MOPEX User's Guide - IRSA

More documents

Recommendations

Info

MOPEX User’s Guide together. Background matching is performed by the Overlap pipeline, and mosaicking is carried out by Mosaic. One key feature of the GUI is that it can understand that we want to use the output of the first as input to the second. Start by loading a template Overlap namelist by going to File > New Overlap Pipeline and selecting “Overlap, IRAC ch1” from the drop-down menu. Click OK, and the template Overlap pipeline is loaded. The current pipeline is shown in the main window, with clickable buttons to add input and output files, and input fields to change the settings for each included module. Off to the side is a separate window, listing all of the available modules for the Overlap pipeline. The ones that have already been included are greyed-out, while the ones that are currently excluded are in black. Modules can be added to the flow by clicking on them in this secondary window, and removed from the flow by clicking on the cross next to them in the main pipeline window. For assistance with any module, you can click on the question mark to pull up the integrated help system. Once you have added the input files (see Chapter 3 for input file types and formats) and set up the Overlap pipeline, you need to add the Mosaic pipeline onto the end. To do this, click on the “Insert Mosaic…” button near the top of the pipeline window. Do not go through the File menu - this will start a whole new Mosaic flow instead of appending it to the bottom of the Overlap pipeline. By inserting the Mosaic flow, MOPEX will use the output of the Overlap pipeline (i.e. the background-corrected images) as the input into the Mosaic pipeline. After setting up the Mosaic pipeline, you are ready to run MOPEX. There are three ways to do this: 1. Module-by-module: click on the icon with the black arrow and the blue rectangles on the left side of each module. This runs the reduction to the end of that module and then pauses. 2. By Pipeline: click on the icon with the black arrow and the blue rectangles near the top of each pipeline. This will run through the associated pipeline (e.g. Overlap) and pause at the bottom. 3. Run the whole flow: Click on the green “play” arrow at the top left-hand corner of the MOPEX window. This will run through all of the pipelines to the end. Once you have started the flow running, you can pause at the end of the current module by pressing the black “pause” button in the top left-hand corner of the MOPEX window, or you can stop the reduction immediately by pressing the red “stop” button next to it. If you want to rewind back up to a previous module, click the blue curved arrow icon next to the module you wish to repeat. This will rewind the flow to that point so that you can, e.g., change parameters in that one module and re-run from that point onwards. Overview of MOPEX 8 How to run MOPEX in the GUI
For instructions on how to run MOPEX on the command line, see Chapter 9. MOPEX User’s Guide ***NEW*** Note that with version 18.5.0 one can use multiprocessing to speed up MOPEX tasks. The tasks Overlap, Mosaic, Apex (Multi) and Apex User List (Multi) now allow multiprocessing of some steps. In the GUI, this is set in Initia l Setup, Multi-Processing Mode. The options are "on", "off", and "manual". The default is "on" -- this grabs 3/4 of the available processors. Setting "manual" lets the user set the number of processors used. You should see speed-ups of at least 2x. If using command-line, add these lines at the top of your namelist: do_multiprocess = on | off | manual default = off ncpu_multiprocess = 1 default = 1 If "manual" is set, set ncpu_multiprocess to the number of processors to use. 2.2.1 Encountering Error Messages in MOPEX If MOPEX encounters any problems during the reduction, it will stop and open an error message window. If the explanation in the error message in unclear, you can check the log file found in ~/.spot/ for further information. If you are still stuck and have checked the manual, the MOPEX Bug List and the FAQ, please contact the Spitzer Helpdesk for assistance. 