1 | # FULL PARAMETER LIST |
---|
2 | # ------------------- |
---|
3 | # |
---|
4 | # This file contains the full list of user-definable parameters. They are |
---|
5 | # grouped here according to their use, and the values quoted are the defaults: |
---|
6 | # if a given parameter is not included in your parameter file, this is the |
---|
7 | # value it will take. |
---|
8 | # |
---|
9 | # |
---|
10 | # INPUT RELATED |
---|
11 | # imageFile -- the FITS image. |
---|
12 | # flagSubsection -- whether to get a subsection of that image. |
---|
13 | # subsection -- the subsection to read in, in format [x1:x2,y1:y2,z1:z2], |
---|
14 | # or * to indicate the full range |
---|
15 | # flagReconExists -- set to true if the reconstructed image exists as a FITS |
---|
16 | # file (ie. it has been saved from a previous Duchamp run) |
---|
17 | # reconFile -- the location of the FITS file containing the reconstructed image |
---|
18 | |
---|
19 | imageFile your-file-here |
---|
20 | flagSubsection 0 |
---|
21 | subsection [*,*,*] |
---|
22 | flagReconExists 0 |
---|
23 | reconFile your-reconstructed-file-here |
---|
24 | |
---|
25 | # OUTPUT RELATED |
---|
26 | # flagLog -- log the intermediate results? |
---|
27 | # logfile-- the file to put that in. |
---|
28 | # outFile -- the final output list. |
---|
29 | # spectraFile -- the postscript file of spectra |
---|
30 | # flagOutputRecon/Resid -- whether to save the reconstruction & residual arrays |
---|
31 | # as FITS files |
---|
32 | # flagVOT -- make a VOTable file of the results? |
---|
33 | # votFile -- the file to put it in |
---|
34 | # flagKarma -- make a Karma annotation file of the results? |
---|
35 | # karmaFile -- the file to put it in |
---|
36 | # flagMaps -- save postscript versions of the detection and 0th moment maps? |
---|
37 | # detectionMap, momentMap -- the postscript files produced. |
---|
38 | |
---|
39 | flagLog 1 |
---|
40 | logFile duchamp-Logfile.txt |
---|
41 | outFile duchamp-Results.txt |
---|
42 | spectraFile duchamp-Spectra.ps |
---|
43 | flagOutputRecon 0 |
---|
44 | flagOutputResid 0 |
---|
45 | flagVOT 0 |
---|
46 | votFile duchamp-Results.xml |
---|
47 | flagKarma 0 |
---|
48 | karmaFile duchamp-Results.ann |
---|
49 | flagMaps 1 |
---|
50 | detectionMap duchamp-DetectionMap.ps |
---|
51 | momentMap duchamp-MomentMap.ps |
---|
52 | |
---|
53 | # FIXING UP THE CUBE |
---|
54 | # flagBlankPix -- whether to replace & ignore blank pixels. |
---|
55 | # blankPixValue -- what value they should take. This is overridden by |
---|
56 | # FITS header information. |
---|
57 | # flagBaseline -- whether to subtract spectral baselines before searching |
---|
58 | # flagMW -- ignore a range of channels (to remove Milky Way emission)? |
---|
59 | # minMW, maxMW -- the first and last channels to be ignored |
---|
60 | |
---|
61 | flagBlankPix 1 |
---|
62 | blankPixValue -8.00061 |
---|
63 | flagMW 0 |
---|
64 | minMW 75 |
---|
65 | maxMW 112 |
---|
66 | flagBaseline 0 |
---|
67 | |
---|
68 | # GENERAL DETECTION RELATED |
---|
69 | # flagNegative -- Are the features being searched for negative (set to true) |
---|
70 | # or positive (false -- the default)? |
---|
71 | # snrCut -- How many sigma above mean is a detection when sigma-clipping |
---|
72 | # flagGrowth -- Should the detections be "grown" to a lower significance value? |
---|
73 | # growthCut -- The lower threshold used when growing detections |
---|
74 | |
---|
75 | flagNegative 0 |
---|
76 | snrCut 3. |
---|
77 | flagGrowth 0 |
---|
78 | growthCut 2. |
---|
79 | |
---|
80 | # RECONSTRUCTION RELATED |
---|
81 | # flagATrous -- Whether or not to do the reconstruction before searching |
---|
82 | # reconDim -- The number of dimensions in which to perform the reconstruction. |
---|
83 | # scaleMin -- The minimum scale (starts at 1) to be included in the |
---|
84 | # reconstruction |
---|
85 | # snrRecon -- The threshold used in filtering the wavelet coefficient arrays. |
---|
86 | # filterCode -- The code number for the choice of filter to be used in the |
---|
87 | # reconstruction: 1 = B3-spline filter, 2 = Triangle function, |
---|
88 | # 3 = Haar wavelet. Other numbers default to 2. |
---|
89 | |
---|
90 | flagATrous 1 |
---|
91 | reconDim 3 |
---|
92 | scaleMin 1 |
---|
93 | snrRecon 4. |
---|
94 | filterCode 1 |
---|
95 | |
---|
96 | # FALSE DISCOVERY RATE METHOD |
---|
97 | # flagFDR -- Whether or not to use the false discovery rate method instead of |
---|
98 | # simple sigma clipping. |
---|
99 | # alphaFDR -- The "alpha" parameter for the FDR method -- what desired |
---|
100 | # percentage of discoveries will be false. Expressed as a decimal. |
---|
101 | |
---|
102 | flagFDR 0 |
---|
103 | alphaFDR 0.01 |
---|
104 | |
---|
105 | # MERGING PARAMETERS |
---|
106 | # flagAdjacent -- Whether to use the "adjacent criterion" to judge if objects |
---|
107 | # are to be merged. |
---|
108 | # threshSpatial -- If flagAdjacent=false, this is the maximum spatial |
---|
109 | # separation between objects for them to be merged. |
---|
110 | # threshVelocity -- The maximum channel separation between objects for them |
---|
111 | # to be merged. |
---|
112 | # minChannels -- The minimum number of consecutive channels an object must have |
---|
113 | # for it to be accepted. |
---|
114 | # minPix -- Minimum number of spatial pixels a detected object must have for |
---|
115 | # it to be counted |
---|
116 | |
---|
117 | flagAdjacent 1 |
---|
118 | threshSpatial 3 |
---|
119 | threshVelocity 7 |
---|
120 | minChannels 3 |
---|
121 | minPix 2 |
---|
122 | |
---|
123 | # OTHER PARAMETERS |
---|
124 | # verbose -- whether to provide progress indicators on the terminal during |
---|
125 | # execution |
---|
126 | # drawBorders -- whether to draw borders around the detections on the moment |
---|
127 | # maps in the output. |
---|
128 | # drawBlankEdges -- whether to draw an outline around any BLANK regions in the |
---|
129 | # moment maps and image cutouts. |
---|
130 | # spectralMethod -- how to plot the spectra in the output -- the spectrum of |
---|
131 | # the peak pixel ("peak" -- the default), or integrated over |
---|
132 | # all spatial pixels present ("sum") |
---|
133 | # spectralUnits -- what units you want the spectral axis to be plotted in and |
---|
134 | # values quoted in (including the units of integrated flux) |
---|
135 | |
---|
136 | verbose 1 |
---|
137 | drawBorders 1 |
---|
138 | drawBlankEdges 1 |
---|
139 | spectralMethod peak |
---|
140 | spectralUnits km/s |
---|