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KMOS Pipeline Reference Manual
1.2.5
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00001 /* $Id: kmo_std_star.c,v 1.79 2013/10/08 14:55:01 erw Exp $ 00002 * 00003 * This file is part of the KMOS Pipeline 00004 * Copyright (C) 2002,2003 European Southern Observatory 00005 * 00006 * This program is free software; you can redistribute it and/or modify 00007 * it under the terms of the GNU General Public License as published by 00008 * the Free Software Foundation; either version 2 of the License, or 00009 * (at your option) any later version. 00010 * 00011 * This program is distributed in the hope that it will be useful, 00012 * but WITHOUT ANY WARRANTY; without even the implied warranty of 00013 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the 00014 * GNU General Public License for more details. 00015 * 00016 * You should have received a copy of the GNU General Public License 00017 * along with this program; if not, write to the Free Software 00018 * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA 00019 */ 00020 00021 /* 00022 * $Author: erw $ 00023 * $Date: 2013/10/08 14:55:01 $ 00024 * $Revision: 1.79 $ 00025 * $Name: HEAD $ 00026 */ 00027 00028 #ifdef HAVE_CONFIG_H 00029 #include <config.h> 00030 #endif 00031 00032 /*----------------------------------------------------------------------------- 00033 * Includes 00034 *----------------------------------------------------------------------------*/ 00035 00036 #include <math.h> 00037 #include <string.h> 00038 00039 #include <cpl.h> 00040 #include "kmclipm_math.h" 00041 00042 #include "kmo_constants.h" 00043 #include "kmo_cpl_extensions.h" 00044 #include "kmo_utils.h" 00045 #include "kmo_functions.h" 00046 #include "kmo_priv_std_star.h" 00047 #include "kmo_priv_fit_profile.h" 00048 #include "kmo_priv_extract_spec.h" 00049 #include "kmo_priv_functions.h" 00050 #include "kmo_dfs.h" 00051 #include "kmo_error.h" 00052 #include "kmo_debug.h" 00053 #include "kmo_priv_reconstruct.h" 00054 00055 /*----------------------------------------------------------------------------- 00056 * Lines (all vacuum) 00057 * 00058 # Line lists for use in telluric transmission correction for KMOS, etc. 00059 # based on OBA standard stars. 00060 # 00061 # 30/01/2013 NMFS 00062 # 00063 # 00064 # - H lines of the Paschen and Brackett series (perhaps also Pfund series 00065 # at the very red edge of K band) will be most prominent for late-O to 00066 # A types. 00067 # 00068 # - HeI lines in absorption are mostly for O types (with some dependence 00069 # on luminosity class). 00070 # - HeII lines will only be relevant in the earliest O types 00071 # - HeI and HeII lines may also appear in emission. 00072 # 00073 # The note "weak - irrelevant?" indicates lines that tend to be much 00074 # weaker, and would only be discernable in R > 5000 spectra with very 00075 # high S/N ratio. They may cause asymmetric wings for neighbouring 00076 # stronger features depending on the star/spectral type. 00077 # They are included here for completeness, but can probably be ignored 00078 # in the context of KMOS telluric calibration. 00079 # 00080 # It is important, however, to include the stronger HeI and HeII features, 00081 # experience with SINFONI shows they are frequently there (esp. in H band). 00082 # 00083 # 00084 # N.B. 00085 # The H line list in this file is complete within the Iz - K coverage 00086 # of KMOS (excluding the highest Pa, Br, abd Pf transitions, which 00087 # become very weak). 00088 # The He line for >= 1.0um is fairly complete (strongest common lines 00089 # are included). 00090 # HOWEVER: the He line list at < 1.0um, relevant for Iz band, is missing. 00091 # 00092 # 00093 # Useful references: 00094 # Wallace et al. 2000, ApJ, 535, 325 00095 # Wallace & Hinkle 1997, 00096 # Meyer et al. 1998, 00097 # Hanson et al. 2005, ApJS, 161, 154 00098 # 00099 # In the future: planned XShooter stellar library (PI S. Trager) will 00100 # provide a cross-check over the full Iz - K band, as well as allow the 00101 # identification of potentially missing He features in the range 0.8-1um. 00102 00103 *-----------------------------------------------------------------------------*/ 00104 const int nr_lines_h = 10; 00105 const double lines_center_h[] = { 00106 1.7001, // HeI // triplet 00107 // 1.52616, // Br-19 // (weak - irrelevant?) 00108 1.53429, // Br-18 00109 1.54400, // Br-17 00110 1.55576, // Br-16 00111 1.57018, // Br-15 00112 1.58817, // Br-14 00113 1.61105, // Br-13 00114 1.64084, // Br-12 00115 1.68077, // Br-11 00116 1.73634 // Br-10 00117 // 1.6918, // HeII // weak 00118 // 1.81754, // Br-epsilon // (in band, but low transmission) 00119 // 1.87524 // Pa-alpha // (out of H-band? useful for HK?) 00120 }; 00121 const double lines_width_h[] = { 00122 0.025, // HeI 00123 // 0.015, // Br-19 00124 0.003, // Br-18 00125 0.015, // Br-17 00126 0.015, // Br-16 00127 0.015, // Br-15 00128 0.025, // Br-14 00129 0.015, // Br-13 00130 0.025, // Br-12 00131 0.025, // Br-11 00132 0.05 // Br-10 00133 // 0.015, // HeII 00134 // 0.015, // Br-epsilon 00135 // 0.015 // Pa-alpha 00136 }; 00137 const int nr_lines_k = 2; 00138 const double lines_center_k[] = { 00139 // 1.94470, // Br-delta // out of K-band 00140 // 2.0581, // HeI // singlet // very faint, non detectable 00141 2.1120, // HeI // triplet 00142 //2.1132, // HeI // singlet 00143 // 2.1494, // HeI // (weak - irrelevant?) 00144 // 2.1607, // HeI // triplet (weak - irrelevant?) 00145 // 2.1617, // HeI // singlet (weak - irrelevant?) 00146 // 2.1641, // HeI // triplet (weak - irrelevant?) 00147 2.16569 // Br-gamma 00148 // 2.1815, // HeI // (weak - irrelevant?) 00149 // 2.1840, // HeI // (weak - irrelevant?) 00150 // wo ?!? 2.1885, // HeII 00151 // 2.43087, // Pf-20 // (weak - irrelevant?) 00152 // 2.44851, // Pf-19 // (weak - irrelevant?) 00153 // 2.46949, // Pf-18 // (weak - irrelevant?) 00154 // 2.49475 // Pf-17 // (weak - irrelevant?) // out of band 00155 }; 00156 const double lines_width_k[] = { 00157 // 0.015, // Br-delta // (out of K-band? useful for HK?) 00158 // 0.008, // HeI // singlet 00159 0.01, // HeI // triplet 00160 //0.0015, // HeI // singlet 00161 // 0.003, // HeI // (weak - irrelevant?) 00162 // 0.003, // HeI // triplet (weak - irrelevant?) 00163 // 0.003, // HeI // singlet (weak - irrelevant?) 00164 // 0.015, // HeI // triplet (weak - irrelevant?) 00165 0.015 // Br-gamma 00166 // 0.003, // HeI // (weak - irrelevant?) 00167 // 0.003, // HeI // (weak - irrelevant?) 00168 // 0.015, // HeII 00169 // 0.015, // Pf-20 // (weak - irrelevant?) 00170 // 0.015, // Pf-19 // (weak - irrelevant?) 00171 // 0.015, // Pf-18 // (weak - irrelevant?) 00172 // 0.015 // Pf-17 // (weak - irrelevant?) 00173 }; 00174 const int nr_lines_hk = 12; 00175 const double lines_center_hk[] = { 00176 // H 00177 1.7001, // HeI // triplet 00178 00179 1.53429, // Br-18 00180 1.54400, // Br-17 00181 1.55576, // Br-16 00182 1.57018, // Br-15 00183 1.58817, // Br-14 00184 1.61105, // Br-13 00185 1.64084, // Br-12 00186 1.68077, // Br-11 00187 1.73634, // Br-10 00188 // K 00189 2.1120, // HeI // triplet 00190 2.16569 // Br-gamma 00191 }; 00192 const double lines_width_hk[] = { 00193 // H 00194 0.025, // HeI 00195 0.003, // Br-18 00196 0.015, // Br-17 00197 0.015, // Br-16 00198 0.015, // Br-15 00199 0.025, // Br-14 00200 0.015, // Br-13 00201 0.025, // Br-12 00202 0.025, // Br-11 00203 0.05, // Br-10 00204 // K 00205 0.015, // HeI // triplet 00206 0.015 // Br-gamma 00207 }; 00208 const int nr_lines_iz = 12; 00209 const double lines_center_iz[] = { 00210 0.84386, // Pa-18 00211 0.84679, // Pa-17 00212 0.85031, // Pa-16 00213 0.85460, // Pa-15 00214 0.85990, // Pa-14 00215 0.86657, // Pa-13 00216 0.87511, // Pa-12 00217 0.88635, // Pa-11 00218 0.90156, // Pa-10 00219 0.92297, // Pa-9 00220 0.95467, // Pa-epsilon 00221 1.00501 // Pa-delta 00222 }; 00223 const double lines_width_iz[] = { 00224 0.0008, // Pa-18 00225 0.003225, // Pa-17 00226 0.0039, // Pa-16 00227 0.0048, // Pa-15 00228 0.006, // Pa-14 00229 0.0076, // Pa-13 00230 0.001, // Pa-12 00231 0.013, // Pa-11 00232 0.01, // Pa-10 00233 0.013, // Pa-9 00234 0.02, // Pa-epsilon 00235 0.025 // Pa-delta 00236 }; 00237 const int nr_lines_yj = 7; 00238 const double lines_center_yj[] = { 00239 // 1.00501, // Pa-delta // (out of band?) 00240 1.08331, // HeI 00241 1.09160, // HeI 00242 1.09389, // Pa-gamma 00243 00244 1.19723, // HeI 00245 00246 1.28191, // Pa-beta 00247 1.27882, // HeI 00248 // 1.28495, // HeI // faint 00249 1.29720 // HeI 00250 }; 00251 const double lines_width_yj[] = { 00252 // 0.015, // Pa-delta // (out of band?) 00253 .01,//0.005, // HeI 00254 .01,//0.002, // HeI 00255 0.02, // Pa-gamma 00256 00257 0.003, // HeI 00258 00259 0.02, // Pa-beta 00260 0.0025, // HeI 00261 // 0.0007, // HeI 00262 0.002 // HeI 00263 }; 00264 00265 /*----------------------------------------------------------------------------- 00266 * Functions prototypes 00267 *----------------------------------------------------------------------------*/ 00268 00269 static int kmo_std_star_create(cpl_plugin *); 00270 static int kmo_std_star_exec(cpl_plugin *); 00271 static int kmo_std_star_destroy(cpl_plugin *); 00272 static int kmo_std_star(cpl_parameterlist *, cpl_frameset *); 00273 00274 /*----------------------------------------------------------------------------- 00275 * Static variables 00276 *----------------------------------------------------------------------------*/ 00277 00278 static char kmo_std_star_description[] = 00279 "This recipe creates a telluric calibration frame and a PSF frame. It must be\n" 00280 "called after the kmo_illumination-recipe.\n" 00281 "Since there won’t be enough standard stars to observe for all IFUs in one ex-\n" 00282 "posure, one has to do several exposures in a way that there is at least one\n" 00283 "standard star and one sky exposure in each IFU. A internal data organiser will\n" 00284 "analyse the provided exposures and select the appropriate frames as follows:\n" 00285 "1. For each IFU the first standard star in the list of provided exposures is\n" 00286 " taken. All subsequent standard star exposures for this IFU will be ignored\n" 00287 "2. A corresponding sky exposure will be chosen which will be as close in time\n" 00288 " to the standard star exposure as possible.