Provided by: cpl-plugin-vimos-doc_4.1.7+dfsg-2build3_all 
NAME
vmmoscalib - Determination of the extraction mask
SYNOPSIS
esorex vmmoscalib [OPTIONS] FILE.sof
DESCRIPTION
This recipe is used to identify reference lines on MOS arc lamp exposures, and trace the spectral edges
on the corresponding flat field exposures. This information is used to determine the spectral extraction
mask to be applied in the scientific data reduction, performed with the recipe vimos_science. The input
arc lamp and flat field exposures are assumed to be obtained quasi-simultaneously, so that they would be
described by exactly the same instrument distortions.
A line catalog must be specified, containing the wavelengths of the reference arc lamp lines used for the
wavelength calibration. A grism table (typically depending on the instrument mode, and in particular on
the grism used) may also be specified: this table contains a default recipe parameter setting to control
the way spectra are extracted for a specific instrument mode, as it is used for automatic run of the
pipeline on Paranal and in Garching. If this table is specified, it will modify the default recipe
parameter setting, with the exception of those parameters which have been explicitly modifyed on the
command line.
If a grism table is not specified, the input recipe parameters values will always be read from the
command line, or from an esorex configuration file if present, or from their generic default values (that
are rarely meaningful). Finally a master bias frame must be input to this recipe.
In the table below the MOS_CURV_COEFF, MOS_CURV_TRACES, MOS_SPATIAL_MAP MOS_ARC_SPECTRUM_EXTRACTED,
MOS_SPECTRA_DETECTION, MOS_SLIT_MAP, and MOS_SLIT_LOCATION, are never created in case of long-slit-like
data.
The products MOS_SPECTRA_DETECTION, MOS_SLIT_MAP, and MOS_DISP_RESIDUALS, are just created if the --check
parameter is set to true. The product GLOBAL_DISTORTION_TABLE is just created if more than 12 separate
spectra are found in the CCD.
Input files:
DO category: Type: Explanation: Required:
MOS_SCREEN_FLAT Raw Flat field exposures Y
MOS_ARC_SPECTRUM Raw Arc lamp exposure Y
MASTER_BIAS Calib Bias frame Y
LINE_CATALOG Calib Line catalog Y
CONFIG_TABLE Calib Grism table .
Output files:
DO category: Data type: Explanation:
MOS_COMBINED_SCREEN_FLAT FITS image Combined (sum) flat field
MOS_MASTER_SCREEN_FLAT FITS image Normalised flat field
MOS_ARC_SPECTRUM_EXTRACTED FITS image Wavelength calibrated arc spectrum
MOS_DISP_COEFF FITS table Inverse dispersion coefficients
MOS_DISP_RESIDUALS FITS image Residuals in wavelength calibration
MOS_DISP_RESIDUALS_TABLE FITS table Residuals in wavelength calibration
MOS_DELTA_IMAGE FITS image Offset vs linear wavelength calib
MOS_WAVELENGTH_MAP FITS image Wavelength for each pixel on CCD
MOS_SPECTRA_DETECTION FITS image Check for preliminary detection
MOS_SLIT_MAP FITS image Map of central wavelength on CCD
MOS_CURV_TRACES FITS table Spectral curvature traces
MOS_CURV_COEFF FITS table Spectral curvature coefficients
MOS_SPATIAL_MAP FITS image Spatial position along slit on CCD
MOS_SPECTRAL_RESOLUTION FITS table Resolution at reference arc lines
MOS_SLIT_LOCATION FITS table Slits on product frames and CCD
GLOBAL_DISTORTION_TABLE FITS table Global distortions table
OPTIONS
--dispersion <float>
Expected spectral dispersion (Angstrom/pixel) (float; default: 0.0). The full name of this option
for the EsoRex configuration file is vimos.vmmoscalib.dispersion [default = 0.0].
--peakdetection <float>
Initial peak detection threshold (ADU) (float; default: 0.0). The full name of this option for the
EsoRex configuration file is vimos.vmmoscalib.peakdetection [default = 0.0].
--wdegree <int>
Degree of wavelength calibration polynomial (int; default: 0). The full name of this option for
the EsoRex configuration file is vimos.vmmoscalib.wdegree [default = 0].
--wradius <int>
Search radius if iterating pattern-matching with first-guess method (pixel) (int; default: 4). The
full name of this option for the EsoRex configuration file is vimos.vmmoscalib.wradius [default =
4].
--wreject <float>
Rejection threshold in dispersion relation fit (pixel) (float; default: 1.0). The full name of
this option for the EsoRex configuration file is vimos.vmmoscalib.wreject [default = 1.0].
--wmodelss <int>
Interpolation mode of wavelength solution (0 = no interpolation, 1 = fill gaps, 2 = global model)
(int; default: 2). The full name of this option for the EsoRex configuration file is
vimos.vmmoscalib.wmodelss [default = 2].
