Provided by: cpl-plugin-muse-doc_2.8.7+dfsg-3_all 
NAME
muse_exp_align - Create a coordinate offset table to be used to align exposures during
exposure combination.
SYNOPSIS
esorex muse_exp_align [OPTIONS] FILE.sof
DESCRIPTION
Compute the coordinate offset for each input field-of-view image with respect to a
reference. The created list of coordinate offsets can then be used in muse_exp_combine as
the field coordinate offsets to properly align the exposures during their combination. The
source positions used to compute the field offsets are obtained by detecting point sources
in each of the input images, unless the source detection is overridden and an input source
list is available for each input field-of-view image. In this latter case the input source
positions are used to calculate the field offsets.
OPTIONS
--rsearch <str>
Search radius (in arcsec) for each iteration of the offset computation. (str;
default: ´30.,4.,2.,0.8´). The full name of this option for the EsoRex
configuration file is muse.muse_exp_align.rsearch [default = 30.,4.,2.,0.8].
--nbins <int>
Number of bins to use for 2D histogram on the first iteration of the offset
computation. (int; default: 60). The full name of this option for the EsoRex
configuration file is muse.muse_exp_align.nbins [default = 60].
--weight <bool>
Use weighting. (bool; default: True). The full name of this option for the EsoRex
configuration file is muse.muse_exp_align.weight [default = True].
--fwhm <float>
FWHM in pixels of the convolution filter. (float; default: 5.0). The full name of
this option for the EsoRex configuration file is muse.muse_exp_align.fwhm [default
= 5.0].
--threshold <float>
Initial intensity threshold for detecting point sources. If the value is negative
or zero the threshold is taken as sigma above median background MAD. If it is
larger than zero the threshold is taken as absolute background level. (float;
default: 15.0). The full name of this option for the EsoRex configuration file is
muse.muse_exp_align.threshold [default = 15.0].
--bkgignore <float>
Fraction of the image to be ignored. (float; default: 0.05). The full name of this
option for the EsoRex configuration file is muse.muse_exp_align.bkgignore [default
= 0.05].
--bkgfraction <float>
Fraction of the image (without the ignored part) to be considered as background.
(float; default: 0.1). The full name of this option for the EsoRex configuration
file is muse.muse_exp_align.bkgfraction [default = 0.1].
--step <float>
Increment/decrement of the threshold value in subsequent iterations. (float;
default: 0.5). The full name of this option for the EsoRex configuration file is
muse.muse_exp_align.step [default = 0.5].
--iterations <int>
Maximum number of iterations used for detecting sources. (int; default: 100000).
The full name of this option for the EsoRex configuration file is
muse.muse_exp_align.iterations [default = 100000].
--srcmin <int>
Minimum number of sources which must be found. (int; default: 5). The full name of
this option for the EsoRex configuration file is muse.muse_exp_align.srcmin
[default = 5].
--srcmax <int>
Maximum number of sources which may be found. (int; default: 80). The full name of
this option for the EsoRex configuration file is muse.muse_exp_align.srcmax
[default = 80].
--roundmin <float>
Lower limit of the allowed point-source roundness. (float; default: -1.0). The full
name of this option for the EsoRex configuration file is
muse.muse_exp_align.roundmin [default = -1.0].
--roundmax <float>
Upper limit of the allowed point-source roundness. (float; default: 1.0). The full
name of this option for the EsoRex configuration file is
muse.muse_exp_align.roundmax [default = 1.0].
--sharpmin <float>
Lower limit of the allowed point-source sharpness. (float; default: 0.2). The full
name of this option for the EsoRex configuration file is
muse.muse_exp_align.sharpmin [default = 0.2].
--sharpmax <float>
Upper limit of the allowed point-source sharpness. (float; default: 1.0). The full
name of this option for the EsoRex configuration file is
muse.muse_exp_align.sharpmax [default = 1.0].
--expmap <bool>
Enables the creation of a simple exposure map for the combined field- of-view.
(bool; default: False). The full name of this option for the EsoRex configuration
file is muse.muse_exp_align.expmap [default = False].
--bpixdistance <float>
Minimum allowed distance of a source to the closest bad pixel in pixel. Detected
sources which are closer to a bad pixel are not taken into account when computing
the field offsets. This option has no effect if the source positions are taken from
input catalogs. (float; default: 5.0). The full name of this option for the EsoRex
configuration file is muse.muse_exp_align.bpixdistance [default = 5.0].
--override_detection <bool>
Overrides the source detection step. If this is enabled and source catalogs are
present in the input data set, the source positions used to calculate the field
offsets are read from the input catalogs. If no catalogs are available as input
data the source positions are detected on the input images. (bool; default: False).
The full name of this option for the EsoRex configuration file is
muse.muse_exp_align.override_detection [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-2.8.7.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 muse pipeline are muse_ampl(7), muse_astrometry(7), muse_bias(7),
muse_create_sky(7), muse_dark(7), muse_exp_combine(7), muse_flat(7), muse_geometry(7),
muse_illum(7), muse_lingain(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_raman(7),
muse_scipost_subtract_sky(7), muse_scipost_subtract_sky_simple(7), muse_standard(7),
muse_twilight(7), muse_wavecal(7)
VERSION
muse_exp_align 2.8.7
AUTHOR
Ralf Palsa <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 part of the MUSE Instrument Pipeline Copyright (C) 2005, 2019 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