GtfReader.h

#ifndef GTF_READER
#define GTF_READER

#include <stdlib.h>
#include <fstream>
#include <string>
#include <vector>
#include <QObject>
#include "BasicTypes.h"
#include "UiVariables.h"

using namespace std;

class QProgressDialog;

class GtfReader : public QObject
{
    Q_OBJECT

public:
    string inputFilename;
    string chrName;

    GtfReader(UiVariables *ui);
    vector<track_entry> readFile(QString filename);
    string outputFile();
    void addBookmark(int start, int end);

public slots:
    void determineOutputFile(QString file);

signals:
    void newGtfFileRead(const vector<track_entry>&);
    void progressValueChanged(int start);
    void BookmarkAdded(track_entry, string);

private:
    bool initFile(string fileName);
    color color_entry();
    bool eq(string& str1, const char* str2);

    UiVariables* ui;
    string outputFilename;
    ifstream file;
    QProgressDialog* progressBar;
    int bytesInFile;//file size, but more specific
    int blockSize;
    QStringList getChromosomes();
};

#endif