[300] | 1 | // ----------------------------------------------------------------------- |
---|
| 2 | // detection.cc : Member functions for the Detection class. |
---|
| 3 | // ----------------------------------------------------------------------- |
---|
| 4 | // Copyright (C) 2006, Matthew Whiting, ATNF |
---|
| 5 | // |
---|
| 6 | // This program is free software; you can redistribute it and/or modify it |
---|
| 7 | // under the terms of the GNU General Public License as published by the |
---|
| 8 | // Free Software Foundation; either version 2 of the License, or (at your |
---|
| 9 | // option) any later version. |
---|
| 10 | // |
---|
| 11 | // Duchamp is distributed in the hope that it will be useful, but WITHOUT |
---|
| 12 | // ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or |
---|
| 13 | // FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License |
---|
| 14 | // for more details. |
---|
| 15 | // |
---|
| 16 | // You should have received a copy of the GNU General Public License |
---|
| 17 | // along with Duchamp; if not, write to the Free Software Foundation, |
---|
| 18 | // Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307, USA |
---|
| 19 | // |
---|
| 20 | // Correspondence concerning Duchamp may be directed to: |
---|
| 21 | // Internet email: Matthew.Whiting [at] atnf.csiro.au |
---|
| 22 | // Postal address: Dr. Matthew Whiting |
---|
| 23 | // Australia Telescope National Facility, CSIRO |
---|
| 24 | // PO Box 76 |
---|
| 25 | // Epping NSW 1710 |
---|
| 26 | // AUSTRALIA |
---|
| 27 | // ----------------------------------------------------------------------- |
---|
[3] | 28 | #include <iostream> |
---|
| 29 | #include <iomanip> |
---|
| 30 | #include <vector> |
---|
| 31 | #include <string> |
---|
[394] | 32 | #include <wcslib/wcs.h> |
---|
[69] | 33 | #include <math.h> |
---|
[393] | 34 | #include <duchamp/duchamp.hh> |
---|
| 35 | #include <duchamp/param.hh> |
---|
| 36 | #include <duchamp/fitsHeader.hh> |
---|
| 37 | #include <duchamp/Utils/utils.hh> |
---|
| 38 | #include <duchamp/PixelMap/Voxel.hh> |
---|
| 39 | #include <duchamp/PixelMap/Object3D.hh> |
---|
| 40 | #include <duchamp/Detection/detection.hh> |
---|
[463] | 41 | #include <duchamp/Cubes/cubeUtils.hh> |
---|
[570] | 42 | #include <duchamp/Detection/columns.hh> |
---|
[3] | 43 | |
---|
[258] | 44 | using namespace PixelInfo; |
---|
| 45 | |
---|
[378] | 46 | namespace duchamp |
---|
[365] | 47 | { |
---|
| 48 | |
---|
[570] | 49 | void Detection::defaultDetection() |
---|
[378] | 50 | { |
---|
[570] | 51 | this->xSubOffset = 0; |
---|
| 52 | this->ySubOffset = 0; |
---|
| 53 | this->zSubOffset = 0; |
---|
[681] | 54 | this->haveParams = false; |
---|
[570] | 55 | this->totalFlux = 0.; |
---|
| 56 | this->peakFlux = 0.; |
---|
| 57 | this->intFlux = 0.; |
---|
| 58 | this->xpeak = 0; |
---|
| 59 | this->ypeak = 0; |
---|
| 60 | this->zpeak = 0; |
---|
| 61 | this->peakSNR = 0.; |
---|
| 62 | this->xCentroid = 0.; |
---|
| 63 | this->yCentroid = 0.; |
---|
| 64 | this->zCentroid = 0.; |
---|
| 65 | this->centreType="centroid"; |
---|
[378] | 66 | this->negSource = false; |
---|
| 67 | this->flagText=""; |
---|
[468] | 68 | this->id = -1; |
---|
[570] | 69 | this->name = ""; |
---|
| 70 | this->flagWCS=false; |
---|
| 71 | this->specOK = true; |
---|
| 72 | this->raS = ""; |
---|
| 73 | this->decS = ""; |
---|
| 74 | this->ra = 0.; |
---|
| 75 | this->dec = 0.; |
---|
| 76 | this->raWidth = 0.; |
---|
| 77 | this->decWidth = 0.; |
---|
| 78 | this->majorAxis = 0.; |
---|
| 79 | this->minorAxis = 0.; |
---|
| 80 | this->posang = 0.; |
---|
| 81 | this->specUnits = ""; |
---|
| 82 | this->fluxUnits = ""; |
---|
| 83 | this->intFluxUnits = ""; |
---|
| 84 | this->lngtype = "RA"; |
---|
| 85 | this->lattype = "DEC"; |
---|
| 86 | this->vel = 0.; |
---|
| 87 | this->velWidth = 0.; |
---|
| 88 | this->velMin = 0.; |
---|
| 89 | this->velMax = 0.; |
---|
| 90 | this->w20 = 0.; |
---|
| 91 | this->v20min = 0.; |
---|
| 92 | this->v20max = 0.; |
---|
| 93 | this->w50 = 0.; |
---|
| 94 | this->v50min = 0.; |
---|
| 95 | this->v50max = 0.; |
---|
| 96 | this->posPrec = Column::prPOS; |
---|
| 97 | this->xyzPrec = Column::prXYZ; |
---|
| 98 | this->fintPrec = Column::prFLUX; |
---|
| 99 | this->fpeakPrec = Column::prFLUX; |
---|
| 100 | this->velPrec = Column::prVEL; |
---|
| 101 | this->snrPrec = Column::prSNR; |
---|
[378] | 102 | } |
---|
[218] | 103 | |
---|
[570] | 104 | Detection::Detection(): |
---|
| 105 | Object3D() |
---|
[378] | 106 | { |
---|
[570] | 107 | this->defaultDetection(); |
---|
| 108 | } |
---|
| 109 | |
---|
| 110 | Detection::Detection(const Object3D& o): |
---|
| 111 | Object3D(o) |
---|
| 112 | { |
---|
| 113 | this->defaultDetection(); |
---|
| 114 | } |
---|
| 115 | |
---|
| 116 | Detection::Detection(const Detection& d): |
---|
| 117 | Object3D(d) |
---|
| 118 | { |
---|
[378] | 119 | operator=(d); |
---|
| 120 | } |
---|
[218] | 121 | |
---|
[378] | 122 | Detection& Detection::operator= (const Detection& d) |
---|
| 123 | { |
---|
[570] | 124 | ((Object3D &) *this) = d; |
---|
[378] | 125 | this->xSubOffset = d.xSubOffset; |
---|
| 126 | this->ySubOffset = d.ySubOffset; |
---|
| 127 | this->zSubOffset = d.zSubOffset; |
---|
[681] | 128 | this->haveParams = d.haveParams; |
---|
[378] | 129 | this->totalFlux = d.totalFlux; |
---|
[461] | 130 | this->intFlux = d.intFlux; |
---|
[378] | 131 | this->peakFlux = d.peakFlux; |
---|
| 132 | this->xpeak = d.xpeak; |
---|
| 133 | this->ypeak = d.ypeak; |
