Provided by: cpl-plugin-uves-doc_6.1.6+dfsg-1build1_all 
NAME
uves_cal_tflat - Reduces a TFLAT frame
SYNOPSIS
esorex uves_cal_tflat [OPTIONS] FILE.sof
DESCRIPTION
This recipe reduces a TFLAT_xxx frame (xxx = BLUE,RED). This is achieved by 1) combining
all provided TFLAT frames to a MASTER_TFLAT frame, then 2) doing a normal science
reduction on the first input TFLAT frame Input frames are raw TFLAT_xxx frames, and:
order table(s) for each chip, ORDER_TABLE_xxxx (where xxxx=BLUE, REDL, REDU), line
table(s) for each chip, LINE_TABLE_xxxx, a master bias frame, MASTER_BIAS_xxxx, a master
flat, MASTER_FLAT_xxxx,
OPTIONS
--backsub.mmethod <str>
Background measuring method. If equal to ´median´ the background is sampled using
the median of a subwindow. If ´minimum´, the subwindow minimum value is used. If
´no´, no background subtraction is done. (str; default: ´median´). The full name
of this option for the EsoRex configuration file is uves_cal_tflat.backsub.mmethod
[default = median].
--backsub.npoints <int>
This is the number of columns in interorder space used to sample the background.
(int; default: 82). The full name of this option for the EsoRex configuration file
is uves_cal_tflat.backsub.npoints [default = 82].
--backsub.radiusy <int>
The height (in pixels) of the background sampling window is (2*radiusy + 1). This
parameter is not corrected for binning. (int; default: 2). The full name of this
option for the EsoRex configuration file is uves_cal_tflat.backsub.radiusy [default
= 2].
--backsub.sdegree <int>
Degree of interpolating splines. Currently only degree = 1 is supported (int;
default: 1). The full name of this option for the EsoRex configuration file is
uves_cal_tflat.backsub.sdegree [default = 1].
--backsub.smoothx <float>
If spline interpolation is used to measure the background, the x-radius of the
post-smoothing window is (smoothx * image_width). Here, ´image_width´ is the image
width after binning. If negative, the default values are used: (25.0/4096) for blue
flat-field frames, (50.0/4096) for red flat-field frames, (300.0/4096) for blue
science frames and (300.0/4096) for red science frames. (float; default: -1.0). The
full name of this option for the EsoRex configuration file is
uves_cal_tflat.backsub.smoothx [default = -1.0].
--backsub.smoothy <float>
If spline interpolation is used to measure the background, the y-radius of the
post-smoothing window is (smoothy * image_height). Here, ´image_height´ is the
image height after binning. If negative, the default values are used: (100.0/2048)
for blue flat-field frames, (300.0/2048) for red flat-field frames, (200.0/2048)
for blue science frames and (500.0/2048) for red science frames. (float; default:
-1.0). The full name of this option for the EsoRex configuration file is
uves_cal_tflat.backsub.smoothy [default = -1.0].
--clean_traps <bool>
Clean detector traps. If TRUE detector traps are interpolated.The bad pixels are
replaced by the average of thenearest good pixels in the same column, or simply
marked as bad. The positions of bad pixels are hard-coded (as function of UVES
chip). (bool; default: False). The full name of this option for the EsoRex
configuration file is uves_cal_tflat.clean_traps [default = False].
--debug <bool>
Whether or not to save intermediate results to local directory (bool; default:
False). The full name of this option for the EsoRex configuration file is
uves.debug [default = False].
--norm_method <str>
Method used to build master frame (str; default: ´explevel´). The full name of
this option for the EsoRex configuration file is uves_cal_tflat.norm_method
[default = explevel].
--plotter <str>
Any plots produced by the recipe are redirected to the command specified by this
parameter. The plotting command must contain the substring ´gnuplot´ and must be
able to parse gnuplot syntax on its standard input. Valid examples of such a
command may include ´gnuplot -persist´ and ´cat > mygnuplot$$.gp´. A finer control
of the plotting options can be obtained by writing an executable script, e.g.
my_gnuplot.pl, that executes gnuplot after setting the desired gnuplot options
(e.g. set terminal pslatex color). To turn off plotting, set this parameter to ´no´
(str; default: ´no´). The full name of this option for the EsoRex configuration
file is uves.plotter [default = no].
--process_chip <str>
For RED arm data process the redl, redu, or both chip(s) (str; default: ´both´).
The full name of this option for the EsoRex configuration file is uves.process_chip
[default = both].
--reduce.backsub.mmethod <str>
Background measuring method. If equal to ´median´ the background is sampled using
the median of a subwindow. If ´minimum´, the subwindow minimum value is used. If
´no´, no background subtraction is done. (str; default: ´median´). The full name
of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.backsub.mmethod [default = median].
--reduce.backsub.npoints <int>
This is the number of columns in interorder space used to sample the background.
(int; default: 82). The full name of this option for the EsoRex configuration file
is uves_cal_tflat.reduce.backsub.npoints [default = 82].
--reduce.backsub.radiusy <int>
The height (in pixels) of the background sampling window is (2*radiusy + 1). This
parameter is not corrected for binning. (int; default: 2). The full name of this
option for the EsoRex configuration file is uves_cal_tflat.reduce.backsub.radiusy
[default = 2].
--reduce.backsub.sdegree <int>
Degree of interpolating splines. Currently only degree = 1 is supported (int;
default: 1). The full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.backsub.sdegree [default = 1].
--reduce.backsub.smoothx <float>
If spline interpolation is used to measure the background, the x-radius of the
post-smoothing window is (smoothx * image_width). Here, ´image_width´ is the image
width after binning. If negative, the default values are used: (25.0/4096) for blue
flat-field frames, (50.0/4096) for red flat-field frames, (300.0/4096) for blue
science frames and (300.0/4096) for red science frames. (float; default: -1.0). The
full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.backsub.smoothx [default = -1.0].
--reduce.backsub.smoothy <float>
If spline interpolation is used to measure the background, the y-radius of the
post-smoothing window is (smoothy * image_height). Here, ´image_height´ is the
image height after binning. If negative, the default values are used: (100.0/2048)
for blue flat-field frames, (300.0/2048) for red flat-field frames, (200.0/2048)
for blue science frames and (500.0/2048) for red science frames. (float; default:
-1.0). The full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.backsub.smoothy [default = -1.0].
--reduce.extract.best <bool>
(optimal extraction only) If false (fastest), the spectrum is extracted only once.
If true (best), the spectrum is extracted twice, the second time using improved
variance estimates based on the first iteration. Better variance estimates slightly
improve the obtained signal to noise but at the cost of increased execution time
(bool; default: True). The full name of this option for the EsoRex configuration
file is uves_cal_tflat.reduce.extract.best [default = True].
--reduce.extract.chunk <int>
In optimal extraction mode, the chunk size (in pixels) used for fitting the
analytical profile (a fit of the analytical profile to single bins would suffer
from low statistics). (int; default: 32). The full name of this option for the
EsoRex configuration file is uves_cal_tflat.reduce.extract.chunk [default = 32].
--reduce.extract.kappa <float>
In optimal extraction mode, this is the threshold for bad (i.e. hot/cold) pixel
rejection. If a pixel deviates more than kappa*sigma (where sigma is the
uncertainty of the pixel flux) from the inferred spatial profile, its weight is set
to zero. Range: [-1,100]. If this parameter is negative, no rejection is performed.
(float; default: 10.0). The full name of this option for the EsoRex configuration
file is uves_cal_tflat.reduce.extract.kappa [default = 10.0].
--reduce.extract.method <str>
Extraction method. (2d/optimal not supported by uves_cal_wavecal, weighted
supported only by uves_cal_wavecal, 2d not supported by uves_cal_response) (str;
default: ´average´). The full name of this option for the EsoRex configuration file
is uves_cal_tflat.reduce.extract.method [default = average].
--reduce.extract.oversample <int>
The oversampling factor used for the virtual resampling algorithm. If negative, the
value 5 is used for S/N <=200, and the value 10 is used if the estimated S/N is >
200 (int; default: -1). The full name of this option for the EsoRex configuration
file is uves_cal_tflat.reduce.extract.oversample [default = -1].
--reduce.extract.profile <str>
In optimal extraction mode, the kind of profile to use. ´gauss´ gives a Gaussian
profile, ´moffat´ gives a Moffat profile with beta=4 and a possible linear sky
contribution. ´virtual´ uses a virtual resampling algorithm (i.e. measures and uses
the actual object profile). ´constant´ assumes a constant spatial profile and
allows optimal extraction of wavelength calibration frames. ´auto´ will
automatically select the best method based on the estimated S/N of the object. For
low S/N, ´moffat´ or ´gauss´ are recommended (for robustness). For high S/N,
´virtual´ is recommended (for accuracy). In the case of virtual resampling, a
precise determination of the order positions is required; therefore the
order-definition is repeated using the (assumed non-low S/N) science frame (str;
default: ´auto´). The full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.extract.profile [default = auto].
--reduce.extract.skymethod <str>
In optimal extraction mode, the sky subtraction method to use. ´median´ estimates
the sky as the median of pixels along the slit (ignoring pixels close to the
object), whereas ´optimal´ does a chi square minimization along the slit to obtain
the best combined object and sky levels. The optimal method gives the most accurate
sky determination but is also a bit slower than the median method (str; default:
´optimal´). The full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.extract.skymethod [default = optimal].
--reduce.ffmethod <str>
Flat-fielding method. If set to ´pixel´, flat-fielding is done in pixel-pixel space
(before extraction); if set to ´extract´, flat- fielding is performed in
pixel-order space (i.e. after extraction). If set to ´no´, no flat-field correction
is done, in which case reduce.rebin.scale should be set to true to ensure flux
conservation (both for response and science data) (str; default: ´extract´). The
full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.ffmethod [default = extract].
--reduce.merge <str>
Order merging method. If ´optimal´, the flux in the overlapping region is set to
the (optimally computed, using the uncertainties) average of single order spectra.
