.TH XSH_SCIRED_IFU_STARE "7" "3.5.0" "xsh_scired_ifu_stare" "xshoo recipes" .SH NAME xsh_scired_ifu_stare \- Reduce science IFU stare exposures and build a 3D cube .SH SYNOPSIS esorex .B xsh_scired_ifu_stare [OPTIONS] FILE.sof .SH DESCRIPTION This recipe reduce science IFU stare exposures with 3D cube generation Input Frames : \- A set of n Science frames ( n == 1 or >=3, Tag = OBJECT_IFU_STARE_UVB) \- A spectral format table frame (Tag = SPECTRAL_FORMAT_TAB_arm) \- [UVB,VIS] A master bias frame (Tag = MASTER_BIAS_arm) \- A master dark frame (Tag = MASTER_DARK_arm) \- A master flat frame (Tag = MASTER_FLAT_IFU_arm) \- An order edges table frame(Tag = ORDER_TAB_EDGES_IFU_arm) \- [physmod] An AFC corrected model cfg frame (Tag = XSH_MOD_CFG_OPT_AFC_arm) \- [poly] An AFC corrected model wavesol frame (Tag = WAVE_TAB_AFC_arm) \- [OPTIONAL] A non\-linear badpixel map (Tag = BP_MAP_NL_arm) \- [OPTIONAL] A reference badpixel map (Tag = BP_MAP_RP_arm) Products : \- Merged 3D data cube (PREFIX_MERGE3D_DATA_OBJ_arm) \- QC Traces of 3D data cube (PREFIX_MERGE3D_TRACE_OBJ_arm) \- Order by order 3D data cube (PREFIX_ORDER3D_DATA_OBJ_arm) \- Order by order 3D qual cube (IFU_CFG_COR_arm) \- Order by order 3D qual cube (PREFIX_MERGE3D_DATA_SKY_arm) \- where PREFIX is SCI, FLUX, TELL if input raw DPR.TYPE contains OBJECT or FLUX or TELLURIC .SH OPTIONS .TP \fB\-\-keep\-temp\fR \fI\fR If \'no\', temporary files are deleted. (str; default: \'no\'). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.keep\-temp\fR [default = \fIno\fR]. .TP \fB\-\-debug\-level\fR \fI\fR Additional xshooter debug level. One of \'none\', \'low\', \'medium\', \'high\' (str; default: \'none\'). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.debug\-level\fR [default = \fInone\fR]. .TP \fB\-\-time\-stamp\fR \fI\fR Add timestamp to product file name. (bool; default: False). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.time\-stamp\fR [default = \fIFalse\fR]. .TP \fB\-\-decode\-bp\fR \fI\fR Integer representation of the bits to be considered bad when decoding the bad pixel mask pixel values. Most frequent codes relevant for the user: 0: good pixel, 8: pick\-up noise, 16: cosmic\-ray removed, 32: cosmic\-ray unremoved, 128: calibration file defect, 256: hot pixel, 512: dark pixel, 4096: A/D converted saturation, 32768: non linear pixel, 1048576: extrapolated flux in NIR, 4194304: Interpolated flux during extraction. (int; default: 2144337919). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.decode\-bp\fR [default = \fI2144337919\fR]. .TP \fB\-\-pre\-overscan\-corr\fR \fI\fR pre\-overscan correction. 0: no correction 1: mean overscan correction 2: mean prescan correction 3: (mean pre+mean overscan)/2 correction (int; default: 1). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.pre\-overscan\-corr\fR [default = \fI1\fR]. .TP \fB\-\-stack\-method\fR \fI\fR Method used to build master frame. (str; default: \'median\'). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.stack\-method\fR [default = \fImedian\fR]. .TP \fB\-\-klow\fR \fI\fR Kappa used to clip low level values, when method is set to \'mean\' (float; default: 5.0). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.klow\fR [default = \fI5.0\fR]. .TP \fB\-\-khigh\fR \fI\fR Kappa used to clip high level values, when method is set to \'mean\' (float; default: 5.0). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.khigh\fR [default = \fI5.0\fR]. .TP \fB\-\-crh\-clip\-kappa\fR \fI\fR Kappa value in sigma clipping during CRH rejection using multiple frames (float; default: 5.0). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.crh\-clip\-kappa\fR [default = \fI5.0\fR]. .TP \fB\-\-crh\-clip\-niter\fR \fI\fR Number of iterations in sigma clipping during CRH rejection using multiple frames (int; default: 5). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.crh\-clip\-niter\fR [default = \fI5\fR]. .TP \fB\-\-crh\-clip\-frac\fR \fI\fR Minimal ratio of points accepted / total in sigma clipping during CRH rejection using multiple frames (float; default: 0.7). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.crh\-clip\-frac\fR [default = \fI0.7\fR]. .TP \fB\-\-background\-edges\-margin\fR \fI\fR X margin to order edge to define background sampling points (int; default: 1). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.background\-edges\-margin\fR [default = \fI1\fR]. .TP \fB\-\-background\-poly\-deg\-y\fR \fI\fR Poly mode fit deg along Y. (int; default: 9). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.background\-poly\-deg\-y\fR [default = \fI9\fR]. .TP \fB\-\-background\-poly\-deg\-x\fR \fI\fR Poly mode fit deg along X. (int; default: 9). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.background\-poly\-deg\-x\fR [default = \fI9\fR]. .TP \fB\-\-background\-poly\-kappa\fR \fI\fR Poly mode kappa value of kappa\-sigma\-clip outliers removal. (float; default: 10.0). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.background\-poly\-kappa\fR [default = \fI10.0\fR]. .TP \fB\-\-rectify\-kernel\fR \fI\fR Name of the Interpolation Kernel Used. Possible values are: tanh, sinc, sinc2, lanczos, hamming, hann. (str; default: \'tanh\'). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.rectify\-kernel\fR [default = \fItanh\fR]. .TP \fB\-\-rectify\-radius\fR \fI\fR Rectify Interpolation radius [bin units]. (float; default: 2.0). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.rectify\-radius\fR [default = \fI2.0\fR]. .TP \fB\-\-rectify\-bin\-lambda\fR \fI\fR Wavelength step in the output spectrum [nm] (float; default: \-1.0). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.rectify\-bin\-lambda\fR [default = \fI\-1.0\fR]. .TP \fB\-\-rectify\-bin\-slit\fR \fI\fR Spatial step along the slit in the output spectrum [arcsec] (float; default: \-1.0). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.rectify\-bin\-slit\fR [default = \fI\-1.0\fR]. .TP \fB\-\-compute\-map\fR \fI\fR if TRUE recompute (wave and slit) maps from the dispersion solution. If sky\-subtract is set to TRUE this must be set to TRUE. (bool; default: False). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.compute\-map\fR [default = \fIFalse\fR]. .TP \fB\-\-trace\-obj\fR \fI\fR if TRUE trace object position on each IFU slice. In this case order TAB edges is required (bool; default: False). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.trace\-obj\fR [default = \fIFalse\fR]. .TP \fB\-\-check\-afc\fR \fI\fR Input AFC corrected model/wave solution and science frame check. If TRUE the recipe verify that the input mode/wave solution is AFC corrected, its INS.OPTIi.NAME is \'Pin_0.5 \', and its OBS.ID and OBS.TARG.NAME values matches with the corresponding values of the science frame. (bool; default: True). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.check\-afc\fR [default = \fITrue\fR]. .TP \fB\-\-cut\-uvb\-spectrum\fR \fI\fR TRUE if recipe cuts the UVB spectrum at 556 nm (dichroich) (bool; default: True). The full name of this option for the EsoRex configuration file is \fBxsh.xsh_scired_ifu_stare.cut\-uvb\-spectrum\fR [default = \fITrue\fR]. .PP 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. .SH SEE ALSO The full documentation for the xshoo pipeline can be downloaded as a PDF file using the following URL: .IP .B ftp://ftp.eso.org/pub/dfs/pipelines/xshoo/xshoo\-pipeline\-manual\-12.1.pdf .PP An overview over the existing ESO pipelines can be found on the web page \fBhttps://www.eso.org/sci/software/pipelines/\fR. .PP Basic documentation about the EsoRex program can be found at the esorex (1) man page. .PP It is possible to call the pipelines from python using the python\-cpl package. See \fBhttps://packages.python.org/python\-cpl/index.html\fR for further information. .PP The other recipes of the xshoo pipeline are .IR xsh_2dmap (7), .IR xsh_cfg_recover (7), .IR xsh_flexcomp (7), .IR xsh_geom_ifu (7), .IR xsh_lingain (7), .IR xsh_mbias (7), .IR xsh_mdark (7), .IR xsh_mflat (7), .IR xsh_orderpos (7), .IR xsh_predict (7), .IR xsh_respon_slit_nod (7), .IR xsh_respon_slit_offset (7), .IR xsh_respon_slit_stare (7), .IR xsh_scired_ifu_offset (7), .IR xsh_scired_ifu_offset_drl (7), .IR xsh_scired_ifu_stare_drl (7), .IR xsh_scired_slit_nod (7), .IR xsh_scired_slit_offset (7), .IR xsh_scired_slit_stare (7), .IR xsh_util_physmod (7), .IR xsh_wavecal (7) .SH VERSION xsh_scired_ifu_stare 3.5.0 .SH AUTHOR A.Modigliani, J.Vernet, P. Bristow .SH BUG REPORTS Please report any problems to Andrea.Modigliani@eso.org. Alternatively, you may send a report to the ESO User Support Department . .SH LICENSE This file is part of the X\-shooter Instrument Pipeline Copyright (C) 2006 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., 59 Temple Place, Suite 330, Boston, MA 02111\-1307 USA