---|
| 134 | this->zpeak = d.zpeak; |
---|
| 135 | this->peakSNR = d.peakSNR; |
---|
| 136 | this->xCentroid = d.xCentroid; |
---|
| 137 | this->yCentroid = d.yCentroid; |
---|
| 138 | this->zCentroid = d.zCentroid; |
---|
| 139 | this->centreType = d.centreType; |
---|
| 140 | this->negSource = d.negSource; |
---|
| 141 | this->flagText = d.flagText; |
---|
| 142 | this->id = d.id; |
---|
| 143 | this->name = d.name; |
---|
| 144 | this->flagWCS = d.flagWCS; |
---|
| 145 | this->specOK = d.specOK; |
---|
| 146 | this->raS = d.raS; |
---|
| 147 | this->decS = d.decS; |
---|
| 148 | this->ra = d.ra; |
---|
[461] | 149 | this->dec = d.dec; |
---|
| 150 | this->raWidth = d.raWidth; |
---|
[378] | 151 | this->decWidth = d.decWidth; |
---|
[473] | 152 | this->majorAxis = d.majorAxis; |
---|
| 153 | this->minorAxis = d.minorAxis; |
---|
| 154 | this->posang = d.posang; |
---|
[378] | 155 | this->specUnits = d.specUnits; |
---|
| 156 | this->fluxUnits = d.fluxUnits; |
---|
| 157 | this->intFluxUnits = d.intFluxUnits; |
---|
[461] | 158 | this->lngtype = d.lngtype; |
---|
| 159 | this->lattype = d.lattype; |
---|
[378] | 160 | this->vel = d.vel; |
---|
| 161 | this->velWidth = d.velWidth; |
---|
| 162 | this->velMin = d.velMin; |
---|
| 163 | this->velMax = d.velMax; |
---|
[463] | 164 | this->w20 = d.w20; |
---|
| 165 | this->v20min = d.v20min; |
---|
| 166 | this->v20max = d.v20max; |
---|
| 167 | this->w50 = d.w50; |
---|
| 168 | this->v50min = d.v50min; |
---|
| 169 | this->v50max = d.v50max; |
---|
[378] | 170 | this->posPrec = d.posPrec; |
---|
| 171 | this->xyzPrec = d.xyzPrec; |
---|
| 172 | this->fintPrec = d.fintPrec; |
---|
| 173 | this->fpeakPrec = d.fpeakPrec; |
---|
[461] | 174 | this->velPrec = d.velPrec; |
---|
[378] | 175 | this->snrPrec = d.snrPrec; |
---|
| 176 | return *this; |
---|
| 177 | } |
---|
[3] | 178 | |
---|
[378] | 179 | //-------------------------------------------------------------------- |
---|
[570] | 180 | float Detection::getXcentre() |
---|
| 181 | { |
---|
| 182 | if(this->centreType=="peak") return this->xpeak; |
---|
| 183 | else if(this->centreType=="average") return this->getXaverage(); |
---|
| 184 | else return this->xCentroid; |
---|
| 185 | } |
---|
[258] | 186 | |
---|
[570] | 187 | float Detection::getYcentre() |
---|
| 188 | { |
---|
| 189 | if(this->centreType=="peak") return this->ypeak; |
---|
| 190 | else if(this->centreType=="average") return this->getYaverage(); |
---|
| 191 | else return this->yCentroid; |
---|
| 192 | } |
---|
| 193 | |
---|
| 194 | float Detection::getZcentre() |
---|
| 195 | { |
---|
| 196 | if(this->centreType=="peak") return this->zpeak; |
---|
| 197 | else if(this->centreType=="average") return this->getZaverage(); |
---|
| 198 | else return this->zCentroid; |
---|
| 199 | } |
---|
| 200 | |
---|
| 201 | //-------------------------------------------------------------------- |
---|
| 202 | |
---|
[417] | 203 | bool Detection::voxelListsMatch(std::vector<Voxel> voxelList) |
---|
| 204 | { |
---|
[528] | 205 | /// @details |
---|
| 206 | /// A test to see whether there is a 1-1 correspondence between |
---|
| 207 | /// the given list of Voxels and the voxel positions contained in |
---|
| 208 | /// this Detection's pixel list. No testing of the fluxes of the |
---|
| 209 | /// Voxels is done. |
---|
| 210 | /// |
---|
| 211 | /// \param voxelList The std::vector list of Voxels to be tested. |
---|
[417] | 212 | |
---|
| 213 | bool listsMatch = true; |
---|
| 214 | // compare sizes |
---|
| 215 | listsMatch = listsMatch && (voxelList.size() == this->getSize()); |
---|
| 216 | if(!listsMatch) return listsMatch; |
---|
| 217 | |
---|
[463] | 218 | // make sure all Detection pixels are in voxel list |
---|
| 219 | listsMatch = listsMatch && this->voxelListCovered(voxelList); |
---|
| 220 | |
---|
[417] | 221 | // make sure all voxels are in Detection |
---|
[623] | 222 | std::vector<Voxel>::iterator vox; |
---|
| 223 | for(vox=voxelList.begin();vox<voxelList.end();vox++) |
---|
| 224 | listsMatch = listsMatch && this->isInObject(*vox); |
---|
[463] | 225 | |
---|
| 226 | return listsMatch; |
---|
| 227 | |
---|
| 228 | } |
---|
| 229 | //-------------------------------------------------------------------- |
---|
| 230 | |
---|
| 231 | bool Detection::voxelListCovered(std::vector<Voxel> voxelList) |
---|
| 232 | { |
---|
[528] | 233 | /// @details |
---|
| 234 | /// A test to see whether the given list of Voxels contains each |
---|
| 235 | /// position in this Detection's pixel list. It does not look for |
---|
| 236 | /// a 1-1 correspondence: the given list can be a super-set of the |
---|
| 237 | /// Detection. No testing of the fluxes of the Voxels is done. |
---|
| 238 | /// |
---|
| 239 | /// \param voxelList The std::vector list of Voxels to be tested. |
---|
[463] | 240 | |
---|
| 241 | bool listsMatch = true; |
---|
| 242 | |
---|
[417] | 243 | // make sure all Detection pixels are in voxel list |
---|
[623] | 244 | size_t v1=0; |
---|
[570] | 245 | std::vector<Voxel> detpixlist = this->getPixelSet(); |
---|
| 246 | while(listsMatch && v1<detpixlist.size()){ |
---|
[417] | 247 | bool inList = false; |
---|
[623] | 248 | size_t v2=0; |
---|
[417] | 249 | while(!inList && v2<voxelList.size()){ |
---|
[570] | 250 | inList = inList || detpixlist[v1].match(voxelList[v2]); |
---|
[417] | 251 | v2++; |
---|
| 252 | } |
---|
| 253 | listsMatch = listsMatch && inList; |
---|
[418] | 254 | v1++; |
---|
[417] | 255 | } |
---|
| 256 | |
---|