--wmodemos <int>
Interpolation mode of wavelength solution (0 = no interpolation, 1 = local (slit) solution, 2 =
global model) (int; default: 1). The full name of this option for the EsoRex configuration file is
vimos.vmmoscalib.wmodemos [default = 1].
--ignore_lines <str>
Catalog lines nearest to wavelengths in this list will be ignored for wavelength calibration (str;
default: ´´). The full name of this option for the EsoRex configuration file is
vimos.vmmoscalib.ignore_lines [default = ].
--used_linesets <str>
Linesets to use. Valid are ´standard´ and´extended´ (see column LINE_SET in the line catalogue)
(str; default: ´standard´). The full name of this option for the EsoRex configuration file is
vimos.vmmoscalib.used_linesets [default = standard].
--cdegree <int>
Degree of spectral curvature polynomial (int; default: 0). The full name of this option for the
EsoRex configuration file is vimos.vmmoscalib.cdegree [default = 0].
--cmode <int>
Interpolation mode of curvature solution applicable to MOS-like data (0 = no interpolation, 1 =
fill gaps, 2 = global model) (int; default: 1). The full name of this option for the EsoRex
configuration file is vimos.vmmoscalib.cmode [default = 1].
--startwavelength <float>
Start wavelength in spectral extraction (float; default: 0.0). The full name of this option for
the EsoRex configuration file is vimos.vmmoscalib.startwavelength [default = 0.0].
--endwavelength <float>
End wavelength in spectral extraction (float; default: 0.0). The full name of this option for the
EsoRex configuration file is vimos.vmmoscalib.endwavelength [default = 0.0].
--reference <float>
Reference wavelength for slit map (float; default: 0.0). The full name of this option for the
EsoRex configuration file is vimos.vmmoscalib.reference [default = 0.0].
--slit_ident <bool>
Attempt slit identification.For multiplexing data slit identification is always performed.
Switching it off will cause systematic errors in the absolute flux calibration if the FLAT_SED
correction is used (see pipeline manual for details) (bool; default: True). The full name of this
option for the EsoRex configuration file is vimos.vmmoscalib.slit_ident [default = True].
--s_degree <int>
Polynomial degree for the flat field fitting along spatial direction (int; default: -1). The full
name of this option for the EsoRex configuration file is vimos.vmmoscalib.s_degree [default = -1].
--sradius <int>
Smooth box radius for flat field along spatial direction (used if s_degree < 0) (int; default:
-1). The full name of this option for the EsoRex configuration file is vimos.vmmoscalib.sradius
[default = -1].
--d_nknots <int>
Number of knots in flat field fitting splines along dispersion direction (int; default: -1). The
full name of this option for the EsoRex configuration file is vimos.vmmoscalib.d_nknots [default =
-1].
--dradius <int>
Smooth box radius for flat field along dispersion direction (if d_knots < 0) (int; default: 10).
The full name of this option for the EsoRex configuration file is vimos.vmmoscalib.dradius
[default = 10].
--fit_threshold <float>
Threshold percentage for flat spline fitting with respect to the maximum (float; default: 0.01).
The full name of this option for the EsoRex configuration file is vimos.vmmoscalib.fit_threshold
[default = 0.01].
--line_ident_tol <float>
Tolerance for the ratio of detected lines vs reference lines. This is used during for arc line
identification. (float; default: 0.05). The full name of this option for the EsoRex configuration
file is vimos.vmmoscalib.line_ident_tol [default = 0.05].
--normalise_spa_local <bool>
If TRUE the normalization along the spatial axis is performed row-by- row otherwise a collapsed
slit is used. (bool; default: True). The full name of this option for the EsoRex configuration
file is vimos.vmmoscalib.normalise_spa_local [default = True].
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 vimos pipeline can be downloaded as a PDF file using the following URL:
ftp://ftp.eso.org/pub/dfs/pipelines/vimos/vimos-pipeline-manual-6.9.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 vimos pipeline are vimos_ima_bias(7), vimos_ima_dark(7), vimos_ima_det_noise(7),
vimos_ima_fringe(7), vimos_ima_science(7), vimos_ima_standard(7), vimos_ima_twilight_flat(7), vmbias(7),
vmdark(7), vmdet(7), vmifucalib(7), vmifucombine(7), vmifucombinecube(7), vmifuscience(7),
vmifustandard(7), vmmosscience(7), vmspphot(7)
VERSION
vmmoscalib 4.1.7
AUTHOR
Carlo Izzo <https://support.eso.org>
BUG REPORTS
Please report any problems to https://support.eso.org. Alternatively, you may send a report to the ESO
User Support Department <usd-help@eso.org>.
LICENSE
This file is currently part of the VIMOS Instrument Pipeline Copyright (C) 2002-2006 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., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA