Unit test module for deltablast. More...
#include <ncbi_pch.hpp>#include <corelib/test_boost.hpp>#include <serial/serial.hpp>#include <serial/objistr.hpp>#include <objects/seqloc/Seq_id.hpp>#include <objects/seqalign/Score.hpp>#include <objects/seqalign/Dense_seg.hpp>#include <objects/seqalign/Seq_align.hpp>#include <objects/seqalign/Seq_align_set.hpp>#include <objmgr/scope.hpp>#include <objects/scoremat/Pssm.hpp>#include <objects/scoremat/PssmWithParameters.hpp>#include <algo/blast/api/deltablast.hpp>#include <algo/blast/api/objmgr_query_data.hpp>#include <algo/blast/api/deltablast_options.hpp>#include <algo/blast/api/uniform_search.hpp>#include <algo/blast/api/local_db_adapter.hpp>#include <algo/blast/api/blast_rps_options.hpp>#include "seqalign_cmp.hpp"#include "seqalign_set_convert.hpp"#include "blast_test_util.hpp"#include "test_objmgr.hpp"
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Classes | |
| struct | CDeltaBlastTestFixture |
Macros | |
| #define | STATIC_ARRAY_SIZE(array) (sizeof(array)/sizeof(*array)) |
| Calculate the size of a static array. More... | |
Functions | |
| BOOST_AUTO_TEST_CASE (TestSingleQuery_CBS) | |
| BOOST_AUTO_TEST_CASE (TestSingleQuery_NoCBS) | |
| BOOST_AUTO_TEST_CASE (TestMultipleQueries) | |
| BOOST_AUTO_TEST_CASE (TestNullQuery) | |
| BOOST_AUTO_TEST_CASE (TestNullOptions) | |
| BOOST_AUTO_TEST_CASE (TestNullDatabase) | |
| BOOST_AUTO_TEST_CASE (TestNullDomainDatabase) | |
Detailed Description
Unit test module for deltablast.
Definition in file delta_unit_test.cpp.
Macro Definition Documentation
◆ STATIC_ARRAY_SIZE
Calculate the size of a static array.
Definition at line 70 of file delta_unit_test.cpp.
Function Documentation
◆ BOOST_AUTO_TEST_CASE() [1/7]
| BOOST_AUTO_TEST_CASE | ( | TestMultipleQueries | ) |
Definition at line 688 of file delta_unit_test.cpp.
References ctll::empty(), ctll::front(), Get(), CDeltaBlast::GetPssm(), GI_CONST, ITERATE, m_Scope, results, and CDeltaBlast::Run().
◆ BOOST_AUTO_TEST_CASE() [2/7]
| BOOST_AUTO_TEST_CASE | ( | TestNullDatabase | ) |
Definition at line 753 of file delta_unit_test.cpp.
◆ BOOST_AUTO_TEST_CASE() [3/7]
| BOOST_AUTO_TEST_CASE | ( | TestNullDomainDatabase | ) |
Definition at line 766 of file delta_unit_test.cpp.
◆ BOOST_AUTO_TEST_CASE() [4/7]
| BOOST_AUTO_TEST_CASE | ( | TestNullOptions | ) |
Definition at line 739 of file delta_unit_test.cpp.
◆ BOOST_AUTO_TEST_CASE() [5/7]
| BOOST_AUTO_TEST_CASE | ( | TestNullQuery | ) |
Definition at line 728 of file delta_unit_test.cpp.
◆ BOOST_AUTO_TEST_CASE() [6/7]
| BOOST_AUTO_TEST_CASE | ( | TestSingleQuery_CBS | ) |
Definition at line 215 of file delta_unit_test.cpp.
References copy(), ctll::empty(), ctll::front(), Get(), CDeltaBlast::GetDomainResults(), CBioseq::GetFirstId(), CSeq_id_Base::GetGi(), CDeltaBlast::GetPssm(), CPssmWithParameters::GetQuery(), CSeq_entry_Base::GetSeq(), GI_CONST, CPssmWithParameters::HasQuery(), CBioseq_Base::IsSetInst(), m_Scope, query, results, CDeltaBlast::Run(), SeqAlignSetConvert(), CBlastRPSOptionsHandle::SetCompositionBasedStats(), CBlastOptionsHandle::SetEvalueThreshold(), CBlastOptionsHandle::SetFilterString(), and STATIC_ARRAY_SIZE.
◆ BOOST_AUTO_TEST_CASE() [7/7]
| BOOST_AUTO_TEST_CASE | ( | TestSingleQuery_NoCBS | ) |
Definition at line 471 of file delta_unit_test.cpp.
References copy(), CSearchDatabase::eBlastDbIsProtein, ctll::empty(), eNoCompositionBasedStats, ctll::front(), Get(), CDeltaBlast::GetDomainResults(), CBioseq::GetFirstId(), CSeq_id_Base::GetGi(), CDeltaBlast::GetPssm(), CPssmWithParameters::GetQuery(), CSeq_entry_Base::GetSeq(), GI_CONST, CPssmWithParameters::HasQuery(), CBioseq_Base::IsSetInst(), m_Scope, query, results, CDeltaBlast::Run(), SeqAlignSetConvert(), CBlastRPSOptionsHandle::SetCompositionBasedStats(), CBlastOptionsHandle::SetEvalueThreshold(), and STATIC_ARRAY_SIZE.
