1 | /* matfile utility program |
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2 | * Allows you to read and write MAT files from the command line. |
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3 | * Useful for manipulating large data structures via a combination of |
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4 | * unix and matlab commands. |
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5 | * Run without arguments for a description of usage. |
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6 | * The file test_matfile.mat is provided for you to play with. |
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7 | * |
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8 | * Thomas P Minka 3/25/99 |
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9 | * 1/29/00 added sparse matrices |
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10 | */ |
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11 | |
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12 | #include <stdio.h> |
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13 | #include <ctype.h> /* for isspace() */ |
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14 | #include "mat.h" |
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15 | |
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16 | #define Allocate(n,t) (t*)malloc((n)*sizeof(t)) |
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17 | #define Reallocate(p, n, t) ((p)=(t*)realloc((p),(n)*sizeof(t))) |
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18 | |
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19 | void directory(MATFile *pmat) |
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20 | { |
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21 | int i; |
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22 | #if 0 |
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23 | int ndir; |
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24 | char **dir; |
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25 | dir = matGetDir(pmat, &ndir); |
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26 | if (dir == NULL) { |
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27 | fprintf(stderr, "Error reading directory\n"); |
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28 | exit(1); |
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29 | } |
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30 | for (i=0; i < ndir; i++) { |
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31 | printf("%s\n",dir[i]); |
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32 | } |
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33 | #else |
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34 | const char *name; |
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35 | printf("Name\t\t Size \t Bytes\tClass\n\n"); |
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36 | for (i=0;;i++) { |
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37 | mxArray *pa = matGetNextVariableInfo(pmat, &name); |
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38 | int ndims; |
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39 | const int *dims; |
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40 | int size; |
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41 | if(pa == NULL) { |
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42 | break; |
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43 | } |
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44 | printf("%-10s ", name); |
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45 | ndims = mxGetNumberOfDimensions(pa); |
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46 | dims = mxGetDimensions(pa); |
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47 | for(i=0;i<ndims;i++) { |
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48 | if(i == 0) printf("%10d", dims[i]); |
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49 | else printf("x%d", dims[i]); |
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50 | } |
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51 | if(mxIsSparse(pa)) { |
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52 | size = mxGetNzmax(pa)*(mxGetElementSize(pa) + sizeof(int)); |
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53 | size += (mxGetN(pa)+1)*sizeof(int); |
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54 | } |
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55 | else { |
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56 | size = mxGetNumberOfElements(pa)*mxGetElementSize(pa); |
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57 | } |
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58 | printf("\t%10d", size); |
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59 | printf("\t%s", mxGetClassName(pa)); |
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60 | if(mxIsFromGlobalWS(pa)) printf(" (global)"); |
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61 | printf("\n"); |
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62 | } |
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63 | #endif |
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64 | } |
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65 | |
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66 | void extract(MATFile *pmat, char *var) |
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67 | { |
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68 | mxArray *pa = matGetArray(pmat, var); |
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69 | int ndims; |
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70 | if(pa == NULL) { |
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71 | fprintf(stderr, "There is no variable named %s\n", var); |
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72 | exit(1); |
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73 | } |
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74 | ndims = mxGetNumberOfDimensions(pa); |
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75 | if(ndims > 2) { |
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76 | fprintf(stderr, "Cannot handle more than two dimensions. Sorry.\n"); |
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77 | exit(1); |
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78 | } |
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79 | if(mxIsSparse(pa)) { |
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80 | fprintf(stderr, "Cannot extract sparse matrices. Sorry.\n"); |
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81 | exit(1); |
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82 | } |
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83 | if(mxIsComplex(pa)) { |
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84 | fprintf(stderr, "Cannot extract complex matrices. Sorry.\n"); |
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85 | exit(1); |
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86 | } |
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87 | if(mxIsDouble(pa)) { |
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88 | int i, j; |
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89 | const int *dims = mxGetDimensions(pa); |
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90 | for(i=0;i<dims[0];i++) { |
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91 | double *p = mxGetPr(pa) + i; |
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92 | for(j=0;j<dims[1];j++) { |
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93 | printf("%g ", *p); |
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94 | p += dims[0]; |
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95 | } |
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96 | printf("\n"); |
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97 | } |
