MOPEX User's Guide - IRSA

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4.3 Overlap Modules MOPEX User’s Guide The following pages contain full descriptions of the modules that are available in the GUI Overlap pipeline. For information on how to turn these modules on and off on the command line, see Chapter 9. For suggestions on which modules to use, see §2.5: Which Modules Should I Choose? Module listing: • Initia l Setup • Overlap Settings • S/N Estimator • Fiducial Image Frame • MedFilter • Detect • Mosaic Interpolate • Compute Overlap Correction • Quick Look Mosaic 4.3.1 Overlap Modules: Initial Setup Command Line Equivalent: N/A Default Output Directory: N/A De pe nds On: None Important Notes: None PURPOSE INPUT Set up the input and output files for the loaded flow. Image Stack File: The text file containing the list of input data files for the pipeline. For Spitzer data, these are typically the *bcd.fits or *cbcd.fits files that you download from the Spitzer data archive. See Chapter 3 and Table 3.1 for more information on the input file requirements and format. Overlap (overlap.pl) 26 Overlap Modules
MOPEX User’s Guide Output Directory: The directory that you want to set as your output directory for this run. Multi-processing Mode: Switch to use multi-processing. See Discussion. Processors for Multi-processing: Number of processors to use. See Discussion. Optional Input and Mask Files: Sigma List File: The text file containing the list of uncertainty images that correspond to the input data files (for Spitzer data, these are usually the *bunc.fits or *cbunc.fits files; see Table 3.1 for more information). DCE Status Mask List: The text file containing the list of mask images that flag temporarily-bad pixels in the input data images. There should be a mask file for each of the input data files (for Spitzer data these depend on the instrument, but will be labeled something like *msk.fits; see Table 3.1 for more information). Fatal Mask Bit Pattern: This is the bit pattern that defines which type of flagged problems that you wish to set as fatal when combining the input images. See §8.11 for more information. There is a separate Fatal Bit Pattern for each type of mask that is being used as input (i.e. for the DCE Status masks, the RMasks and the PMask). Rmask List File : The text file containing a list of outlier mask images. Usually this will be left blank, as the RMask images are created during the mosaicking process. This option allows you to specify a previously created list of RMask images as input on second and subsequent runs of the pipeline, to save having to re-generate them. Pmask FITS File: The permanently-damaged pixel mask for the detector. This is a single FITS image, flagging the permanently damaged pixels in the instrument arrays. These files are stored in the /cal/ directory. See §3.1.2 for more information. FIF file: The Fiducia l Image Frame file. This is an optiona l input file, as it is often generated from the input data using the Fiducial Image Frame module. There are, however, a number of cases in which you might wish to use a user-specified FIF (e.g. if you are trying to match the field of view to the other data channels). COMMAND LINE INPUT Overlap (overlap.pl) 27 Overlap Modules
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MOPEX User’s Guide Box Median Bia
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MOPEX User’s Guide If coverage >=
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MOPEX User’s Guide Refine Outlier
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MOPEX User’s Guide Reinterpolatio
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PURPOSE MOPEX User’s Guide The in
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MOPEX User’s Guide The tile speci
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MOPEX User’s Guide Standard Devia
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Mosaic Coverage File (mosaic_cov.fi
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There are no user-defined input par
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COMMAND LINE INPUT See INPUT. OUTPU
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MOPEX User’s Guide limitations di
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6.3 Running APEX MOPEX User’s Gui
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MOPEX User’s Guide Point Source D
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Figure 6.1: Overview of the main pr
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Relevant Pipelines: All PURPOSE INP
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NICE = 1 save_namelist = 1 MOPEX Us
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MOPEX User’s Guide Mosaic PRF Fil
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create_unc_mosaic = 1 use_std_to_de
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MOPEX User’s Guide Use Refined Po
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MOPEX User’s Guide Here FLUXCONV
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MOPEX User’s Guide This module cr
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MOPEX User’s Guide Mosaic FIF Tab
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MOPEX User’s Guide Tile BCD file
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MOPEX User’s Guide Window X, Y: (
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MOPEX User’s Guide neighboring pi
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⎛ ⎜ ⎜ P( j) = ⎜ 1+ ⎜ ⎜
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&END MOPEX User’s Guide if use_ps
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MOPEX User’s Guide \float Tile_Of
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MOPEX User’s Guide This module co
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&END OUTPUT MOPEX User’s Guide Th
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INPUT Columns selection: MOPEX User
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PURPOSE MOPEX User’s Guide Fits t
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MOPEX User’s Guide given below. O
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6.5.19 APEX Modules: Aperture Photo
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Condition Builder: Some simple sele
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MOPEX User’s Guide Fatal Mask Bit
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MOPEX User’s Guide Pixel by Size:
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MOPEX User’s Guide Mosaic PRF Fil
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PRF_ResampleX_Factor = 100, PRF_Res
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7.3 Running PRF Estimate MOPEX User
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MOPEX User’s Guide 3. Outlier Rej
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PURPOSE MOPEX User’s Guide Set up
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MOPEX User’s Guide Most users wil
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DISCUSSION MOPEX User’s Guide Wit
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7.5.5 PRF Estimate Modules: Split B
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MOPEX User’s Guide Fit Seed: (int
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Chapter 8. Basic Concepts in MOPEX
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8.2 Outlier Detection MOPEX User’
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MOPEX User’s Guide Figure 8.3: An
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MOPEX User’s Guide Two ways to es
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MOPEX User’s Guide USE_DUAL_OUTLI
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MOPEX User’s Guide Figure 8.9: As
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MOPEX User’s Guide Important: Usi
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MOPEX User’s Guide Figure 8.12: T
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8.3.2 Thresholding MOPEX User’s G
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T cl = P min − T min SegLevel MOP
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Centroid _ X = ∑ i∈cluster X(i)
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MOPEX User’s Guide where IPi is t
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8.4.5 Cubic: Bicubic Interpolation
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MOPEX User’s Guide the parameter
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8.9.3 Aperture Uncertainties MOPEX
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MOPEX User’s Guide In order to ru
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MOPEX User’s Guide from the GUI,
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9.4.2.1 Input Files and Output Dire
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MOPEX User’s Guide Table 9.1: Lis
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9.7.2 APEX User List Multiframe (ap
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MOPEX User’s Guide Table 9.6: Lis
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Appendix A. Full List of MOPEX Scri
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A.1.3 Under Construction Running MO
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Appendix B. Full List of Modules in
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Mosaic Interpolate run_mosaic_int P
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Running MOPEX on the Command Line a
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B.5 PRF Estimate Modules Running MO
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Instrument PRF Samp c Norm Radius (
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Some Tips for MOPEX with Spitzer Da
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MOPEX User's Guide - IRSA

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