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SINFO_REC_JITTER(7) - Linux man page online | Overview, conventions, and miscellany

Object or STD star or PSF star data reduction.

Chapter
3.0.0
SINFO_REC_JITTER(7) sinfo recipes SINFO_REC_JITTER(7)

NAME

sinfo_rec_jitter - Object or STD star or PSF star data reduction

SYNOPSIS

esorex sinfo_rec_jitter [OPTIONS] FILE.sof

DESCRIPTION

This recipe performs science data reduction. The input files are: science object and sky frames with tags OBJECT_NODDING and SKY_NOD‐ DING or Telluric standard star frames and sky frames with tags STD and SKY_STD or PSF standard star and sky frames with tags PSF_CALIBRATOR and SKY_PSF_CALIBRATOR and Master calibration frames: A corresponding (band,preoptics) wavelength map image with tag WAVE_MAP A corresponding (band,preoptics) master flat field with tag MASTER_FLAT_LAMP A corresponding (band,preoptics) master bad pixel map with tag MASTER_BP_MAP A corresponding (band,preoptics) slitlets position frame with tag SLIT_POS A corresponding (band) distor‐ tion table with tag DISTORTION A corresponding (band) slitlet distance table with tag SLITLETS_DISTANCE The output is an image resulting from the IMA1 op IMA2 where op indi‐ cates A reference table with the position of the first column with tag FIRST_COLUMN Rele‐ vant outputs are: combined cubes (PRO.CATG=x_OBS x=STD,OBJ,PSF) reconstructed cube (PRO.CATG=COADD_x_OBS x=STD,OBJ,PSF) An average along Z of the reconstructed cube (PRO.CATG=MED_x_OBS x=STD,OBJ,PSF) The bad pixel map associated to the cube (PRO.CATG=BP_MAP_COADD_x_OBS x=STD,OBJ,PSF)

