xenial (7) kmos_illumination.7.gz
NAME
kmos_illumination - Create a frame to correct spatial non-uniformity of flatfield
SYNOPSIS
esorex kmos_illumination [OPTIONS] FILE.sof
DESCRIPTION
This recipe creates the spatial non-uniformity calibration frame needed for all three detectors. It must
be called after the kmo_wave_cal-recipe, which generates the spectral calibration frame needed in this
recipe. As input at least a sky, a master dark, a master flat and the spatial and spectral cali- bration
frames are required.
The created product, the illumination correction, can be used as input for kmo_std_star and kmo_sci_red.
BASIC PARAMETERS
--imethod The interpolation method used for reconstruction.
--range The spectral ranges to combine when collapsing the reconstructed cubes. e.g.
"x1_start,x1_end;x2_start,x2_end" (microns)
ADVANCED PARAMETERS
--flux Specify if flux conservation should be applied.
--add-all By default the first FLAT_SKY frame is omitted, since in the KMOS_spec_cal_skyflat template
this is an acquisition frame to estimate the needed exposure time for the subsequent FLAT_SKY frames. If
anyway all frames should be considered, set this parameter to TRUE.
--neighborhoodRange Defines the range to search for neighbors during reconstruction
--b_samples The number of samples in spectral direction for the reconstructed cube.
Ideally this number should be greater than 2048, the detector size.
--b_start --b_end Used to define manually the start and end wavelength for the reconstructed cube. By
default the internally defined values are used.
--cmethod Following methods of frame combination are available:
* ´ksigma´ (Default)
An iterative sigma clipping. For each position all pixels in the spectrum
are examined. If they deviate significantly, they will be rejected
according to the conditions:
val > mean + stdev * cpos_rej
and
val < mean - stdev * cneg_rej
where --cpos_rej, --cneg_rej and --citer are the corresponding
configuration parameters. In the first iteration median and percentile
level are used.
* ´median´
At each pixel position the median is calculated.
* ´average´
At each pixel position the average is calculated.
* ´sum´
At each pixel position the sum is calculated.
* ´min_max´
The specified nb of minimum and maximum pixel values will be rejected.
--cmax and --cmin apply to this method.
--cpos_rej --cneg_rej --citer see --cmethod=´ksigma´
--cmax --cmin see --cmethod=´min_max´
--pix_scale Change the pixel scale [arcsec]. Default of 0.2" results into cubes of 14x14pix, a scale of
0.1" results into cubes of 28x28pix, etc.
--suppress_extension If set to TRUE, the arbitrary filename extensions are supressed. If multiple
products with the same category are produced, they will be numbered consecutively starting from 0.
Input files:
DO CATG Type Explanation Required #Frames
-------- ----- ----------- -------- -------
FLAT_SKY F2D Sky exposures Y 1-n
(at least 3 frames recommended)
MASTER_DARK F2D Master dark Y 1
MASTER_FLAT F2D Master flat Y 1
XCAL F2D x calibration frame Y 1
YCAL F2D y calibration frame Y 1
LCAL F2D Wavelength calib. frame Y 1
WAVE_BAND F2L Table with start-/end-wavelengths Y 1
FLAT_EDGE F2L Table with fitted slitlet edges N 0,1
Output files:
DO CATG Type Explanation
-------- ----- -----------
ILLUM_CORR F2I Illumination calibration frame
If FLAT_EDGE is provided:
SKYFLAT_EDGE F2L Frame containing parameters of fitted
slitlets of all IFUs of all detectors
OPTIONS
--imethod <str>
Method to use for interpolation: ["NN" (nearest neighbour), "lwNN" (linear weighted nearest
neighbor), "swNN" (square weighted nearest neighbor), "MS" (Modified Shepard´s method), "CS"
(Cubic spline)] (str; default: ´CS´). The full name of this option for the EsoRex configuration
file is kmos.kmos_illumination.imethod [default = CS].
--neighborhoodRange <float>
Range (pixels) to search for neighbors (float; default: 1.001). The full name of this option for
the EsoRex configuration file is kmos.kmos_illumination.neighborhoodRange [default = 1.001].
--range <str>
The spectral ranges to combine when collapsing the reconstructed cubes. e.g.
"x1_start,x1_end;x2_start,x2_end" (microns) (str; default: ´´). The full name of this option for
the EsoRex configuration file is kmos.kmos_illumination.range [default = ].
