// File Description
/// \file BamRecordView.cpp
/// \brief Implements the BamRecordTags utility class.
//
// Author: Derek Barnett

#include "PbbamInternalConfig.h"

#include "pbbam/BamRecordView.h"

namespace PacBio {
namespace BAM {

BamRecordView::BamRecordView(const BamRecord& record, const Orientation orientation,
                             const bool aligned, const bool exciseSoftClips,
                             const PulseBehavior pulseBehavior)
    : record_(record)
    , orientation_{orientation}
    , aligned_{aligned}
    , exciseSoftClips_{exciseSoftClips}
    , pulseBehavior_{pulseBehavior}
{
}

QualityValues BamRecordView::AltLabelQVs() const
{
    return record_.AltLabelQV(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

std::string BamRecordView::AltLabelTags() const
{
    return record_.AltLabelTag(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

QualityValues BamRecordView::DeletionQVs() const
{
    return record_.DeletionQV(orientation_, aligned_, exciseSoftClips_);
}

std::string BamRecordView::DeletionTags() const
{
    return record_.DeletionTag(orientation_, aligned_, exciseSoftClips_);
}

QualityValues BamRecordView::InsertionQVs() const
{
    return record_.InsertionQV(orientation_, aligned_, exciseSoftClips_);
}

Frames BamRecordView::IPD() const { return record_.IPD(orientation_, aligned_, exciseSoftClips_); }

Frames BamRecordView::PrebaseFrames() const
{
    return record_.IPD(orientation_, aligned_, exciseSoftClips_);
}

QualityValues BamRecordView::LabelQVs() const
{
    return record_.LabelQV(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

QualityValues BamRecordView::MergeQVs() const
{
    return record_.MergeQV(orientation_, aligned_, exciseSoftClips_);
}

QualityValues BamRecordView::PulseMergeQVs() const
{
    return record_.PulseMergeQV(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

std::vector<float> BamRecordView::Pkmean() const
{
    return record_.Pkmean(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

std::vector<float> BamRecordView::Pkmid() const
{
    return record_.Pkmid(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

std::vector<float> BamRecordView::Pkmean2() const
{
    return record_.Pkmean2(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

std::vector<float> BamRecordView::Pkmid2() const
{
    return record_.Pkmid2(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

Frames BamRecordView::PrePulseFrames() const
{
    return record_.PrePulseFrames(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

std::string BamRecordView::PulseCalls() const
{
    return record_.PulseCall(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

Frames BamRecordView::PulseCallWidth() const
{
    return record_.PulseCallWidth(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

Frames BamRecordView::PulseWidths() const
{
    return record_.PulseWidth(orientation_, aligned_, exciseSoftClips_);
}

QualityValues BamRecordView::Qualities() const
{
    return record_.Qualities(orientation_, aligned_, exciseSoftClips_);
}

std::string BamRecordView::Sequence() const
{
    return record_.Sequence(orientation_, aligned_, exciseSoftClips_);
}

std::vector<uint32_t> BamRecordView::StartFrames() const
{
    return record_.StartFrame(orientation_, aligned_, exciseSoftClips_, pulseBehavior_);
}

QualityValues BamRecordView::SubstitutionQVs() const
{
    return record_.SubstitutionQV(orientation_, aligned_, exciseSoftClips_);
}

std::string BamRecordView::SubstitutionTags() const
{
    return record_.SubstitutionTag(orientation_, aligned_, exciseSoftClips_);
}

}  // namespace BAM
}  // namespace PacBio