\n" 00289 "3. For any IFUs not containing a standard star and a sky exposure an empty\n" 00290 " frame will be returned.\n" 00291 "\n" 00292 "BASIC PARAMETERS:\n" 00293 "-----------------\n" 00294 "--startype\n" 00295 "If this parameter is specified, the stored star types of the observed obejcts \n" 00296 "in the FITS headers are overridden. This value applies to all objects exa-\n" 00297 "mined in the input frames. Examples would be “A3I”, “G3IV” or “K0I”. The first\n" 00298 "letter defines the star type, the second letter the spectral class and the last\n" 00299 "letters the luminosity class.\n" 00300 "\n" 00301 "--magnitude\n" 00302 "If this parameter is specified, the stored magnitudes in the FITS headers are \n" 00303 "overridden. For HK two magnitudes for each H and K have to be specified. All \n" 00304 "other gratings just use a single magnitude. If two values are provided, they \n" 00305 "have to be separated with a comma. \n" 00306 "\n" 00307 "--fmethod\n" 00308 "The type of function that should be fitted spatially to the collapsed image.\n" 00309 "This fit is used to create a mask to extract the spectrum of the object. Valid\n" 00310 "values are “gauss” and “moffat”.\n" 00311 "\n" 00312 "--imethod\n" 00313 "The interpolation method used for reconstruction. As default 'CS' is selected.\n" 00314 "Note that no error spectra will be generated for this interpolation method.\n" 00315 "Select a nearest neighbour method otherwise\n" 00316 "\n" 00317 "--range\n" 00318 "The spectral range [um] to combine when collapsing the reconstructed cubes.\n" 00319 "\n" 00320 "--save_cubes\n" 00321 "Set to TRUE if the intermediate reconstructed cubes (eventually divided by " 00322 "illumination correction) should be saved as well. Default is FALSE.\n" 00323 "\n" 00324 "ADVANCED PARAMETERS\n" 00325 "-------------------\n" 00326 "--flux\n" 00327 "Specify if flux conservation should be applied.\n" 00328 "\n" 00329 "--neighborhoodRange\n" 00330 "Defines the range to search for neighbors during reconstruction\n" 00331 "\n" 00332 "--b_samples\n" 00333 "The number of samples in spectral direction for the reconstructed cube.\n" 00334 "Ideally this number should be greater than 2048, the detector size.\n" 00335 "\n" 00336 "--b_start\n" 00337 "--b_end\n" 00338 "Used to define manually the start and end wavelength for the reconstructed\n" 00339 "cube. By default the internally defined values are used.\n" 00340 "\n" 00341 "--cmethod\n" 00342 "Following methods of frame combination are available:\n" 00343 " * 'ksigma' (Default)\n" 00344 " An iterative sigma clipping. For each position all pixels in the spectrum\n" 00345 " are examined. If they deviate significantly, they will be rejected according\n" 00346 " to the conditions:\n" 00347 " val > mean + stdev * cpos_rej\n" 00348 " and\n" 00349 " val < mean - stdev * cneg_rej\n" 00350 " where --cpos_rej, --cneg_rej and --citer are the corresponding configuration\n" 00351 " parameters. In the first iteration median and percentile level are used.\n" 00352 "\n" 00353 " * 'median'\n" 00354 " At each pixel position the median is calculated.\n" 00355 "\n" 00356 " * 'average'\n" 00357 " At each pixel position the average is calculated.\n" 00358 "\n" 00359 " * 'sum'\n" 00360 " At each pixel position the sum is calculated.\n" 00361 "\n" 00362 " * 'min_max'\n" 00363 " The specified number of minimum and maximum pixel values will be rejected.\n" 00364 " --cmax and --cmin apply to this method.\n" 00365 "\n" 00366 "--cpos_rej\n" 00367 "--cneg_rej\n" 00368 "--citer\n" 00369 "see --cmethod='ksigma'\n" 00370 "\n" 00371 "--cmax\n" 00372 "--cmin\n" 00373 "see --cmethod='min_max'\n" 00374 "\n" 00375 "--xcal_interpolation\n" 00376 "If true interpolate the pixel position in the slitlet (xcal) using the two\n" 00377 "closest rotator angles in the calibration file. Otherwise take the values\n" 00378 "of the closest rotator angle\n" 00379 "\n" 00380 "--suppress_extension\n" 00381 "If set to TRUE, the arbitrary filename extensions are supressed. If multiple\n" 00382 "products with the same category are produced, they will be numered consecutively\n" 00383 "starting from 0.\n" 00384 "\n" 00385 "-------------------------------------------------------------------------------\n" 00386 " Input files:\n" 00387 "\n" 00388 " DO KMOS \n" 00389 " category Type Explanation Required #Frames\n" 00390 " -------- ----- ----------- -------- -------\n" 00391 " STD RAW Std. star & sky exposures Y >=1 \n" 00392 " XCAL F2D x calibration frame Y 1 \n" 00393 " YCAL F2D y calibration frame Y 1 \n" 00394 " LCAL F2D Wavelength calib. frame Y 1 \n" 00395 " MASTER_FLAT F2D Master flat frame Y 1 \n" 00396 " WAVE_BAND F2L Table with start-/end-wavelengths Y 1 \n" 00397 " ILLUM_CORR F2I Illumination correction N 0,1 \n" 00398 " SOLAR_SPEC F1S Solar spectrum N 0,1 \n" 00399 " (only for G stars) \n" 00400 " ATMOS_MODEL F1S Model atmospheric transmisson N 0,1 \n" 00401 " (only for OBAF stars in K band) \n" 00402 " SPEC_TYPE_LOOKUP F2L LUT eff. stellar temperature N 0,1 \n" 00403 "\n" 00404 " Output files:\n" 00405 "\n" 00406 " DO KMOS\n" 00407 " category Type Explanation\n" 00408 " -------- ----- -----------\n" 00409 " TELLURIC F1I The normalised telluric spectrum \n" 00410 " (including errors) \n" 00411 " STAR_SPEC F1I The extracted star spectrum \n" 00412 " (including errors) \n" 00413 " STD_IMAGE F2I The standard star PSF images \n" 00414 " STD_MASK F2I The generated mask used to extract the star \n" 00415 " spectrum \n" 00416 "-------------------------------------------------------------------------------\n" 00417 "\n"; 00418 00419 /*----------------------------------------------------------------------------- 00420 * Functions code 00421 *----------------------------------------------------------------------------*/ 00422 00439 int cpl_plugin_get_info(cpl_pluginlist *list) 00440 { 00441 cpl_recipe *recipe = cpl_calloc(1, sizeof *recipe); 00442 cpl_plugin *plugin = &recipe->interface; 00443 00444 cpl_plugin_init(plugin, 00445 CPL_PLUGIN_API, 00446 KMOS_BINARY_VERSION, 00447 CPL_PLUGIN_TYPE_RECIPE, 00448 "kmo_std_star", 00449 "Create the telluric correction frame.", 00450 kmo_std_star_description, 00451 "Alex Agudo Berbel", 00452 "kmos-spark@mpe.mpg.de", 00453 kmos_get_license(), 00454 kmo_std_star_create, 00455 kmo_std_star_exec, 00456 kmo_std_star_destroy); 00457 00458 cpl_pluginlist_append(list, plugin); 00459 00460 return 0; 00461 } 00462 00470 static int kmo_std_star_create(cpl_plugin *plugin) 00471 { 00472 cpl_recipe *recipe; 00473 cpl_parameter *p; 00474 00475 /* Check that the plugin is part of a valid recipe */ 00476 if (cpl_plugin_get_type(plugin) == CPL_PLUGIN_TYPE_RECIPE) 00477 recipe = (cpl_recipe *)plugin; 00478 else 00479 return -1; 00480 00481 /* Create the parameters list in the cpl_recipe object */ 00482 recipe->parameters = cpl_parameterlist_new(); 00483 00484 /* --startype */ 00485 p = cpl_parameter_new_value("kmos.kmo_std_star.startype", 00486 CPL_TYPE_STRING, 00487 "The spectral type of the star (O, B, A, F, G)" 00488 " Format: G4V etc.", 00489 "kmos.kmo_std_star", 00490 ""); 00491 cpl_parameter_set_alias(p, CPL_PARAMETER_MODE_CLI, "startype"); 00492 cpl_parameter_disable(p, CPL_PARAMETER_MODE_ENV); 00493 cpl_parameterlist_append(recipe->parameters, p); 00494 00495 /* --imethod */ 00496 p = cpl_parameter_new_value("kmos.kmo_std_star.imethod", 00497 CPL_TYPE_STRING, 00498 "Method to use for interpolation. " 00499 "[\"NN\" (nearest neighbour), " 00500 "\"lwNN\" (linear weighted nearest neighbor), " 00501 "\"swNN\" (square weighted nearest neighbor), " 00502 "\"MS\" (Modified Shepard's method), " 00503 "\"CS\" (Cubic spline)]", 00504 "kmos.kmo_std_star", 00505 "CS"); 00506 cpl_parameter_set_alias(p, CPL_PARAMETER_MODE_CLI, "imethod"); 00507 cpl_parameter_disable(p, CPL_PARAMETER_MODE_ENV); 00508 cpl_parameterlist_append(recipe->parameters, p); 00509 00510 /* --fmethod */ 00511 p = cpl_parameter_new_value("kmos.kmo_std_star.fmethod", 00512 CPL_TYPE_STRING, 00513 "Either fit a 'gauss' or 'moffat' profile.", 00514 "kmos.kmo_std_star", 00515 "gauss"); 00516 cpl_parameter_set_alias(p, CPL_PARAMETER_MODE_CLI, "fmethod"); 00517 cpl_parameter_disable(p, CPL_PARAMETER_MODE_ENV); 00518 cpl_parameterlist_append(recipe->parameters, p); 00519 00520 /* --neighborhoodRange */ 00521 p = cpl_parameter_new_value("kmos.kmo_std_star.neighborhoodRange", 00522 CPL_TYPE_DOUBLE, 00523 "Defines the range to search for neighbors " 00524 "in pixels", 00525 "kmos.kmo_std_star", 00526 1.001); 00527 cpl_parameter_set_alias(p, CPL_PARAMETER_MODE_CLI, "neighborhoodRange"); 00528 cpl_parameter_disable(p, CPL_PARAMETER_MODE_ENV); 00529 cpl_parameterlist_append(recipe->parameters, p); 00530 00531 /* --magnitude */ 00532 p = cpl_parameter_new_value("kmos.kmo_std_star.magnitude", 00533 CPL_TYPE_STRING, 00534 "The magnitude of the std star. For HK two " 00535 "values have to provided (eg. 12.1,13.2)", 00536 "kmos.kmo_std_star", 00537 ""); 00538 cpl_parameter_set_alias(p, CPL_PARAMETER_MODE_CLI, "magnitude"); 00539 cpl_parameter_disable(p, CPL_PARAMETER_MODE_ENV); 00540 cpl_parameterlist_append(recipe->parameters, p); 00541 00542 /* --flux */ 00543 p = cpl_parameter_new_value("kmos.kmo_std_star.flux", 00544 CPL_TYPE_BOOL, 00545 "TRUE: Apply flux conservation. FALSE: otherwise", 00546 "kmos.kmo_std_star", 00547 TRUE); 00548 cpl_parameter_set_alias(p, CPL_PARAMETER_MODE_CLI, "flux"); 00549 cpl_parameter_disable(p, CPL_PARAMETER_MODE_ENV); 00550 cpl_parameterlist_append(recipe->parameters, p); 00551 00552 /* --save_cubes */ 00553 p = cpl_parameter_new_value("kmos.kmo_std_star.save_cubes", 00554 CPL_TYPE_BOOL, 00555 "TRUE: Save reconstructed cubes, FALSE: otherwise", 00556 "kmos.kmo_std_star", 00557 FALSE); 00558 cpl_parameter_set_alias(p, CPL_PARAMETER_MODE_CLI, "save_cubes"); 00559 cpl_parameter_disable(p, CPL_PARAMETER_MODE_ENV); 00560 cpl_parameterlist_append(recipe->parameters, p); 00561 00562 /* --xcal_interpolation */ 00563 p = cpl_parameter_new_value("kmos.kmo_std_star.xcal_interpolation", 00564 CPL_TYPE_BOOL, 00565 "TRUE: Interpolate xcal between rotator angles. FALSE: otherwise", 00566 "kmos.kmo_std_star", 00567 TRUE); 00568 cpl_parameter_set_alias(p, CPL_PARAMETER_MODE_CLI, "xcal_interpolation"); 00569 cpl_parameter_disable(p, CPL_PARAMETER_MODE_ENV); 00570 cpl_parameterlist_append(recipe->parameters, p); 00571 00572 /* --suppress_extension */ 00573 p = cpl_parameter_new_value("kmos.kmo_std_star.suppress_extension", 00574 CPL_TYPE_BOOL, 00575 "Suppress arbitrary filename extension." 