| 39 |
|
bool haveMaxLength; |
| 40 |
|
double maxLength; |
| 41 |
|
|
| 42 |
+ |
bool separateOut; |
| 43 |
+ |
bool havePairCorrs; |
| 44 |
+ |
bool haveStaticCorrs; |
| 45 |
+ |
|
| 46 |
|
int nBins; |
| 47 |
|
|
| 48 |
|
vector<PairCorrList> theList; |
| 63 |
|
|
| 64 |
|
// first things first, all of the initializations |
| 65 |
|
|
| 66 |
< |
printf("Initializing stuff ....\n"); |
| 63 |
< |
fflush(sdtout); |
| 66 |
> |
fflush(stdout); |
| 67 |
|
srand48( 1337 ); // the random number generator. |
| 68 |
|
initSimError(); // the error handler |
| 69 |
|
|
| 75 |
|
|
| 76 |
|
havePrefix = false; |
| 77 |
|
haveMaxLength = false; |
| 78 |
+ |
|
| 79 |
+ |
haveStaticCorrs = false; |
| 80 |
+ |
havePairCorrs = false; |
| 81 |
+ |
separateOut = false; |
| 82 |
|
|
| 83 |
|
maxLength = 1.0; |
| 84 |
|
nBins = 100; |
| 85 |
|
|
| 86 |
< |
programName = argv[0]; /*save the program name in case we need it*/ |
| 86 |
> |
programName = argV[0]; /*save the program name in case we need it*/ |
| 87 |
|
|
| 88 |
|
for( i = 1; i < argC; i++){ |
| 89 |
|
|
| 121 |
|
|
| 122 |
|
pairType = gofr; |
| 123 |
|
theList.push_back(PairCorrList( pairType, pair1, pair2 )); |
| 124 |
+ |
havePairCorrs = true; |
| 125 |
|
} |
| 126 |
|
|
| 127 |
+ |
if( !strcmp( argV[i], "--gofrTheta" ) ){ |
| 128 |
+ |
|
| 129 |
+ |
i++; |
| 130 |
+ |
if( i>=argC ){ |
| 131 |
+ |
sprintf( painCave.errMsg, |
| 132 |
+ |
"\n" |
| 133 |
+ |
"not enough arguments for --gofrTheta\n"); |
| 134 |
+ |
usage(); |
| 135 |
+ |
painCave.isFatal = 1; |
| 136 |
+ |
simError(); |
| 137 |
+ |
} |
| 138 |
+ |
pair1 = argV[i]; |
| 139 |
+ |
|
| 140 |
+ |
i++; |
| 141 |
+ |
if( i>=argC ){ |
| 142 |
+ |
sprintf( painCave.errMsg, |
| 143 |
+ |
"\n" |
| 144 |
+ |
"not enough arguments for --gofrTheta\n"); |
| 145 |
+ |
usage(); |
| 146 |
+ |
painCave.isFatal = 1; |
| 147 |
+ |
simError(); |
| 148 |
+ |
} |
| 149 |
+ |
pair2 = argV[i]; |
| 150 |
+ |
|
| 151 |
+ |
pairType = gofrTheta; |
| 152 |
+ |
theList.push_back(PairCorrList( pairType, pair1, pair2 )); |
| 153 |
+ |
havePairCorrs = true; |
| 154 |
+ |
} |
| 155 |
+ |
|
| 156 |
+ |
if( !strcmp( argV[i], "--gofrOmega" ) ){ |
| 157 |
+ |
|
| 158 |
+ |
i++; |
| 159 |
+ |
if( i>=argC ){ |
| 160 |
+ |
sprintf( painCave.errMsg, |
| 161 |
+ |
"\n" |
| 162 |
+ |
"not enough arguments for --gofrOmega\n"); |
| 163 |
+ |
usage(); |
| 164 |
+ |
painCave.isFatal = 1; |
| 165 |
+ |
simError(); |
| 166 |
+ |
} |
| 167 |
+ |
pair1 = argV[i]; |
| 168 |
+ |
|
| 169 |
+ |
i++; |
| 170 |
+ |
if( i>=argC ){ |
| 171 |
+ |
sprintf( painCave.errMsg, |
| 172 |
+ |
"\n" |
| 173 |
+ |
"not enough arguments for --gofrOmega\n"); |
| 174 |
+ |
usage(); |
| 175 |
+ |
painCave.isFatal = 1; |
| 176 |
+ |
simError(); |
| 177 |
+ |
} |
| 178 |
+ |
pair2 = argV[i]; |
| 179 |
+ |
|
| 180 |
+ |
pairType = gofrOmega; |
| 181 |
+ |
theList.push_back(PairCorrList( pairType, pair1, pair2 )); |
| 182 |
+ |
havePairCorrs = true; |
| 183 |
+ |
} |
| 184 |
+ |
|
| 185 |
|
else if( !strcmp( argV[i], "--version") ){ |
| 186 |
|
|
| 187 |
|
printf("\n" |
| 311 |
|
|
| 312 |
|
break; |
| 313 |
|
|
| 314 |
+ |
case 's': |
| 315 |
+ |
// -s turn on separate output files |
| 316 |
+ |
|
| 317 |
+ |
separateOut = true; |
| 318 |
+ |
break; |
| 319 |
+ |
|
| 320 |
|
case 'n': |
| 321 |
|
// -n <int> set <int> to the nBins |
| 322 |
|
|
| 466 |
|
theCorrs.setNbins( nBins ); |
| 467 |
|
theCorrs.setFrames( infoArray, nFrames, reader ); |
| 468 |
|
theCorrs.setPairCorrList( theList ); |
| 469 |
< |
theCorrs.initCorrelations( outPrefix ); |
| 469 |
> |
theCorrs.initCorrelations( outPrefix, separateOut, havePairCorrs, |
| 470 |
> |
haveStaticCorrs ); |
| 471 |
|
|
| 472 |
|
printf("done\n"); |
| 473 |
|
fflush(stdout); |
| 501 |
|
"\n" |
| 502 |
|
" long:\n" |
| 503 |
|
" -----\n" |
| 504 |
< |
" --gofr <atom1> <atom2> g(r) for atom1 and atom2\n" |
| 505 |
< |
" *note: \"_ALL_\" matches all atoms/n" |
| 506 |
< |
" --version displays the version number\n" |
| 507 |
< |
" --help displays this help message.\n" |
| 504 |
> |
" --gofr <atom1> <atom2> g(r) for atom1 and atom2\n" |
| 505 |
> |
" *note: \"_ALL_\" matches all atoms\n" |
| 506 |
> |
" --gofrTheta <atom1> <atom2> g(r, theta) for atom1 and atom2\n" |
| 507 |
> |
" *note: \"_ALL_\" matches all atoms\n" |
| 508 |
> |
" --gofrOmega <atom1> <atom2> g(r, omega) for atom1 and atom2\n" |
| 509 |
> |
" *note: \"_ALL_\" matches all atoms\n" |
| 510 |
> |
" --version displays the version number\n" |
| 511 |
> |
" --help displays this help message.\n" |
| 512 |
|
|
| 513 |
|
"\n" |
| 514 |
|
"\n", |