxIdListForOid(oids[i], taxid_list); in GetTaxIdsForOids() 713 tax_ids.insert(taxid_list.begin(), taxid_list.end()); in GetTaxIdsForOids()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/blast/seqdb_reader/ |
H A D | seqdb_lmdb.cpp | 656 inline void GetTaxIdListForOid(blastdb::TOid oid, vector<TTaxId> & taxid_list); 663 void CLookupTaxIds::GetTaxIdListForOid(blastdb::TOid oid, vector<TTaxId> & taxid_list) in GetTaxIdListForOid() argument 665 taxid_list.clear(); in GetTaxIdListForOid() 671 taxid_list.push_back(TAX_ID_FROM(Int4, *begin)); in GetTaxIdListForOid() 711 vector<TTaxId> taxid_list; in GetTaxIdsForOids() local 712 lookup.GetTaxIdListForOid(oids[i], taxid_list); in GetTaxIdsForOids() 713 tax_ids.insert(taxid_list.begin(), taxid_list.end()); in GetTaxIdsForOids()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/api/ |
H A D | blast_options_builder.cpp | 401 list<TTaxId> taxid_list; in x_ProcessOneOption() local 403 taxid_list.push_back(TAX_ID_FROM(int, *it)); in x_ProcessOneOption() 405 m_NegativeTaxidList = taxid_list; in x_ProcessOneOption() 481 list<TTaxId> taxid_list; in x_ProcessOneOption() local 483 taxid_list.push_back(TAX_ID_FROM(int, *it)); in x_ProcessOneOption() 485 m_TaxidList = taxid_list; in x_ProcessOneOption()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/api/ |
H A D | blast_options_builder.cpp | 405 list<TTaxId> taxid_list; in x_ProcessOneOption() local 407 taxid_list.push_back(TAX_ID_FROM(int, *it)); in x_ProcessOneOption() 409 m_NegativeTaxidList = taxid_list; in x_ProcessOneOption() 485 list<TTaxId> taxid_list; in x_ProcessOneOption() local 487 taxid_list.push_back(TAX_ID_FROM(int, *it)); in x_ProcessOneOption() 489 m_TaxidList = taxid_list; in x_ProcessOneOption()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/blastdb/ |
H A D | blastdb_aliastool.cpp | 469 string taxid_list = args[kArgTaxIdListFile].AsString(); in CreateAliasFile() local 470 if ( !taxid_list.empty() ) { in CreateAliasFile() 471 if ( !CFile(taxid_list).Exists() ) { in CreateAliasFile() 472 NCBI_THROW(CSeqDBException, eFileErr, taxid_list + " not found"); in CreateAliasFile() 477 seq_type, taxid_list, in CreateAliasFile()
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H A D | blastdbcmd.cpp | 342 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in x_InitBlastDB_TaxIdList() local 343 taxid_list->AddTaxIds(m_TaxIdList); in x_InitBlastDB_TaxIdList() 344 m_BlastDb.Reset(new CSeqDBExpert(args[kArgDb].AsString(), seqtype, taxid_list.GetPointer())); in x_InitBlastDB_TaxIdList()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/app/blastdb/ |
H A D | blastdb_aliastool.cpp | 469 string taxid_list = args[kArgTaxIdListFile].AsString(); in CreateAliasFile() local 470 if ( !taxid_list.empty() ) { in CreateAliasFile() 471 if ( !CFile(taxid_list).Exists() ) { in CreateAliasFile() 472 NCBI_THROW(CSeqDBException, eFileErr, taxid_list + " not found"); in CreateAliasFile() 477 seq_type, taxid_list, in CreateAliasFile()
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H A D | blastdbcmd.cpp | 342 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in x_InitBlastDB_TaxIdList() local 343 taxid_list->AddTaxIds(m_TaxIdList); in x_InitBlastDB_TaxIdList() 344 m_BlastDb.Reset(new CSeqDBExpert(args[kArgDb].AsString(), seqtype, taxid_list.GetPointer())); in x_InitBlastDB_TaxIdList()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/blastinput/ |
H A D | blast_args.cpp | 2343 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in s_GetTaxIDList() local 2344 taxid_list->AddTaxIds(tax_ids); in s_GetTaxIDList() 2346 sdb->SetNegativeGiList(taxid_list.GetPointer()); in s_GetTaxIDList() 2349 sdb->SetGiList(taxid_list.GetPointer()); in s_GetTaxIDList()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/blastinput/ |
H A D | blast_args.cpp | 2343 CRef<CSeqDBGiList> taxid_list(new CSeqDBGiList()); in s_GetTaxIDList() local 2344 taxid_list->AddTaxIds(tax_ids); in s_GetTaxIDList() 2346 sdb->SetNegativeGiList(taxid_list.GetPointer()); in s_GetTaxIDList() 2349 sdb->SetGiList(taxid_list.GetPointer()); in s_GetTaxIDList()
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