SYNOPSIS

DESCRIPTION

  Input Frames :
    - [UVB, VIS] One RAW frame (Format = RAW, Tag = AFF_ATT_arm)
    - [NIR] Two RAW frames ((Format = RAW,  Tag = AFC_ATT_arm_ON,AFC_ATT_arm_OFF)
    - An arc line list (Format = TABLE, Tag = ARC_LINE_LIST_AFC_arm)
    - A spectral format table frame (Format = TABLE, Tag = SPECTRAL_FORMAT_TAB_arm)
    - [UVB,VIS] A master bias (Format = PRE, Tag = MASTER_BIAS_arm)
    - [UVB,VIS] A master dark (Format = PRE, Tag = MASTER_DARK_arm)
    - An order table frame (Format = TABLE, Tag = ORDER_TAB_EDGES_IFU_arm)
  - [OPTIONAL] A non-linear badpixel map (Tag = BP_MAP_NL_arm)
  - [OPTIONAL] A reference badpixel map (Tag = BP_MAP_RP_arm)
    - [poly mode]  A wave solution frame (Format = TABLE, Tag = WAVE_TAB_2D_arm)
    - [physical model mode] A model cfg table (Format = TABLE, Tag = XSH_MOD_CFG_OPT_2D_arm)
  Products : 
    - [poly mode]  An updated wave solution frame (Format = TABLE, Tag = WAVE_TAB_AFC_arm)
    - [physical model mode] An updated  model cfg table (Format = TABLE, Tag = XSH_MOD_CFG_OPT_AFC_arm)
    - An updated order table frame (Format = TABLE, Tag = ORDER_TAB_AFC_IFU_arm)
    - [poly mode] A dispersion table frame (Format = TABLE, Tag =  DISP_TAB_AFC_arm)

OPTIONS

--keep-temp <str>

If 'no', temporary files are deleted. (str; default: 'no'). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.keep-temp [default = no].

--debug-level <str>

Additional xshooter debug level. One of 'none', 'low', 'medium', 'high' (str; default: 'none'). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.debug-level [default = none].

--time-stamp <bool>

Add timestamp to product file name. (bool; default: False). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.time-stamp [default = False].

--decode-bp <long>

Integer representation of the bits to be considered bad when decoding the bad pixel mask pixel values. Most frequent codes relevant for the user: 0: good pixel, 8: pick-up noise, 16: cosmic-ray removed, 32: cosmic-ray unremoved, 128: calibration file defect, 256: hot pixel, 512: dark pixel, 4096: A/D converted saturation, 32768: non linear pixel, 1048576: extrapolated flux in NIR, 4194304: Interpolated flux during extraction. (long; default: 2144337919). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.decode-bp [default = 2144337919].

--pre-overscan-corr <long>

pre-overscan correction.0: no correction1: mean overscan correction2: mean prescan correction3: (mean pre+mean overscan)/2 correction (long; default: 1). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.pre-overscan-corr [default = 1].

--detectarclines-fit-win-hsize <long>

Half window size (HWS) in pixels for the line 2D fitting window (total window size = 2*HWS+1) (long; default: 6). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-fit-win-hsize [default = 6].

--detectarclines-search-win-hsize <long>

Half window size (HWS) in pixels for the line search box around the expected position (total window size = 2*HWS+1) [bin units] (long; default: 3). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-search-win-hsize [default = 3].

--detectarclines-running-median-hsize <long>

Half window size in pixels (HWS) for the running median box (long; default: 0). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-running-median-hsize [default = 0].

--detectarclines-wavesol-deg-lambda <long>

Degree in lambda in the polynomial solution X=f(lambda,order,slit) and Y=f(lambda,order,slit) (POLY mode) (long; default: 5). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-wavesol-deg-lambda [default = 5].

--detectarclines-wavesol-deg-order <long>

Degree in order in the polynomial solution X=f(lambda,order,slit) and Y=f(lambda,order,slit) (POLY mode) (long; default: 5). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-wavesol-deg-order [default = 5].

--detectarclines-min-sn <float>

Minimum signal-to-noise ratio to filter lines [xsh_predict: UVB,VIS=5,NIR=4; xsh_2dmap: UVB=3, VIS=6, NIR=10] (float; default: 5.0). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-min-sn [default = 5.0].

--detectarclines-find-lines-center <str>

Method used to find the center of the lines: gaussian, barycenter. Gaussian method applies a Gaussian fit to the line. Barycenter method computes the line centroid. (str; default: 'gaussian'). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-find-lines-center [default = gaussian].

--detectarclines-clip-sigma <float>

Kappa value in sigma clipping during the polynomial solution fit (POLY mode) (float; default: 2.0). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-clip-sigma [default = 2.0].

--detectarclines-clip-niter <long>

Number of iterations in sigma clipping during the polynomial solution fit (POLY mode) (long; default: 10). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-clip-niter [default = 10].

--detectarclines-clip-frac <float>

Minimal fractions of bad pixel allowed in sigma clipping duringthe polynomial solution fit (POLY mode) (float; default: 0.7). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.detectarclines-clip-frac [default = 0.7].

--dispersol-deg-x <long>

Degree in X in the polynomial dispersion solution lambda=f(X,Y) and slit=f(X,Y) (long; default: 4). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.dispersol-deg-x [default = 4].

--dispersol-deg-y <long>

Degree in Y in the polynomial dispersion solution lambda=f(X,Y) and slit=f(X,Y) (long; default: 5). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.dispersol-deg-y [default = 5].

--model-maxit <long>

Number/10 of annealing iterations if in physical model mode. (long; default: 1000). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.model-maxit [default = 1000].

--model-anneal-factor <float>

Multiplier applied to the automatic parameter ranges (i.e. when scenario!=0). For routine operations should be 1.0. (physical model mode). (float; default: 1.0). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.model-anneal-factor [default = 1.0].

--model-scenario <long>

selects preset flag and range combinations appropriate to common scenarios: -1 - Only the position across the slit and camera focal length are open 0 - No scenario, input cfg flags and limits used. 1 - scenario appropriate for the startup recipe (large ranges for parameters affecting single ph exposures, dist coeff fixed) 2 - Like 1, but includes parameters affecting all ph positions 3 - Scenario for use in fine tuning cfg to match routine wavecal exposures. All parameters affecting 1ph exposures except dist coeffs are included and parameter ranges are small. (For use by flexcomp in 1ph case). 4 - Like 3 but includes parameters affecting all ph positions (Standard for use by flexcomp in 9ph case and 2dmap). 5 - Like 4 but includes also dist coeffs 6 - Just dist coeffs (and chipx, chipy) (long; default: 3). The full name of this option for the EsoRex configuration file is xsh.xsh_flexcomp.model-scenario [default = 3].

Note that it is possible to create a configuration file containing these options, along with suitable default values. Please refer to the details provided by the 'esorex --help' command.

VERSION

AUTHOR

LICENSE

This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA