Provided by: cpl-plugin-xshoo-doc_3.5.3+dfsg-1build1_all 
NAME
xsh_orderpos - Create the orders centre traces table file
SYNOPSIS
esorex xsh_orderpos [OPTIONS] FILE.sof
DESCRIPTION
This recipe creates the orders centre traces table.
Input Frames for UVB and VIS:
Raw file (Tag = ORDERDEF_arm_D2)
Master Dark (Tag = MASTER_DARK_arm)
Master Bias (Tag = MASTER_BIAS_arm) Input Frames for NIR:
Raw file ON(Tag = ORDERDEF_NIR_ON)
Raw file OFF(Tag = ORDERDEF_NIR_OFF) Input Frames for all arms
Guess order table (Tag = ORDER_TAB_GUESS_arm)
Spectral format table (Tag = SPECTRAL_FORMAT_TAB_arm)
- [OPTIONAL] A map of non linear bad pixels (Format=QUP, Tag = BP_MAP_NL_arm)
- [OPTIONAL] A map of reference bad pixels (Format = QUP,RAW, Tag = BP_MAP_RP_arm)
Prepare PRE structures.
For NIR, subtract NIR-OFF from NIR-ON.
For UVB and NIR, Substract the master Bias and master dark.
Detect Orders and calculate the order table.
The final products are:
An updated Order Table, PRO.CATG=ORDER_TABLE_CENTR_arm.
A order trace residuals Table, PRO.CATG=ORDERPOS_RESID_TAB_arm.
The order pos frame bias subtracted, PRO.CATG=ORDERDEF_ON_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_orderpos.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_orderpos.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_orderpos.time-stamp [default =
False].
--decode-bp <int>
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. (int; default: 2144337919). The full name of
this option for the EsoRex configuration file is xsh.xsh_orderpos.decode-bp
[default = 2144337919].
--pre-overscan-corr <int>
pre-overscan correction. 0: no correction 1: mean overscan correction 2: mean
prescan correction 3: (mean pre+mean overscan)/2 correction (int; default: 1). The
full name of this option for the EsoRex configuration file is
xsh.xsh_orderpos.pre-overscan-corr [default = 1].
--detectcontinuum-search-win-hsize <int>
Half window size in pixels for the 1D box to search for the maximum in the
cross-dispersion profile (int; default: 5). The full name of this option for the
EsoRex configuration file is xsh.xsh_orderpos.detectcontinuum-search-win-hsize
[default = 5].
--detectcontinuum-running-win-hsize <int>
Half window size for the running median box during the search for the maximum in
the cross-dispersion profile (int; default: 0). The full name of this option for
the EsoRex configuration file is xsh.xsh_orderpos.detectcontinuum-running-win-hsize
[default = 0].
--detectcontinuum-fit-win-hsize <int>
Half window size for the fit of the cross-dispersion profile (int; default: 5). The
full name of this option for the EsoRex configuration file is
xsh.xsh_orderpos.detectcontinuum-fit-win-hsize [default = 5].
--detectcontinuum-center-thresh-fac <float>
Threshold factor applied to check that the flux at the fitted peak is higher than
error. (float; default: 0.0). The full name of this option for the EsoRex
configuration file is xsh.xsh_orderpos.detectcontinuum-center-thresh-fac [default =
0.0].
--detectcontinuum-ordertab-step-y <int>
Step in Y for order centroid detection (int; default: 1). The full name of this
option for the EsoRex configuration file is
xsh.xsh_orderpos.detectcontinuum-ordertab-step-y [default = 1].
--detectcontinuum-ordertab-deg-y <int>
Degree in Y in the polynomial order tracing X=f(Y) (int; default: 5). The full name
of this option for the EsoRex configuration file is
xsh.xsh_orderpos.detectcontinuum-ordertab-deg-y [default = 5].
--detectcontinuum-clip-res-max <float>
Maximum allowed residual (before kappa-sigma clip) (float; default: 0.5). The full
name of this option for the EsoRex configuration file is
xsh.xsh_orderpos.detectcontinuum-clip-res-max [default = 0.5].
--detectcontinuum-clip-sigma <float>
Kappa value in sigma clipping during order trace polynomial fit (float; default:
5.0). The full name of this option for the EsoRex configuration file is
xsh.xsh_orderpos.detectcontinuum-clip-sigma [default = 5.0].
--detectcontinuum-clip-niter <int>
Number of iterations in sigma clipping during order trace polynomial fit (int;
default: 5). The full name of this option for the EsoRex configuration file is
xsh.xsh_orderpos.detectcontinuum-clip-niter [default = 5].
--detectcontinuum-clip-frac <float>
Minimal fractions of points accepted / total in sigma clippingduring order trace
polynomial fit (float; default: 0.4). The full name of this option for the EsoRex
configuration file is xsh.xsh_orderpos.detectcontinuum-clip-frac [default = 0.4].
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.
SEE ALSO
The full documentation for the xshoo pipeline can be downloaded as a PDF file using the
following URL:
ftp://ftp.eso.org/pub/dfs/pipelines/xshoo/xshoo-pipeline-manual-12.1.pdf
An overview over the existing ESO pipelines can be found on the web page
https://www.eso.org/sci/software/pipelines/.
Basic documentation about the EsoRex program can be found at the esorex (1) man page.
It is possible to call the pipelines from python using the python-cpl package. See
https://packages.python.org/python-cpl/index.html for further information.
The other recipes of the xshoo pipeline are xsh_2dmap(7), xsh_cfg_recover(7),
xsh_flexcomp(7), xsh_geom_ifu(7), xsh_lingain(7), xsh_mbias(7), xsh_mdark(7),
xsh_mflat(7), xsh_predict(7), xsh_respon_slit_nod(7), xsh_respon_slit_offset(7),
xsh_respon_slit_stare(7), xsh_scired_ifu_offset(7), xsh_scired_ifu_offset_drl(7),
xsh_scired_ifu_stare(7), xsh_scired_ifu_stare_drl(7), xsh_scired_slit_nod(7),
xsh_scired_slit_offset(7), xsh_scired_slit_stare(7), xsh_util_physmod(7), xsh_wavecal(7)
VERSION
xsh_orderpos 3.5.3
AUTHOR
L.Guglielmi,R.Haigron,P.Goldoni,F.Royer, A. Modigliani <amodigli@eso.org>
BUG REPORTS
Please report any problems to amodigli@eso.org. Alternatively, you may send a report to
the ESO User Support Department <usd-help@eso.org>.
LICENSE
This file is part of the X-shooter Instrument Pipeline Copyright (C) 2006 European
Southern Observatory
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