OPTIONS

--gen-overpar <bool> Overwrite DRS ini parameters: (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.general.overwrite_parameters [default = True]. --lc_sw <bool> Correct for bad lines introduced by instrument software: (bool; default: False). The full name of this option for the EsoRex configuration file is sinfoni.gen‐ eral.lc_sw [default = False]. --lc_kappa <long> Kappa sigma value (long; default: 18). The full name of this option for the EsoRex configuration file is sinfoni.general.lc_kappa [default = 18]. --lc_filt_rad <long> Filtering radii applied during median filter. Should be small (long; default: 3). The full name of this option for the EsoRex configuration file is sinfoni.gen‐ eral.lc_filt_rad [default = 3]. --product-density <long> Density of pipeline products: 0 (low), 1 (low+skycor), 2 (med-QC), 3 (high-debug+skycor) (long; default: 2). The full name of this option for the EsoRex configuration file is sinfoni.product.density [default = 2]. --stack-lo_rej <float> lower rejection (float; default: 0.1). The full name of this option for the EsoRex configuration file is sinfoni.stacked.low_rejection [default = 0.1]. --stack-hi_rej <float> higher rejection (float; default: 0.1). The full name of this option for the EsoRex configuration file is sinfoni.stacked.high_rejection [default = 0.1]. --stack-flat_ind <bool> Flat Index: (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.stacked.flat_index [default = True]. --stack-mflat_norm_smooth <long> Normalize master flat to its smoothed value (to remove lamp response curve). 0 (no smooth). 1 (apply fft filter along y).2 (apply running median filter along y). (long; default: 0). The full name of this option for the EsoRex configuration file is sinfoni.stacked.mflat_norm_smooth [default = 0]. --stack-mflat_smooth_rad <long> Normalization smoothing radii (long; default: 16). The full name of this option for the EsoRex configuration file is sinfoni.stacked.mflat_smooth_rad [default = 16]. --stack-mask_ind <long> BP Mask Interpolation Switch: indicates if the bad pixel mask should be applied (1) or not (0) (long; default: 1). The full name of this option for the EsoRex config‐ uration file is sinfoni.stacked.mask_index [default = 1]. --stack-ind_ind <bool> indicates if the bad pixels should be indicated (yes) or interpolated (no) (bool; default: False). The full name of this option for the EsoRex configuration file is sinfoni.stacked.ind_index [default = False]. --stack-mask_rad <long> Max distance bad-good pix: (long; default: 4). The full name of this option for the EsoRex configuration file is sinfoni.stacked.mask_rad [default = 4]. --stack-gauss_ind <bool> Gaussian Convolution Switch: (bool; default: False). The full name of this option for the EsoRex configuration file is sinfoni.stacked.gauss_index [default = False]. --stack-khw <long> Kernel Half Width (long; default: 2). The full name of this option for the EsoRex configuration file is sinfoni.stacked.kernel_half_width [default = 2]. --stack-warpfix_ind <bool> Warp Fix Index: (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.stacked.warpfix_ind [default = True]. --stack-warpfix_kernel <str> Warpfix kernel: (str; default: ´tanh´). The full name of this option for the EsoRex configuration file is sinfoni.stacked.warpfix_kernel [default = tanh]. --stack-qc_thresh_min <long> qc_thresh_min (long; default: 0). The full name of this option for the EsoRex con‐ figuration file is sinfoni.stacked.qc_thresh_min [default = 0]. --stack-qc_thresh_max <long> qc_thresh_max (long; default: 49000). The full name of this option for the EsoRex configuration file is sinfoni.stacked.qc_thresh_max [default = 49000]. --stack-sub_raw_sky <bool> indicates if the raw sky frame should be subtracted (TRUE) or (FALSE) (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.stacked.sub_raw_sky [default = True]. --objnod-aj_method <long> Method to reduce autojitter template frames Raw frames are object only exposures. object-fake_sky pairs are generated. 0: no sky for all objects (long; default: 1). The full name of this option for the EsoRex configuration file is sin‐ foni.objnod.autojitter_method [default = 1]. --objnod-scales_sky <bool> Spatial median (sky) subtraction from cube: (If autojitter_method==1),indicates if the spatial median of each plane should be subtracted (TRUE) or not (FALSE) from each cube plane (bool; default: False). The full name of this option for the EsoRex configuration file is sinfoni.objnod.scales_sky [default = False]. --objnod-ks_clip <bool> Kappa-sigma clipping of coadded cube: indicates if a kappa-sigma clipping should be performed (TRUE) or not (FALSE) on each plane of the coadded cube (bool; default: True). The full name of this option for the EsoRex configuration file is sin‐ foni.objnod.ks_clip [default = True]. --objnod-kappa <float> kappa value for kappa-sigma clipping of coadded cube (float; default: 2.0). The full name of this option for the EsoRex configuration file is sinfoni.objnod.kappa [default = 2.0]. --objnod-size_x <long> Cube x size: x-pixel size of the final combined data cube,must lie between 64 and 128. If 0 it is computed automatically (long; default: 0). The full name of this option for the EsoRex configuration file is sinfoni.objnod.size_x [default = 0]. --objnod-size_y <long> Cube y size: y-pixel size of the final combined data cube,must lie between 64 and 128.If 0 it is computed automatically (long; default: 0). The full name of this option for the EsoRex configuration file is sinfoni.objnod.size_y [default = 0]. --objnod-no_coeffs <long> number of coefficients for the polynomial interpolation (long; default: 3). The full name of this option for the EsoRex configuration file is sin‐ foni.objnod.n_coeffs [default = 3]. --objnod-ns_ind <bool> Nord South Index Switch: indicates if the slitlet distances are determined by a north-south-test (TRUE) or slitlet edge fits (FALSE) (bool; default: True). The full name of this option for the EsoRex configuration file is sin‐ foni.objnod.nord_south_index [default = True]. --objnod-fine_tune_mtd <str> Fine Tuning Method: indicator for the shifting method to use (P: polynomial inter‐ polation, S: cubic spline interpolation) (str; default: ´P´). The full name of this option for the EsoRex configuration file is sinfoni.objnod.fine_tuning_method [default = P]. --objnod-order <long> Fine Tuning polynomial order: order of the polynomial if the polynomial interpola‐ tion shifting method is used. (long; default: 2). The full name of this option for the EsoRex configuration file is sinfoni.objnod.order [default = 2]. --objnod-lo_rej <float> lower rejection: percentage of rejected low value pixels for averaging the sky spectra (float; default: 10.0). The full name of this option for the EsoRex config‐ uration file is sinfoni.objnod.low_rejection [default = 10.0]. --objnod-hi_rej <float> higher rejection: percentage of rejected high value pixels for averaging the sky spectra (float; default: 10.0). The full name of this option for the EsoRex config‐ uration file is sinfoni.objnod.high_rejection [default = 10.0]. --objnod-tol <long> Tolerance: pixel tolerance, this distance tolerance to the diagonal dividing line is not considered for the sky extraction to be sure to have a clean sky due to positioning tolerance and crossing through pixels (long; default: 2). The full name of this option for the EsoRex configuration file is sinfoni.objnod.tolerance [default = 2]. --objnod-jit_ind <bool> Jitter Index: jitter mode indicator: TRUE: Auto-Jitter, FALSE: user defined jit‐ terThe size_x size_y kernel_type parameters are only used if jitterInd is set to yes, that means in auto-jittering mode! (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.objnod.jitter_index [default = True]. --objnod-kernel_typ <str> Kernel Type:the name of the interpolation kernel to shift the single cubes to the correct places inside