src/algo/align/util/unit_test/score_builder_unit_test.cpp File Reference

#include <ncbi_pch.hpp>
#include <corelib/test_boost.hpp>
#include <objects/seqalign/Seq_align.hpp>
#include <objects/seqalign/Score.hpp>
#include <objects/general/Object_id.hpp>
#include <algo/align/util/score_builder.hpp>
#include <objmgr/object_manager.hpp>
#include <objmgr/scope.hpp>
#include <objtools/data_loaders/genbank/gbloader.hpp>
#include <common/test_assert.h>

Include dependency graph for score_builder_unit_test.cpp:

Go to the source code of this file.

Functions
	USING_SCOPE (objects)
	NCBITEST_INIT_CMDLINE (arg_desc)
	BOOST_AUTO_TEST_CASE (Test_Dense_seg)
Variables
	USING_NCBI_SCOPE

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Function Documentation

BOOST_AUTO_TEST_CASE (  Test_Dense_seg   )

we test several distinct scores reset scores to avoid any taint in score generation check identity count check mismatch count check percent identity machine precision is a problme here we verify to 12 digits of precision CScore score; score.SetId().SetStr("pct_identity"); score.SetValue().SetReal(actual); cerr << MSerial_AsnText << score; check percent coverage machine precision is a problme here we verify to 12 digits of precision CScore score; score.SetId().SetStr("pct_coverage"); score.SetValue().SetReal(actual); cerr << MSerial_AsnText << score; our encoded dense-segs have a BLAST-style 'score' Definition at line 81 of file score_builder_unit_test.cpp. References eBlastn, CSeq_align::eScore_IdentityCount, CSeq_align::eScore_MismatchCount, CSeq_align::eScore_PercentCoverage, CSeq_align::eScore_PercentIdentity, CSeq_align::eScore_Score, CNcbiApplication::GetArgs(), CScoreBuilder::GetBlastScore(), CScoreBuilder::GetIdentityCount(), CObjectManager::GetInstance(), CScoreBuilder::GetMismatchCount(), CSeq_align::GetNamedScore(), CScoreBuilder::GetPercentCoverage(), CScoreBuilder::GetPercentIdentity(), CSeq_align_Base::GetSegs(), CNcbiApplication::Instance(), LOG_POST, MSerial_AsnText(), om, CGBDataLoader::RegisterInObjectManager(), and CSeq_align_Base::ResetScore().

NCBITEST_INIT_CMDLINE (  arg_desc   )

Definition at line 70 of file score_builder_unit_test.cpp. References CArgDescriptions::eInputFile.

USING_SCOPE (  objects   )

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Variable Documentation

USING_NCBI_SCOPE

Definition at line 67 of file score_builder_unit_test.cpp.

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