2.3 Basic Processing Steps in MOPEX Here we outline the steps in a typical MOPEX task: combining a stack of FITS images into a mosaic and doing point-source photometry, then looking at the residuals. Spitzer Data Analysis Cookbook: Recipe 7 shows how to link all these pipelines together. 1. Data Input MOPEX reads in the data frames, the associated uncertainty frames, and the associated bad pixel masks from user-created lists in ASCII format. 2. Fiducial Image Frame (FIF) Generation A unified grid coordinate system is generated, which defines a common grid onto which the input images will be projected. The spatial boundaries of the FIF include all of the input images. 3. Background Matching Overview of MOPEX 9 Basic Processing Steps in MOPEX
Page 1 and 2: MOPEX User’s Guide MOsaicking and
Page 3 and 4: MOPEX User’s Guide Chapter 4. Ove
Page 5 and 6: MOPEX User’s Guide 7.4 PRF Estima
Page 7 and 8: Chapter 1. Introduction MOPEX User
Page 9 and 10: MOPEX User’s Guide • If you are
Page 11 and 12: for Linux and Solaris systems, and:
Page 13: Chapter 2. Overview of MOPEX MOPEX
Page 17 and 18: 2.3.1 Additional Functionality MOPE
Page 19 and 20: MOPEX User’s Guide mosaic_mask.pl
Page 21 and 22: MOPEX User’s Guide Choosing the r
Page 23 and 24: MOPEX User’s Guide photometry), o
Page 25 and 26: Chapter 3. MOPEX Input MOPEX User
Page 27 and 28: 3.2 MOPEX Input List Files MOPEX Us
Page 29 and 30: Chapter 4. Overlap (overlap.pl) MOP
Page 31 and 32: MOPEX User’s Guide 3. Background
Page 33 and 34: MOPEX User’s Guide Output Directo
Page 35 and 36: ncpu_multiprocess = 1 default = 1 I
Page 37 and 38: 4.3.3 Overlap Modules: S/N Estimato
Page 39 and 40: σ = σ 2 readnoise g 2 + σ 2 conf
Page 41 and 42: MOPEX User’s Guide Generated Head
Page 43 and 44: OUTPUT MOPEX User’s Guide Generat
Page 45 and 46: OUTPUT MOPEX User’s Guide Generat
Page 47 and 48: MOPEX User’s Guide When choosing
Page 49 and 50: MOPEX User’s Guide offsets and th
Page 51 and 52: Chapter 5. Mosaicking (mosaic.pl) M
Page 53 and 54: MOPEX User’s Guide They do not ne
Page 55 and 56: MOPEX User’s Guide interpolated u
Page 57 and 58: MOPEX User’s Guide more informati
Page 59 and 60: MOPEX User’s Guide Pixel by Size:
Page 61 and 62: OUTPUT None DISCUSSION MOPEX User
Page 63 and 64: MOPEX User’s Guide This module al
Page 65 and 66:
MOPEX User’s Guide negative numbe
Page 67 and 68:
DISCUSSION MOPEX User’s Guide For
Page 69 and 70:
MOPEX User’s Guide then interpola
Page 71 and 72:
MOPEX User’s Guide This module pe
Page 73 and 74:
DISCUSSION MOPEX User’s Guide Mos
Page 75 and 76:
PURPOSE MOPEX User’s Guide This m
Page 77 and 78:
DISCUSSION No further information.
Page 79 and 80:
MOPEX User’s Guide processed in o
Page 81 and 82:
MOPEX User’s Guide Min Pix Number
Page 83 and 84:
MOPEX User’s Guide Box Median Bia
Page 85 and 86:
MOPEX User’s Guide If coverage >=
Page 87 and 88:
MOPEX User’s Guide Refine Outlier
Page 89 and 90:
MOPEX User’s Guide Reinterpolatio
Page 91 and 92:
PURPOSE MOPEX User’s Guide The in
Page 93 and 94:
MOPEX User’s Guide The tile speci
Page 95 and 96:
MOPEX User’s Guide Standard Devia
Page 97 and 98:
Mosaic Coverage File (mosaic_cov.fi
Page 99 and 100:
There are no user-defined input par
Page 101 and 102:
COMMAND LINE INPUT See INPUT. OUTPU
Page 103 and 104:
MOPEX User’s Guide limitations di
Page 105 and 106:
6.3 Running APEX MOPEX User’s Gui
Page 107 and 108:
MOPEX User’s Guide Point Source D
Page 109 and 110:
Figure 6.1: Overview of the main pr
Page 111 and 112:
Relevant Pipelines: All PURPOSE INP
Page 113 and 114:
NICE = 1 save_namelist = 1 MOPEX Us
Page 115 and 116:
MOPEX User’s Guide Mosaic PRF Fil
Page 117 and 118:
create_unc_mosaic = 1 use_std_to_de
Page 119 and 120:
MOPEX User’s Guide Use Refined Po
Page 121 and 122:
MOPEX User’s Guide Here FLUXCONV
Page 123 and 124:
MOPEX User’s Guide This module cr
Page 125 and 126:
MOPEX User’s Guide year) and with
Page 127 and 128:
MOPEX User’s Guide Mosaic FIF Tab
Page 129 and 130:
MOPEX User’s Guide Tile BCD file
Page 131 and 132:
MOPEX User’s Guide Window X, Y: (
Page 133 and 134:
MOPEX User’s Guide neighboring pi
Page 135 and 136:
⎛ ⎜ ⎜ P( j) = ⎜ 1+ ⎜ ⎜
Page 137 and 138:
&END MOPEX User’s Guide if use_ps
Page 139 and 140:
MOPEX User’s Guide \float Tile_Of
Page 141 and 142:
MOPEX User’s Guide Input Type: De
Page 143 and 144:
MOPEX User’s Guide pixels set to
Page 145 and 146:
MOPEX User’s Guide This module co
Page 147 and 148:
MOPEX User’s Guide is recorded as
Page 149 and 150:
&END OUTPUT MOPEX User’s Guide Th
Page 151 and 152:
INPUT Columns selection: MOPEX User
Page 153 and 154:
PURPOSE MOPEX User’s Guide Fits t
Page 155 and 156:
MOPEX User’s Guide given below. O
Page 157 and 158:
6.5.19 APEX Modules: Aperture Photo
Page 159 and 160:
MOPEX User’s Guide This module al
Page 161 and 162:
Condition Builder: Some simple sele
Page 163 and 164:
MOPEX User’s Guide Fatal Mask Bit
Page 165 and 166:
MOPEX User’s Guide Pixel by Size:
Page 167 and 168:
MOPEX User’s Guide Mosaic PRF Fil
Page 169 and 170:
PRF_ResampleX_Factor = 100, PRF_Res
Page 171 and 172:
7.3 Running PRF Estimate MOPEX User
Page 173 and 174:
MOPEX User’s Guide 3. Outlier Rej
Page 175 and 176:
PURPOSE MOPEX User’s Guide Set up
Page 177 and 178:
MOPEX User’s Guide Most users wil
Page 179 and 180:
DISCUSSION MOPEX User’s Guide Wit
Page 181 and 182:
7.5.5 PRF Estimate Modules: Split B
Page 183 and 184:
MOPEX User’s Guide Fit Seed: (int
Page 185 and 186:
Chapter 8. Basic Concepts in MOPEX
Page 187 and 188:
8.2 Outlier Detection MOPEX User’
Page 189 and 190:
MOPEX User’s Guide Figure 8.3: An
Page 191 and 192:
MOPEX User’s Guide Two ways to es
Page 193 and 194:
MOPEX User’s Guide USE_DUAL_OUTLI
Page 195 and 196:
MOPEX User’s Guide Figure 8.9: As
Page 197 and 198:
MOPEX User’s Guide Important: Usi
Page 199 and 200:
MOPEX User’s Guide Figure 8.12: T
Page 201 and 202:
8.3.2 Thresholding MOPEX User’s G
Page 203 and 204:
T cl = P min − T min SegLevel MOP
Page 205 and 206:
Centroid _ X = ∑ i∈cluster X(i)
Page 207 and 208:
MOPEX User’s Guide where IPi is t
Page 209 and 210:
MOPEX User’s Guide Figure 8.18: T
Page 211 and 212:
8.4.5 Cubic: Bicubic Interpolation
Page 213 and 214:
z n = ∑ r(r≠n ) Onr(I n − Ir
Page 215 and 216:
MOPEX User’s Guide the parameter
Page 217 and 218:
MOPEX User’s Guide Figure 8.22: P
Page 219 and 220:
MOPEX User’s Guide that resembles
Page 221 and 222:
∑ AP = a i ⋅ I i MOPEX User’s
Page 223 and 224:
MOPEX User’s Guide In particular
Page 225 and 226:
8.9.3 Aperture Uncertainties MOPEX
Page 227 and 228:
MOPEX User’s Guide e.g. if you wi
Page 229 and 230:
MOPEX User’s Guide In order to ru
Page 231 and 232:
MOPEX User’s Guide from the GUI,
Page 233 and 234:
9.4.2.1 Input Files and Output Dire
Page 235 and 236:
MOPEX User’s Guide Table 9.1: Lis
Page 237 and 238:
9.7.2 APEX User List Multiframe (ap
Page 239 and 240:
9.7.4 Single-frame mode (apex_1fram
Page 241 and 242:
MOPEX User’s Guide Table 9.6: Lis
Page 243 and 244:
Appendix A. Full List of MOPEX Scri
Page 245 and 246:
A.1.3 Under Construction Running MO
Page 247 and 248:
Appendix B. Full List of Modules in
Page 249 and 250:
Mosaic Interpolate run_mosaic_int P
Page 251 and 252:
Running MOPEX on the Command Line a
Page 253 and 254:
B.5 PRF Estimate Modules Running MO
Page 255 and 256:
Instrument PRF Samp c Norm Radius (
Page 257:
Some Tips for MOPEX with Spitzer Da
show all

MOPEX User's Guide - IRSA

You also want an ePaper? Increase the reach of your titles

Delete template?

Save as template?