| 257 | return listsMatch; |
---|
| 258 | |
---|
| 259 | } |
---|
| 260 | //-------------------------------------------------------------------- |
---|
| 261 | |
---|
| 262 | void Detection::calcFluxes(std::vector<Voxel> voxelList) |
---|
| 263 | { |
---|
[528] | 264 | /// @details |
---|
| 265 | /// A function that calculates total & peak fluxes (and the location |
---|
| 266 | /// of the peak flux) for a Detection. |
---|
| 267 | /// |
---|
| 268 | /// \param fluxArray The array of flux values to calculate the |
---|
| 269 | /// flux parameters from. |
---|
| 270 | /// \param dim The dimensions of the flux array. |
---|
[681] | 271 | |
---|
| 272 | // this->haveParams = true; |
---|
[417] | 273 | |
---|
| 274 | this->totalFlux = this->peakFlux = 0; |
---|
| 275 | this->xCentroid = this->yCentroid = this->zCentroid = 0.; |
---|
| 276 | |
---|
| 277 | // first check that the voxel list and the Detection's pixel list |
---|
| 278 | // have a 1-1 correspondence |
---|
| 279 | |
---|
[463] | 280 | if(!this->voxelListCovered(voxelList)){ |
---|
[417] | 281 | duchampError("Detection::calcFluxes","Voxel list provided does not match"); |
---|
| 282 | return; |
---|
| 283 | } |
---|
| 284 | |
---|
[623] | 285 | std::vector<Voxel>::iterator vox; |
---|
| 286 | for(vox=voxelList.begin();vox<voxelList.end();vox++){ |
---|
| 287 | if(this->isInObject(*vox)){ |
---|
| 288 | long x = vox->getX(); |
---|
| 289 | long y = vox->getY(); |
---|
| 290 | long z = vox->getZ(); |
---|
| 291 | float f = vox->getF(); |
---|
[463] | 292 | this->totalFlux += f; |
---|
| 293 | this->xCentroid += x*f; |
---|
| 294 | this->yCentroid += y*f; |
---|
| 295 | this->zCentroid += z*f; |
---|
[623] | 296 | if( (vox==voxelList.begin()) || //first time round |
---|
[463] | 297 | (this->negSource&&(f<this->peakFlux)) || |
---|
| 298 | (!this->negSource&&(f>this->peakFlux)) ) |
---|
| 299 | { |
---|
| 300 | this->peakFlux = f; |
---|
| 301 | this->xpeak = x; |
---|
| 302 | this->ypeak = y; |
---|
| 303 | this->zpeak = z; |
---|
| 304 | } |
---|
| 305 | } |
---|
[417] | 306 | } |
---|
| 307 | |
---|
| 308 | this->xCentroid /= this->totalFlux; |
---|
| 309 | this->yCentroid /= this->totalFlux; |
---|
| 310 | this->zCentroid /= this->totalFlux; |
---|
| 311 | } |
---|
| 312 | //-------------------------------------------------------------------- |
---|
| 313 | |
---|
[378] | 314 | void Detection::calcFluxes(float *fluxArray, long *dim) |
---|
| 315 | { |
---|
[528] | 316 | /// @details |
---|
| 317 | /// A function that calculates total & peak fluxes (and the location |
---|
| 318 | /// of the peak flux) for a Detection. |
---|
| 319 | /// |
---|
| 320 | /// \param fluxArray The array of flux values to calculate the |
---|
| 321 | /// flux parameters from. |
---|
| 322 | /// \param dim The dimensions of the flux array. |
---|
[258] | 323 | |
---|
[681] | 324 | // this->haveParams = true; |
---|
| 325 | |
---|
[378] | 326 | this->totalFlux = this->peakFlux = 0; |
---|
| 327 | this->xCentroid = this->yCentroid = this->zCentroid = 0.; |
---|
| 328 | |
---|
[570] | 329 | std::vector<Voxel> voxList = this->getPixelSet(); |
---|
[473] | 330 | std::vector<Voxel>::iterator vox=voxList.begin(); |
---|
| 331 | for(;vox<voxList.end();vox++){ |
---|
[378] | 332 | |
---|
[473] | 333 | long x=vox->getX(); |
---|
| 334 | long y=vox->getY(); |
---|
| 335 | long z=vox->getZ(); |
---|
| 336 | long ind = vox->arrayIndex(dim); |
---|
| 337 | float f = fluxArray[ind]; |
---|
| 338 | this->totalFlux += f; |
---|
| 339 | this->xCentroid += x*f; |
---|
| 340 | this->yCentroid += y*f; |
---|
| 341 | this->zCentroid += z*f; |
---|
| 342 | if( (vox==voxList.begin()) || |
---|
| 343 | (this->negSource&&(f<this->peakFlux)) || |
---|
| 344 | (!this->negSource&&(f>this->peakFlux)) ) |
---|
| 345 | { |
---|
| 346 | this->peakFlux = f; |
---|
| 347 | this->xpeak = x; |
---|
| 348 | this->ypeak = y; |
---|
| 349 | this->zpeak = z; |
---|
[378] | 350 | } |
---|
[473] | 351 | |
---|
[45] | 352 | } |
---|
[378] | 353 | |
---|
| 354 | this->xCentroid /= this->totalFlux; |
---|
| 355 | this->yCentroid /= this->totalFlux; |
---|
| 356 | this->zCentroid /= this->totalFlux; |
---|
[263] | 357 | } |
---|
[378] | 358 | //-------------------------------------------------------------------- |
---|
[263] | 359 | |
---|
[417] | 360 | void Detection::calcWCSparams(FitsHeader &head) |
---|
[378] | 361 | { |
---|
[528] | 362 | /// @details |
---|
| 363 | /// Use the input wcs to calculate the position and velocity |
---|
| 364 | /// information for the Detection. |
---|
| 365 | /// Quantities calculated: |
---|
| 366 | /// <ul><li> RA: ra [deg], ra (string), ra width. |
---|
| 367 | /// <li> Dec: dec [deg], dec (string), dec width. |
---|
| 368 | /// <li> Vel: vel [km/s], min & max vel, vel width. |
---|
| 369 | /// <li> coord type for all three axes, nuRest, |
---|
| 370 | /// <li> name (IAU-style, in equatorial or Galactic) |
---|
| 371 | /// </ul> |
---|
| 372 | /// |
---|
| 373 | /// Note that the regular parameters are NOT recalculated! |
---|
| 374 | /// |
---|
| 375 | /// \param head FitsHeader object that contains the WCS information. |
---|
[3] | 376 | |
---|
[378] | 377 | if(head.isWCS()){ |
---|
[3] | 378 | |
---|
[378] | 379 | double *pixcrd = new double[15]; |
---|
| 380 | double *world = new double[15]; |
---|
| 381 | /* |
---|
| 382 | define a five-point array in 3D: |
---|
| 383 | (x,y,z), (x,y,z1), (x,y,z2), (x1,y1,z), (x2,y2,z) |
---|
| 384 | [note: x = central point, x1 = minimum x, x2 = maximum x etc.] |