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98 | } |
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99 | else { |
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100 | fprintf(stderr, "Can only handle double-precision variables. Sorry.\n"); |
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101 | exit(1); |
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102 | } |
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103 | mxFree(pa); |
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104 | } |
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105 | |
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106 | /****************************************************************************/ |
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107 | |
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108 | typedef struct DoubleArray { |
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109 | double *d; |
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110 | int len, bufsize; |
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111 | } DoubleArray; |
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112 | |
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113 | DoubleArray *DoubleArray_Create(void) |
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114 | { |
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115 | DoubleArray *a = Allocate(1, struct DoubleArray); |
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116 | a->bufsize = 32; |
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117 | a->len = 0; |
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118 | a->d = Allocate(a->bufsize, double); |
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119 | return a; |
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120 | } |
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121 | |
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122 | void DoubleArray_Free(DoubleArray *a) |
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123 | { |
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124 | free(a->d); |
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125 | free(a); |
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126 | } |
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127 | |
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128 | void DoubleArray_Set(DoubleArray *a, int index, double value) |
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129 | { |
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130 | if(index >= a->bufsize) { |
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131 | do { |
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132 | a->bufsize *= 2; |
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133 | } while(index >= a->bufsize); |
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134 | Reallocate(a->d, a->bufsize, double); |
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135 | } |
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136 | if(index >= a->len) a->len = index+1; |
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137 | a->d[index] = value; |
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138 | } |
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139 | |
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140 | /****************************************************************************/ |
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141 | |
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142 | typedef struct IntArray { |
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143 | int *d; |
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144 | int len, bufsize; |
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145 | } IntArray; |
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146 | |
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147 | IntArray *IntArray_Create(void) |
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148 | { |
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149 | IntArray *a = Allocate(1, struct IntArray); |
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150 | a->bufsize = 32; |
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151 | a->len = 0; |
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152 | a->d = Allocate(a->bufsize, int); |
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153 | return a; |
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154 | } |
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155 | |
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156 | void IntArray_Free(IntArray *a) |
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157 | { |
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158 | free(a->d); |
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159 | free(a); |
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160 | } |
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161 | |
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162 | void IntArray_Set(IntArray *a, int index, int value) |
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163 | { |
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164 | if(index >= a->bufsize) { |
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165 | do { |
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166 | a->bufsize *= 2; |
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167 | } while(index >= a->bufsize); |
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168 | Reallocate(a->d, a->bufsize, int); |
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169 | } |
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170 | if(index >= a->len) a->len = index+1; |
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171 | a->d[index] = value; |
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172 | } |
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173 | |
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174 | /****************************************************************************/ |
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175 | |
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176 | typedef void ScanFunc(int r, int c, double d, void *info); |
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177 | |
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178 | void scan(int *rows_return, int *cols_return, ScanFunc *f, void *info) |
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179 | { |
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180 | int rows, cols, i; |
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181 | double d; |
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182 | FILE *fp = stdin; |
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183 | |
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184 | /* Use the first line to determine the number of columns */ |
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185 | for(i=0;;) { |
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186 | int c = getc(fp); |
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187 | if(c == '\n') break; |
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188 | if(isspace(c)) continue; |
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189 | ungetc(c, fp); |
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190 | if(fscanf(fp, "%lg", &d) < 1) { |
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191 | fprintf(stderr, "scan failed: expected a real number\n"); |
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192 | goto error; |
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193 | } |
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194 | f(0, i, d, info); |
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195 | i++; |
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196 | } |
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197 | cols = i; |
