1 | \secA{Example parameter files} |
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2 | \label{app-input} |
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3 | |
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4 | This is what a typical parameter file would look like. |
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5 | |
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6 | \begin{verbatim} |
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7 | imageFile /home/mduchamp/fountain.fits |
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8 | logFile logfile.txt |
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9 | outFile results.txt |
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10 | spectraFile spectra.ps |
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11 | flagSubsection false |
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12 | flagOutputRecon false |
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13 | flagOutputResid 0 |
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14 | flagBlankPix 1 |
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15 | flagMW 1 |
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16 | minMW 75 |
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17 | maxMW 112 |
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18 | minPix 3 |
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19 | flagGrowth 1 |
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20 | growthCut 1.5 |
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21 | flagATrous 0 |
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22 | scaleMin 1 |
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23 | snrRecon 4 |
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24 | flagFDR 1 |
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25 | alphaFDR 0.1 |
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26 | numPixPSF 20 |
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27 | snrCut 3 |
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28 | threshSpatial 3 |
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29 | threshVelocity 7 |
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30 | \end{verbatim} |
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31 | |
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32 | Note that, as in this example, the flag parameters can be entered as |
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33 | strings (true/false) or integers (1/0). Also, note that it is not |
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34 | necessary to include all these parameters in the file, only those that |
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35 | need to be changed from the defaults (as listed in |
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36 | Appendix~\ref{app-param}), which in this case would be very few. A |
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37 | minimal parameter file might look like: |
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38 | \begin{verbatim} |
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39 | imageFile /home/mduchamp/fountain.fits |
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40 | flagLog false |
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41 | snrRecon 3 |
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42 | snrCut 2.5 |
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43 | minChannels 4 |
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44 | \end{verbatim} |
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45 | This will reconstruct the cube with a lower SNR value than the |
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46 | default, select objects at a lower threshold, with a looser minimum |
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47 | channel requirement, and not keep a log of the intermediate |
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48 | detections. |
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49 | |
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50 | The following page demonstrates how the parameters are presented to |
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51 | the user, both on the screen at execution time, and in the output and |
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52 | log files. On each line, there is a description on the parameter, the |
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53 | relevant parameter name that is used in the input file (if there is |
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54 | one that the user can enter), and the value of the parameter being |
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55 | used. |
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56 | \newpage |
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57 | \begin{landscape} |
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58 | Typical presentation of parameters in output and log files: |
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59 | \begin{verbatim} |
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60 | ---- Parameters ---- |
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61 | Image to be analysed.........................[imageFile] = /home/mduchamp/fountain.fits |
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62 | Intermediate Logfile...........................[logFile] = duchamp-Logfile.txt |
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63 | Final Results file.............................[outFile] = duchamp-Results.txt |
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64 | Spectrum file..............................[spectraFile] = duchamp-Spectra.ps |
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65 | 0th Moment Map...............................[momentMap] = duchamp-MomentMap.ps |
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66 | Detection Map.............................[detectionMap] = duchamp-DetectionMap.ps |
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67 | Saving reconstructed cube?.............[flagoutputrecon] = false |
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68 | Saving residuals from reconstruction?..[flagoutputresid] = false |
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69 | ------ |
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70 | Searching for Negative features?..........[flagNegative] = false |
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71 | Fixing Blank Pixels?......................[flagBlankPix] = true |
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72 | Blank Pixel Value....................................... = -8.00061 |
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73 | Removing Milky Way channels?....................[flagMW] = true |
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74 | Milky Way Channels.......................[minMW - maxMW] = 75-112 |
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75 | Beam Size (pixels)...................................... = 10.1788 |
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76 | Removing baselines before search?.........[flagBaseline] = false |
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77 | Minimum # Pixels in a detection.................[minPix] = 2 |
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78 | Minimum # Channels in a detection..........[minChannels] = 3 |
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79 | Growing objects after detection?............[flagGrowth] = false |
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80 | Using A Trous reconstruction?...............[flagATrous] = true |
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81 | Number of dimensions in reconstruction........[reconDim] = 3 |
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82 | Minimum scale in reconstruction...............[scaleMin] = 1 |
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83 | SNR Threshold within reconstruction...........[snrRecon] = 4 |
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84 | Filter being used for reconstruction........[filterCode] = 1 (B3 spline function) |
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85 | Using FDR analysis?............................[flagFDR] = false |
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86 | SNR Threshold...................................[snrCut] = 3 |
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87 | Using Adjacent-pixel criterion?...........[flagAdjacent] = true |
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88 | Max. velocity separation for merging....[threshVelocity] = 7 |
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89 | Method of spectral plotting.............[spectralMethod] = peak |
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90 | \end{verbatim} |
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