--flux <bool>
TRUE: Apply flux conservation. FALSE: otherwise (bool; default: False). The full name of this
option for the EsoRex configuration file is kmos.kmos_illumination.flux [default = False].
--add-all <bool>
FALSE: omit 1st FLAT_SKY frame (acquisition), TRUE: don´t perform any checks, add them all (bool;
default: False). The full name of this option for the EsoRex configuration file is
kmos.kmos_illumination.add-all [default = False].
--pix_scale <float>
Change the pixel scale [arcsec]. Default of 0.2" results into cubes of 14x14pix, a scale of 0.1"
results into cubes of 28x28pix, etc. (float; default: 0.2). The full name of this option for the
EsoRex configuration file is kmos.kmos_illumination.pix_scale [default = 0.2].
--suppress_extension <bool>
Suppress filename extension. (TRUE (apply) or FALSE (don´t apply) (bool; default: False). The full
name of this option for the EsoRex configuration file is kmos.kmos_illumination.suppress_extension
[default = False].
--b_samples <long>
The number of samples in wavelength for the reconstructed cube (long; default: 2048). The full
name of this option for the EsoRex configuration file is kmos.kmos_illumination.b_samples [default
= 2048].
--b_start <float>
The lowest wavelength [um] to use when reconstructing. Derived by default, depending on the band
(float; default: -1.0). The full name of this option for the EsoRex configuration file is
kmos.kmos_illumination.b_start [default = -1.0].
--b_end <float>
The highest wavelength [um] to use when reconstructing. Derived by default, depending on the band
(float; default: -1.0). The full name of this option for the EsoRex configuration file is
kmos.kmos_illumination.b_end [default = -1.0].
--cmethod <str>
Apply "average", "median", "sum", "min_max." or "ksigma". (str; default: ´ksigma´). The full name
of this option for the EsoRex configuration file is kmos.kmos_illumination.cmethod [default =
ksigma].
--cpos_rej <float>
The positive rejection threshold for kappa-sigma-clipping (sigma). (float; default: 3.0). The
full name of this option for the EsoRex configuration file is kmos.kmos_illumination.cpos_rej
[default = 3.0].
--cneg_rej <float>
The negative rejection threshold for kappa-sigma-clipping (sigma). (float; default: 3.0). The
full name of this option for the EsoRex configuration file is kmos.kmos_illumination.cneg_rej
[default = 3.0].
--citer <long>
The number of iterations for kappa-sigma-clipping. (long; default: 3). The full name of this
option for the EsoRex configuration file is kmos.kmos_illumination.citer [default = 3].
--cmax <long>
The number of maximum pixel values to clip with min/max-clipping. (long; default: 1). The full
name of this option for the EsoRex configuration file is kmos.kmos_illumination.cmax [default =
1].
--cmin <long>
The number of minimum pixel values to clip with min/max-clipping. (long; default: 1). The full
name of this option for the EsoRex configuration file is kmos.kmos_illumination.cmin [default =
1].
--det <long>
Only reduce the specified detector (long; default: 0). The full name of this option for the EsoRex
configuration file is kmos.kmos_illumination.detector [default = 0].
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 kmos pipeline can be downloaded as a PDF file using the following URL:
ftp://ftp.eso.org/pub/dfs/pipelines/kmos/kmos-pipeline-manual-2.9.pdf
An overview over the existing ESO pipelines can be found on the web page
http://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
http://packages.python.org/python-cpl/index.html for further information.
The other recipes of the kmos pipeline are kmo_arithmetic(7), kmo_copy(7), kmo_fit_profile(7),
kmo_fits_check(7), kmo_fits_strip(7), kmo_illumination_flat(7), kmo_make_image(7), kmo_noise_map(7),
kmo_rotate(7), kmo_shift(7), kmo_sky_mask(7), kmo_stats(7), kmos_combine(7), kmos_dark(7),
kmos_extract_spec(7), kmos_flat(7), kmos_gen_reflines(7), kmos_reconstruct(7), kmos_sci_red(7),
kmos_sky_tweak(7), kmos_std_star(7), kmos_test(7), kmos_wave_cal(7)
VERSION
kmos_illumination 1.3.17
AUTHOR
Alex Agudo Berbel, Yves Jung <usd-help@eso.org>
BUG REPORTS
Please report any problems to usd-help@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 CRIRES Instrument Pipeline Copyright (C) 2002,2003 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