Provided by: cpl-plugin-giraf-doc_2.16.8+dfsg-1_all 
NAME
gimasterflat - Create the fiber master flat field and the localization mask.
SYNOPSIS
esorex gimasterflat [OPTIONS] FILE.sof
DESCRIPTION
For detailed information please refer to the GIRAFFE pipeline user manual.
It is available at http://www.eso.org/pipelines.
OPTIONS
--fiber-splist <str>
Index list of spectra to use for localization (e.g. 2,10,30-40,55). (str; default:
´´). The full name of this option for the EsoRex configuration file is
giraffe.fibers.spectra [default = ].
--fiber-nspec <int>
Number of spectra to localize. (int; default: 0). The full name of this option for
the EsoRex configuration file is giraffe.fibers.nspectra [default = 0].
--remove-bias <bool>
Enable bias removal (bool; default: True). The full name of this option for the
EsoRex configuration file is giraffe.biasremoval.remove [default = True].
--bsremove-method <str>
Bias removal method (str; default: ´PROFILE´). The full name of this option for the
EsoRex configuration file is giraffe.biasremoval.method [default = PROFILE].
--bsremove-areas <str>
Bias areas to use (Xl0:Xr0:Yl0:Yr0, ... ,Xln:Xrn:Yln:Yrn) (str; default:
´5:40:0:4095´). The full name of this option for the EsoRex configuration file is
giraffe.biasremoval.areas [default = 5:40:0:4095].
--bsremove-sigma <float>
Sigma Clipping: sigma threshold factor (float; default: 2.5). The full name of this
option for the EsoRex configuration file is giraffe.biasremoval.sigma [default =
2.5].
--bsremove-niter <int>
Sigma Clipping: maximum number of iterations (int; default: 5). The full name of
this option for the EsoRex configuration file is giraffe.biasremoval.iterations
[default = 5].
--bsremove-mfrac <float>
Sigma Clipping: minimum fraction of points accepted/total [0.0..1.0] (float;
default: 0.8). The full name of this option for the EsoRex configuration file is
giraffe.biasremoval.fraction [default = 0.8].
--bsremove-xorder <int>
Order of X polynomial fit (CURVE method only) (int; default: 1). The full name of
this option for the EsoRex configuration file is giraffe.biasremoval.xorder
[default = 1].
--bsremove-yorder <int>
Order of Y polynomial fit (CURVE method only) (int; default: 1). The full name of
this option for the EsoRex configuration file is giraffe.biasremoval.yorder
[default = 1].
--bsremove-xstep <int>
Sampling step along X (CURVE method only) (int; default: 1). The full name of this
option for the EsoRex configuration file is giraffe.biasremoval.xstep [default =
1].
--bsremove-ystep <int>
Sampling step along Y (CURVE method only) (int; default: 1). The full name of this
option for the EsoRex configuration file is giraffe.biasremoval.ystep [default =
1].
--sloc-mode <str>
Localization mode: Use all spectra or the 5 SIWC spectra (str; default: ´all´). The
full name of this option for the EsoRex configuration file is
giraffe.localization.mode [default = all].
--sloc-start <int>
Bin along x-axis (int; default: -1). The full name of this option for the EsoRex
configuration file is giraffe.localization.start [default = -1].
--sloc-retries <int>
Initial localization detection xbin retries. (int; default: 10). The full name of
this option for the EsoRex configuration file is giraffe.localization.retries
[default = 10].
--sloc-binsize <int>
Initial localization detection xbin size. (int; default: -1). The full name of this
option for the EsoRex configuration file is giraffe.localization.binsize [default =
-1].
--sloc-ewidth <float>
Localization detection extra width. (float; default: 1.0). The full name of this
option for the EsoRex configuration file is giraffe.localization.ewidth [default =
1.0].
--sloc-ywidth <int>
Full width [pxl] of the equilizing filter (distance between two adjacent fibers).
(int; default: -1). The full name of this option for the EsoRex configuration file
is giraffe.localization.ywidth [default = -1].
--sloc-center <str>
Method used for mask center computation. (str; default: ´centroid´). The full name
of this option for the EsoRex configuration file is giraffe.localization.center
[default = centroid].
--sloc-norm <bool>
Enable spectrum normalization along the dispersion axis. (bool; default: False).
The full name of this option for the EsoRex configuration file is
giraffe.localization.normalize [default = False].
--sloc-noise <float>
Threshold multiplier. (float; default: 7.0). The full name of this option for the
EsoRex configuration file is giraffe.localization.noise [default = 7.0].
--sloc-threshold <str>
Selects thresholding algorithm: local, row or global (str; default: ´local´). The
full name of this option for the EsoRex configuration file is
giraffe.localization.threshold [default = local].