the big combined cube (str; default: ´tanh´). The full name of this option for the EsoRex configuration file is sinfoni.objnod.kernel_type [default = tanh]. --objnod-vllx <long> Vignetting on llx: pixels vignetted from lower left corner X coordinate of con‐ tributing cubes before coaddition (long; default: 0). The full name of this option for the EsoRex configuration file is sinfoni.objnod.vllx [default = 0]. --objnod-vlly <long> Vignetting on lly: pixels vignetted from lower left corner Y coordinate of con‐ tributing cubes before coaddition (long; default: 0). The full name of this option for the EsoRex configuration file is sinfoni.objnod.vlly [default = 0]. --objnod-vurx <long> Vignetting on urx: pixels vignetted from upper right corner X coordinate of con‐ tributing cubes before coaddition (long; default: 0). The full name of this option for the EsoRex configuration file is sinfoni.objnod.vurx [default = 0]. --objnod-vury <long> Vignetting on ury: pixels vignetted from upper right corner Y coordinate of con‐ tributing cubes before coaddition (long; default: 0). The full name of this option for the EsoRex configuration file is sinfoni.objnod.vury [default = 0]. --objnod-fcol <float> First column offset: (float; default: 0.0). The full name of this option for the EsoRex configuration file is sinfoni.objnod.fcol [default = 0.0]. --objnod-sky_cor <bool> Sky residuals correction: (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.objnod.sky_cor [default = True]. --objnod-flux_cor <bool> Apply flux correction after rebinning: (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.objnod.flux_cor [default = True]. --objnod-mosaic_max_size <long> Maximum allowed size for cubes mosaic is 100*mosaic_max_size (long; default: 14196). The full name of this option for the EsoRex configuration file is sin‐ foni.objnod.mosaic_max_size [default = 14196]. --skycor-mask_ws <float> Starting wavelength for object-sky cross correlation (float; default: 1.4). The full name of this option for the EsoRex configuration file is sin‐ foni.sinfo_utl_skycor.mask_ws [default = 1.4]. --skycor-mask_we <float> End wavelength for object-sky cross correlation (float; default: 2.5). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_sky‐ cor.mask_we [default = 2.5]. --skycor-min_frac <float> Threshold value for fraction of spatial pixels to be sky (float; default: 0.8). The full name of this option for the EsoRex configuration file is sin‐ foni.sinfo_utl_skycor.min_frac [default = 0.8]. --skycor-sky_bkg_filter_width <long> Width of sky-thermal background pre filter (to remove emission lines before fitting a Black Body). (long; default: 12). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_skycor.sky_bkg_filter_width [default = 12]. --skycor-line_hw <float> Threshold value for full width in pixels of unresolved emission line. Lines with FWHM smaller than this value are not considered in the object-sky cross correlation and in computation of the optimal sky lines scaling factor (float; default: 4.0). The full name of this option for the EsoRex configuration file is sin‐ foni.sinfo_utl_skycor.line_half_width [default = 4.0]. --skycor-scale_method <long> Optimal sky lines scaling factor computation method: amoeba fit (0), maximum like‐ lihood (1) (long; default: 1). The full name of this option for the EsoRex config‐ uration file is sinfoni.sinfo_utl_skycor.scale_method [default = 1]. --skycor-rot_cor <bool> Computes scaling factor correction due to rotational levels transitions (bool; default: False). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_skycor.rot_cor [default = False]. --skycor-fit_obj_noise <bool> Do Gaussian fit of object noise (bool; default: False). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_skycor.fit_obj_noise [default = False]. --skycor-niter <long> Number of iterations of background fit (long; default: 10). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_skycor.niter [default = 10]. --skycor-pshift <float> Sky spectrum shift towar object (float; default: 0.0). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_skycor.pshift [default = 0.0]. --skycor-llx <long> Lower left X defining object spectrum location (long; default: 1). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_skycor.llx [default = 1]. --skycor-lly <long> Lower left Y defining object spectrum location (long; default: 1). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_skycor.lly [default = 1]. --skycor-urx <long> Upper right X defining object spectrum location (long; default: 64). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_skycor.urx [default = 64]. --skycor-ury <long> Upper right Y defining object spectrum location (long; default: 64). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_skycor.ury [default = 64]. --skycor-sub_thr_bkg_from_obj <bool> Subtract thermal background contribute from object spectra. Set it to TRUE if stack-sub_raw_sky is set to FALSE (bool; default: False). The full name of this option for the EsoRex configuration file is sinfoni.sinfo_utl_sky‐ cor.sub_thr_bkg_from_obj [default = False]. --std_star-switch <bool> Switch to activate spectrum extraction (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.std_star.switch [default = True]. --std_star-lo_rej <float> lower rejection (float; default: 0.1). The full name of this option for the EsoRex configuration file is sinfoni.std_star.low_rejection [default = 0.1]. --std_star-hi_rej <float> high rejection (float; default: 0.1). The full name of this option for the EsoRex configuration file is sinfoni.std_star.high_rejection [default = 0.1]. --std_star-fwhm_fct <float> Factor to find 2D-Gauss FWHM. The extraction box is: halfbox_x=halfbox_y=fwhm_fac‐ tor*(fwhm_x+fwhm_y)*0.5 (float; default: 5.0). The full name of this option for the EsoRex configuration file is sinfoni.std_star.fwhm_factor [default = 5.0]. --std_star-conv_ind <bool> Intensity Conversion Index: (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.std_star.conversion_index [default = True]. --std_star-compute_eff <bool> Compute efficiency: TRUE/FALSE (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.std_star.compute_eff [default = True]. --std_star-extract <str> Extraction Method: simple/optimal (str; default: ´simple´). The full name of this option for the EsoRex configuration file is sinfoni.std_star.extract [default = simple]. --std_star-pfm <str> Object Mask Post Filtering Method: erosion/dilation/closing (str; default: ´ero‐ sion´). The full name of this option for the EsoRex configuration file is sin‐ foni.std_star.pfm [default = erosion]. --std_star-pfx <long> X Size of the post filtering kernel. (long; default: 3). The full name of this option for the EsoRex configuration file is sinfoni.std_star.pfx [default = 3]. --std_star-pfy <long> Y Size of the post filtering kernel. (long; default: 3). The full name of this option for the EsoRex configuration file is sinfoni.std_star.pfy [default = 3]. --psf-switch <bool> Switch to activate PSF-related (Strehl/Encircled energy) computation (bool; default: True). The full name of this option for the EsoRex configuration file is sinfoni.psf.switch [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 sinfo pipeline can be downloaded as a PDF file using the following URL: ftp://ftp.eso.org/pub/dfs/pipelines/sinfoni/sinfo-pipeline-manual-19.0.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 sinfo pipeline are sinfo_rec_detlin(7), sinfo_rec_distortion(7), sinfo_rec_mdark(7), sinfo_rec_mflat(7), sinfo_rec_pupil(7), sinfo_rec_wavecal(7), sinfo_utl_bp_mask_add(7), sinfo_utl_cube2ima(7), sinfo_utl_cube2spectrum(7), sinfo_utl_cube_arith(7), sinfo_utl_cube_combine(7), sinfo_utl_cube_create(7), sinfo_utl_ima_arith(7), sinfo_utl_ima_line_corr(7), sinfo_utl_line_oh_select(7), sinfo_utl_skycor(7), sinfo_utl_skymap(7), sinfo_utl_spectrum_divide_by_blackbody(7), sinfo_utl_spectrum_wavelength_shift(7)