---|
| 385 | and convert to world coordinates. |
---|
| 386 | */ |
---|
| 387 | pixcrd[0] = pixcrd[3] = pixcrd[6] = this->getXcentre(); |
---|
| 388 | pixcrd[9] = this->getXmin()-0.5; |
---|
| 389 | pixcrd[12] = this->getXmax()+0.5; |
---|
| 390 | pixcrd[1] = pixcrd[4] = pixcrd[7] = this->getYcentre(); |
---|
| 391 | pixcrd[10] = this->getYmin()-0.5; |
---|
| 392 | pixcrd[13] = this->getYmax()+0.5; |
---|
| 393 | pixcrd[2] = pixcrd[11] = pixcrd[14] = this->getZcentre(); |
---|
| 394 | pixcrd[5] = this->getZmin(); |
---|
| 395 | pixcrd[8] = this->getZmax(); |
---|
| 396 | int flag = head.pixToWCS(pixcrd, world, 5); |
---|
| 397 | delete [] pixcrd; |
---|
| 398 | if(flag!=0) duchampError("calcWCSparams", |
---|
| 399 | "Error in calculating the WCS for this object.\n"); |
---|
| 400 | else{ |
---|
[60] | 401 | |
---|
[378] | 402 | // world now has the WCS coords for the five points |
---|
| 403 | // -- use this to work out WCS params |
---|
[22] | 404 | |
---|
[681] | 405 | this->haveParams = true; |
---|
| 406 | |
---|
[378] | 407 | this->specOK = head.canUseThirdAxis(); |
---|
| 408 | this->lngtype = head.WCS().lngtyp; |
---|
| 409 | this->lattype = head.WCS().lattyp; |
---|
| 410 | this->specUnits = head.getSpectralUnits(); |
---|
| 411 | this->fluxUnits = head.getFluxUnits(); |
---|
| 412 | // if fluxUnits are eg. Jy/beam, make intFluxUnits = Jy km/s |
---|
| 413 | this->intFluxUnits = head.getIntFluxUnits(); |
---|
| 414 | this->ra = world[0]; |
---|
| 415 | this->dec = world[1]; |
---|
| 416 | this->raS = decToDMS(this->ra, this->lngtype); |
---|
| 417 | this->decS = decToDMS(this->dec,this->lattype); |
---|
| 418 | this->raWidth = angularSeparation(world[9],world[1], |
---|
| 419 | world[12],world[1]) * 60.; |
---|
| 420 | this->decWidth = angularSeparation(world[0],world[10], |
---|
| 421 | world[0],world[13]) * 60.; |
---|
[473] | 422 | |
---|
[570] | 423 | Object2D spatMap = this->getSpatialMap(); |
---|
[473] | 424 | std::pair<double,double> axes = spatMap.getPrincipleAxes(); |
---|
| 425 | this->majorAxis = std::max(axes.first,axes.second) * head.getAvPixScale(); |
---|
| 426 | this->minorAxis = std::min(axes.first,axes.second) * head.getAvPixScale(); |
---|
| 427 | this->posang = spatMap.getPositionAngle() * 180. / M_PI; |
---|
| 428 | |
---|
[378] | 429 | this->name = head.getIAUName(this->ra, this->dec); |
---|
| 430 | this->vel = head.specToVel(world[2]); |
---|
| 431 | this->velMin = head.specToVel(world[5]); |
---|
| 432 | this->velMax = head.specToVel(world[8]); |
---|
| 433 | this->velWidth = fabs(this->velMax - this->velMin); |
---|
[3] | 434 | |
---|
[378] | 435 | this->flagWCS = true; |
---|
| 436 | } |
---|
| 437 | delete [] world; |
---|
| 438 | |
---|
[270] | 439 | } |
---|
[103] | 440 | } |
---|
[378] | 441 | //-------------------------------------------------------------------- |
---|
[3] | 442 | |
---|
[719] | 443 | void Detection::calcIntegFlux(long zdim, std::vector<Voxel> voxelList, FitsHeader &head) |
---|
[417] | 444 | { |
---|
[528] | 445 | /// @details |
---|
| 446 | /// Uses the input WCS to calculate the velocity-integrated flux, |
---|
| 447 | /// putting velocity in units of km/s. |
---|
| 448 | /// The fluxes used are taken from the Voxels, rather than an |
---|
| 449 | /// array of flux values. |
---|
| 450 | /// Integrates over full spatial and velocity range as given |
---|
| 451 | /// by the extrema calculated by calcWCSparams. |
---|
| 452 | /// |
---|
| 453 | /// If the flux units end in "/beam" (eg. Jy/beam), then the flux is |
---|
| 454 | /// corrected by the beam size (in pixels). This is done by |
---|
| 455 | /// multiplying the integrated flux by the number of spatial pixels, |
---|
| 456 | /// and dividing by the beam size in pixels (e.g. Jy/beam * pix / |
---|
| 457 | /// pix/beam --> Jy) |
---|
| 458 | /// |
---|
[719] | 459 | /// \param zdim The size of the spectral axis (needed to find the velocity widths) |
---|
[528] | 460 | /// \param voxelList The list of Voxels with flux information |
---|
| 461 | /// \param head FitsHeader object that contains the WCS information. |
---|
[417] | 462 | |
---|
[463] | 463 | const int border = 1; |
---|
| 464 | |
---|
| 465 | if(!this->voxelListCovered(voxelList)){ |
---|
[417] | 466 | duchampError("Detection::calcIntegFlux","Voxel list provided does not match"); |
---|
| 467 | return; |
---|
| 468 | } |
---|
| 469 | |
---|
[513] | 470 | if(!head.is2D()){ |
---|
[417] | 471 | |
---|
[681] | 472 | this->haveParams = true; |
---|
| 473 | |
---|
[417] | 474 | // include one pixel either side in each direction |
---|
[463] | 475 | long xsize = (this->getXmax()-this->getXmin()+border*2+1); |
---|
| 476 | long ysize = (this->getYmax()-this->getYmin()+border*2+1); |
---|
| 477 | long zsize = (this->getZmax()-this->getZmin()+border*2+1); |
---|
| 478 | long size = xsize*ysize*zsize; |
---|
[473] | 479 | std::vector <bool> isObj(size,false); |
---|
[463] | 480 | double *localFlux = new double[size]; |
---|
| 481 | for(int i=0;i<size;i++) localFlux[i]=0.; |
---|
[417] | 482 | |
---|
[623] | 483 | std::vector<Voxel>::iterator vox; |
---|
| 484 | for(vox=voxelList.begin();vox<voxelList.end();vox++){ |
---|
| 485 | if(this->isInObject(*vox)){ |
---|
| 486 | long x = vox->getX(); |
---|
| 487 | long y = vox->getY(); |
---|
| 488 | long z = vox->getZ(); |
---|
[463] | 489 | long pos = (x-this->getXmin()+border) + (y-this->getYmin()+border)*xsize |
---|
| 490 | + (z-this->getZmin()+border)*xsize*ysize; |
---|