00576 "(TRUE (apply) or FALSE (don't apply)", 00577 "kmos.kmo_std_star", 00578 FALSE); 00579 cpl_parameter_set_alias(p, CPL_PARAMETER_MODE_CLI, "suppress_extension"); 00580 cpl_parameter_disable(p, CPL_PARAMETER_MODE_ENV); 00581 cpl_parameterlist_append(recipe->parameters, p); 00582 00583 // add parameters for band-definition 00584 kmo_band_pars_create(recipe->parameters, 00585 "kmos.kmo_std_star"); 00586 00587 // add parameters for combining 00588 return kmo_combine_pars_create(recipe->parameters, 00589 "kmos.kmo_std_star", 00590 DEF_REJ_METHOD, 00591 FALSE); 00592 } 00593 00599 static int kmo_std_star_exec(cpl_plugin *plugin) 00600 { 00601 cpl_recipe *recipe; 00602 00603 /* Get the recipe out of the plugin */ 00604 if (cpl_plugin_get_type(plugin) == CPL_PLUGIN_TYPE_RECIPE) 00605 recipe = (cpl_recipe *)plugin; 00606 else return -1; 00607 00608 return kmo_std_star(recipe->parameters, recipe->frames); 00609 } 00610 00616 static int kmo_std_star_destroy(cpl_plugin *plugin) 00617 { 00618 cpl_recipe *recipe; 00619 00620 /* Get the recipe out of the plugin */ 00621 if (cpl_plugin_get_type(plugin) == CPL_PLUGIN_TYPE_RECIPE) 00622 recipe = (cpl_recipe *)plugin; 00623 else return -1 ; 00624 00625 cpl_parameterlist_delete(recipe->parameters); 00626 return 0 ; 00627 } 00628 00643 static int kmo_std_star(cpl_parameterlist *parlist, cpl_frameset *frameset) 00644 { 00645 cpl_imagelist **stored_data_cube = NULL, 00646 **stored_noise_cube = NULL; 00647 cpl_image **stored_psf_data = NULL, 00648 *illum_corr = NULL, 00649 **stored_mask = NULL, 00650 *lcal = NULL; 00651 cpl_frame *xcal_frame = NULL, 00652 *ycal_frame = NULL, 00653 *lcal_frame = NULL, 00654 *flat_frame = NULL, 00655 *illum_frame = NULL, 00656 *obj_frame = NULL, 00657 *sky_frame = NULL, 00658 *tmp_frame = NULL; 00659 cpl_vector *solar_spec = NULL, 00660 *atmos_model = NULL, 00661 **stored_telluric_data = NULL, 00662 **stored_telluric_noise = NULL, 00663 **stored_starspec_data = NULL, 00664 **stored_starspec_noise = NULL, 00665 *tmp_spec_data = NULL, 00666 *spec_qc = NULL, 00667 *tmp_spec_noise = NULL, 00668 *identified_slices = NULL, 00669 *tmp_vec = NULL, 00670 *lambda_x = NULL; 00671 int ret_val = 0, 00672 nr_devices = 0, 00673 nr_exp = 0, 00674 j = 0, 00675 *bounds = NULL, 00676 ifu_nr = 0, 00677 citer = 0, 00678 cmax = 0, 00679 cmin = 0, 00680 line_warning = FALSE, 00681 nr_std_stars = 0, 00682 print_warning_once = TRUE, 00683 flux = FALSE, 00684 background = FALSE, 00685 band_method = 0, 00686 save_cubes = FALSE, 00687 has_magnitude = TRUE, 00688 xcal_interpolation = FALSE, 00689 suppress_extension = FALSE, 00690 nr_split_mag = 0, 00691 i = 0, 00692 l = 0, 00693 gx = 0, 00694 gy = 0, 00695 k = 0; 00696 const int *punused_ifus = NULL; 00697 objSkyStruct *obj_sky_struct = NULL; 00698 double *stored_qc_throughput = NULL, 00699 star_temperature = 0.0, 00700 neighborhoodRange = 1.001, 00701 cpos_rej = 0.0, 00702 cneg_rej = 0.0, 00703 zeropoint = -1.0, 00704 throughput_mean = -1.0, 00705 throughput_sdv = -1.0, 00706 std_trace = -1.0, 00707 counts1 = 0.0, 00708 counts2 = 0.0, 00709 magnitude1 = 0.0, 00710 magnitude2 = 0.0, 00711 exptime = 0., 00712 cdelt3 = 0., 00713 mean_data = 0., 00714 mean_noise = 0., 00715 *ptmp_spec_noise = NULL, 00716 crpix1 = 0., 00717 crval1 = 0., 00718 cdelt1 = 0.; 00719 const double *ptmp_spec_data = NULL; 00720 cpl_propertylist *main_header_tel = NULL, 00721 *main_header_psf = NULL, 00722 *sub_header_orig = NULL, 00723 *tmp_sub_header = NULL, 00724 *tmp_header = NULL, 00725 **stored_sub_tel_data_headers = NULL, 00726 **stored_sub_tel_noise_headers = NULL, 00727 **stored_sub_cube_data_headers = NULL, 00728 **stored_sub_cube_noise_headers = NULL, 00729 **stored_sub_psf_headers = NULL, 00730 *pl_psf = NULL; 00731 cpl_table *spec_type_LUT = NULL, 00732 *band_table = NULL;; 00733 main_fits_desc desc1, 00734 desc2; 00735 char *extname = NULL, 00736 *keyword = NULL, 00737 filename_telluric[256], 00738 filename_starspec[256], 00739 filename_psf[256], 00740 filename_mask[256], 00741 filename_cubes[256], 00742 *suffix = NULL, 00743 *fn_suffix = NULL, 00744 spec_class[256], 00745 lum_class[256], 00746 star_type[2], 00747 *tmp_band_method = getenv("KMO_BAND_METHOD"), 00748 **split_mag = NULL, 00749 *grat_id = NULL; 00750 const char *filter_id = NULL, 00751 *spec_type = NULL, 00752 *magnitude_txt = NULL, 00753 *imethod = NULL, 00754 *cmethod = NULL, 00755 *fmethod = NULL, 00756 *tmp_str = NULL; 00757 gridDefinition gd; 00758 cpl_array **unused_ifus_before = NULL, 00759 **unused_ifus_after = NULL; 00760 cpl_frameset *frameset_std = NULL; 00761 00762 KMO_TRY 00763 { 00764 kmo_init_fits_desc(&desc1); 00765 kmo_init_fits_desc(&desc2); 00766 00767 /* --- check input --- */ 00768 KMO_TRY_ASSURE((parlist != NULL) && 00769 (frameset != NULL), 00770 CPL_ERROR_NULL_INPUT, 00771 "Not all input data is provided!"); 00772 00773 KMO_TRY_ASSURE(cpl_frameset_count_tags(frameset, STD) >= 1, 00774 CPL_ERROR_ILLEGAL_INPUT, 00775 "At least one STD frame is required!"); 00776 if (cpl_frameset_count_tags(frameset, STD) == 1) { 00777 cpl_msg_warning("", "At least two STD frames should be provided " 00778 "in order to apply sky subtraction!"); 00779 } 00780 00781 KMO_TRY_ASSURE((cpl_frameset_count_tags(frameset, ILLUM_CORR) == 1) || 00782 (cpl_frameset_count_tags(frameset, ILLUM_CORR) == 0), 00783 CPL_ERROR_FILE_NOT_FOUND, 00784 "Exactly one ILLUM_CORR frame is required!"); 00785 KMO_TRY_ASSURE(cpl_frameset_count_tags(frameset, XCAL) == 1, 00786 CPL_ERROR_FILE_NOT_FOUND, 00787 "Exactly one XCAL frame is required!"); 00788 KMO_TRY_ASSURE(cpl_frameset_count_tags(frameset, YCAL) == 1, 00789 CPL_ERROR_FILE_NOT_FOUND, 00790 "Exactly one YCAL frame is required!"); 00791 KMO_TRY_ASSURE(cpl_frameset_count_tags(frameset, LCAL) == 1, 00792 CPL_ERROR_FILE_NOT_FOUND, 00793 "Exactly one LCAL frame is required!"); 00794 KMO_TRY_ASSURE(cpl_frameset_count_tags(frameset, MASTER_FLAT) == 1, 00795 CPL_ERROR_FILE_NOT_FOUND, 00796 "Exactly one MASTER_FLAT frame is required!"); 00797 KMO_TRY_ASSURE(cpl_frameset_count_tags(frameset, WAVE_BAND) == 1, 00798 CPL_ERROR_FILE_NOT_FOUND, 00799 "Exactly one WAVE_BAND frame is required!"); 00800 KMO_TRY_ASSURE(kmo_dfs_set_groups(frameset, "kmo_std_star") == 1, 00801 CPL_ERROR_ILLEGAL_INPUT, 00802 "Cannot identify RAW and CALIB frames!"); 00803 00804 /* --- get parameters --- */ 00805 cpl_msg_info("", "--- Parameter setup for kmo_std_star ------"); 00806 00807 KMO_TRY_EXIT_IF_NULL( 00808 spec_type = kmo_dfs_get_parameter_string(parlist, 00809 "kmos.kmo_std_star.startype")); 00810 KMO_TRY_EXIT_IF_ERROR( 00811 kmo_dfs_print_parameter_help(parlist, 00812 "kmos.kmo_std_star.startype")); 00813 00814 KMO_TRY_EXIT_IF_NULL( 00815 imethod = kmo_dfs_get_parameter_string(parlist, 00816 "kmos.kmo_std_star.imethod")); 00817 KMO_TRY_ASSURE((strcmp(imethod, "NN") == 0) || 00818 (strcmp(imethod, "lwNN") == 0) || 00819 (strcmp(imethod, "swNN") == 0) || 00820 (strcmp(imethod, "MS") == 0) || 00821 (strcmp(imethod, "CS") == 0), 00822 CPL_ERROR_ILLEGAL_INPUT, 00823 "method must be either \"NN\", \"lwNN\", " 00824 "\"swNN\", \"MS\" or \"CS\"!"); 00825 KMO_TRY_EXIT_IF_ERROR( 00826 kmo_dfs_print_parameter_help(parlist, 00827 "kmos.kmo_std_star.imethod")); 00828 00829 KMO_TRY_EXIT_IF_NULL( 00830 fmethod = kmo_dfs_get_parameter_string(parlist, 00831 "kmos.kmo_std_star.fmethod")); 00832 KMO_TRY_ASSURE((strcmp(fmethod, "gauss") == 0) || 00833 (strcmp(fmethod, "moffat") == 0), 00834 CPL_ERROR_ILLEGAL_INPUT, 00835 "fmethod must be either 'gauss' or " 00836 "'moffat' !"); 00837 KMO_TRY_EXIT_IF_ERROR( 00838 kmo_dfs_print_parameter_help(parlist, 00839 "kmos.kmo_std_star.method")); 00840 00841 neighborhoodRange = kmo_dfs_get_parameter_double(parlist, 00842 "kmos.kmo_std_star.neighborhoodRange"); 00843 KMO_TRY_CHECK_ERROR_STATE(); 00844 KMO_TRY_ASSURE(neighborhoodRange > 0.0, 00845 CPL_ERROR_ILLEGAL_INPUT, 00846 "neighborhoodRange must be greater than 0.0"); 00847 KMO_TRY_EXIT_IF_ERROR( 00848 kmo_dfs_print_parameter_help(parlist, 00849 "kmos.kmo_std_star.neighborhoodRange")); 00850 00851 magnitude_txt = kmo_dfs_get_parameter_string(parlist, 00852 "kmos.kmo_std_star.magnitude"); 00853 KMO_TRY_CHECK_ERROR_STATE(); 00854 KMO_TRY_EXIT_IF_ERROR( 00855 kmo_dfs_print_parameter_help(parlist, 00856 "kmos.kmo_std_star.magnitude")); 00857 00858 flux = kmo_dfs_get_parameter_bool(parlist, 00859 "kmos.kmo_std_star.flux"); 00860 KMO_TRY_ASSURE((flux == FALSE) || (flux == TRUE), 00861 CPL_ERROR_ILLEGAL_INPUT, 00862 "flux must be either FALSE or TRUE!"); 00863 KMO_TRY_EXIT_IF_ERROR( 00864 kmo_dfs_print_parameter_help(parlist, "kmos.kmo_std_star.flux")); 00865 00866 save_cubes = kmo_dfs_get_parameter_bool(parlist, 00867 "kmos.kmo_std_star.save_cubes"); 00868 KMO_TRY_ASSURE((save_cubes == FALSE) || (save_cubes == TRUE), 00869 CPL_ERROR_ILLEGAL_INPUT, 00870 "save_cubes must be either FALSE or TRUE!"); 00871 KMO_TRY_EXIT_IF_ERROR( 00872 kmo_dfs_print_parameter_help(parlist, "kmos.kmo_std_star.save_cubes")); 00873 00874 xcal_interpolation = kmo_dfs_get_parameter_bool(parlist, 00875 "kmos.kmo_std_star.xcal_interpolation"); 00876 KMO_TRY_CHECK_ERROR_STATE(); 00877 KMO_TRY_EXIT_IF_ERROR( 00878 kmo_dfs_print_parameter_help(parlist, "kmos.kmo_std_star.xcal_interpolation")); 00879 KMO_TRY_ASSURE((xcal_interpolation == TRUE) || 00880 (xcal_interpolation == FALSE), 00881 CPL_ERROR_ILLEGAL_INPUT, 00882 "xcal_interpolation must be TRUE or FALSE!"); 00883 00884 suppress_extension = kmo_dfs_get_parameter_bool(parlist, 00885 "kmos.kmo_std_star.suppress_extension"); 00886 KMO_TRY_CHECK_ERROR_STATE(); 00887 KMO_TRY_EXIT_IF_ERROR( 00888 kmo_dfs_print_parameter_help(parlist, "kmos.kmo_std_star.suppress_extension")); 00889 00890 KMO_TRY_ASSURE((suppress_extension == TRUE) || (suppress_extension == FALSE), 00891 CPL_ERROR_ILLEGAL_INPUT, 00892 "suppress_extension must be TRUE or FALSE!"); 00893 00894 kmo_band_pars_load(parlist, "kmos.kmo_std_star"); 00895 00896 KMO_TRY_EXIT_IF_ERROR( 00897 kmo_combine_pars_load(parlist, 00898 "kmos.kmo_std_star", 00899 &cmethod, 00900 &cpos_rej, 00901 &cneg_rej, 00902 &citer, 00903 &cmin, 00904 &cmax, 00905 FALSE)); 00906 cpl_msg_info("", "-------------------------------------------"); 00907 00908 // 00909 // Check if magnitude/frameset is valid and if throughput and zeropoint should be calculated 00910 // 00911 00912 // Check if all STD frames have the same GRAT-ID 00913 // if not: don't calculate zeropoint and throughput 00914 KMO_TRY_EXIT_IF_NULL( 00915 frameset_std = cpl_frameset_new()); 00916 00917 KMO_TRY_EXIT_IF_NULL( 00918 tmp_frame = kmo_dfs_get_frame(frameset, STD)); 00919 KMO_TRY_EXIT_IF_NULL( 00920 tmp_header = kmclipm_propertylist_load(cpl_frame_get_filename(tmp_frame), 0)); 00921 KMO_TRY_EXIT_IF_NULL( 00922 grat_id = cpl_sprintf("%s", cpl_propertylist_get_string(tmp_header, "ESO INS GRAT1 ID"))); 00923 KMO_TRY_EXIT_IF_ERROR( 00924 cpl_frameset_insert(frameset_std, cpl_frame_duplicate(tmp_frame))); 00925 cpl_propertylist_delete(tmp_header); tmp_header = NULL; 00926 KMO_TRY_CHECK_ERROR_STATE(); 00927 KMO_TRY_EXIT_IF_NULL( 00928 tmp_frame = kmo_dfs_get_frame(frameset, NULL)); 00929 while (tmp_frame != NULL ) { 00930 KMO_TRY_EXIT_IF_NULL( 00931 tmp_header = kmclipm_propertylist_load(cpl_frame_get_filename(tmp_frame), 0)); 00932 if (strcmp(grat_id, cpl_propertylist_get_string(tmp_header, "ESO INS GRAT1 ID")) == 0) { 00933 // same grating 00934 KMO_TRY_EXIT_IF_ERROR( 00935 cpl_frameset_insert(frameset_std, cpl_frame_duplicate(tmp_frame))); 00936 } else { 00937 // there are STD frames with different gratings 00938 if (has_magnitude) { 00939 cpl_msg_warning(cpl_func, "The STD frames have different gratings," 00940 "following QC parameters won't be " 00941 "calculated: QC ZEROPOINT, QC THROUGHPUT," 00942 "QC THROUGHPUT MEAN and QC THROUGHPUT STD"); 00943 } 00944 has_magnitude = FALSE; 00945 } 00946 cpl_propertylist_delete(tmp_header); tmp_header = NULL; 00947 00948 tmp_frame = kmo_dfs_get_frame(frameset, NULL); 00949 KMO_TRY_CHECK_ERROR_STATE(); 00950 } 00951 KMO_TRY_CHECK_ERROR_STATE(); 00952 00953 if (cpl_frameset_count_tags(frameset, ATMOS_MODEL) == 1) { 00954 // check if ATMOS_MODEL is the band as the STD frames 00955 KMO_TRY_EXIT_IF_NULL( 00956 tmp_frame = kmo_dfs_get_frame(frameset, ATMOS_MODEL)); 00957 KMO_TRY_EXIT_IF_NULL( 00958 tmp_sub_header = kmclipm_propertylist_load( cpl_frame_get_filename(tmp_frame), 0)); 00959 KMO_TRY_EXIT_IF_NULL( 00960 tmp_str = cpl_propertylist_get_string(tmp_sub_header, FILT_ID)); 00961 KMO_TRY_ASSURE(strcmp(grat_id, tmp_str) == 0, 00962 CPL_ERROR_ILLEGAL_INPUT, 00963 "ATMOS model must have primary " 00964 "keyword '%s' equal '%s'!!!", 00965 FILT_ID, grat_id); 00966 cpl_propertylist_delete(tmp_sub_header); 00967 tmp_sub_header = NULL; 00968 } 00969 00970 if (has_magnitude) { 00971 // all STD frames have the same GRAT-ID 00972 // now check source of magnitude (user or keyword) 00973 KMO_TRY_EXIT_IF_NULL( 00974 tmp_frame = kmo_dfs_get_frame(frameset, STD)); 00975 KMO_TRY_EXIT_IF_NULL( 00976 tmp_header = kmclipm_propertylist_load(cpl_frame_get_filename(tmp_frame), 0)); 00977 00978 if (strcmp(magnitude_txt, "") == 0) { 00979 // no user defined magnitude 00980 00981 // check for magnitude-keyword 00982 if ((cpl_propertylist_has(tmp_header, STDSTAR_MAG)) && 00983 (cpl_propertylist_get_type(tmp_header, STDSTAR_MAG) == CPL_TYPE_STRING)) 00984 { 00985 KMO_TRY_EXIT_IF_NULL( 00986 magnitude_txt = cpl_propertylist_get_string(tmp_header, STDSTAR_MAG)); 00987 KMO_TRY_EXIT_IF_NULL( 00988 split_mag = kmo_strsplit(magnitude_txt, ",", &nr_split_mag)); 00989 00990 // check if band and number of magnitudes matches 00991 if ((nr_split_mag == 2) && 00992 (strcmp(grat_id, "HK") == 0)) 00993 { 00994 magnitude1 = atof(split_mag[0]); 00995 magnitude2 = atof(split_mag[1]); 00996 cpl_msg_info("", "Magnitude in H: %g", magnitude1); 00997 cpl_msg_info("", "Magnitude in K: %g", magnitude2); 00998 } else if ((nr_split_mag >= 1) && 00999 ((strcmp(grat_id, "K") == 0) || 01000 (strcmp(grat_id, "H") == 0) || 01001 (strcmp(grat_id, "IZ") == 0) || 01002 (strcmp(grat_id, "YJ") == 0))) 01003 { 01004 magnitude1 = atof(split_mag[0]); 01005 cpl_msg_info("", "Magnitude in %s: %g", grat_id, magnitude1); 01006 } else { 01007 // keyword STDSTAR_MAG doesn't match filter 01008 has_magnitude = FALSE; 01009 cpl_msg_warning(cpl_func, "The keyword %s doesn't match to grating'," 01010 "following QC parameters won't be " 01011 "calculated: QC ZEROPOINT, QC THROUGHPUT," 01012 "QC THROUGHPUT MEAN and QC THROUGHPUT STD", STDSTAR_MAG); 01013 } 01014 kmo_strfreev(split_mag); 01015 } else { 01016 // keyword STDSTAR_MAG unavailable or wrong type 01017 has_magnitude = FALSE; 01018 cpl_msg_warning(cpl_func, "The keyword %s is not set or of wrong type," 01019 "following QC parameters won't be " 01020 "calculated: QC ZEROPOINT, QC THROUGHPUT," 01021 "QC THROUGHPUT MEAN and QC THROUGHPUT STD", STDSTAR_MAG); 01022 } 01023 } else { 01024 // magnitude is user specified 01025 cpl_msg_info(cpl_func, "Magnitude has been specified by user. Any " 01026 "value in keyword %s will be ignored.", STDSTAR_MAG); 01027 01028 KMO_TRY_EXIT_IF_NULL( 01029 split_mag = kmo_strsplit(magnitude_txt, ",", &nr_split_mag)); 01030 switch (nr_split_mag) { 01031 case 1: 01032 magnitude1 = atof(split_mag[0]); 01033 cpl_msg_info("", "Magnitude in %s: %g", grat_id, magnitude1); 01034 break; 01035 case 2: 01036 magnitude1 = atof(split_mag[0]); 01037 magnitude2 = atof(split_mag[1]); 01038 cpl_msg_info("", "Magnitude in H: %g", magnitude1); 01039 cpl_msg_info("", "Magnitude in K: %g", magnitude2); 01040 break; 01041 default: 01042 KMO_TRY_ASSURE(1 == 0, 01043 CPL_ERROR_ILLEGAL_INPUT, 01044 "Provided magnitude was in wrong format! " 01045 "Either a single float value or two separated by comma"); 01046 } 01047 kmo_strfreev(split_mag); 01048 } 01049 cpl_propertylist_delete(tmp_header); tmp_header = NULL; 01050 } // if (has_magnitude) 01051 cpl_msg_info("", "-------------------------------------------"); 01052 KMO_TRY_CHECK_ERROR_STATE(); 01053 01054 // 01055 // check for spectral type (--startype) (user or keyword) 01056 // 01057 if (strcmp(spec_type, "") == 0) { 01058 // no user defined startype 01059 01060 KMO_TRY_EXIT_IF_NULL( 01061 tmp_frame = kmo_dfs_get_frame(frameset, STD)); 01062 KMO_TRY_EXIT_IF_NULL( 01063 tmp_header = kmclipm_propertylist_load(cpl_frame_get_filename(tmp_frame), 0)); 01064 01065 // check for startype-keyword 01066 if ((cpl_propertylist_has(tmp_header, STDSTAR_TYPE)) && 01067 (cpl_propertylist_get_type(tmp_header, STDSTAR_TYPE) == CPL_TYPE_STRING)) 01068 { 01069 KMO_TRY_EXIT_IF_NULL( 01070 spec_type = cpl_propertylist_get_string(tmp_header, STDSTAR_TYPE)); 01071 } else { 01072 // keyword STDSTAR_TYPE unavailable or wrong type 01073 } 01074 } else { 01075 // startype is user specified 01076 cpl_msg_info(cpl_func, "Type of star has been specified by user. Any " 01077 "value in keyword %s will be ignored.", STDSTAR_TYPE); 01078 } 01079 KMO_TRY_CHECK_ERROR_STATE(); 01080 01081 if (strlen(spec_type) > 0) { 01082 if (kmo_get_spec_type(spec_type, spec_class, lum_class) != CPL_ERROR_NONE) { 01083 cpl_error_reset(); 01084 spec_class[0] = '\0'; 01085 lum_class[0] = '\0'; 01086 star_type[0] = '\0'; 01087 cpl_msg_warning("", "The keyword %s is not set or of wrong type nor was it provided by the user. " 01088 "Can't divide solar spectrum for G stars or fit a profile " 01089 "to atmospheric transmission for OBAF stars and can't " 01090 "divide blackbody for any star.", STDSTAR_TYPE); 01091 cpl_msg_warning("", "%s = '%s' (should be something like e.g.'G2V' odr 'A9III')", STDSTAR_TYPE, spec_type); 01092 } else { 01093 strncpy(star_type, spec_class, 1); 01094 star_type[1] = '\0'; 01095 cpl_msg_info("", "Spectral class: %s", spec_class); 01096 cpl_msg_info("", "Luminosity class: %s", lum_class); 01097 } 01098 } else { 01099 spec_class[0] = '\0'; 01100 lum_class[0] = '\0'; 01101 star_type[0] = '\0'; 01102 cpl_msg_warning("", "The keyword %s is not set nor was it provided by the user. " 01103 "Can't divide solar spectrum for G stars or fit a profile " 01104 "to atmospheric transmission for OBAF stars and can't " 01105 "divide blackbody for any star.", STDSTAR_TYPE); 01106 } 01107 cpl_propertylist_delete(tmp_header); tmp_header = NULL; 01108 cpl_msg_info("", "-------------------------------------------"); 01109 KMO_TRY_CHECK_ERROR_STATE(); 01110 01111 // assure that filters, grating and rotation offsets match for 01112 // XCAL, YCAL, LCAL and for data frame to reconstruct (except DARK 01113 // frames) 01114 // check if filter_id and grating_id match for all detectors 01115 KMO_TRY_EXIT_IF_ERROR( 01116 kmo_check_frameset_setup(frameset, XCAL, FALSE, FALSE, TRUE)); 01117 KMO_TRY_EXIT_IF_ERROR( 01118 kmo_check_frame_setup(frameset, XCAL, YCAL, TRUE, FALSE, TRUE)); 01119 KMO_TRY_EXIT_IF_ERROR( 01120 kmo_check_frame_setup(frameset, XCAL, LCAL, TRUE, FALSE, TRUE)); 01121 KMO_TRY_EXIT_IF_ERROR( 01122 kmo_check_frame_setup(frameset, XCAL, MASTER_FLAT, TRUE, FALSE, TRUE)); 01123 KMO_TRY_EXIT_IF_ERROR( 01124 kmo_check_frame_setup(frameset, XCAL, STD, FALSE, FALSE, TRUE)); 01125 01126 if (cpl_frameset_count_tags(frameset, ILLUM_CORR) == 1) { 01127 KMO_TRY_EXIT_IF_ERROR( 01128 kmo_check_frame_setup(frameset, XCAL, ILLUM_CORR, TRUE, FALSE, FALSE)); 01129 } 01130 01131 // check descriptors of all frames 01132 KMO_TRY_EXIT_IF_NULL( 01133 xcal_frame = kmo_dfs_get_frame(frameset, XCAL)); 01134 01135 desc1 = kmo_identify_fits_header(cpl_frame_get_filename(xcal_frame)); 01136 KMO_TRY_CHECK_ERROR_STATE(); 01137 01138 KMO_TRY_ASSURE((desc1.nr_ext % 3 == 0) && 01139 (desc1.ex_badpix == FALSE) && 01140 (desc1.fits_type == f2d_fits) && 01141 (desc1.frame_type == detector_frame), 01142 CPL_ERROR_ILLEGAL_INPUT, 01143 "XCAL isn't in the correct format!!!"); 01144 01145 KMO_TRY_EXIT_IF_NULL( 01146 ycal_frame = kmo_dfs_get_frame(frameset, YCAL)); 01147 desc2 = kmo_identify_fits_header(cpl_frame_get_filename(ycal_frame)); 01148 KMO_TRY_CHECK_ERROR_STATE(); 01149 01150 KMO_TRY_ASSURE((desc1.nr_ext == desc2.nr_ext) && 01151 (desc1.ex_badpix == desc2.ex_badpix) && 01152 (desc1.fits_type == desc2.fits_type) && 01153 (desc1.frame_type == desc2.frame_type), 01154 CPL_ERROR_ILLEGAL_INPUT, 01155 "YCAL isn't in the correct format!!!"); 01156 kmo_free_fits_desc(&desc2); 01157 kmo_init_fits_desc(&desc2); 01158 01159 KMO_TRY_EXIT_IF_NULL( 01160 lcal_frame = kmo_dfs_get_frame(frameset, LCAL)); 01161 desc2 = kmo_identify_fits_header(cpl_frame_get_filename(lcal_frame)); 01162 KMO_TRY_CHECK_ERROR_STATE(); 01163 01164 KMO_TRY_ASSURE((desc1.nr_ext == desc2.nr_ext) && 01165 (desc1.ex_badpix == desc2.ex_badpix) && 01166 (desc1.fits_type == desc2.fits_type) && 01167 (desc1.frame_type == desc2.frame_type), 01168 CPL_ERROR_ILLEGAL_INPUT, 01169 "YCAL isn't in the correct format!!!"); 01170 kmo_free_fits_desc(&desc2); 01171 kmo_init_fits_desc(&desc2); 01172 01173 KMO_TRY_EXIT_IF_NULL( 01174 flat_frame = kmo_dfs_get_frame(frameset, MASTER_FLAT)); 01175 desc2 = kmo_identify_fits_header(cpl_frame_get_filename(flat_frame)); 01176 KMO_TRY_CHECK_ERROR_STATE(); 01177 01178 KMO_TRY_ASSURE((desc2.nr_ext % 6 == 0) && 01179 (desc1.ex_badpix == desc2.ex_badpix) && 01180 (desc1.fits_type == desc2.fits_type) && 01181 (desc1.frame_type == desc2.frame_type), 01182 CPL_ERROR_ILLEGAL_INPUT, 01183 "MASTER_FLAT isn't in the correct format!!!"); 01184 kmo_free_fits_desc(&desc2); 01185 kmo_init_fits_desc(&desc2); 01186 01187 if (cpl_frameset_count_tags(frameset, ILLUM_CORR) == 1) { 01188 KMO_TRY_EXIT_IF_NULL( 01189 illum_frame = kmo_dfs_get_frame(frameset, ILLUM_CORR)); 01190 desc2 = kmo_identify_fits_header(cpl_frame_get_filename(illum_frame)); 01191 KMO_TRY_CHECK_ERROR_STATE(); 01192 KMO_TRY_ASSURE(((desc2.nr_ext == 24) || (desc2.nr_ext == 48)) && 01193 (desc2.ex_badpix == FALSE) && 01194 (desc2.fits_type == f2i_fits) && 01195 (desc2.frame_type == ifu_frame), 01196 CPL_ERROR_ILLEGAL_INPUT, 01197 "ILLUM_CORR isn't in the correct format!!!"); 01198 kmo_free_fits_desc(&desc2); 01199 kmo_init_fits_desc(&desc2); 01200 } 01201 01202 if (cpl_frameset_count_tags(frameset, SPEC_TYPE_LOOKUP) == 1) { 01203 KMO_TRY_EXIT_IF_NULL( 01204 tmp_frame = kmo_dfs_get_frame(frameset, SPEC_TYPE_LOOKUP)); 01205 desc2 = kmo_identify_fits_header(cpl_frame_get_filename(tmp_frame)); 01206 KMO_TRY_CHECK_ERROR_STATE(); 01207 KMO_TRY_ASSURE((desc2.nr_ext == 1) && 01208 (desc2.ex_badpix == FALSE) && 01209 (desc2.fits_type == f2l_fits) && 01210 (desc2.frame_type == list_frame), 01211 CPL_ERROR_ILLEGAL_INPUT, 01212 "SPEC_TYPE_LOOKUP isn't in the correct format!!!"); 01213 kmo_free_fits_desc(&desc2); 01214 kmo_init_fits_desc(&desc2); 01215 } 01216 01217 if (cpl_frameset_count_tags(frameset, SOLAR_SPEC) == 1) { 01218 KMO_TRY_EXIT_IF_NULL( 01219 tmp_frame = kmo_dfs_get_frame(frameset, SOLAR_SPEC)); 01220 desc2 = kmo_identify_fits_header(cpl_frame_get_filename(tmp_frame)); 01221 KMO_TRY_CHECK_ERROR_STATE(); 01222 KMO_TRY_ASSURE((desc2.nr_ext == 1) && 01223 (desc2.ex_badpix == FALSE) && 01224 (desc2.fits_type == f1s_fits) && 01225 (desc2.frame_type == spectrum_frame), 01226 CPL_ERROR_ILLEGAL_INPUT, 01227 "SOLAR_SPEC isn't in the correct format!!!"); 01228 kmo_free_fits_desc(&desc2); 01229 kmo_init_fits_desc(&desc2); 01230 } 01231 01232 if (cpl_frameset_count_tags(frameset, ATMOS_MODEL) == 1) { 01233 KMO_TRY_EXIT_IF_NULL( 01234 tmp_frame = kmo_dfs_get_frame(frameset, ATMOS_MODEL)); 01235 desc2 = kmo_identify_fits_header(cpl_frame_get_filename(tmp_frame)); 01236 KMO_TRY_CHECK_ERROR_STATE(); 01237 KMO_TRY_ASSURE((desc2.nr_ext == 1) && 01238 (desc2.ex_badpix == FALSE) && 01239 (desc2.fits_type == f1s_fits) && 01240 (desc2.frame_type == spectrum_frame), 01241 CPL_ERROR_ILLEGAL_INPUT, 01242 "ATMOS_MODEL isn't in the correct format!!!"); 01243 kmo_free_fits_desc(&desc2); 01244 kmo_init_fits_desc(&desc2); 01245 } 01246 01247 KMO_TRY_EXIT_IF_NULL( 01248 tmp_frame = kmo_dfs_get_frame(frameset, STD)); 01249 while (tmp_frame != NULL ) { 01250 desc2 = kmo_identify_fits_header(cpl_frame_get_filename(tmp_frame)); 01251 KMO_TRY_CHECK_ERROR_STATE(); 01252 KMO_TRY_ASSURE((desc2.nr_ext == 3) && 01253 (desc2.ex_badpix == FALSE) && 01254 (desc2.fits_type == raw_fits) && 01255 (desc2.frame_type == detector_frame), 01256 CPL_ERROR_ILLEGAL_INPUT, 01257 "STD isn't in the correct format!!!"); 01258 nr_devices = desc2.nr_ext; 01259 kmo_free_fits_desc(&desc2); 01260 kmo_init_fits_desc(&desc2); 01261 01262 tmp_frame = kmo_dfs_get_frame(frameset, NULL); 01263 KMO_TRY_CHECK_ERROR_STATE(); 01264 } 01265 KMO_TRY_EXIT_IF_NULL( 01266 tmp_frame = kmo_dfs_get_frame(frameset, STD)); 01267 KMO_TRY_EXIT_IF_NULL( 01268 suffix = kmo_dfs_get_suffix(tmp_frame, TRUE, FALSE)); 01269 01270 KMO_TRY_EXIT_IF_ERROR( 01271 kmo_check_frame_setup_md5_xycal(frameset)); 01272 KMO_TRY_EXIT_IF_ERROR( 01273 kmo_check_frame_setup_md5(frameset)); 01274 01275 cpl_msg_info("", "Detected instrument setup: %s", suffix+1); 01276 cpl_msg_info("", "(grating 1, 2 & 3)"); 01277 01278 // check which IFUs are active for all frames 01279 KMO_TRY_EXIT_IF_NULL( 01280 unused_ifus_before = kmo_get_unused_ifus(frameset, 0, 0)); 01281 01282 KMO_TRY_EXIT_IF_NULL( 01283 unused_ifus_after = kmo_duplicate_unused_ifus(unused_ifus_before)); 01284 01285 kmo_print_unused_ifus(unused_ifus_before, FALSE); 01286 01287 /* --- load data --- */ 01288 01289 if ((cpl_frameset_count_tags(frameset, SPEC_TYPE_LOOKUP) == 1) && 01290 ((strlen(spec_class) > 0) || (strlen(lum_class) > 0))) 01291 { 01292 // get star temperature out of SPEC_TYPE_LOOKUP table 01293 KMO_TRY_EXIT_IF_NULL( 01294 spec_type_LUT = kmo_dfs_load_table(frameset, SPEC_TYPE_LOOKUP, 1, 0)); 01295 star_temperature = kmo_get_temperature(spec_type_LUT, spec_class, lum_class); 01296 KMO_TRY_CHECK_ERROR_STATE(); 01297 } else if (cpl_frameset_count_tags(frameset, SPEC_TYPE_LOOKUP) != 1) { 01298 cpl_msg_warning("","No SPEC_TYPE_LOOKUP was provided! Can't divide blackbody."); 01299 } else if ((strlen(spec_class) == 0) || (strlen(lum_class) == 0)) { 01300 // cpl_msg_warning("","No startype was provided! Can't " 01301 // "divide blackbody."); 01302 } 01303 01304 // allocate intermediate memory 01305 KMO_TRY_EXIT_IF_NULL( 01306 stored_telluric_data = (cpl_vector**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01307 sizeof(cpl_vector*))); 01308 KMO_TRY_EXIT_IF_NULL( 01309 stored_telluric_noise = (cpl_vector**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01310 sizeof(cpl_vector*))); 01311 KMO_TRY_EXIT_IF_NULL( 01312 stored_starspec_data = (cpl_vector**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01313 sizeof(cpl_vector*))); 01314 KMO_TRY_EXIT_IF_NULL( 01315 stored_starspec_noise = (cpl_vector**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01316 sizeof(cpl_vector*))); 01317 KMO_TRY_EXIT_IF_NULL( 01318 stored_psf_data = (cpl_image**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01319 sizeof(cpl_image*))); 01320 KMO_TRY_EXIT_IF_NULL( 01321 stored_mask = (cpl_image**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01322 sizeof(cpl_image*))); 01323 KMO_TRY_EXIT_IF_NULL( 01324 stored_data_cube = (cpl_imagelist**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01325 sizeof(cpl_imagelist*))); 01326 KMO_TRY_EXIT_IF_NULL( 01327 stored_noise_cube = (cpl_imagelist**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01328 sizeof(cpl_imagelist*))); 01329 KMO_TRY_EXIT_IF_NULL( 01330 stored_qc_throughput = (double*)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01331 sizeof(double))); 01332 KMO_TRY_EXIT_IF_NULL( 01333 stored_sub_psf_headers = (cpl_propertylist**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01334 sizeof(cpl_propertylist*))); 01335 KMO_TRY_EXIT_IF_NULL( 01336 stored_sub_tel_data_headers = (cpl_propertylist**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01337 sizeof(cpl_propertylist*))); 01338 KMO_TRY_EXIT_IF_NULL( 01339 stored_sub_tel_noise_headers = (cpl_propertylist**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01340 sizeof(cpl_propertylist*))); 01341 01342 if (save_cubes) { 01343 KMO_TRY_EXIT_IF_NULL( 01344 stored_sub_cube_data_headers = (cpl_propertylist**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01345 sizeof(cpl_propertylist*))); 01346 KMO_TRY_EXIT_IF_NULL( 01347 stored_sub_cube_noise_headers = (cpl_propertylist**)cpl_calloc(nr_devices*KMOS_IFUS_PER_DETECTOR, 01348 sizeof(cpl_propertylist*))); 01349 } 01350 01351 // get bounds 01352 KMO_TRY_EXIT_IF_NULL( 01353 tmp_header = kmo_dfs_load_primary_header(frameset, XCAL)); 01354 KMO_TRY_EXIT_IF_NULL( 01355 bounds = kmclipm_extract_bounds(tmp_header)); 01356 cpl_propertylist_delete(tmp_header); tmp_header = NULL; 01357 01358 // setup grid definition, wavelength start and end points will be set 01359 // in the detector loop 01360 KMO_TRY_EXIT_IF_ERROR( 01361 kmclipm_setup_grid(&gd, imethod, neighborhoodRange, KMOS_PIX_RESOLUTION, 0.)); 01362 01363 // get valid STD frames with objects in it and associated sky exposures 01364 KMO_TRY_EXIT_IF_NULL( 01365 obj_sky_struct = kmo_create_objSkyStruct(frameset_std, STD, FALSE)); 01366 kmo_print_objSkyStruct(obj_sky_struct); 01367 01368 // loop the object-sky pairs 01369 if (obj_sky_struct->size == 0) { 01370 cpl_msg_warning(cpl_func,"Not a single frame contains an object"); 01371 } else { 01372 strcpy(filename_telluric, TELLURIC); 01373 strcpy(filename_starspec, STAR_SPEC); 01374 strcpy(filename_psf, STD_IMAGE); 01375 strcpy(filename_mask, STD_MASK); 01376 strcpy(filename_cubes, STD_CUBE); 01377 01378 obj_frame = obj_sky_struct->table[nr_exp].objFrame; 01379 KMO_TRY_EXIT_IF_NULL( 01380 main_header_tel = kmclipm_propertylist_load(cpl_frame_get_filename(obj_frame), 0)); 01381 01382 exptime = cpl_propertylist_get_double(main_header_tel, EXPTIME); 01383 KMO_TRY_CHECK_ERROR_STATE(); 01384 01385 // load, process & store frames 01386 01387 for (i = 1; i <= nr_devices; i++) { 01388 // extract LCAL image close to ROTANGLE 0. assuming that the wavelength range 01389 // doesn't differ too much with different ROTANGLEs. 