--sloc-ron <float>
New bias sigma (RON) value for dark subtraction (float; default: -1.0). The full
name of this option for the EsoRex configuration file is giraffe.localization.ron
[default = -1.0].
--sloc-yorder <int>
Order of Chebyshev polynomial fit. (int; default: 4). The full name of this option
for the EsoRex configuration file is giraffe.localization.yorder [default = 4].
--sloc-worder <int>
Order of Chebyshev 2D polynomial fit. (int; default: 2). The full name of this
option for the EsoRex configuration file is giraffe.localization.worder [default =
2].
--sloc-sigma <float>
Localization clipping: sigma threshold factor (float; default: 2.5). The full name
of this option for the EsoRex configuration file is giraffe.localization.sigma
[default = 2.5].
--sloc-niter <int>
Localization clipping: number of iterations (int; default: 5). The full name of
this option for the EsoRex configuration file is giraffe.localization.iterations
[default = 5].
--sloc-mfrac <float>
Localization clipping: minimum fraction of points accepted/total. (float; default:
0.9). The full name of this option for the EsoRex configuration file is
giraffe.localization.fraction [default = 0.9].
--psf-model <str>
PSF profile model: `psfexp´, `psfexp2´ (str; default: ´psfexp2´). The full name of
this option for the EsoRex configuration file is giraffe.psf.model [default =
psfexp2].
--psf-norm <bool>
Use normalized pixel values. (bool; default: False). The full name of this option
for the EsoRex configuration file is giraffe.psf.normalize [default = False].
--psf-binsize <int>
Size of bin along dispersion axis (int; default: 64). The full name of this option
for the EsoRex configuration file is giraffe.psf.binsize [default = 64].
--psf-maxwidth <float>
Maximum width of the PSF profile. (float; default: 16.0). The full name of this
option for the EsoRex configuration file is giraffe.psf.maxwidth [default = 16.0].
--psf-width <float>
Initial width of the PSF profile. (float; default: 0.0). The full name of this
option for the EsoRex configuration file is giraffe.psf.width [default = 0.0].
--psf-exponent <float>
Exponent of the exponential PSF profile (will not be fitted if > 0). (float;
default: -3.0). The full name of this option for the EsoRex configuration file is
giraffe.psf.exponent [default = -3.0].
--psf-pfniter <int>
Maximum number of iterations used for the fit of the fiber PSF profile. (int;
default: 120). The full name of this option for the EsoRex configuration file is
giraffe.psf.profile.iterations [default = 120].
--psf-pfntest <int>
Maximum number of tests used for the fit of the fiber PSF profile (int; default:
7). The full name of this option for the EsoRex configuration file is
giraffe.psf.profile.tests [default = 7].
--psf-pfdchisq <float>
Minimum chi-square difference used for the fit of the fiber PSF profile. (float;
default: 0.001). The full name of this option for the EsoRex configuration file is
giraffe.psf.profile.dchisquare [default = 0.001].
--psf-prmfit <bool>
2D fit of the PSF profile parameters using a Chebyshev polynomial model. (bool;
default: False). The full name of this option for the EsoRex configuration file is
giraffe.psf.parameters.fit [default = False].
--psf-yorder <int>
Order of Chebyshev polynomial fit. (int; default: 4). The full name of this option
for the EsoRex configuration file is giraffe.psf.parameters.yorder [default = 4].
--psf-worder <int>
Order of Chebyshev 2D polynomial fit. (int; default: 4). The full name of this
option for the EsoRex configuration file is giraffe.psf.parameters.worder [default
= 4].
--psf-sigma <float>
PSF parameter fitting: sigma threshold factor (float; default: 3.5). The full name
of this option for the EsoRex configuration file is giraffe.psf.parameters.sigma
[default = 3.5].
--psf-niter <int>
PSF parameter fitting: number of iterations (int; default: 10). The full name of
this option for the EsoRex configuration file is giraffe.psf.parameters.iterations
[default = 10].
--psf-mfrac <float>
PSF parameter fitting: minimum fraction of points accepted/total. (float; default:
0.8). The full name of this option for the EsoRex configuration file is
giraffe.psf.parameters.fraction [default = 0.8].
--extr-method <str>
Extraction method: ´SUM´, ´HORNE´ or ´OPTIMAL´ (str; default: ´SUM´). The full name
of this option for the EsoRex configuration file is giraffe.extraction.method
[default = SUM].
--extr-ron <float>
New bias sigma (RON) value for bias and dark corrected image (float; default:
-1.0). The full name of this option for the EsoRex configuration file is
giraffe.extraction.ron [default = -1.0].
--extr-psfmodel <str>
PSF profile model: `psfexp´, `psfexp2´ (str; default: ´psfexp2´). The full name of
this option for the EsoRex configuration file is giraffe.extraction.psf.model
[default = psfexp2].
