1 | # INPUT RELATED |
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2 | # imageFile -- the FITS image. |
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3 | # flagSubsection -- whether to get a subsection of that image. |
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4 | # subsection -- the subsection to read in, in format [x1:x2,y1:y2,z1:z2], |
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5 | # or * to indicate the full range |
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6 | |
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7 | imageFile your-file-here |
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8 | flagSubsection 1 |
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9 | subsection [*,*,*] |
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10 | |
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11 | # OUTPUT RELATED |
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12 | # flagLog -- log the intermediate results? logfile-- the file to put that in. |
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13 | # outFile -- the final output list. |
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14 | # spectraFile -- the postscript file of spectra |
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15 | # flagOutputRecon/Resid -- whether to save the reconstruction & residual arrays as FITS files |
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16 | # flagVOT -- make a VOTable file of the results? votFile -- the file to put it in |
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17 | # flagKarma -- make a Karma annotation file of the results? karmaFile -- the file to put it in |
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18 | # flagMaps -- save postscript versions of the detection and 0th moment maps? |
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19 | # detectionMap, momentMap -- the postscript files produced. |
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20 | |
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21 | flagLog 1 |
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22 | logFile logfile.txt |
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23 | outFile results.txt |
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24 | spectraFile spectra.ps |
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25 | flagOutputRecon 0 |
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26 | flagOutputResid 0 |
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27 | flagVOT 0 |
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28 | votFile results.xml |
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29 | flagKarma 0 |
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30 | karmaFile results.ann |
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31 | flagMaps 1 |
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32 | detectionMap latest-detection-map.ps |
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33 | momentMap latest-moment-map.ps |
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34 | |
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35 | # FIXING UP THE CUBE |
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36 | # flagBlankPix -- whether to replace & ignore blank pixels. |
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37 | # blankPixValue -- what value they should take. This is overridden by FITS header information. |
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38 | # flagBaseline -- whether to subtract spectral baselines before searching |
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39 | # flagMW -- whether to excise a range of channels (to remove Milky Way emission) |
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40 | # minMW, maxMW -- the first and last channels to be excised |
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41 | |
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42 | flagBlankPix 1 |
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43 | blankPixValue -8.00061 |
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44 | flagBaseline 1 |
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45 | flagMW 1 |
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46 | minMW 75 |
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47 | maxMW 112 |
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48 | |
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49 | # GENERAL DETECTION RELATED |
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50 | # snrCut -- How many sigma above mean is a detection when sigma-clipping |
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51 | # flagGrowth -- Should the detections be "grown" to a lower significance value? |
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52 | # growthCut -- The lower threshold used when growing detections |
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53 | |
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54 | snrCut 2.5 |
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55 | flagGrowth 0 |
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56 | growthCut 1.5 |
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57 | |
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58 | # RECONSTRUCTION RELATED |
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59 | # flagATrous -- Whether or not to do the reconstruction before searching |
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60 | # scaleMin -- The minimum scale (starts at 1) to be included in the reconstruction |
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61 | # snrRecon -- The threshold used in filtering the wavelet coefficient arrays. |
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62 | # filterCode -- The code number for the choice of filter to be used in the reconstruction: |
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63 | # 1 = B3-spline filter, 2 = Triangle function, 3 = Haar wavelet. Other numbers default to 2. |
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64 | |
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65 | flagATrous 1 |
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66 | scaleMin 1 |
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67 | snrRecon 5. |
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68 | filterCode 2 |
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69 | |
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70 | # FALSE DISCOVERY RATE METHOD |
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71 | # flagFDR -- Whether or not to use the false discovery rate method instead of |
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72 | # simple sigma clipping. |
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73 | # alphaFDR -- The "alpha" parameter for the FDR method -- what desired percentage |
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74 | # of discoveries will be false. Expressed as a decimal. |
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75 | |
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76 | flagFDR 0 |
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77 | alphaFDR 0.05 |
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78 | |
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79 | # MERGING PARAMETERS |
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80 | # flagAdjacent -- Whether to use the "adjacent criterion" to judge if objects are to be merged. |
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81 | # threshSpatial -- If flagAdjacent=false, this is the maximum spatial separation between objects |
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82 | # for them to be merged. |
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83 | # threshVelocity -- The maximum channel separation between objects for them to be merged. |
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84 | # minChannels -- The minimum number of consecutive channels an object must have for it to be accepted. |
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85 | # minPix -- Minimum number of spatial pixels for a detected object to be counted |
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86 | |
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87 | flagAdjacent 1 |
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88 | threshSpatial 3 |
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89 | threshVelocity 7 |
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90 | minChannels 4 |
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91 | minPix 3 |
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92 | |
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93 | # OTHER PARAMETERS |
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94 | # verbose -- whether to provide progress indicators on the terminal during execution |
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95 | # drawBorders -- whether to draw borders around the detections on the moment maps in the output. |
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96 | verbose 1 |
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97 | drawBorders 1 |
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