/*  $Id: track_data.cpp 538225 2017-06-08 16:25:07Z ludwigf $
 * ===========================================================================
 *
 *                            PUBLIC DOMAIN NOTICE
 *               National Center for Biotechnology Information
 *
 *  This software/database is a "United States Government Work" under the
 *  terms of the United States Copyright Act.  It was written as part of
 *  the author's official duties as a United States Government employee and
 *  thus cannot be copyrighted.  This software/database is freely available
 *  to the public for use. The National Library of Medicine and the U.S.
 *  Government have not placed any restriction on its use or reproduction.
 *
 *  Although all reasonable efforts have been taken to ensure the accuracy
 *  and reliability of the software and data, the NLM and the U.S.
 *  Government do not and cannot warrant the performance or results that
 *  may be obtained by using this software or data. The NLM and the U.S.
 *  Government disclaim all warranties, express or implied, including
 *  warranties of performance, merchantability or fitness for any particular
 *  purpose.
 *
 *  Please cite the author in any work or product based on this material.
 *
 * ===========================================================================
 *
 * Author:  Frank Ludwig
 *
 * File Description:
 *   WIGGLE transient data structures
 *
 */

#include <ncbi_pch.hpp>
#include <corelib/ncbistd.hpp>
#include <corelib/ncbiapp.hpp>

#include <objects/general/Object_id.hpp>
#include <objects/general/User_object.hpp>
#include <objects/general/User_field.hpp>
#include <objects/general/Dbtag.hpp>

#include <objects/seq/Seq_annot.hpp>
#include <objects/seq/Annotdesc.hpp>
#include <objects/seq/Annot_descr.hpp>
#include <objects/seq/Seq_descr.hpp>
#include <objtools/readers/track_data.hpp>

BEGIN_NCBI_SCOPE
BEGIN_SCOPE(objects) // namespace ncbi::objects::

//  ----------------------------------------------------------------------------
CTrackData::CTrackData()
//  ----------------------------------------------------------------------------
{
}


//  ----------------------------------------------------------------------------
bool CTrackData::IsTrackData(
    const LineData& linedata )
//  ----------------------------------------------------------------------------
{
    return ( !linedata.empty() && linedata[0] == "track" );
}

//  ----------------------------------------------------------------------------
bool CTrackData::ParseLine(
    const LineData& linedata )
//  ----------------------------------------------------------------------------
{
    if ( !IsTrackData(linedata) ) {
        return false;
    }
    string s = mData["name"];
    mData.clear();

    LineData::const_iterator cit = linedata.begin();
    for ( cit++; cit != linedata.end(); ++cit ) {
        string key, value;
        NStr::SplitInTwo( *cit, "=", key, value );
        value = NStr::Replace(value, "\"", " ");
        NStr::TruncateSpacesInPlace(value);
        mData[key] = value;
    }
    return true;
}

//  ----------------------------------------------------------------------------
int CTrackData::Offset() const 
//  ----------------------------------------------------------------------------
{ 
    string offset = ValueOf("offset");
    if (offset.empty()) {
        return 0;
    }
    return NStr::StringToInt(offset); 
};

//  ----------------------------------------------------------------------------
string CTrackData::ValueOf(
    const string& key) const
//  ----------------------------------------------------------------------------
{
    auto valueIt = mData.find(key);
    if (valueIt != mData.end()) {
        return valueIt->second;
    }
    return "";
}

//  -----------------------------------------------------------------------------
bool
CTrackData::WriteToAnnot(
    CSeq_annot& annot)
//  -----------------------------------------------------------------------------
{
    CAnnot_descr& desc = annot.SetDesc();
    CRef<CUser_object> pTrackdata(new CUser_object());
    pTrackdata->SetType().SetStr("Track Data");
   
    if (!Description().empty()) {
        annot.SetTitleDesc(Description());
    }
    if (!Name().empty()) {
        annot.SetNameDesc(Name());
    }
    pTrackdata->SetData();

    map<const string,string>::const_iterator cit = Values().begin();
    while ( cit != Values().end() ) {
        pTrackdata->AddField( cit->first, cit->second );
        ++cit;
    }
    CRef<CAnnotdesc> user(new CAnnotdesc());
    user->SetUser(*pTrackdata);
    desc.Set().push_back(user);
     return true;
}

END_SCOPE(objects)
END_NCBI_SCOPE
