// ==========================================================================
//                 SeqAn - The Library for Sequence Analysis
// ==========================================================================
// Copyright (c) 2006-2026, Knut Reinert, FU Berlin
// All rights reserved.
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// ==========================================================================
// Author: Rene Rahn <rene.rahn@fu-berlin.de>
// ==========================================================================

#ifndef TESTS_ALIGN_TEST_ALIGN_SIMD_LOCAL_H_
#define TESTS_ALIGN_TEST_ALIGN_SIMD_LOCAL_H_

#include "test_align_simd_base.h"

// ----------------------------------------------------------------------------
// Local Alignments.
// ----------------------------------------------------------------------------

SEQAN_TYPED_TEST(SimdAlignTestCommon, Linear_Align)
{
    using TAlignConf = typename TestFixture::TAlignConfig;
    using TLengthParam = typename TestFixture::TLengthParam;
    using TBandSwitch = typename TestFixture::TBandSwitch;

    testAlignSimd<seqan2::Dna>(impl::test_align_simd::LocalAlignTester_(), seqan2::Score<int>(2, -1, -1),
                              TAlignConf(), TLengthParam(), TBandSwitch());
    testAlignSimd<seqan2::AminoAcid>(impl::test_align_simd::LocalAlignTester_(), seqan2::Blosum62(-2),
                                    TAlignConf(), TLengthParam(), TBandSwitch());
}

SEQAN_TYPED_TEST(SimdAlignTestCommon, Linear_Score)
{
    using TAlignConf = typename TestFixture::TAlignConfig;
    using TLengthParam = typename TestFixture::TLengthParam;
    using TBandSwitch = typename TestFixture::TBandSwitch;

    testAlignSimdScore<seqan2::Dna>(impl::test_align_simd::LocalScoreTester_(), seqan2::Score<int>(2, -1, -1),
                                   TAlignConf(), TLengthParam(), TBandSwitch());
    testAlignSimdScore<seqan2::AminoAcid>(impl::test_align_simd::LocalScoreTester_(), seqan2::Blosum62(-2),
                                         TAlignConf(), TLengthParam(), TBandSwitch());
}

SEQAN_TYPED_TEST(SimdAlignTestCommon, Affine_Align)
{
    using TAlignConf = typename TestFixture::TAlignConfig;
    using TLengthParam = typename TestFixture::TLengthParam;
    using TBandSwitch = typename TestFixture::TBandSwitch;

    testAlignSimd<seqan2::Dna>(impl::test_align_simd::LocalAlignTester_(), seqan2::Score<int>(2, -1, -1, -3),
                              TAlignConf(), TLengthParam(), TBandSwitch());
    testAlignSimd<seqan2::AminoAcid>(impl::test_align_simd::LocalAlignTester_(), seqan2::Blosum62(-2, -4),
                                    TAlignConf(), TLengthParam(), TBandSwitch());
}

SEQAN_TYPED_TEST(SimdAlignTestCommon, Dynamic_Score_Matrix_Align)
{
    using namespace seqan2;

    using TAlignConf = typename TestFixture::TAlignConfig;
    using TLengthParam = typename TestFixture::TLengthParam;
    using TBandSwitch = typename TestFixture::TBandSwitch;

    Score<int, ScoreMatrix<AminoAcid, ScoreSpecSelectable> > dynScore{-2, -4};
    setScoreMatrixById(dynScore, AminoAcidScoreMatrixID::PAM120);

    testAlignSimd<seqan2::AminoAcid>(::impl::test_align_simd::LocalAlignTester_(), dynScore,
                                    TAlignConf(), TLengthParam(), TBandSwitch());
}

SEQAN_TYPED_TEST(SimdAlignTestCommon, Affine_Score)
{
    using TAlignConf = typename TestFixture::TAlignConfig;
    using TLengthParam = typename TestFixture::TLengthParam;
    using TBandSwitch = typename TestFixture::TBandSwitch;

    testAlignSimdScore<seqan2::Dna>(impl::test_align_simd::LocalScoreTester_(), seqan2::Score<int>(2, -1, -1, -3),
                                   TAlignConf(), TLengthParam(), TBandSwitch());
    testAlignSimdScore<seqan2::AminoAcid>(impl::test_align_simd::LocalScoreTester_(), seqan2::Blosum62(-2, -4),
                                         TAlignConf(), TLengthParam(), TBandSwitch());
}

SEQAN_TYPED_TEST(SimdAlignTestCommon, Dynamic_Score_Matrix)
{
    using namespace seqan2;

    using TAlignConf = typename TestFixture::TAlignConfig;
    using TLengthParam = typename TestFixture::TLengthParam;
    using TBandSwitch = typename TestFixture::TBandSwitch;

    Score<int, ScoreMatrix<AminoAcid, ScoreSpecSelectable> > dynScore{-2, -4};
    setScoreMatrixById(dynScore, AminoAcidScoreMatrixID::PAM120);

    testAlignSimdScore<seqan2::AminoAcid>(::impl::test_align_simd::LocalScoreTester_(), dynScore,
                                         TAlignConf(), TLengthParam(), TBandSwitch());
}

#endif  // #ifndef TESTS_ALIGN_TEST_ALIGN_SIMD_LOCAL_H_