--extr-psfsigma <float>
Sigma clippging threshold used for rejecting data points during PSF fitting
(Horne´s sigma). It is used to reject bad pixels and cosmics. (float; default:
7.0). The full name of this option for the EsoRex configuration file is
giraffe.extraction.psf.sigma [default = 7.0].
--extr-psfniter <int>
Maximum number of iterations used for fitting the PSF profile. (int; default: 2).
The full name of this option for the EsoRex configuration file is
giraffe.extraction.psf.iterations [default = 2].
--extr-hewidth <int>
Horne extraction method: Number of extra pixels added to the fiber half-width.
(int; default: 2). The full name of this option for the EsoRex configuration file
is giraffe.extraction.horne.extrawidth [default = 2].
--extr-hmingood <int>
Horne extraction method: Minimum number of points used for the profile fit. It sets
the lower limit of data points for the pixel rejection. (int; default: 3). The
full name of this option for the EsoRex configuration file is
giraffe.extraction.horne.mingood [default = 3].
--extr-omfrac <float>
Optimal extraction method: Minimum fraction of the data points used for fitting the
fiber profiles. It sets the lower limit for the pixel rejection. (float; default:
0.9). The full name of this option for the EsoRex configuration file is
giraffe.extraction.optimal.fraction [default = 0.9].
--extr-owfactor <float>
Optimal extraction method: Factor by which the fiber PSF half width is multiplied.
Adjacent spectra within this area are assumed to affect the spectrum being
extracted. (float; default: 3.0). The full name of this option for the EsoRex
configuration file is giraffe.extraction.optimal.wfactor [default = 3.0].
--extr-obkgorder <int>
Optimal extraction method: Order of the polynomial background model, which is
fitted for each wavelength bin along the spatial direction. (int; default: 2). The
full name of this option for the EsoRex configuration file is
giraffe.extraction.optimal.bkgorder [default = 2].
--transmission <bool>
Controls the relative fiber transmission computation. (bool; default: True). The
full name of this option for the EsoRex configuration file is
giraffe.masterflat.transmission [default = True].
--slight <bool>
Controls the scattered light model computation. (bool; default: False). The full
name of this option for the EsoRex configuration file is giraffe.masterflat.slight
[default = False].
--slight-model <str>
Name of the scattered light model to use. (str; default: ´polynom´). The full name
of this option for the EsoRex configuration file is giraffe.slight.model.name
[default = polynom].
--slight-order <str>
Scattered light model fit X and Y order. (str; default: ´4,2´). The full name of
this option for the EsoRex configuration file is giraffe.slight.model.order
[default = 4,2].
--slight-xstep <int>
Interspectrum region sampling step along the dispersion direction. (int; default:
10). The full name of this option for the EsoRex configuration file is
giraffe.slight.xstep [default = 10].
--slight-ystep <int>
Interspectrum region sampling step along the spatial direction. (int; default: 1).
The full name of this option for the EsoRex configuration file is
giraffe.slight.ystep [default = 1].
--slight-xslice <str>
Interspectrum region sampling step along the dispersion direction for a specific
region. This overrides ´xstep´ for the given region. (str; default: ´none´). The
full name of this option for the EsoRex configuration file is giraffe.slight.xslice
[default = none].
--slight-ewidth <float>
Extra width [pixels] added to both sides of a spectrum trace. (float; default:
0.5). The full name of this option for the EsoRex configuration file is
giraffe.slight.ewidth [default = 0.5].
--slight-iswidth <int>
Minimum width [pixels] required for interspectrum regions. (int; default: 2). The
full name of this option for the EsoRex configuration file is
giraffe.slight.iswidth [default = 2].
--slight-istrim <bool>
Turn off using the first and last interspectrum region. (bool; default: True). The
full name of this option for the EsoRex configuration file is giraffe.slight.istrim
[default = True].
--slight-phff <bool>
Use photometric flat field correction. (bool; default: False). The full name of
this option for the EsoRex configuration file is giraffe.slight.phffcorrection
[default = False].
--slight-remove <bool>
Remove scattered light from the input frame. (bool; default: False). The full name
of this option for the EsoRex configuration file is giraffe.slight.remove [default
= False].
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 giraf pipeline can be downloaded as a PDF file using the
following URL:
ftp://ftp.eso.org/pub/dfs/pipelines/giraffe/giraf-pipeline-manual-2.11.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 giraf pipeline are giframestack(7), gimasterbias(7),
gimasterdark(7), giscience(7), gistandard(7), giwavecalibration(7)
VERSION
gimasterflat 2.16.8
AUTHOR
Giraffe Pipeline <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 GIRAFFE Instrument Pipeline
Copyright (C) 2002-2014 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