[623] | 491 | localFlux[pos] = vox->getF(); |
---|
[463] | 492 | isObj[pos] = true; |
---|
| 493 | } |
---|
[417] | 494 | } |
---|
| 495 | |
---|
| 496 | // work out the WCS coords for each pixel |
---|
[463] | 497 | double *world = new double[size]; |
---|
[417] | 498 | double xpt,ypt,zpt; |
---|
| 499 | for(int i=0;i<xsize*ysize*zsize;i++){ |
---|
[463] | 500 | xpt = double( this->getXmin() - border + i%xsize ); |
---|
| 501 | ypt = double( this->getYmin() - border + (i/xsize)%ysize ); |
---|
| 502 | zpt = double( this->getZmin() - border + i/(xsize*ysize) ); |
---|
[417] | 503 | world[i] = head.pixToVel(xpt,ypt,zpt); |
---|
| 504 | } |
---|
| 505 | |
---|
| 506 | double integrated = 0.; |
---|
| 507 | for(int pix=0; pix<xsize*ysize; pix++){ // loop over each spatial pixel. |
---|
| 508 | for(int z=0; z<zsize; z++){ |
---|
| 509 | int pos = z*xsize*ysize + pix; |
---|
| 510 | if(isObj[pos]){ // if it's an object pixel... |
---|
| 511 | double deltaVel; |
---|
| 512 | if(z==0) |
---|
| 513 | deltaVel = (world[pos+xsize*ysize] - world[pos]); |
---|
| 514 | else if(z==(zsize-1)) |
---|
| 515 | deltaVel = (world[pos] - world[pos-xsize*ysize]); |
---|
| 516 | else |
---|
| 517 | deltaVel = (world[pos+xsize*ysize] - world[pos-xsize*ysize]) / 2.; |
---|
| 518 | integrated += localFlux[pos] * fabs(deltaVel); |
---|
| 519 | } |
---|
| 520 | } |
---|
| 521 | } |
---|
| 522 | this->intFlux = integrated; |
---|
| 523 | |
---|
| 524 | delete [] world; |
---|
| 525 | delete [] localFlux; |
---|
| 526 | |
---|
[719] | 527 | calcVelWidths(zdim,voxelList,head); |
---|
[464] | 528 | |
---|
[417] | 529 | } |
---|
| 530 | else // in this case there is just a 2D image. |
---|
| 531 | this->intFlux = this->totalFlux; |
---|
| 532 | |
---|
| 533 | if(head.isWCS()){ |
---|
| 534 | // correct for the beam size if the flux units string ends in "/beam" |
---|
[429] | 535 | if(head.needBeamSize()) this->intFlux /= head.getBeamSize(); |
---|
[417] | 536 | } |
---|
| 537 | |
---|
| 538 | } |
---|
| 539 | //-------------------------------------------------------------------- |
---|
| 540 | |
---|
[378] | 541 | void Detection::calcIntegFlux(float *fluxArray, long *dim, FitsHeader &head) |
---|
| 542 | { |
---|
[528] | 543 | /// @details |
---|
| 544 | /// Uses the input WCS to calculate the velocity-integrated flux, |
---|
| 545 | /// putting velocity in units of km/s. |
---|
| 546 | /// Integrates over full spatial and velocity range as given |
---|
| 547 | /// by the extrema calculated by calcWCSparams. |
---|
| 548 | /// |
---|
| 549 | /// If the flux units end in "/beam" (eg. Jy/beam), then the flux is |
---|
| 550 | /// corrected by the beam size (in pixels). This is done by |
---|
| 551 | /// multiplying the integrated flux by the number of spatial pixels, |
---|
| 552 | /// and dividing by the beam size in pixels (e.g. Jy/beam * pix / |
---|
| 553 | /// pix/beam --> Jy) |
---|
| 554 | /// |
---|
| 555 | /// \param fluxArray The array of flux values. |
---|
| 556 | /// \param dim The dimensions of the flux array. |
---|
| 557 | /// \param head FitsHeader object that contains the WCS information. |
---|
[3] | 558 | |
---|
[513] | 559 | if(!head.is2D()){ |
---|
[271] | 560 | |
---|
[681] | 561 | this->haveParams = true; |
---|
| 562 | |
---|
[378] | 563 | // include one pixel either side in each direction |
---|
[570] | 564 | long xsize = (this->xmax-this->xmin+3); |
---|
| 565 | long ysize = (this->ymax-this->ymin+3); |
---|
| 566 | long zsize = (this->zmax-this->zmin+3); |
---|
[463] | 567 | long size = xsize*ysize*zsize; |
---|
[473] | 568 | std::vector <bool> isObj(size,false); |
---|
[463] | 569 | double *localFlux = new double[size]; |
---|
| 570 | for(int i=0;i<size;i++) localFlux[i]=0.; |
---|
[378] | 571 | // work out which pixels are object pixels |
---|
[774] | 572 | std::vector<Voxel> voxlist = this->getPixelSet(); |
---|
| 573 | for(std::vector<Voxel>::iterator v=voxlist.begin();v<voxlist.end();v++){ |
---|
| 574 | long pos=(v->getX()-this->xmin+1) + (v->getY()-this->ymin+1)*xsize |
---|
| 575 | + (v->getZ()-this->zmin+1)*xsize*ysize; |
---|
[778] | 576 | localFlux[pos] = fluxArray[v->arrayIndex(dim)]; |
---|
[774] | 577 | isObj[pos] = true; |
---|
[258] | 578 | } |
---|
[22] | 579 | |
---|
[378] | 580 | // work out the WCS coords for each pixel |
---|
[463] | 581 | double *world = new double[size]; |
---|
[378] | 582 | double xpt,ypt,zpt; |
---|
[781] | 583 | // for(int i=0;i<xsize*ysize*zsize;i++){ |
---|
| 584 | // xpt = double( this->getXmin() -1 + i%xsize ); |
---|
| 585 | // ypt = double( this->getYmin() -1 + (i/xsize)%ysize ); |
---|
| 586 | // zpt = double( this->getZmin() -1 + i/(xsize*ysize) ); |
---|
| 587 | // world[i] = head.pixToVel(xpt,ypt,zpt); |
---|
| 588 | // } |
---|
| 589 | int i=0; |
---|
| 590 | for(int z=0;z<zsize;z++){ |
---|
| 591 | for(int y=0;y<ysize;y++){ |
---|
| 592 | for(int x=0;x<xsize;x++){ |
---|
| 593 | xpt=double(this->xmin - 1 + x); |
---|
| 594 | ypt=double(this->ymin - 1 + y); |
---|
| 595 | zpt=double(this->zmin - 1 + z); |
---|
| 596 | world[i++] = head.pixToVel(xpt,ypt,zpt); |
---|
| 597 | } |
---|
| 598 | } |
---|
[378] | 599 | } |
---|
[3] | 600 | |
---|
[378] | 601 | double integrated = 0.; |
---|
| 602 | for(int pix=0; pix<xsize*ysize; pix++){ // loop over each spatial pixel. |
---|
| 603 | for(int z=0; z<zsize; z++){ |
---|
| 604 | int pos = z*xsize*ysize + pix; |
---|
| 605 | if(isObj[pos]){ // if it's an object pixel... |
---|
| 606 | double deltaVel; |
---|
| 607 | if(z==0) |
---|
| 608 | deltaVel = (world[pos+xsize*ysize] - world[pos]); |
---|
| 609 | else if(z==(zsize-1)) |
---|
| 610 | deltaVel = (world[pos] - world[pos-xsize*ysize]); |
---|
| 611 | else |
---|
| 612 | deltaVel = (world[pos+xsize*ysize] - world[pos-xsize*ysize]) / 2.; |
---|
| 613 | integrated += localFlux[pos] * fabs(deltaVel); |
---|
| 614 | } |
---|
[271] | 615 | } |
---|
[3] | 616 | } |
---|
[378] | 617 | this->intFlux = integrated; |
---|
| 618 | |
---|
[464] | 619 | delete [] world; |
---|
| 620 | delete [] localFlux; |
---|
[463] | 621 | |
---|
[464] | 622 | calcVelWidths(fluxArray, dim, head); |
---|
[463] | 623 | |
---|
[464] | 624 | } |
---|
| 625 | else // in this case there is just a 2D image. |
---|
| 626 | this->intFlux = this->totalFlux; |
---|
[463] | 627 | |
---|
[464] | 628 | if(head.isWCS()){ |
---|
| 629 | // correct for the beam size if the flux units string ends in "/beam" |
---|
| 630 | if(head.needBeamSize()) this->intFlux /= head.getBeamSize(); |
---|
| 631 | } |
---|
[463] | 632 | |
---|
[464] | 633 | } |
---|
| 634 | //-------------------------------------------------------------------- |
---|
| 635 | |
---|
[719] | 636 | void Detection::calcVelWidths(long zdim, std::vector<Voxel> voxelList, FitsHeader &head) |
---|
[464] | 637 | { |
---|
[528] | 638 | /// @details |
---|
| 639 | /// Calculates the widths of the detection at 20% and 50% of the |
---|
| 640 | /// peak integrated flux. The procedure is as follows: first |
---|
| 641 | /// generate an integrated flux spectrum (using all given voxels |
---|
| 642 | /// that lie in the object's spatial map); find the peak; starting |
---|
| 643 | /// at the spectral edges of the detection, move in or out until |
---|
| 644 | /// you reach the 20% or 50% peak flux level. Linear interpolation |
---|
| 645 | /// between points is done. |
---|
| 646 | /// |
---|
[719] | 647 | /// \param zdim The size of the spectral axis in the cube |
---|
[528] | 648 | /// \param voxelList The list of Voxels with flux information |
---|
| 649 | /// \param head FitsHeader object that contains the WCS information. |
---|
[464] | 650 | |
---|
[719] | 651 | float *intSpec = new float[zdim]; |
---|
| 652 | for(int i=0;i<zdim;i++) intSpec[i]=0; |
---|
[464] | 653 | |
---|
[570] | 654 | Object2D spatMap = this->getSpatialMap(); |
---|
[464] | 655 | for(int s=0;s<spatMap.getNumScan();s++){ |
---|
[623] | 656 | std::vector<Voxel>::iterator vox; |
---|
| 657 | for(vox=voxelList.begin();vox<voxelList.end();vox++){ |
---|
| 658 | if(spatMap.isInObject(*vox)){ |
---|
[719] | 659 | intSpec[vox->getZ()] += vox->getF(); |
---|
[464] | 660 | } |
---|
[463] | 661 | } |
---|
[464] | 662 | } |
---|
| 663 | |
---|
[719] | 664 | calcVelWidths(zdim, intSpec, head); |
---|
| 665 | |
---|
| 666 | delete [] intSpec; |
---|
| 667 | |
---|
| 668 | } |
---|
| 669 | |
---|
| 670 | //-------------------------------------------------------------------- |
---|
| 671 | |
---|
| 672 | void Detection::calcVelWidths(long zdim, float *intSpec, FitsHeader &head) |
---|
| 673 | { |
---|
| 674 | |
---|
| 675 | // finding the 20% & 50% points. Start at the velmin & velmax |
---|
| 676 | // points. Then, if the int flux there is above the 20%/50% |
---|
| 677 | // limit, go out, otherwise go in. This is to deal with the |
---|
| 678 | // problems from double- (or multi-) peaked sources. |
---|
| 679 | |
---|
| 680 | this->haveParams = true; |
---|
| 681 | |
---|
| 682 | int z=this->getZmin(); |
---|
| 683 | double zpt,xpt=double(this->getXcentre()),ypt=double(this->getXcentre()); |
---|
| 684 | bool goLeft; |
---|
| 685 | |
---|
[634] | 686 | float peak=0.; |
---|
| 687 | int peakLoc=0; |
---|
[719] | 688 | for(int z=0;z<zdim;z++) { |
---|
[464] | 689 | if(z==0 || peak<intSpec[z]){ |
---|
| 690 | peak = intSpec[z]; |
---|
| 691 | peakLoc = z; |
---|
[463] | 692 | } |
---|
[464] | 693 | } |
---|
[719] | 694 | |
---|
[464] | 695 | goLeft = intSpec[z]>peak*0.5; |
---|
| 696 | if(goLeft) while(z>0 && intSpec[z]>peak*0.5) z--; |
---|
| 697 | else while(z<peakLoc && intSpec[z]<peak*0.5) z++; |
---|
| 698 | if(z==0) this->v50min = this->velMin; |
---|
| 699 | else{ |
---|
[719] | 700 | if(goLeft) zpt = z + (peak*0.5-intSpec[z])/(intSpec[z+1]-intSpec[z]); |
---|
| 701 | else zpt = z - (peak*0.5-intSpec[z])/(intSpec[z-1]-intSpec[z]); |
---|
[464] | 702 | this->v50min = head.pixToVel(xpt,ypt,zpt); |
---|
| 703 | } |
---|
[719] | 704 | z=this->getZmax(); |
---|
[464] | 705 | goLeft = intSpec[z]<peak*0.5; |
---|
| 706 | if(goLeft) while(z>peakLoc && intSpec[z]<peak*0.5) z--; |
---|
[719] | 707 | else while(z<zdim && intSpec[z]>peak*0.5) z++; |
---|
| 708 | if(z==zdim) this->v50max = this->velMax; |
---|
[464] | 709 | else{ |
---|
[719] | 710 | if(goLeft) zpt = z + (peak*0.5-intSpec[z])/(intSpec[z+1]-intSpec[z]); |
---|
| 711 | else zpt = z - (peak*0.5-intSpec[z])/(intSpec[z-1]-intSpec[z]); |
---|
[464] | 712 | this->v50max = head.pixToVel(xpt,ypt,zpt); |
---|
| 713 | } |
---|
[719] | 714 | z=this->getZmin(); |
---|
[588] | 715 | goLeft = intSpec[z]>peak*0.2; |
---|
[464] | 716 | if(goLeft) while(z>0 && intSpec[z]>peak*0.2) z--; |
---|
| 717 | else while(z<peakLoc && intSpec[z]<peak*0.2) z++; |
---|
| 718 | if(z==0) this->v20min = this->velMin; |
---|
| 719 | else{ |
---|
[719] | 720 | if(goLeft) zpt = z + (peak*0.2-intSpec[z])/(intSpec[z+1]-intSpec[z]); |
---|
| 721 | else zpt = z - (peak*0.2-intSpec[z])/(intSpec[z-1]-intSpec[z]); |
---|
[464] | 722 | this->v20min = head.pixToVel(xpt,ypt,zpt); |
---|
| 723 | } |
