typedef.h

#ifndef _TYPEDEF_H_
#define _TYPEDEF_H_

#include <cstddef>      //Included for ?
#include <stdint.h>     //Included for uint32_t, uint16_t
#include <cstdlib>      //Becuse why not?
#include <math.h>       //Included for float_t.
#include <float.h>      //For the limits of floating types.

/* Some people might consider these types of typedefs "cutesy", in that they 
 * don't do much, but we really want to limit the size of some of these objects
 * in memory, and so we want to find the smallest data ...
 */
typedef uint16_t count_t;   //Should be used to specify depth of coverage only.  
                //Once it is fixed it should be changed to uint8_t or uint16_t.

typedef double real_t;      //most ?
typedef uint16_t id0_t;     //specifies scaffold.       limits to 65,536 scaffolds.
typedef uint32_t id1_t;     //specifies bp locations.   limits to 4,294,967,296 bp per scaffold.
typedef int64_t id1_off_t;  //specifies an offset       specifies a distance between bp, must be
typedef uint8_t gt_t;       //specifies a genotype.     limit 128.

#define CNT_MAX 65535
#define ID0_MAX 65535
#define ID1_MAX 4294967295
#define REAL_MAX LDBL_MAX
#define GT_MAX  255
#define SQL_LINE_SIZE   1024


#endif