xsh_orderpos - Create the orders centre traces table file
esorex xsh_orderpos [OPTIONS] FILE.sof
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.
- --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.
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)
L.Guglielmi,R.Haigron,P.Goldoni,F.Royer, A. Modigliani
<amodigli@eso.org>
Please report any problems to amodigli@eso.org. Alternatively, you
may send a report to the ESO User Support Department
<usd-help@eso.org>.
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,
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