---|
[719] | 724 | z=this->getZmax(); |
---|
[588] | 725 | goLeft = intSpec[z]<peak*0.2; |
---|
[464] | 726 | if(goLeft) while(z>peakLoc && intSpec[z]<peak*0.2) z--; |
---|
[719] | 727 | else while(z<zdim && intSpec[z]>peak*0.2) z++; |
---|
| 728 | if(z==zdim) this->v20max = this->velMax; |
---|
[464] | 729 | else{ |
---|
[719] | 730 | if(goLeft) zpt = z + (peak*0.2-intSpec[z])/(intSpec[z+1]-intSpec[z]); |
---|
| 731 | else zpt = z - (peak*0.2-intSpec[z])/(intSpec[z-1]-intSpec[z]); |
---|
[464] | 732 | this->v20max = head.pixToVel(xpt,ypt,zpt); |
---|
| 733 | } |
---|
[463] | 734 | |
---|
[464] | 735 | this->w20 = fabs(this->v20min - this->v20max); |
---|
| 736 | this->w50 = fabs(this->v50min - this->v50max); |
---|
[463] | 737 | |
---|
[378] | 738 | |
---|
[464] | 739 | } |
---|
[781] | 740 | //-------------------------------------------------------------------- |
---|
[464] | 741 | |
---|
| 742 | void Detection::calcVelWidths(float *fluxArray, long *dim, FitsHeader &head) |
---|
| 743 | { |
---|
[528] | 744 | /// @details |
---|
| 745 | /// Calculates the widths of the detection at 20% and 50% of the |
---|
| 746 | /// peak integrated flux. The procedure is as follows: first |
---|
| 747 | /// generate an integrated flux spectrum (summing each spatial |
---|
| 748 | /// pixel's spectrum); find the peak; starting at the spectral |
---|
| 749 | /// edges of the detection, move in or out until you reach the 20% |
---|
| 750 | /// or 50% peak flux level. Linear interpolation between points is |
---|
| 751 | /// done. |
---|
| 752 | /// |
---|
| 753 | /// \param fluxArray The array of flux values. |
---|
| 754 | /// \param dim The dimensions of the flux array. |
---|
| 755 | /// \param head FitsHeader object that contains the WCS information. |
---|
[464] | 756 | |
---|
[465] | 757 | if(dim[2] > 2){ |
---|
[464] | 758 | |
---|
[465] | 759 | float *intSpec = new float[dim[2]]; |
---|
[748] | 760 | long size=dim[0]*dim[1]*dim[2]; |
---|
| 761 | std::vector<bool> mask(size,true); |
---|
[465] | 762 | getIntSpec(*this,fluxArray,dim,mask,1.,intSpec); |
---|
| 763 | |
---|
[719] | 764 | this->calcVelWidths(dim[2],intSpec,head); |
---|
| 765 | |
---|
[465] | 766 | delete [] intSpec; |
---|
| 767 | |
---|
[378] | 768 | } |
---|
[464] | 769 | else{ |
---|
[465] | 770 | this->v50min = this->v20min = this->velMin; |
---|
| 771 | this->v50max = this->v20max = this->velMax; |
---|
[719] | 772 | this->w20 = fabs(this->v20min - this->v20max); |
---|
| 773 | this->w50 = fabs(this->v50min - this->v50max); |
---|
[464] | 774 | } |
---|
[300] | 775 | |
---|
| 776 | } |
---|
[378] | 777 | //-------------------------------------------------------------------- |
---|
[300] | 778 | |
---|
[378] | 779 | void Detection::setOffsets(Param &par) |
---|
| 780 | { |
---|
[528] | 781 | /// @details |
---|
| 782 | /// This function stores the values of the offsets for each cube axis. |
---|
| 783 | /// The offsets are the starting values of the cube axes that may differ from |
---|
| 784 | /// the default value of 0 (for instance, if a subsection is being used). |
---|
| 785 | /// The values will be used when the detection is outputted. |
---|
| 786 | |
---|
[378] | 787 | this->xSubOffset = par.getXOffset(); |
---|
| 788 | this->ySubOffset = par.getYOffset(); |
---|
| 789 | this->zSubOffset = par.getZOffset(); |
---|
| 790 | } |
---|
| 791 | //-------------------------------------------------------------------- |
---|
[3] | 792 | |
---|
[378] | 793 | bool Detection::hasEnoughChannels(int minNumber) |
---|
| 794 | { |
---|
[528] | 795 | /// @details |
---|
| 796 | /// A function to determine if the Detection has enough |
---|
| 797 | /// contiguous channels to meet the minimum requirement |
---|
| 798 | /// given as the argument. |
---|
| 799 | /// \param minNumber How many channels is the minimum acceptable number? |
---|
| 800 | /// \return True if there is at least one occurence of minNumber consecutive |
---|
| 801 | /// channels present to return true. False otherwise. |
---|
[3] | 802 | |
---|
[378] | 803 | // Preferred method -- need a set of minNumber consecutive channels present. |
---|
[3] | 804 | |
---|
[570] | 805 | int numChan = this->getMaxAdjacentChannels(); |
---|
| 806 | bool result = (numChan >= minNumber); |
---|
| 807 | |
---|
[378] | 808 | return result; |
---|
| 809 | |
---|
| 810 | } |
---|
| 811 | //-------------------------------------------------------------------- |
---|
[3] | 812 | |
---|
[452] | 813 | std::vector<int> Detection::getVertexSet() |
---|
| 814 | { |
---|
[528] | 815 | /// @details |
---|
| 816 | /// Gets a list of points being the end-points of 1-pixel long |
---|
| 817 | /// segments drawing a border around the spatial extend of a |
---|
| 818 | /// detection. The vector is a series of 4 integers, being: x_0, |
---|
| 819 | /// y_0, x_1, y_1. |
---|
| 820 | /// \return The vector of vertex positions. |
---|
| 821 | |
---|
[452] | 822 | std::vector<int> vertexSet; |
---|
| 823 | |
---|
| 824 | int xmin = this->getXmin() - 1; |
---|
| 825 | int xmax = this->getXmax() + 1; |
---|
| 826 | int ymin = this->getYmin() - 1; |
---|
| 827 | int ymax = this->getYmax() + 1; |
---|
| 828 | int xsize = xmax - xmin + 1; |
---|
| 829 | int ysize = ymax - ymin + 1; |
---|
| 830 | |
---|
[570] | 831 | std::vector<Voxel> voxlist = this->getPixelSet(); |
---|
[452] | 832 | std::vector<bool> isObj(xsize*ysize,false); |
---|
[623] | 833 | std::vector<Voxel>::iterator vox; |
---|
| 834 | for(vox=voxlist.begin();vox<voxlist.end();vox++){ |