VERSION

sinfo_rec_jitter 3.0.0

AUTHOR

Andrea Modigliani <@eso.org>

BUG REPORTS

Please report any problems to @eso.org. Alternatively, you may send a report to the ESO User Support Department <@eso.org>.

LICENSE

This file is part of the SINFONI 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 ver‐ sion 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
sinfo_rec_jitter 3.0.0 SINFO_REC_JITTER(7)
This manual Reference Other manuals
sinfo_rec_jitter(7) referred by sinfo_rec_detlin(7) | sinfo_rec_distortion(7) | sinfo_rec_mdark(7) | sinfo_rec_mflat(7) | sinfo_rec_pupil(7) | sinfo_rec_wavecal(7) | sinfo_utl_bp_mask_add(7) | sinfo_utl_cube2ima(7) | sinfo_utl_cube2spectrum(7) | sinfo_utl_cube_arith(7) | sinfo_utl_cube_combine(7) | sinfo_utl_cube_create(7) | sinfo_utl_ima_arith(7) | sinfo_utl_ima_line_corr(7) | sinfo_utl_line_oh_select(7) | sinfo_utl_skycor(7) | sinfo_utl_skymap(7) | sinfo_utl_spectrum_divide_by_blackbody(7) | sinfo_utl_spectrum_wavelength_shift(7)
refer to sinfo_rec_detlin(7) | sinfo_rec_distortion(7) | sinfo_rec_mdark(7) | sinfo_rec_mflat(7) | sinfo_rec_pupil(7) | sinfo_rec_wavecal(7) | sinfo_utl_bp_mask_add(7) | sinfo_utl_cube2ima(7) | sinfo_utl_cube2spectrum(7) | sinfo_utl_cube_arith(7) | sinfo_utl_cube_combine(7) | sinfo_utl_cube_create(7) | sinfo_utl_ima_arith(7) | sinfo_utl_ima_line_corr(7) | sinfo_utl_line_oh_select(7) | sinfo_utl_skycor(7) | sinfo_utl_skymap(7) | sinfo_utl_spectrum_divide_by_blackbody(7) | sinfo_utl_spectrum_wavelength_shift(7)
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