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198 | |
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199 | /* Read the rest of the lines */ |
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200 | for(rows=1;;rows++) { |
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201 | int j; |
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202 | for(j = 0; j < cols; j++) { |
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203 | if(fscanf(fp, "%lg", &d) < 1) { |
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204 | if(!feof(fp)) { |
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205 | fprintf(stderr, "scan failed: expected a real number\n"); |
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206 | goto error; |
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207 | } |
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208 | else if(j > 0) { |
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209 | fprintf(stderr, "scan failed: unexpected end of file\n"); |
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210 | goto error; |
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211 | } |
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212 | break; |
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213 | } |
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214 | f(rows, j, d, info); |
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215 | } |
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216 | if(feof(fp)) break; |
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217 | } |
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218 | *rows_return = rows; |
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219 | *cols_return = cols; |
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220 | error: |
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221 | return; |
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222 | } |
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223 | |
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224 | void transpose(double *dest, double *src, int rows, int cols) |
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225 | { |
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226 | double *dest_save = dest; |
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227 | int i,j; |
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228 | for(i=0;i<rows;i++) { |
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229 | dest = dest_save + i; |
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230 | for(j=0;j<cols;j++) { |
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231 | *dest = *src++; |
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232 | dest += rows; |
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233 | } |
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234 | } |
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235 | } |
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236 | |
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237 | struct FullInfo { |
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238 | DoubleArray *a; |
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239 | int index; |
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240 | }; |
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241 | |
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242 | void ScanFull(int r, int c, double d, struct FullInfo *info) |
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243 | { |
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244 | DoubleArray_Set(info->a, info->index++, d); |
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245 | } |
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246 | |
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247 | struct SparseInfo { |
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248 | DoubleArray *data; |
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249 | IntArray *ir, *jc; |
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250 | int next_row; |
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251 | int index; |
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252 | }; |
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253 | |
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254 | void ScanSparse(int r, int c, double d, struct SparseInfo *info) |
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255 | { |
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256 | if(d == 0) return; |
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257 | DoubleArray_Set(info->data, info->index, d); |
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258 | IntArray_Set(info->ir, info->index, c); |
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259 | /* start of new row? */ |
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260 | if(r >= info->next_row) { |
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261 | /* fill in all rows up to r */ |
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262 | for(; info->next_row <= r; info->next_row++) { |
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263 | IntArray_Set(info->jc, info->next_row, info->index); |
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264 | } |
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265 | } |
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266 | info->index++; |
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267 | } |
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268 | |
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269 | void update(MATFile *pmat, char *var, int global, int sparse) |
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270 | { |
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271 | int rows, cols, status; |
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272 | mxArray *pa; |
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273 | if(sparse) { |
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274 | int nzmax; |
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275 | struct SparseInfo *info = Allocate(1, struct SparseInfo); |
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276 | info->index = 0; |
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277 | info->next_row = 0; |
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278 | info->data = DoubleArray_Create(); |
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279 | info->ir = IntArray_Create(); |
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280 | info->jc = IntArray_Create(); |
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281 | |
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282 | scan(&rows, &cols, (ScanFunc*)ScanSparse, info); |
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283 | /* fill out jc */ |
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284 | for(; info->next_row <= rows; info->next_row++) { |
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285 | IntArray_Set(info->jc, info->next_row, info->index); |
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286 | } |
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287 | /* note rows and cols are swapped */ |
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288 | nzmax = info->index; |
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289 | if(rows > nzmax) nzmax = rows; |
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290 | pa = mxCreateSparse(cols, rows, nzmax, mxREAL); |
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291 | memcpy(mxGetPr(pa), info->data->d, info->index*sizeof(double)); |
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292 | memcpy(mxGetIr(pa), info->ir->d, info->index*sizeof(int)); |
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293 | memcpy(mxGetJc(pa), info->jc->d, (rows+1)*sizeof(int)); |
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294 | |