01390 print_cal_angle_msg_once = FALSE; 01391 double rotangle_found; 01392 KMO_TRY_EXIT_IF_NULL( 01393 lcal = kmo_dfs_load_cal_image(frameset, LCAL, i, FALSE, 0., FALSE, NULL, 01394 &rotangle_found, -1, 0, 0)); 01395 if (i==1) { 01396 print_cal_angle_msg_once = TRUE; 01397 } 01398 if (tmp_band_method != NULL) { 01399 band_method = atoi(tmp_band_method); 01400 } 01401 01402 // get filter for this detector 01403 // ESO INS FILTi ID 01404 KMO_TRY_EXIT_IF_NULL( 01405 keyword = cpl_sprintf("%s%d%s", IFU_FILTID_PREFIX, i, IFU_FILTID_POSTFIX)); 01406 filter_id = cpl_propertylist_get_string(main_header_tel, keyword); 01407 cpl_free(keyword); keyword = NULL; 01408 01409 KMO_TRY_EXIT_IF_NULL( 01410 band_table = kmo_dfs_load_table(frameset, WAVE_BAND, 1, 0)); 01411 KMO_TRY_EXIT_IF_ERROR( 01412 kmclipm_setup_grid_band_lcal(&gd, lcal, filter_id, 01413 band_method, band_table)); 01414 cpl_image_delete(lcal); lcal = NULL; 01415 cpl_table_delete(band_table); band_table = NULL; 01416 01417 // load sub_header of original F2D image 01418 KMO_TRY_EXIT_IF_NULL( 01419 sub_header_orig = kmclipm_propertylist_load( cpl_frame_get_filename(obj_frame), i)); 01420 01421 for (j = 0; j < KMOS_IFUS_PER_DETECTOR; j++) { 01422 ifu_nr = (i-1)*KMOS_IFUS_PER_DETECTOR + j + 1; 01423 // check if IFU is valid according to main header keywords & 01424 // calibration files 01425 // AND check if there is a sky frame available for this IFU 01426 kmo_collapse_objSkyStruct(obj_sky_struct, ifu_nr, 01427 &obj_frame, &sky_frame); 01428 01429 KMO_TRY_EXIT_IF_NULL( 01430 punused_ifus = cpl_array_get_data_int_const(unused_ifus_after[i-1])); 01431 01432 // Search for keyword ESO OCS ARMi NOTUSED 01433 // If not present (CPL_ERROR_DATA_NOT_FOUND) we will eventually 01434 // process standard star 01435 KMO_TRY_EXIT_IF_NULL( 01436 keyword = cpl_sprintf("%s%d%s", IFU_VALID_PREFIX, ifu_nr, IFU_VALID_POSTFIX)); 01437 tmp_str = cpl_propertylist_get_string(main_header_tel, keyword); 01438 cpl_free(keyword); keyword = NULL; 01439 01440 if ((cpl_error_get_code() == CPL_ERROR_DATA_NOT_FOUND) && 01441 (bounds[2*(ifu_nr-1)] != -1) && 01442 (bounds[2*(ifu_nr-1)+1] != -1) && 01443 (sky_frame != NULL) && 01444 (punused_ifus[j] == 0)) 01445 { 01446 cpl_error_reset(); 01447 // IFU is valid 01448 01449 if (sky_frame != NO_CORRESPONDING_SKYFRAME) { 01450 cpl_msg_info("","Processing standard star in IFU %d " 01451 "(obj: %s, sky: %s)", ifu_nr, 01452 cpl_frame_get_filename(obj_frame), 01453 cpl_frame_get_filename(sky_frame)); 01454 } else { 01455 sky_frame = NULL; 01456 cpl_msg_warning("","Processing standard star in IFU %d " 01457 "(obj: %s, no corresponding sky frame", 01458 ifu_nr, cpl_frame_get_filename(obj_frame)); 01459 } 01460 01461 nr_std_stars++; 01462 01463 char *ggg = cpl_sprintf("%s%d", PRO_STD, ifu_nr); 01464 KMO_TRY_EXIT_IF_ERROR( 01465 cpl_propertylist_update_int(main_header_tel, ggg, 1)); 01466 cpl_free(ggg); ggg = NULL; 01467 01468 // calculate WCS and make copies of sub_header 01469 KMO_TRY_EXIT_IF_NULL( 01470 tmp_sub_header = cpl_propertylist_duplicate(sub_header_orig)); 01471 KMO_TRY_EXIT_IF_ERROR( 01472 kmo_calc_wcs_gd(main_header_tel, tmp_sub_header, ifu_nr, gd)); 01473 KMO_TRY_EXIT_IF_NULL( 01474 stored_sub_tel_data_headers[ifu_nr-1] = 01475 cpl_propertylist_duplicate(tmp_sub_header)); 01476 KMO_TRY_EXIT_IF_NULL( 01477 stored_sub_psf_headers[ifu_nr-1] = 01478 cpl_propertylist_duplicate(tmp_sub_header)); 01479 if (save_cubes) { 01480 KMO_TRY_EXIT_IF_NULL( 01481 stored_sub_cube_data_headers[ifu_nr-1] = 01482 cpl_propertylist_duplicate(tmp_sub_header)); 01483 } 01484 cpl_propertylist_delete(tmp_sub_header); 01485 tmp_sub_header = NULL; 01486 01487 // 01488 // adjust telluric-headers: copy CRPIX3 to CRPIX1, 01489 // 01490 cpl_propertylist_update_double(stored_sub_tel_data_headers[ifu_nr-1], CRVAL1, 01491 cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CRVAL3)); 01492 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CRVAL2); 01493 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CRVAL3); 01494 KMO_TRY_CHECK_ERROR_STATE(); 01495 01496 // CRPIX 01497 cpl_propertylist_update_double(stored_sub_tel_data_headers[ifu_nr-1], CRPIX1, 01498 cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CRPIX3)); 01499 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CRPIX2); 01500 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CRPIX3); 01501 KMO_TRY_CHECK_ERROR_STATE(); 01502 01503 // CDELT 01504 cdelt3 = cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CDELT3); 01505 cpl_propertylist_update_double(stored_sub_tel_data_headers[ifu_nr-1], CDELT1, 01506 cdelt3); 01507 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CDELT2); 01508 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CDELT3); 01509 KMO_TRY_CHECK_ERROR_STATE(); 01510 01511 // CTYPE 01512 cpl_propertylist_update_string(stored_sub_tel_data_headers[ifu_nr-1], CTYPE1, 01513 cpl_propertylist_get_string(stored_sub_tel_data_headers[ifu_nr-1], CTYPE3)); 01514 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CTYPE2); 01515 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CTYPE3); 01516 KMO_TRY_CHECK_ERROR_STATE(); 01517 01518 // CUNIT 01519 cpl_propertylist_update_string(stored_sub_tel_data_headers[ifu_nr-1], CUNIT1, 01520 cpl_propertylist_get_string(stored_sub_tel_data_headers[ifu_nr-1], CUNIT3)); 01521 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CUNIT2); 01522 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CUNIT3); 01523 01524 // CDx_x 01525 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD1_1); 01526 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD1_2); 01527 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD1_3); 01528 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD2_1); 01529 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD2_2); 01530 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD2_3); 01531 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD3_1); 01532 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD3_2); 01533 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD3_3); 01534 KMO_TRY_CHECK_ERROR_STATE(); 01535 01536 // 01537 // adjust psf-headers: delete CRPIX3 etc. 01538 // 01539 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CRPIX3); 01540 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CRPIX3); 01541 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CDELT3); 01542 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CRVAL3); 01543 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CTYPE3); 01544 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CUNIT3); 01545 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD1_3); 01546 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD2_3); 01547 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD3_1); 01548 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD3_2); 01549 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD3_3); 01550 KMO_TRY_CHECK_ERROR_STATE(); 01551 01552 KMO_TRY_EXIT_IF_ERROR( 01553 kmo_reconstruct_sci(ifu_nr, 01554 bounds[2*(ifu_nr-1)], 01555 bounds[2*(ifu_nr-1)+1], 01556 obj_frame, 01557 STD, 01558 sky_frame, 01559 STD, 01560 flat_frame, 01561 xcal_frame, 01562 ycal_frame, 01563 lcal_frame, 01564 NULL, 01565 &gd, 01566 &stored_data_cube[ifu_nr-1], 01567 &stored_noise_cube[ifu_nr-1], 01568 flux, 01569 background, 01570 xcal_interpolation)); 01571 01572 // divide illumination correction from the data_cube 01573 // (illumination noise will be very small versus 01574 // noise_cube, so it is skipped here) 01575 if (cpl_frameset_count_tags(frameset, ILLUM_CORR) == 1) { 01576 KMO_TRY_EXIT_IF_NULL( 01577 illum_corr = kmo_dfs_load_image_frame(illum_frame, ifu_nr, 01578 FALSE, FALSE, NULL)); 01579 KMO_TRY_EXIT_IF_ERROR( 01580 cpl_imagelist_divide_image(stored_data_cube[ifu_nr-1], illum_corr)); 01581 cpl_image_delete(illum_corr); illum_corr = NULL; 01582 } 01583 01584 // calculate QC_STD_TRACE 01585 // (the distance of the PSF to the centre) 01586 KMO_TRY_EXIT_IF_ERROR( 01587 kmo_calculate_std_trace(stored_data_cube[ifu_nr-1], fmethod, &std_trace)); 01588 01589 KMO_TRY_EXIT_IF_ERROR( 01590 kmclipm_update_property_double(stored_sub_psf_headers[ifu_nr-1], 01591 QC_STD_TRACE, std_trace, 01592 "[pix] distance of PSF and centre of IFU")); 01593 01594 KMO_TRY_EXIT_IF_NULL( 01595 identified_slices = cpl_vector_new(cpl_imagelist_get_size(stored_data_cube[ifu_nr-1]))); 01596 KMO_TRY_EXIT_IF_ERROR( 01597 cpl_vector_fill(identified_slices, 1.0)); 01598 01599 // collapse cube and get PSF image 01600 KMO_TRY_EXIT_IF_ERROR( 01601 kmclipm_make_image(stored_data_cube[ifu_nr-1], NULL, 01602 &stored_psf_data[ifu_nr-1], NULL, 01603 identified_slices, 01604 cmethod, 01605 cpos_rej, cneg_rej, citer, 01606 cmax, cmin)); 01607 cpl_vector_delete(identified_slices); 01608 identified_slices= NULL; 01609 01610 // fit a 2D profile to get a mask and fwhm in x and y, 01611 KMO_TRY_EXIT_IF_NULL( 01612 tmp_vec = kmo_fit_profile_2D(stored_psf_data[ifu_nr-1], 01613 NULL, 01614 fmethod, 01615 &stored_mask[ifu_nr-1], 01616 &pl_psf)); 01617 01618 // normalise mask to 1 and clip values below 0.5 01619 cpl_image_divide_scalar(stored_mask[ifu_nr-1], cpl_image_get_max(stored_mask[ifu_nr-1])); 01620 KMO_TRY_CHECK_ERROR_STATE(); 01621 01622 int dummy=0; 01623 for (gx = 1; gx <= cpl_image_get_size_x(stored_mask[ifu_nr-1]); gx++) { 01624 for (gy = 1; gy <= cpl_image_get_size_y(stored_mask[ifu_nr-1]); gy++) { 01625 if (cpl_image_get(stored_mask[ifu_nr-1], gx, gy, &dummy) < 0.5) { 01626 cpl_image_set(stored_mask[ifu_nr-1], gx, gy, 0.); 01627 } else { 01628 cpl_image_set(stored_mask[ifu_nr-1], gx, gy, 1.); 01629 } 01630 } 01631 } 01632 KMO_TRY_CHECK_ERROR_STATE(); 01633 01634 // update subheader with fit parameters 01635 KMO_TRY_EXIT_IF_ERROR( 01636 cpl_propertylist_append(stored_sub_tel_data_headers[ifu_nr-1], pl_psf)); 01637 cpl_propertylist_delete(pl_psf); pl_psf = NULL; 01638 01639 // store QC_SPAT_RES (RMS of fwhm_x and fwhm_y) 01640 double factor_fwhm = 2*sqrt(2*log(2)); 01641 double spat_res = pow(cpl_vector_get(tmp_vec, 4) * factor_fwhm, 2); 01642 spat_res += pow(cpl_vector_get(tmp_vec, 5) * factor_fwhm, 2); 01643 spat_res /= 2; 01644 KMO_TRY_EXIT_IF_ERROR( 01645 kmclipm_update_property_double(stored_sub_psf_headers[ifu_nr-1], 01646 QC_SPAT_RES, 01647 sqrt(spat_res)*KMOS_PIX_RESOLUTION, 01648 "[arcsec] mean fwhm resolution of PSF")); 01649 cpl_vector_delete(tmp_vec); tmp_vec = NULL; 01650 01651 // extract spectrum in masked area 01652 KMO_TRY_EXIT_IF_ERROR( 01653 kmo_priv_extract_spec(stored_data_cube[ifu_nr-1], 01654 stored_noise_cube[ifu_nr-1], 01655 stored_mask[ifu_nr-1], 01656 &tmp_spec_data, 01657 &tmp_spec_noise)); 01658 01659 // store to save to disk later on 01660 stored_starspec_data[ifu_nr-1] = cpl_vector_duplicate(tmp_spec_data); 01661 if (tmp_spec_noise != NULL) { 01662 stored_starspec_noise[ifu_nr-1] = cpl_vector_duplicate(tmp_spec_noise); 01663 } 01664 KMO_TRY_CHECK_ERROR_STATE(); 01665 01666 // if magnitude is provided 01667 // calculate zeropoint and throughput 01668 if (has_magnitude) { 01669 // extract spectrum of whole are for QC THRUHput and ZEROPOINT 01670 KMO_TRY_EXIT_IF_ERROR( 01671 kmo_priv_extract_spec(stored_data_cube[ifu_nr-1], 01672 NULL, 01673 NULL, 01674 &spec_qc, 01675 NULL)); 01676 01677 // multiply spectrum with area of IFU (196) to get the sum 01678 const cpl_image *tmp_img = cpl_imagelist_get(stored_data_cube[ifu_nr-1], 0); 01679 int tmpx = cpl_image_get_size_x(tmp_img), 01680 tmpy = cpl_image_get_size_x(tmp_img); 01681 cpl_vector_multiply_scalar(spec_qc, tmpx*tmpy); 01682 } 01683 01684 // calculate abscissa of output spectrum 01685 KMO_TRY_EXIT_IF_NULL( 01686 lambda_x = kmo_create_lambda_vec(gd.l.dim, 1, 01687 gd.l.start, 01688 gd.l.delta)); 01689 // 01690 // spectrum correction 01691 // 01692 if ((strcmp(star_type, "O") == 0) || 01693 (strcmp(star_type, "B") == 0) || 01694 (strcmp(star_type, "A") == 0) || 01695 (strcmp(star_type, "F") == 0)) 01696 { 01697 // we have a OBAF star 01698 01699 // if ATMOS_MODEL is present, lines will be removed 01700 if (cpl_frameset_count_tags(frameset, ATMOS_MODEL) == 1) { 01701 // interpolate ATMOS_MODEL to same scale as data 01702 KMO_TRY_EXIT_IF_NULL( 01703 tmp_frame = kmo_dfs_get_frame(frameset, ATMOS_MODEL)); 01704 01705 KMO_TRY_EXIT_IF_NULL( 01706 atmos_model = kmo_interpolate_vector_wcs(tmp_frame, lambda_x)); 01707 cpl_vector *tmp_spec_data_orig = NULL; 01708 int plot_it = 0; 01709 if (plot_it) { 01710 // store original spectrum 01711 KMO_TRY_EXIT_IF_NULL( 01712 tmp_spec_data_orig = cpl_vector_duplicate(tmp_spec_data)); 01713 } 01714 // remove band-specific lines 01715 if (strcmp(filter_id, "H") == 0) { 01716 for (l = 0; l < nr_lines_h; l++) { 01717 KMO_TRY_EXIT_IF_ERROR( 01718 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_h[l], lines_width_h[l])); 01719 } 01720 } else if (strcmp(filter_id, "HK") == 0) { 01721 for (l = 0; l < nr_lines_hk; l++) { 01722 KMO_TRY_EXIT_IF_ERROR( 01723 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_hk[l], lines_width_hk[l])); 01724 } 01725 } else if (strcmp(filter_id, "K") == 0) { 01726 for (l = 0; l < nr_lines_k; l++) { 01727 KMO_TRY_EXIT_IF_ERROR( 01728 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_k[l], lines_width_k[l])); 01729 } 01730 } else if (strcmp(filter_id, "IZ") == 0) { 01731 for (l = 0; l < nr_lines_iz; l++) { 01732 KMO_TRY_EXIT_IF_ERROR( 01733 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_iz[l], lines_width_iz[l])); 01734 } 01735 } else if (strcmp(filter_id, "YJ") == 0) { 01736 for (l = 0; l < nr_lines_yj; l++) { 01737 KMO_TRY_EXIT_IF_ERROR( 01738 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_yj[l], lines_width_yj[l])); 01739 } 01740 } 01741 if (plot_it) { 01742 cpl_vector *tmp_spec_data_atmo = NULL; 01743 cpl_vector *tmp_spec_data_new = NULL; 01744 KMO_TRY_EXIT_IF_NULL( 01745 tmp_spec_data_atmo = cpl_vector_duplicate(tmp_spec_data_orig)); 01746 KMO_TRY_EXIT_IF_NULL( 01747 tmp_spec_data_new = cpl_vector_duplicate(tmp_spec_data)); 01748 KMO_TRY_EXIT_IF_ERROR( 01749 cpl_vector_divide(tmp_spec_data_atmo, atmos_model)); 01750 01751 char *sss = cpl_sprintf("atmo_div_%s.fits", filter_id); 01752 if (i == 1) { 01753 cpl_vector_save(tmp_spec_data_atmo, sss, CPL_BPP_IEEE_DOUBLE, stored_sub_tel_data_headers[ifu_nr-1], CPL_IO_CREATE); 01754 } else { 01755 cpl_vector_save(tmp_spec_data_atmo, sss, CPL_BPP_IEEE_DOUBLE, stored_sub_tel_data_headers[ifu_nr-1], CPL_IO_EXTEND); 01756 } 01757 01758 cpl_vector *med_vec = cpl_vector_duplicate(tmp_spec_data_orig); 01759 double median = cpl_vector_get_median(med_vec); 01760 cpl_vector_delete(med_vec); 01761 int ii = 0; 01762 for (ii = 0; ii < cpl_vector_get_size(tmp_spec_data_orig); ii++) { 01763 if (cpl_vector_get(tmp_spec_data_orig, ii) < median/8) 01764 cpl_vector_set(tmp_spec_data_orig, ii, 0); 01765 if (cpl_vector_get(tmp_spec_data_atmo, ii) < median/8) 01766 cpl_vector_set(tmp_spec_data_atmo, ii, 0); 01767 if (cpl_vector_get(tmp_spec_data_new, ii) < median/8) 01768 cpl_vector_set(tmp_spec_data_new, ii, 0); 01769 01770 if (cpl_vector_get(tmp_spec_data_orig, ii) > 3*median) 01771 cpl_vector_set(tmp_spec_data_orig, ii, 3*median); 01772 if (cpl_vector_get(tmp_spec_data_atmo, ii) > 3*median) 01773 cpl_vector_set(tmp_spec_data_atmo, ii, 3*median); 01774 if (cpl_vector_get(tmp_spec_data_new, ii) > 3*median) 01775 cpl_vector_set(tmp_spec_data_new, ii, 3*median); 01776 } 01777 01778 double *pspec_dup = cpl_vector_get_data(tmp_spec_data_atmo); 01779 for (ii = 0; ii < cpl_vector_get_size(tmp_spec_data_atmo); ii++) { 01780 if (kmclipm_is_nan_or_inf(pspec_dup[ii])) { 01781 pspec_dup[ii] = 0.; 01782 } 01783 } 01784 01785 cpl_bivector *plots[3]; 01786 plots[0] = cpl_bivector_wrap_vectors((cpl_vector*)lambda_x, tmp_spec_data_orig); 01787 plots[1] = cpl_bivector_wrap_vectors((cpl_vector*)lambda_x, tmp_spec_data_atmo); 01788 plots[2] = cpl_bivector_wrap_vectors((cpl_vector*)lambda_x, tmp_spec_data_new); 01789 char *options[3] = {"w l t 'original'", 01790 "w l t 'atmo divided'", 01791 "w l t 'lines removed'"}; 01792 sss = cpl_sprintf("set title '%s-band line removal (DET #%d)';", filter_id, i); 01793 cpl_plot_bivectors(sss, 01794 (const char**)options, "", (const cpl_bivector**)plots, 3); 01795 // cpl_plot_bivectors("set title 'Spectrum with lines removed'; set xrange [2.14:2.19];", 01796 // (const char**)options, "", (const cpl_bivector**)plots, 2); 01797 cpl_bivector_unwrap_vectors(plots[0]); 01798 cpl_bivector_unwrap_vectors(plots[1]); 01799 cpl_bivector_unwrap_vectors(plots[2]); 01800 cpl_free(sss); sss = NULL; 01801 cpl_vector_delete(tmp_spec_data_orig); tmp_spec_data_orig = NULL; 01802 cpl_vector_delete(tmp_spec_data_atmo); tmp_spec_data_atmo = NULL; 01803 cpl_vector_delete(tmp_spec_data_new); tmp_spec_data_new = NULL; 01804 } 01805 cpl_vector_delete(atmos_model); atmos_model = NULL; 01806 } else { 01807 if (line_warning == FALSE) { 01808 cpl_msg_warning("", "No atmospheric model (ATMOS_MODEL) provided! " 01809 "Won't remove any lines."); 01810 line_warning = TRUE; 01811 } 01812 } 01813 } else if (strcmp(star_type, "G") == 0) { 01814 // we have a G star 01815 if (cpl_frameset_count_tags(frameset, SOLAR_SPEC) == 1) { 01816 // interpolate SOLAR_SPEC to same scale as data 01817 // and divide it 01818 KMO_TRY_EXIT_IF_NULL( 01819 tmp_frame = kmo_dfs_get_frame(frameset, SOLAR_SPEC)); 01820 01821 // check if SOLAR_SPEC is the filter_id-one 01822 KMO_TRY_EXIT_IF_NULL( 01823 tmp_sub_header = kmclipm_propertylist_load(cpl_frame_get_filename(tmp_frame), 0)); 01824 KMO_TRY_EXIT_IF_NULL( 01825 tmp_str = cpl_propertylist_get_string(tmp_sub_header, FILT_ID)); 01826 KMO_TRY_ASSURE(strcmp(filter_id, tmp_str) == 0, 01827 CPL_ERROR_ILLEGAL_INPUT, 01828 "SOLAR_SPEC model must have primary " 01829 "keyword '%s' equal '%s'!!!", 01830 FILT_ID, filter_id); 01831 cpl_propertylist_delete(tmp_sub_header); tmp_sub_header = NULL; 01832 01833 KMO_TRY_EXIT_IF_NULL( 01834 solar_spec = kmo_interpolate_vector_wcs(tmp_frame, lambda_x)); 01835 01836 // values are set to zero if solar_spec isn't 01837 // overlapping wavelength range of star apectrum 01838 // completely 01839 KMO_TRY_EXIT_IF_ERROR( 01840 cpl_vector_divide(tmp_spec_data, solar_spec)); 01841 cpl_vector_delete(solar_spec); solar_spec = NULL; 01842 } else { 01843 if (print_warning_once == TRUE) { 01844 cpl_msg_warning("","No solar spectrum (SOLAR_SPEC) provided! " 01845 "Can't divide it from extracted " 01846 "standard star spectrum!"); 01847 print_warning_once = FALSE; 01848 } 01849 } 01850 } else { 01851 // cpl_msg_warning("","No startype was provided! Can't" 01852 // " divide solar spectrum for G stars " 01853 // "or fit a profile to atmospheric " 01854 // "transmission for OBAF stars."); 01855 } 01856 01857 if (star_temperature > 0.0) { 01858 // divide blackbody from tmp_spec_data 01859 KMO_TRY_EXIT_IF_ERROR( 01860 kmo_divide_blackbody(tmp_spec_data, lambda_x, star_temperature)); 01861 } 01862 01863 cpl_vector_delete(lambda_x); lambda_x = NULL; 01864 01865 // normalise telluric and its noise 01866 // mean is taken in lambda defined range 01867 KMO_TRY_EXIT_IF_ERROR( 01868 kmo_calc_band_mean(stored_sub_tel_data_headers[ifu_nr-1], 01869 filter_id, 01870 tmp_spec_data, 01871 tmp_spec_noise, 01872 &mean_data, 01873 &mean_noise)); 01874 01875 KMO_TRY_EXIT_IF_ERROR( 01876 cpl_vector_divide_scalar(tmp_spec_data, mean_data)); 01877 01878 if (tmp_spec_noise != NULL) { 01879 KMO_TRY_EXIT_IF_ERROR( 01880 cpl_vector_divide_scalar(tmp_spec_noise, mean_noise)); 01881 01882 // set noise spectrum also to zero when solar_spec is too short 01883 KMO_TRY_EXIT_IF_NULL( 01884 ptmp_spec_data = cpl_vector_get_data_const(tmp_spec_data)); 