QPalmaDP/common.h

   1 #ifndef __COMMON_H__
   2 #define __COMMON_H__
   3
   4 #include <stdlib.h>
   5 #include <stdio.h>
   6 #include "config.h"
   7
   8 #ifdef SUNOS
   9 #define bool int
  10 #define false 0
  11 #define true 1
  12 #endif
  13
  14 #ifndef LINUX
  15 #define RANDOM_MAX 2147483647
  16 #else
  17 #define RANDOM_MAX RAND_MAX
  18 #endif
  19
  20 /**@name Standard Types
  21  * Definition of Platform independent Types
  22 */
  23 //@{
  24
  25 /// Type CHAR
  26 typedef char CHAR;
  27 typedef CHAR* P_CHAR;
  28
  29 /// Type BYTE
  30 typedef unsigned char BYTE;
  31 typedef BYTE* P_BYTE;
  32
  33 /// Type SHORT is 2 bytes in size
  34 typedef short int SHORT;
  35 typedef SHORT* P_SHORT;
  36
  37 /// Type WORD is 2 bytes in size
  38 typedef unsigned short int WORD;
  39 typedef WORD* P_WORD;
  40
  41 /// Type INT is 4 bytes in size
  42 typedef int INT;
  43 typedef INT* P_INT;
  44
  45 /// Type INT is 4 bytes in size
  46 typedef unsigned int UINT;
  47 typedef UINT* P_UINT;
  48
  49 /// Type LONG is 8 bytes in size
  50 typedef long LONG;
  51 typedef LONG* P_LONG;
  52
  53 /// Type SHORTREAL is 4 bytes in size
  54 typedef float SHORTREAL;
  55 typedef SHORTREAL* P_SHORTREAL;
  56
  57 /// Type REAL is 8 bytes in size
  58 typedef double REAL;
  59 typedef REAL* P_REAL;
  60
  61 /// Type LONGREAL is 16 bytes in size
  62 //typedef long double LONGREAL;
  63 //typedef LONGREAL* P_LONGREAL;
  64
  65 #ifdef USE_SHORTREAL_KERNELCACHE
  66         typedef SHORTREAL KERNELCACHE_ELEM;
  67 #else
  68         typedef REAL KERNELCACHE_ELEM;
  69 #endif
  70
  71 typedef KERNELCACHE_ELEM P_KERNELCACHE_ELEM;
  72
  73 typedef LONG KERNELCACHE_IDX;
  74
  75 /// The io libs output [DEBUG] etc in front of every CIO::message
  76 /// 'higher' messages filter output depending on the loglevel, i.e. CRITICAL messages
  77 /// will print all M_CRITICAL TO M_EMERGENCY messages to
  78 enum EMessageType
  79 {
  80         M_DEBUG,
  81         M_INFO,
  82         M_NOTICE,
  83         M_WARN,
  84         M_ERROR,
  85         M_CRITICAL,
  86         M_ALERT,
  87         M_EMERGENCY,
  88         M_MESSAGEONLY,
  89         M_PROGRESS
  90 };
  91
  92 enum EKernelType
  93 {
  94         K_UNKNOWN = 0,
  95         K_OPTIMIZABLE = 4096,
  96         K_LINEAR = 10 | K_OPTIMIZABLE,
  97         K_POLY  = 20,
  98         K_GAUSSIAN = 30,
  99         K_HISTOGRAM = 40,
 100         K_SALZBERG = 41,
 101         K_LOCALITYIMPROVED = 50,
 102         K_SIMPLELOCALITYIMPROVED = 60,
 103         K_FIXEDDEGREE = 70,
 104         K_WEIGHTEDDEGREE =    80 | K_OPTIMIZABLE,
 105         K_WEIGHTEDDEGREEPOS = 81 | K_OPTIMIZABLE,
 106         K_WEIGHTEDDEGREEPOLYA =    82,
 107         K_WD = 83,
 108         K_COMMWORD = 90 | K_OPTIMIZABLE ,
 109         K_POLYMATCH = 100,
 110         K_ALIGNMENT = 110,
 111         K_COMMWORDSTRING = 120 | K_OPTIMIZABLE,
 112         K_SPARSENORMSQUARED = 130,
 113         K_COMBINED = 140 | K_OPTIMIZABLE
 114 };
 115
 116 enum EFeatureType
 117 {
 118         F_UNKNOWN = 0,
 119         F_REAL = 10,
 120         F_SHORT = 20,
 121         F_CHAR = 30,
 122         F_INT = 40,
 123         F_BYTE = 50,
 124         F_WORD = 60
 125 };
 126
 127 enum EFeatureClass
 128 {
 129         C_UNKNOWN = 0,
 130         C_SIMPLE = 10,
 131         C_SPARSE = 20,
 132         C_STRING = 30,
 133         C_COMBINED = 40
 134 };
 135
 136 /// Alphabet of charfeatures/observations
 137 enum E_ALPHABET
 138 {
 139         /// DNA - letters A,C,G,T,*,N,n
 140         DNA=0,
 141
 142         /// PROTEIN - letters a-z
 143         PROTEIN=1,
 144
 145         /// ALPHANUM - [0-9a-z]
 146         ALPHANUM=2,
 147
 148         /// CUBE - [1-6]
 149         CUBE=3,
 150
 151         /// NONE - type has no alphabet
 152         NONE=4
 153 };
 154
 155 //@}
 156
 157 #define TMP_DIR "/tmp/"
 158 //#define TMP_DIR "/short/x46/tmp/"
 159
 160 #endif