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295 | DoubleArray_Free(info->data); |
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296 | IntArray_Free(info->ir); |
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297 | IntArray_Free(info->jc); |
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298 | free(info); |
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299 | } |
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300 | else { |
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301 | struct FullInfo *info = Allocate(1, struct FullInfo); |
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302 | info->a = DoubleArray_Create(); |
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303 | info->index = 0; |
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304 | scan(&rows, &cols, (ScanFunc*)ScanFull, info); |
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305 | pa = mxCreateDoubleMatrix(rows, cols, mxREAL); |
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306 | transpose(mxGetPr(pa), info->a->d, rows, cols); |
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307 | DoubleArray_Free(info->a); |
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308 | free(info); |
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309 | } |
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310 | mxSetName(pa, var); |
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311 | if(global) status = matPutArrayAsGlobal(pmat, pa); |
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312 | else status = matPutArray(pmat, pa); |
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313 | if(status) { |
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314 | fprintf(stderr, "matPutArray failed\n"); |
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315 | exit(1); |
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316 | } |
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317 | } |
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318 | |
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319 | void delete(MATFile *pmat, char *var) |
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320 | { |
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321 | if(matDeleteArray(pmat, var)) { |
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322 | fprintf(stderr, "matDeleteArray failed\n"); |
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323 | exit(1); |
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324 | } |
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325 | } |
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326 | |
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327 | void printUsage(void) |
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328 | { |
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329 | fprintf(stderr, "matfile utility program by Thomas P Minka\n"); |
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330 | fprintf(stderr, "\nusage: matfile cmd file [var]\n\n"); |
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331 | fprintf(stderr, "cmd is one of\n"); |
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332 | fprintf(stderr, "\tt\tList the contents of file\n"); |
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333 | fprintf(stderr, "\tx\tExtract var and print on stdout\n"); |
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334 | fprintf(stderr, "\tu\tUpdate var from stdin\n"); |
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335 | fprintf(stderr, "\tug\tSame as u but make var global\n"); |
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336 | fprintf(stderr, "\tus\tSame as u but make var sparse (result will be transposed)\n"); |
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337 | fprintf(stderr, "\td\tDelete var\n"); |
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338 | exit(1); |
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339 | } |
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340 | |
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341 | int main(int argc, char *argv[]) |
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342 | { |
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343 | MATFile *pmat; |
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344 | char *cmd, *file; |
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345 | |
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346 | if(argc < 3) { |
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347 | printUsage(); |
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348 | } |
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349 | cmd = argv[1]; |
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350 | file = argv[2]; |
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351 | |
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352 | if((cmd[0] == 'u') || (cmd[0] == 'd')) { |
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353 | pmat = matOpen(file, "u"); |
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354 | if((pmat == NULL) && (cmd[0] == 'u')) { |
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355 | pmat = matOpen(file, "w"); |
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356 | } |
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357 | } |
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358 | else { |
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359 | pmat = matOpen(file, "r"); |
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360 | } |
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361 | if(pmat == NULL) { |
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362 | fprintf(stderr, "Cannot open file %s: ", file); |
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363 | perror(""); |
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364 | exit(1); |
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365 | } |
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366 | |
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367 | switch(cmd[0]) { |
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368 | case 't': |
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369 | if(argc != 3) printUsage(); |
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370 | directory(pmat); |
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371 | break; |
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372 | case 'x': |
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373 | if(argc != 4) printUsage(); |
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374 | extract(pmat, argv[3]); |
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375 | break; |
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376 | case 'u': |
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377 | if(argc != 4) printUsage(); |
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378 | update(pmat, argv[3], cmd[1] == 'g', cmd[1] == 's'); |
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379 | break; |
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380 | case 'd': |
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381 | if(argc != 4) printUsage(); |
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382 | delete(pmat, argv[3]); |
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383 | break; |
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384 | default: |
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385 | fprintf(stderr, "Unknown command `%s'\n", cmd); |
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386 | } |
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387 | |
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388 | matClose(pmat); |
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389 | exit(0); |
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390 | } |
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