1 | // ----------------------------------------------------------------------- |
---|
2 | // growObject.cc: Grow a detected object down to a lower flux threshold. |
---|
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 | // ----------------------------------------------------------------------- |
---|
28 | #include <iostream> |
---|
29 | #include <iomanip> |
---|
30 | #include <vector> |
---|
31 | #include <duchamp/Cubes/cubes.hh> |
---|
32 | #include <duchamp/Utils/utils.hh> |
---|
33 | #include <duchamp/Utils/Statistics.hh> |
---|
34 | #include <duchamp/PixelMap/Voxel.hh> |
---|
35 | #include <duchamp/Detection/detection.hh> |
---|
36 | |
---|
37 | using std::vector; |
---|
38 | using std::setw; |
---|
39 | |
---|
40 | using namespace PixelInfo; |
---|
41 | using namespace Statistics; |
---|
42 | |
---|
43 | namespace duchamp |
---|
44 | { |
---|
45 | |
---|
46 | void growObject(Detection &object, Cube &cube) |
---|
47 | { |
---|
48 | /** |
---|
49 | * A function to grow an object (given by the Detection) by |
---|
50 | * including neighbouring voxels out to some lower threshold than |
---|
51 | * what was previously used in the detection. |
---|
52 | * |
---|
53 | * Each pixel has each of its neighbours examined, and if one of |
---|
54 | * them is not in the object but above the growth threshold, it |
---|
55 | * is added to the object. |
---|
56 | * |
---|
57 | * \param object Object to be grown. |
---|
58 | * \param cube Necessary to see both the Param list, containing |
---|
59 | * the growth threshold, and the actual array of pixel fluxes. |
---|
60 | */ |
---|
61 | |
---|
62 | |
---|
63 | vector <bool> isInObj(cube.getSize(),false); |
---|
64 | bool flagAdj = cube.pars().getFlagAdjacent(); |
---|
65 | int threshS = int(cube.pars().getThreshS()); |
---|
66 | if(flagAdj) threshS = 1; |
---|
67 | int threshV = int(cube.pars().getThreshV()); |
---|
68 | |
---|
69 | for(int i=0;i<object.getSize();i++) { |
---|
70 | Voxel vox = object.getPixel(i); |
---|
71 | long pos = vox.getX() + vox.getY()*cube.getDimX() + |
---|
72 | vox.getZ()*cube.getDimX()*cube.getDimY(); |
---|
73 | isInObj[pos] = true; |
---|
74 | } |
---|
75 | |
---|
76 | StatsContainer<float> growthStats = cube.getStats(); |
---|
77 | |
---|
78 | growthStats.setThresholdSNR(cube.pars().getGrowthCut()); |
---|
79 | growthStats.setUseFDR(false); |
---|
80 | |
---|
81 | for(int pix=0; pix<object.getSize(); pix++){ // for each pixel in the object |
---|
82 | |
---|
83 | for(int xnbr=-1*threshS; xnbr<=1*threshS; xnbr++){ |
---|
84 | for(int ynbr=-1*threshS; ynbr<=1*threshS; ynbr++){ |
---|
85 | for(int znbr=-1*threshV; znbr<=1*threshV; znbr++){ |
---|
86 | |
---|
87 | if((xnbr!=0)||(ynbr!=0)||(znbr!=0)){ |
---|
88 | // ignore when all=0 ie. the current object pixel |
---|
89 | |
---|
90 | Voxel pixnew = object.getPixel(pix); |
---|
91 | long newx = pixnew.getX() + xnbr; |
---|
92 | long newy = pixnew.getY() + ynbr; |
---|
93 | long newz = pixnew.getZ() + znbr; |
---|
94 | |
---|
95 | if((newx<cube.getDimX())&&(newx>=0)&& // x in cube? |
---|
96 | (newy<cube.getDimY())&&(newy>=0)&& // y in cube? |
---|
97 | (newz<cube.getDimZ())&&(newz>=0)&& // z in cube? |
---|
98 | !cube.isBlank(newx,newy,newz) && // pixel not BLANK? |
---|
99 | !cube.pars().isInMW(newz) && // pixel not MW? |
---|
100 | (flagAdj || hypot(xnbr,ynbr)) ){ // pixel not too far? |
---|
101 | |
---|
102 | pixnew.setX(newx); |
---|
103 | pixnew.setY(newy); |
---|
104 | pixnew.setZ(newz); |
---|
105 | |
---|
106 | float flux; |
---|
107 | if(cube.isRecon()) flux = cube.getReconValue(newx,newy,newz); |
---|
108 | else flux = cube.getPixValue(newx,newy,newz); |
---|
109 | pixnew.setF(flux); |
---|
110 | |
---|
111 | long pos = newx + newy * cube.getDimX() + |
---|
112 | newz * cube.getDimX() * cube.getDimY(); |
---|
113 | if( (!isInObj[pos]) && growthStats.isDetection(flux) ){ |
---|
114 | isInObj[pos] = true; |
---|
115 | object.addPixel(pixnew); |
---|
116 | } // end of if |
---|
117 | |
---|
118 | } // end of if clause regarding newx, newy, newz |
---|
119 | |
---|
120 | } // end of if clause regarding xnbr, ynbr, znbr |
---|
121 | |
---|
122 | } // end of znbr loop |
---|
123 | } // end of ynbr loop |
---|
124 | } // end of xnbr loop |
---|
125 | |
---|
126 | } // end of pix loop |
---|
127 | |
---|
128 | object.calcFluxes(cube.getArray(), cube.getDimArray()); |
---|
129 | |
---|
130 | isInObj.clear(); |
---|
131 | |
---|
132 | } |
---|
133 | |
---|
134 | } |
---|