NCBI C++ ToolKit
Classes | Functions
redoalignment_unit_test.cpp File Reference
#include <ncbi_pch.hpp>
#include <corelib/test_boost.hpp>
#include <corelib/ncbitime.hpp>
#include <objmgr/object_manager.hpp>
#include <objmgr/scope.hpp>
#include <objtools/data_loaders/genbank/gbloader.hpp>
#include <objmgr/util/sequence.hpp>
#include <objects/seqloc/Seq_loc.hpp>
#include <objects/seqloc/Seq_interval.hpp>
#include <objects/seqalign/Seq_align.hpp>
#include <objects/seqalign/Seq_align_set.hpp>
#include <serial/serial.hpp>
#include <serial/iterator.hpp>
#include <serial/objostr.hpp>
#include <algo/blast/api/bl2seq.hpp>
#include <algo/blast/api/seqsrc_multiseq.hpp>
#include <blast_objmgr_priv.hpp>
#include <blast_psi_priv.h>
#include <algo/blast/core/blast_setup.h>
#include <algo/blast/core/blast_hits.h>
#include <algo/blast/core/blast_kappa.h>
#include <algo/blast/core/blast_hspstream.h>
#include <algo/blast/core/hspfilter_collector.h>
#include <algo/blast/api/blast_options_handle.hpp>
#include <algo/blast/api/blast_prot_options.hpp>
#include <algo/blast/blastinput/blast_input.hpp>
#include <algo/blast/blastinput/blast_fasta_input.hpp>
#include <algo/blast/composition_adjustment/composition_constants.h>
#include <algo/blast/composition_adjustment/matrix_frequency_data.h>
#include "test_objmgr.hpp"
#include "blast_test_util.hpp"
+ Include dependency graph for redoalignment_unit_test.cpp:

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Classes

struct  CRedoAlignmentTestFixture
 

Functions

 BOOST_AUTO_TEST_CASE (testRedoAlignmentWithCompBasedStats)
 
 BOOST_AUTO_TEST_CASE (testRedoAlignmentWithConditionalAdjust)
 
 BOOST_AUTO_TEST_CASE (testPSIRedoAlignmentWithCompBasedStats)
 
 BOOST_AUTO_TEST_CASE (testRedoAlignmentWithCompBasedStatsBadlyBiasedSequence)
 
 BOOST_AUTO_TEST_CASE (testRedoAlignmentWithSW)
 
 BOOST_AUTO_TEST_CASE (testRedoAlignmentWithCompBasedStatsAndSW)
 
 BOOST_AUTO_TEST_CASE (testPSIRedoAlignmentWithCompBasedStatsAndSW)
 
 BOOST_AUTO_TEST_CASE (testRedoAlignmentUseXdropEvalue)
 
 BOOST_AUTO_TEST_CASE (CheckLowerCaseMatrix)
 

Function Documentation

◆ BOOST_AUTO_TEST_CASE() [1/9]

BOOST_AUTO_TEST_CASE ( CheckLowerCaseMatrix  )

Definition at line 975 of file redoalignment_unit_test.cpp.

References Blast_FrequencyDataIsAvailable().

◆ BOOST_AUTO_TEST_CASE() [2/9]

BOOST_AUTO_TEST_CASE ( testPSIRedoAlignmentWithCompBasedStats  )

◆ BOOST_AUTO_TEST_CASE() [3/9]

BOOST_AUTO_TEST_CASE ( testPSIRedoAlignmentWithCompBasedStatsAndSW  )

◆ BOOST_AUTO_TEST_CASE() [4/9]

BOOST_AUTO_TEST_CASE ( testRedoAlignmentUseXdropEvalue  )

◆ BOOST_AUTO_TEST_CASE() [5/9]

BOOST_AUTO_TEST_CASE ( testRedoAlignmentWithCompBasedStats  )

◆ BOOST_AUTO_TEST_CASE() [6/9]

BOOST_AUTO_TEST_CASE ( testRedoAlignmentWithCompBasedStatsAndSW  )

◆ BOOST_AUTO_TEST_CASE() [7/9]

BOOST_AUTO_TEST_CASE ( testRedoAlignmentWithCompBasedStatsBadlyBiasedSequence  )

◆ BOOST_AUTO_TEST_CASE() [8/9]

BOOST_AUTO_TEST_CASE ( testRedoAlignmentWithConditionalAdjust  )

◆ BOOST_AUTO_TEST_CASE() [9/9]

BOOST_AUTO_TEST_CASE ( testRedoAlignmentWithSW  )
Modified on Thu Feb 29 12:24:35 2024 by modify_doxy.py rev. 669887