If ´sum´, the flux in the overlapping region is computed as the sum of the single
order spectra. If ´noappend´ the spectrum is simply rebinned but not merged.If
flat-fielding is done, method ´optimal´ is recommended, otherwise ´sum´. (str;
default: ´optimal´). The full name of this option for the EsoRex configuration file
is uves_cal_tflat.reduce.merge [default = optimal].
--reduce.merge_delt1 <float>
Order merging left hand (short wavelength) cut. To reduce the amount of order
overlapping regions we allow to cut short and long wavelength ranges. This may
reduce the ripple possibly introduced by the order merging. Suggested values are:
10 (W<=390), 12 (390<W<=437, 520<W<=564), 14 (437<W<=520, 564<W) (float; default:
0.0). The full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.merge_delt1 [default = 0.0].
--reduce.merge_delt2 <float>
Order merging right hand (long wavelength) cut. To reduce the amount of order
overlapping regions we allow to cut short and long wavelength ranges. This may
reduce the ripple possibly introduced by the order merging. Suggested values is 4
(float; default: 0.0). The full name of this option for the EsoRex configuration
file is uves_cal_tflat.reduce.merge_delt2 [default = 0.0].
--reduce.objoffset <float>
Offset (in pixels) of extraction slit with respect to center of order. For optimal
extraction the full slit is offset. For linear/average extraction, reduce.objoffset
is ignored if reduce.objslit [default -1.0] is negative. In this case the offset is
automatically determined by measuring the actual object position. (float; default:
0.0). The full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.objoffset [default = 0.0].
--reduce.objslit <float>
Object window size (in pixels), ignored for optimal extraction. The value must be
smaller than the total slit length. If negative, the default value (half of full
slit length) is used. The upper and lower sky windows are defined as the part of
the full slit (if any) outside the object window. The center of the object window
is determined by the offset parameter. (float; default: -1.0). The full name of
this option for the EsoRex configuration file is uves_cal_tflat.reduce.objslit
[default = -1.0].
--reduce.rebin.scale <bool>
Whether or not to multiply by the factor dx/dlambda (pixels per wavelength) during
the rebinning to conserve the flux. This option is disabled as default because
applying the flat field correction already ensures flux conservation. Therefore
this parameter should be TRUE (for response and science data) only if
reduce.ffmethd = no. (bool; default: False). The full name of this option for the
EsoRex configuration file is uves_cal_tflat.reduce.rebin.scale [default = False].
--reduce.rebin.wavestep <float>
The bin size used for BLUE/REDL data (in w.l.u.) in wavelength space. If negative,
a step size of 2/3 * ( average pixel size ) is used. (float; default: -1.0). The
full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.rebin.wavestep [default = -1.0].
--reduce.rebin.wavestep_redu <float>
The bin size used for REDU data (in w.l.u.) in wavelength space. If negative, a
step size of 2/3 * ( average pixel size ) is used. (float; default: -1.0). The full
name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.rebin.wavestep_redu [default = -1.0].
--reduce.skysub <bool>
Do sky-subtraction (only applicable to linear and average extractions)? (bool;
default: False). The full name of this option for the EsoRex configuration file is
uves_cal_tflat.reduce.skysub [default = False].
--reduce.slitlength <float>
Extraction slit length (in pixels). If negative, the value inferred from the raw
frame header is used (float; default: -1.0). The full name of this option for the
EsoRex configuration file is uves_cal_tflat.reduce.slitlength [default = -1.0].
--reduce.tiltcorr <bool>
If enabled (recommended), the provided dispersion solutions obtained at different
slit positions are interpolated linearly at the actually measured position of the
object/sky. Line tilt correction is currently not supported for 2d extraction, in
which case the dispersion solution obtained at the middle of the slit is always
used. (bool; default: True). The full name of this option for the EsoRex
configuration file is uves_cal_tflat.reduce.tiltcorr [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 uves pipeline can be downloaded as a PDF file using the
following URL:
ftp://ftp.eso.org/pub/dfs/pipelines/uves/uves-pipeline-manual-6.1.6.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 uves pipeline are flames_cal_mkmaster(7), flames_cal_orderpos(7),
flames_cal_predict(7), flames_cal_prep_sff_ofpos(7), flames_cal_wavecal(7),
flames_obs_redchain(7), flames_obs_scired(7), flames_utl_unpack(7), uves_cal_cd_align(7),
uves_cal_mbias(7), uves_cal_mdark(7), uves_cal_mflat(7), uves_cal_mflat_combine(7),
uves_cal_mkmaster(7), uves_cal_orderpos(7), uves_cal_predict(7), uves_cal_response(7),
uves_cal_wavecal(7), uves_obs_redchain(7), uves_obs_scired(7), uves_utl_ima_arith(7),
uves_utl_remove_crh_single(7)
VERSION
uves_cal_tflat 6.1.6
AUTHOR
Jonas M. Larsen <cpl@eso.org>
BUG REPORTS
Please report any problems to cpl@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 FLAMES/UVES Pipeline Copyright (C) 2004, 2005, 2006, 2007
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 02111-1307 USA