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/*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with this program. If not, see <http://www.gnu.org/licenses/>.
*/
#ifndef __WRITE_FILES_H__
#define __WRITE_FILES_H__
#include <stdio.h>
#include "GlfFile.h"
void testWrite();
void testHeaderWrite();
void testWriteCopiedHeader();
class TestWrite
{
public:
void testWrite();
private:
void writeHeader(GlfFile& glfOut, int headerNum);
void writeRefSection1(GlfFile& glfOut);
void writeSec1Record1(GlfFile& glfOut);
void writeSec1Record2(GlfFile& glfOut);
void writeEndMarker(GlfFile& glfOut);
void writeRefSection2(GlfFile& glfOut);
void writeSec2Record1(GlfFile& glfOut);
void readHeader(GlfFile& glfIn, int headerNum);
void readRefSection1(GlfFile& glfIn);
void readSec1Record1(GlfFile& glfIn);
void readSec1Record2(GlfFile& glfIn);
void readEndMarker(GlfFile& glfIn);
void readRefSection2(GlfFile& glfIn);
void readSec2Record1(GlfFile& glfIn);
void checkEOF(GlfFile& glfIn);
// 1st file header values:
static const std::string HEADER_TEXT1;
// SEC1 values:
static const std::string SEC1_REFNAME;
static const uint32_t SEC1_REFLEN = 200;
// SEC1REC1 values:
static const uint8_t SEC1REC1_RECTYPE = 1;
static const uint8_t SEC1REC1_REFBASE = 4;
static const uint32_t SEC1REC1_OFFSET = 99;
static const uint32_t SEC1REC1_MINLK = 55;
static const uint32_t SEC1REC1_READDEPTH = 31;
static const uint8_t SEC1REC1_RMSMAPQ = 25;
// SEC1REC2 values:
static const uint8_t SEC1REC2_RECTYPE = 2;
static const uint8_t SEC1REC2_REFBASE = 1;
static const uint32_t SEC1REC2_OFFSET = 6;
static const uint32_t SEC1REC2_MINLK = 44;
static const uint32_t SEC1REC2_READDEPTH = 66;
static const uint8_t SEC1REC2_RMSMAPQ = 32;
static const uint8_t SEC1REC2_LKHOM1 = 98;
static const uint8_t SEC1REC2_LKHOM2 = 86;
static const uint8_t SEC1REC2_LKHET = 73;
static const int16_t SEC1REC2_INDELLEN1 = 2;
static const int16_t SEC1REC2_INDELLEN2 = -3;
static const std::string SEC1REC2_INDELSEQ1;
static const std::string SEC1REC2_INDELSEQ2;
// SEC2 values
static const std::string SEC2_REFNAME;
static const uint32_t SEC2_REFLEN = 102;
// SEC2REC1 values:
static const uint8_t SEC2REC1_RECTYPE = 1;
static const uint8_t SEC2REC1_REFBASE = 2;
static const uint32_t SEC2REC1_OFFSET = 50;
static const uint32_t SEC2REC1_MINLK = 55;
static const uint32_t SEC2REC1_READDEPTH = 31;
static const uint8_t SEC2REC1_RMSMAPQ = 25;
// 2nd file header.
static const std::string HEADER_TEXT2;
// 3rd file header.
static const std::string HEADER_TEXT3;
};
#endif
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