---|
| 835 | int pos = (vox->getX()-xmin) + |
---|
| 836 | (vox->getY()-ymin)*xsize; |
---|
[452] | 837 | isObj[pos] = true; |
---|
| 838 | } |
---|
| 839 | voxlist.clear(); |
---|
| 840 | |
---|
| 841 | for(int x=xmin; x<=xmax; x++){ |
---|
| 842 | // for each column... |
---|
| 843 | for(int y=ymin+1;y<=ymax;y++){ |
---|
| 844 | int current = (y-ymin)*xsize + x-xmin; |
---|
| 845 | int previous = (y-ymin-1)*xsize + x-xmin; |
---|
| 846 | if((isObj[current]&&!isObj[previous]) || |
---|
| 847 | (!isObj[current]&&isObj[previous])){ |
---|
| 848 | vertexSet.push_back(x); |
---|
| 849 | vertexSet.push_back(y); |
---|
| 850 | vertexSet.push_back(x+1); |
---|
| 851 | vertexSet.push_back(y); |
---|
| 852 | } |
---|
| 853 | } |
---|
| 854 | } |
---|
| 855 | for(int y=ymin; y<=ymax; y++){ |
---|
| 856 | // now for each row... |
---|
| 857 | for(int x=xmin+1;x<=xmax;x++){ |
---|
| 858 | int current = (y-ymin)*xsize + x-xmin; |
---|
| 859 | int previous = (y-ymin)*xsize + x-xmin - 1; |
---|
| 860 | if((isObj[current]&&!isObj[previous]) || |
---|
| 861 | (!isObj[current]&&isObj[previous])){ |
---|
| 862 | vertexSet.push_back(x); |
---|
| 863 | vertexSet.push_back(y); |
---|
| 864 | vertexSet.push_back(x); |
---|
| 865 | vertexSet.push_back(y+1); |
---|
| 866 | } |
---|
| 867 | } |
---|
| 868 | } |
---|
| 869 | |
---|
| 870 | return vertexSet; |
---|
| 871 | |
---|
| 872 | } |
---|
| 873 | |
---|
[747] | 874 | |
---|
[770] | 875 | void Detection::addDetection(Detection &other) |
---|
[747] | 876 | { |
---|
| 877 | for(std::map<long, Object2D>::iterator it = other.chanlist.begin(); it!=other.chanlist.end();it++) |
---|
[770] | 878 | // this->addChannel(*it); |
---|
[747] | 879 | this->addChannel(it->first, it->second); |
---|
| 880 | this->haveParams = false; // make it appear as if the parameters haven't been calculated, so that we can re-calculate them |
---|
| 881 | } |
---|
[624] | 882 | |
---|
[770] | 883 | Detection operator+ (Detection &lhs, Detection &rhs) |
---|
[624] | 884 | { |
---|
| 885 | Detection output = lhs; |
---|
| 886 | for(std::map<long, Object2D>::iterator it = rhs.chanlist.begin(); it!=rhs.chanlist.end();it++) |
---|
| 887 | output.addChannel(it->first, it->second); |
---|
[681] | 888 | output.haveParams = false; // make it appear as if the parameters haven't been calculated, so that we can re-calculate them |
---|
[624] | 889 | return output; |
---|
| 890 | } |
---|
| 891 | |
---|
| 892 | |
---|
[770] | 893 | bool Detection::canMerge(Detection &other, Param &par) |
---|
| 894 | { |
---|
| 895 | bool near = this->isNear(other,par); |
---|
| 896 | if(near) return this->isClose(other,par); |
---|
| 897 | else return near; |
---|
| 898 | } |
---|
[624] | 899 | |
---|
[770] | 900 | bool Detection::isNear(Detection &other, Param &par) |
---|
| 901 | { |
---|
[624] | 902 | |
---|
[770] | 903 | bool flagAdj = par.getFlagAdjacent(); |
---|
| 904 | float threshS = par.getThreshS(); |
---|
| 905 | float threshV = par.getThreshV(); |
---|
| 906 | |
---|
| 907 | long gap; |
---|
| 908 | if(flagAdj) gap = 1; |
---|
| 909 | else gap = long( ceil(threshS) ); |
---|
| 910 | |
---|
| 911 | bool areNear; |
---|
| 912 | // Test X ranges |
---|
| 913 | if((this->xmin-gap)<other.xmin) areNear=((this->xmax+gap)>=other.xmin); |
---|
| 914 | else areNear=(other.xmax>=(this->xmin-gap)); |
---|
| 915 | // Test Y ranges |
---|
| 916 | if(areNear){ |
---|
| 917 | if((this->ymin-gap)<other.ymin) areNear=areNear&&((this->ymax+gap)>=other.ymin); |
---|
| 918 | else areNear=areNear&&(other.ymax>=(this->ymin-gap)); |
---|
| 919 | } |
---|
| 920 | // Test Z ranges |
---|
| 921 | if(areNear){ |
---|
| 922 | gap = long(ceil(threshV)); |
---|
| 923 | if((this->zmin-gap)<other.zmin) areNear=areNear&&((this->zmax+gap)>=other.zmin); |
---|
| 924 | else areNear=areNear&&(other.zmax>=(this->zmin-gap)); |
---|
| 925 | } |
---|
| 926 | |
---|
| 927 | return areNear; |
---|
| 928 | |
---|
| 929 | } |
---|
| 930 | |
---|
| 931 | bool Detection::isClose(Detection &other, Param &par) |
---|
| 932 | { |
---|
| 933 | bool close = false; // this will be the value returned |
---|
| 934 | |
---|
| 935 | bool flagAdj = par.getFlagAdjacent(); |
---|
| 936 | float threshS = par.getThreshS(); |
---|
| 937 | float threshV = par.getThreshV(); |
---|
| 938 | |
---|
| 939 | // |
---|
| 940 | // If we get to here, the pixel ranges overlap -- so we do a |
---|
| 941 | // pixel-by-pixel comparison to make sure they are actually |
---|
| 942 | // "close" according to the thresholds. Otherwise, close=false, |
---|
| 943 | // and so don't need to do anything else before returning. |
---|
| 944 | // |
---|
| 945 | |
---|
| 946 | std::vector<long> zlist1 = this->getChannelList(); |
---|
| 947 | std::vector<long> zlist2 = other.getChannelList(); |
---|
| 948 | Scan test1,test2; |
---|
| 949 | |
---|
| 950 | for(size_t ct1=0; (!close && (ct1<zlist1.size())); ct1++){ |
---|
| 951 | for(size_t ct2=0; (!close && (ct2<zlist2.size())); ct2++){ |
---|
| 952 | |
---|
| 953 | if(abs(zlist1[ct1]-zlist2[ct2])<=threshV){ |
---|
| 954 | |
---|
| 955 | Object2D temp1 = this->getChanMap(zlist1[ct1]); |
---|
| 956 | Object2D temp2 = other.getChanMap(zlist2[ct2]); |
---|
| 957 | |
---|
| 958 | close = temp1.canMerge(temp2,threshS,flagAdj); |
---|
| 959 | |
---|
| 960 | } |
---|
| 961 | |
---|
| 962 | } |
---|
| 963 | } |
---|
| 964 | |
---|
| 965 | return close; |
---|
| 966 | |
---|
| 967 | } |
---|
| 968 | |
---|
| 969 | |
---|
| 970 | |
---|
[3] | 971 | } |
---|