MOPEX User's Guide - IRSA

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MOPEX User’s Guide MOPEX: Basic Calibrated Data (BCD) images, the associated uncertainty image, and the associated bad pixel mask. See Table 3.1 for the recommended filenames for each instrument. 3.1.2 Additional Mask Files In addition to the Status Mask Files that come with your Spitzer data (which flag the temporary bad pixels in each frame) there are two other types of mask file that can be input into MOPEX. The first is the mask of permanently damaged pixels (PMask). The PMasks for the IRAC instrument are updated every few months, depending on solar activity. They can be found in the /cal directory, or on the Spitzer website. The applicable PMask depends on the observation date of your data - check your FITS headers for the keyword DATE_OBS (not DATE, which is the date the file was written). See the pmasks.README file in the PMasks directory for the date range for which each PMask should be applied. PMasks for the MIPS instrument are updated less often. The final set of images that can be input into MOPEX are RMask files, which are masks of pixels rejected as outliers in each frame. Typically, the user will generate RMasks as a product of outlier rejection during mosaicking (see §8.2), so they are not provided as input. However, it is possible to use RMasks as input, either from an earlier reduction, or from the automated Spitzer pipelines (which use MOPEX). They can also be specified as input into APEX Multiframe to ensure that outlier-rejected pixels are not used when running the PRF fitting on the individual BCDs. Table 3.1: BCD data, uncertainty and mask filenames for each instrument Instrument Default BCD BCD Uncertainties DCE Status Mask IRAC bcd.fits or cbcd.fits bunc.fits or cbunc.fits bimsk.fits IRS PU-16 bcdb.fits uncb.fits mskb.fits IRS PU-22 bcdr.fits uncr.fits mskr.fits M IPS-24 bcd.fits bunc.fits bbmsk.fits M IPS-Ge (70 & 160) bcd.fits or fbcd.fits bunc.fits bmask.fits MOPEX Input 20 MOPEX Input Images
3.2 MOPEX Input List Files MOPEX User’s Guide The data, uncertainty, status mask and, possibly, the outlier mask image files are input into MOPEX via ASCII text files, containing one image filename per line. You will need to make a separate list file for each of the input image types, and the filenames must be in the same order in each of the input lists (i.e. the first filename in the list of image files must correspond to the first filename in the list of uncertainty files and the list of status mask files). As a rule, we recommend always including the full path name of the image files in the input lists e.g., the list of data files, InputImageList.txt, should look something like this: /home/joe/data/IRAC/ch1/bcd/SPITZER_I1_5504256_0001_0000_4_bcd.fits /home/joe/data/IRAC/ch1/bcd/SPITZER_I1_5504256_0002_0000_4_bcd.fits /home/joe/data/IRAC/ch1/bcd/SPITZER_I1_5504256_0003_0000_4_bcd.fits etc...... As an example, to create the input lists for IRAC channel 1 data, in Unix (Solaris/Linux/Mac), you could use the following syntax: unix% ls //*bcd.fits > InputImageList.txt unix% ls //*bunc.fits > InputUncList.txt unix% ls //*bimsk.fits > InputMskList.txt The input lists are specified in the Initia l Setup module. The input file format is identical for both the command-line and the GUI interfaces. The default location for the input files is in . When specifying input files, you should use either the full path name or the path relative to the working directory. For more information on the User List point source input file for use with APEX User List and APEX User List Single Frame, see §8.10 3.3 MOPEX Input Namelist The namelist files for each of the MOPEX pipelines contain all of the information about the modules and parameters to be used in a particular reduction. The ASCII versions of the template namelists used by MOPEX are all stored in the directory /cdf/. When using the GUI, you will most likely start from one of the included MOPEX template namelists (go to e.g. File > New Mosaic Pipeline to access the templates), and edit the included modules and MOPEX Input 21 MOPEX Input List Files
Page 1 and 2: MOPEX User’s Guide MOsaicking and
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DISCUSSION No further information.
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MOPEX User’s Guide Min Pix Number
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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 Here FLUXCONV
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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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⎛ ⎜ ⎜ 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 is recorded as
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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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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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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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8.4.5 Cubic: Bicubic Interpolation
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z n = ∑ r(r≠n ) Onr(I n − Ir
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8.9.3 Aperture Uncertainties MOPEX
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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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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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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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