MUSE Pipeline Reference Manual  2.1.1
Data Fields

Structure to hold the parameters of the muse_scibasic recipe. More...

#include <muse_scibasic_z.h>

Data Fields

int nifu
 IFU to handle. If set to 0, all IFUs are processed serially. If set to -1, all IFUs are processed in parallel.
 
const char * overscan
 If this is "none", stop when detecting discrepant overscan levels (see ovscsigma), for "offset" it assumes that the mean overscan level represents the real offset in the bias levels of the exposures involved, and adjusts the data accordingly; for "vpoly", a polynomial is fit to the vertical overscan and subtracted from the whole quadrant.
 
const char * ovscreject
 This influences how values are rejected when computing overscan statistics. Either no rejection at all ("none"), rejection using the DCR algorithm ("dcr"), or rejection using an iterative constant fit ("fit").
 
double ovscsigma
 If the deviation of mean overscan levels between a raw input image and the reference image is higher than |ovscsigma x stdev|, stop the processing. If overscan="vpoly", this is used as sigma rejection level for the iterative polynomial fit (the level comparison is then done afterwards with |100 x stdev| to guard against incompatible settings). Has no effect for overscan="offset".
 
int ovscignore
 The number of pixels of the overscan adjacent to the data section of the CCD that are ignored when computing statistics or fits.
 
int crop
 Automatically crop the output pixel tables in wavelength depending on the expected useful wavelength range of the observation mode used (4750-9350 Angstrom for nominal mode, 4600-9350 Angstrom for extended mode, 4700-9350 Angstrom for nominal AO mode).
 
int cr
 Type of cosmic ray cleaning to use (for quick-look data processing).
 
const char * cr_s
 Type of cosmic ray cleaning to use (for quick-look data processing). (as string)
 
int xbox
 Search box size in x. Only used if cr=dcr.
 
int ybox
 Search box size in y. Only used if cr=dcr.
 
int passes
 Maximum number of cleaning passes. Only used if cr=dcr.
 
double thres
 Threshold for detection gap in factors of standard deviation. Only used if cr=dcr.
 
int combine
 Type of combination to use. Note that in most cases, science exposures cannot easily be combined on the CCD level, so this should usually be kept as "none"! This does not pay attention about the type of input data, and will combine all raw inputs!
 
const char * combine_s
 Type of combination to use. Note that in most cases, science exposures cannot easily be combined on the CCD level, so this should usually be kept as "none"! This does not pay attention about the type of input data, and will combine all raw inputs! (as string)
 
int nlow
 Number of minimum pixels to reject with minmax.
 
int nhigh
 Number of maximum pixels to reject with minmax.
 
int nkeep
 Number of pixels to keep with minmax.
 
double lsigma
 Low sigma for pixel rejection with sigclip.
 
double hsigma
 High sigma for pixel rejection with sigclip.
 
int scale
 Scale the individual images to a common exposure time before combining them.
 
int saveimage
 Save the pre-processed CCD-based image of each input exposure before it is transformed into a pixel table.
 
const char * skylines
 List of wavelengths of sky emission lines (in Angstrom) to use as reference for wavelength offset correction using a Gaussian fit. It can contain multiple (isolated) lines, as comma-separated list, individual shifts are then combined into one weighted average offset. Set to "none" to deactivate.
 
double skyhalfwidth
 Half-width of the extraction box (in Angstrom) around each sky emission line.
 
double skybinsize
 Size of the bins (in Angstrom per pixel) for the intermediate spectrum to do the Gaussian fit to each sky emission line.
 
const char * skyreject
 Sigma clipping parameters for the intermediate spectrum to do the Gaussian fit to each sky emission line. Up to three comma-separated numbers can be given, which are interpreted as high sigma-clipping limit (float), low limit (float), and number of iterations (integer), respectively.
 
int resample
 Resample the input science data into 2D spectral images using all supplied calibrations for a visual check. Note that the image produced will show small wiggles even when the input calibrations are good and were applied successfully!
 
double dlambda
 Wavelength step (in Angstrom per pixel) to use for resampling.
 
int merge
 Merge output products from different IFUs into a common file.
 

Detailed Description

Structure to hold the parameters of the muse_scibasic recipe.

This structure contains the parameters for the recipe that may be set on the command line, in the configuration, or through the environment.

Definition at line 48 of file muse_scibasic_z.h.


The documentation for this struct was generated from the following file: