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muse_lingain - Compute the gain and a model of the residual non-linearity for

MUSE_LINGAIN(7) muse recipes MUSE_LINGAIN(7)

NAME

muse_lingain - Compute the gain and a model of the residual non-linearity for each detector quadrant
 

SYNOPSIS

esorex muse_lingain [OPTIONS] FILE.sof
 

DESCRIPTION

The recipe uses the bias and flat field images of a detector monitoring exposure sequence to determine the detector gain in counts/ADU and to model the residual non-linearity for each of the four detector quadrants of all IFUs. All measurements done by the recipe are done on the illuminated parts of the detector, i.e. on the slices. The location of the slices is taken from the given trace table, which is a mandatory input. Using the traces of the slices on the detector a set of measurement windows is placed along these traces. The data used for the determination of the gain and the residual non-linearity is the taken from these windows. Bad pixels indicated by an, optionally, provided bad pixel table, or flagged during the preprocessing (bias subtraction) of the input data are excluded from the measurements. Local measurements of the read-out-noise, the signal and the gain are calculated for each of the measurement windows. Using these measurements the gain for each detector quadrant is computed as the zero-order coefficient of a 1st order polynomial fitted to the binned gain measurements as a function of the signal level. The residual non-linearity is modelled by a (high) order polynomial which is fitted to the fractional percentage deviation of the count rate from an expected constant count rate (the linear case) as function of the signal level.
 

OPTIONS

--nifu <long>
IFU to handle. If set to 0, all IFUs are processed serially. If set to -1, all IFUs are processed in parallel. (long; default: 0). The full name of this option for the EsoRex configuration file is muse.muse_lingain.nifu [default = 0].
--ybox <long>
Size of windows along the traces of the slices. (long; default: 50). The full name of this option for the EsoRex configuration file is muse.muse_lingain.ybox [default = 50].
--xgap <long>
Extra offset from tracing edge. (long; default: 3). The full name of this option for the EsoRex configuration file is muse.muse_lingain.xgap [default = 3].
--xborder <long>
Extra offset from the detector edge used for the selection of slices. (long; default: 10). The full name of this option for the EsoRex configuration file is muse.muse_lingain.xborder [default = 10].
--order <long>
Order of the polynomial used to fit the non-linearity residuals. (long; default: 12). The full name of this option for the EsoRex configuration file is muse.muse_lingain.order [default = 12].
--toffset <float>
Exposure time offset in seconds to apply to linearity flat fields. (float; default: 0.018). The full name of this option for the EsoRex configuration file is muse.muse_lingain.toffset [default = 0.018].
--fluxtol <float>
Tolerance value for the overall flux consistency check of a pair of flat fields. The value is the maximum relative offset. (float; default: 0.01). The full name of this option for the EsoRex configuration file is muse.muse_lingain.fluxtol [default = 0.01].
--sigma <float>
Sigma value used for signal value clipping. (float; default: 3.0). The full name of this option for the EsoRex configuration file is muse.muse_lingain.sigma [default = 3.0].
--signalmin <float>
Minimum signal value in log(ADU) used for the gain analysis and the non-linearity polynomial model. (float; default: 0.0). The full name of this option for the EsoRex configuration file is muse.muse_lingain.signalmin [default = 0.0].
--signalmax <float>
Maximum signal value in log(ADU) used for the gain analysis and the non-linearity polynomial model. (float; default: 4.9). The full name of this option for the EsoRex configuration file is muse.muse_lingain.signalmax [default = 4.9].
--signalbin <float>
Size of a signal bin in log10(ADU) used for the gain analysis and the non-linearity polynomial model. (float; default: 0.1). The full name of this option for the EsoRex configuration file is muse.muse_lingain.signalbin [default = 0.1].
--gainlimit <float>
Minimum signal value [ADU] used for fitting the gain relation. (float; default: 100.0). The full name of this option for the EsoRex configuration file is muse.muse_lingain.gainlimit [default = 100.0].
--gainsigma <float>
Sigma value for gain value clipping. (float; default: 3.0). The full name of this option for the EsoRex configuration file is muse.muse_lingain.gainsigma [default = 3.0].
--ctsmin <float>
Minimum signal value in log(counts) to consider for the non-linearity analysis. (float; default: 3.0). The full name of this option for the EsoRex configuration file is muse.muse_lingain.ctsmin [default = 3.0].
--ctsmax <float>
Maximum signal value in log(counts) to consider for the non-linearity analysis. (float; default: 4.9). The full name of this option for the EsoRex configuration file is muse.muse_lingain.ctsmax [default = 4.9].
--ctsbin <float>
Size of a signal bin in log10(counts) used for the non-linearity analysis. (float; default: 0.1). The full name of this option for the EsoRex configuration file is muse.muse_lingain.ctsbin [default = 0.1].
--linearmin <float>
Lower limit of desired linear range in log10(counts). (float; default: 2.5). The full name of this option for the EsoRex configuration file is muse.muse_lingain.linearmin [default = 2.5].
--linearmax <float>
Upper limit of desired linear range in log10(counts). (float; default: 3.0). The full name of this option for the EsoRex configuration file is muse.muse_lingain.linearmax [default = 3.0].
--merge <bool>
Merge output products from different IFUs into a common file. (bool; default: False). The full name of this option for the EsoRex configuration file is muse.muse_lingain.merge [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 muse pipeline can be downloaded as a PDF file using the following URL:
ftp://ftp.eso.org/pub/dfs/pipelines/muse/muse-pipeline-cookbook-2.0.3.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 muse pipeline are muse_ampl(7), muse_astrometry(7), muse_bias(7), muse_create_sky(7), muse_dark(7), muse_exp_align(7), muse_exp_combine(7), muse_flat(7), muse_geometry(7), muse_lsf(7), muse_qi_mask(7), muse_scibasic(7), muse_scipost(7), muse_scipost_apply_astrometry(7), muse_scipost_calibrate_flux(7), muse_scipost_combine_pixtables(7), muse_scipost_correct_dar(7), muse_scipost_correct_rv(7), muse_scipost_make_cube(7), muse_scipost_subtract_sky(7), muse_scipost_subtract_sky_simple(7), muse_standard(7), muse_twilight(7), muse_wavecal(7)
 

VERSION

muse_lingain 2.0.3
 

AUTHOR

Ralf Palsa <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 MUSE Instrument Pipeline Copyright (C) 2005, 2017 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
2.0.3 muse_lingain