01885 KMO_TRY_EXIT_IF_NULL( 01886 ptmp_spec_noise = cpl_vector_get_data(tmp_spec_noise)); 01887 for (k = 0; k < cpl_vector_get_size(tmp_spec_data); k++) { 01888 if (ptmp_spec_data[k] == 0.0) { 01889 ptmp_spec_noise[k] = 0.0; 01890 } 01891 } 01892 } 01893 KMO_TRY_CHECK_ERROR_STATE(); 01894 01895 // store telluric & error spectrum 01896 stored_telluric_data[ifu_nr-1] = tmp_spec_data; 01897 stored_telluric_noise[ifu_nr-1] = tmp_spec_noise; 01898 01899 // if magnitude is provided 01900 // calculate zeropoint and throughput 01901 if (has_magnitude) { 01902 // calculate QC THROUGHPUT 01903 crpix1 = cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CRPIX1); 01904 crval1 = cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CRVAL1); 01905 cdelt1 = cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CDELT1); 01906 KMO_TRY_CHECK_ERROR_STATE(); 01907 01908 KMO_TRY_EXIT_IF_ERROR( 01909 kmo_calc_counts(spec_qc, filter_id, 01910 crpix1, crval1, cdelt1, 01911 &counts1, &counts2)); 01912 KMO_TRY_CHECK_ERROR_STATE(); 01913 01914 counts1 /= exptime; 01915 counts2 /= exptime; 01916 01917 stored_qc_throughput[ifu_nr-1] = 01918 kmo_calc_throughput(magnitude1, magnitude2, counts1, counts2, 01919 cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], GAIN), 01920 filter_id); 01921 KMO_TRY_CHECK_ERROR_STATE(); 01922 01923 if (kmclipm_is_nan_or_inf(stored_qc_throughput[ifu_nr-1])) { 01924 stored_qc_throughput[ifu_nr-1] = -1; 01925 } 01926 KMO_TRY_EXIT_IF_ERROR( 01927 kmclipm_update_property_double(stored_sub_tel_data_headers[ifu_nr-1], 01928 QC_THROUGHPUT, 01929 stored_qc_throughput[ifu_nr-1], 01930 "[] IFU throughput")); 01931 01932 // calculate QC ZEROPOINT 01933 zeropoint = kmo_calc_zeropoint(magnitude1, magnitude2, counts1, counts2, cdelt3, filter_id); 01934 if (kmclipm_is_nan_or_inf(zeropoint)) { 01935 zeropoint = -1; 01936 } 01937 KMO_TRY_CHECK_ERROR_STATE(); 01938 01939 KMO_TRY_EXIT_IF_ERROR( 01940 kmclipm_update_property_double(stored_sub_tel_data_headers[ifu_nr-1], 01941 QC_ZEROPOINT, 01942 zeropoint, 01943 "[mag] IFU zeropoint")); 01944 } 01945 cpl_vector_delete(spec_qc);spec_qc = NULL; 01946 } else { 01947 cpl_error_reset(); 01948 // IFU is invalid 01949 KMO_TRY_EXIT_IF_NULL( 01950 stored_sub_tel_data_headers[ifu_nr-1] = 01951 cpl_propertylist_duplicate(sub_header_orig)); 01952 KMO_TRY_EXIT_IF_NULL( 01953 stored_sub_tel_noise_headers[ifu_nr-1] = 01954 cpl_propertylist_duplicate(sub_header_orig)); 01955 KMO_TRY_EXIT_IF_NULL( 01956 stored_sub_psf_headers[ifu_nr-1] = 01957 cpl_propertylist_duplicate(sub_header_orig)); 01958 if (save_cubes) { 01959 KMO_TRY_EXIT_IF_NULL( 01960 stored_sub_cube_data_headers[ifu_nr-1] = 01961 cpl_propertylist_duplicate(sub_header_orig)); 01962 KMO_TRY_EXIT_IF_NULL( 01963 stored_sub_cube_noise_headers[ifu_nr-1] = 01964 cpl_propertylist_duplicate(sub_header_orig)); 01965 } 01966 } 01967 01968 // create EXTNAME keyword as DATA 01969 KMO_TRY_EXIT_IF_NULL( 01970 extname = kmo_extname_creator(ifu_frame, ifu_nr, EXT_DATA)); 01971 KMO_TRY_EXIT_IF_ERROR( 01972 kmclipm_update_property_string(stored_sub_tel_data_headers[ifu_nr-1], 01973 EXTNAME, extname, "FITS extension name")); 01974 KMO_TRY_EXIT_IF_ERROR( 01975 kmclipm_update_property_string(stored_sub_psf_headers[ifu_nr-1], 01976 EXTNAME, extname, "FITS extension name")); 01977 if (save_cubes) { 01978 KMO_TRY_EXIT_IF_ERROR( 01979 kmclipm_update_property_string(stored_sub_cube_data_headers[ifu_nr-1], 01980 EXTNAME, extname, "FITS extension name")); 01981 } 01982 cpl_free(extname); extname = NULL; 01983 01984 // create EXTNAME keyword as NOISE 01985 if (stored_sub_tel_noise_headers[ifu_nr-1] == NULL) { 01986 KMO_TRY_EXIT_IF_NULL( 01987 stored_sub_tel_noise_headers[ifu_nr-1] = 01988 cpl_propertylist_duplicate( 01989 stored_sub_tel_data_headers[ifu_nr-1])); 01990 } 01991 KMO_TRY_EXIT_IF_NULL( 01992 extname = kmo_extname_creator(ifu_frame, ifu_nr, EXT_NOISE)); 01993 KMO_TRY_EXIT_IF_ERROR( 01994 kmclipm_update_property_string(stored_sub_tel_noise_headers[ifu_nr-1], 01995 EXTNAME, extname, "FITS extension name")); 01996 if (save_cubes) { 01997 KMO_TRY_EXIT_IF_NULL( 01998 stored_sub_cube_noise_headers[ifu_nr-1] = 01999 cpl_propertylist_duplicate( 02000 stored_sub_cube_data_headers[ifu_nr-1])); 02001 KMO_TRY_EXIT_IF_ERROR( 02002 kmclipm_update_property_string(stored_sub_cube_noise_headers[ifu_nr-1], 02003 EXTNAME, extname, "FITS extension name")); 02004 } 02005 cpl_free(extname); extname = NULL; 02006 } // for j ifus (load, process & store) 02007 cpl_propertylist_delete(sub_header_orig); sub_header_orig = NULL; 02008 } // for i detectors (load, process & store) 02009 KMO_TRY_CHECK_ERROR_STATE(); 02010 02011 // write QC parameter: nr of std stars 02012 KMO_TRY_EXIT_IF_ERROR( 02013 kmclipm_update_property_int(main_header_tel, QC_NR_STD_STARS, 02014 nr_std_stars, "[] Nr. of std stars")); 02015 02016 // update which IFUs are not used 02017 kmo_print_unused_ifus(unused_ifus_after, TRUE); 02018 02019 KMO_TRY_EXIT_IF_ERROR( 02020 kmo_set_unused_ifus(unused_ifus_after, main_header_tel, "kmo_std_star")); 02021 02022 KMO_TRY_EXIT_IF_NULL( 02023 main_header_psf = cpl_propertylist_duplicate(main_header_tel)); 02024 02025 if (has_magnitude) { 02026 // calculate QC THROUGHPUT MEAN and QC THROUGHPUT SDV 02027 // and update main header 02028 KMO_TRY_EXIT_IF_ERROR( 02029 kmo_calc_mean_throughput(stored_qc_throughput, 02030 nr_devices * KMOS_IFUS_PER_DETECTOR, 02031 &throughput_mean, 02032 &throughput_sdv)); 02033 KMO_TRY_EXIT_IF_ERROR( 02034 kmclipm_update_property_double(main_header_tel, QC_THROUGHPUT_MEAN, 02035 throughput_mean, "[] mean throughput for all detectors")); 02036 KMO_TRY_EXIT_IF_ERROR( 02037 kmclipm_update_property_double(main_header_tel, QC_THROUGHPUT_SDV, 02038 throughput_sdv, "[] stdev throughput for all detectors")); 02039 } 02040 KMO_TRY_CHECK_ERROR_STATE(); 02041 02042 // 02043 // save output data 02044 // 02045 if (!suppress_extension) { 02046 KMO_TRY_EXIT_IF_NULL( 02047 fn_suffix = cpl_sprintf("%s", suffix)); 02048 } else { 02049 KMO_TRY_EXIT_IF_NULL( 02050 fn_suffix = cpl_sprintf("%s", "")); 02051 } 02052 02053 // save primary extension 02054 cpl_msg_info("","Saving STD exposure No. %d", nr_exp+1); 02055 KMO_TRY_EXIT_IF_ERROR( 02056 kmo_dfs_save_main_header(frameset, filename_telluric, fn_suffix, 02057 obj_frame, main_header_tel, parlist, 02058 cpl_func)); 02059 KMO_TRY_EXIT_IF_ERROR( 02060 kmo_dfs_save_main_header(frameset, filename_starspec, fn_suffix, 02061 obj_frame, main_header_tel, parlist, 02062 cpl_func)); 02063 KMO_TRY_EXIT_IF_ERROR( 02064 kmo_dfs_save_main_header(frameset, filename_mask, fn_suffix, 02065 obj_frame, main_header_psf, parlist, 02066 cpl_func)); 02067 KMO_TRY_EXIT_IF_ERROR( 02068 kmo_dfs_save_main_header(frameset, filename_psf, fn_suffix, 02069 obj_frame, main_header_psf, parlist, 02070 cpl_func)); 02071 if (save_cubes) { 02072 KMO_TRY_EXIT_IF_ERROR( 02073 kmo_dfs_save_main_header(frameset, filename_cubes, fn_suffix, 02074 obj_frame, main_header_psf, parlist, 02075 cpl_func)); 02076 } 02077 02078 // save stored frames 02079 for (i = 1; i <= nr_devices; i++) { 02080 for (j = 0; j < KMOS_IFUS_PER_DETECTOR; j++) { 02081 ifu_nr = (i-1)*KMOS_IFUS_PER_DETECTOR + j + 1; 02082 02083 // save telluric-vector 02084 kmclipm_vector *ddd = NULL; 02085 if (stored_telluric_data[ifu_nr-1] != NULL) 02086 ddd = kmclipm_vector_create(cpl_vector_duplicate(stored_telluric_data[ifu_nr-1])); 02087 KMO_TRY_EXIT_IF_ERROR( 02088 kmo_dfs_save_vector(ddd, filename_telluric, fn_suffix, 02089 stored_sub_tel_data_headers[ifu_nr-1], 02090 0./0.)); 02091 kmclipm_vector_delete(ddd); ddd =NULL; 02092 02093 if (stored_telluric_noise[ifu_nr-1] != NULL) 02094 ddd = kmclipm_vector_create(cpl_vector_duplicate(stored_telluric_noise[ifu_nr-1])); 02095 KMO_TRY_EXIT_IF_ERROR( 02096 kmo_dfs_save_vector(ddd, filename_telluric, fn_suffix, 02097 stored_sub_tel_noise_headers[ifu_nr-1], 02098 0./0.)); 02099 kmclipm_vector_delete(ddd); ddd =NULL; 02100 02101 // save star_spec-vector 02102 if (stored_starspec_data[ifu_nr-1] != NULL) 02103 ddd = kmclipm_vector_create(cpl_vector_duplicate(stored_starspec_data[ifu_nr-1])); 02104 KMO_TRY_EXIT_IF_ERROR( 02105 kmo_dfs_save_vector(ddd, filename_starspec, fn_suffix, 02106 stored_sub_tel_data_headers[ifu_nr-1], 02107 0./0.)); 02108 kmclipm_vector_delete(ddd); ddd =NULL; 02109 02110 if (stored_starspec_noise[ifu_nr-1] != NULL) 02111 ddd = kmclipm_vector_create(cpl_vector_duplicate(stored_starspec_noise[ifu_nr-1])); 02112 KMO_TRY_EXIT_IF_ERROR( 02113 kmo_dfs_save_vector(ddd, filename_starspec, fn_suffix, 02114 stored_sub_tel_noise_headers[ifu_nr-1], 02115 0./0.)); 02116 kmclipm_vector_delete(ddd); ddd =NULL; 02117 02118 // save psf-image 02119 KMO_TRY_EXIT_IF_ERROR( 02120 kmo_dfs_save_image(stored_psf_data[ifu_nr-1], 02121 filename_psf, fn_suffix, 02122 stored_sub_psf_headers[ifu_nr-1], 02123 0./0.)); 02124 02125 // save mask-image 02126 KMO_TRY_EXIT_IF_ERROR( 02127 kmo_dfs_save_image(stored_mask[ifu_nr-1], 02128 filename_mask, fn_suffix, 02129 stored_sub_psf_headers[ifu_nr-1], 02130 0./0.)); 02131 // save reonstructed cubes 02132 if (save_cubes) { 02133 KMO_TRY_EXIT_IF_ERROR( 02134 kmo_dfs_save_cube(stored_data_cube[ifu_nr-1], 02135 filename_cubes, fn_suffix, 02136 stored_sub_cube_data_headers[ifu_nr-1], 02137 0./0.)); 02138 KMO_TRY_EXIT_IF_ERROR( 02139 kmo_dfs_save_cube(stored_noise_cube[ifu_nr-1], 02140 filename_cubes, fn_suffix, 02141 stored_sub_cube_noise_headers[ifu_nr-1], 02142 0./0.)); 02143 } 02144 } // for j ifus (save stored) 02145 } // for i detectors (save stored) 02146 KMO_TRY_CHECK_ERROR_STATE(); 02147 } // if (frameCnt == 0) 02148 } 02149 KMO_CATCH 02150 { 02151 KMO_CATCH_MSG(); 02152 ret_val = -1; 02153 } 02154 02155 kmo_delete_objSkyStruct(obj_sky_struct); 02156 kmo_free_fits_desc(&desc1); 02157 kmo_free_fits_desc(&desc2); 02158 kmo_free_unused_ifus(unused_ifus_before); unused_ifus_before = NULL; 02159 kmo_free_unused_ifus(unused_ifus_after); unused_ifus_after = NULL; 02160 cpl_free(bounds); bounds = NULL; 02161 cpl_propertylist_delete(main_header_tel); main_header_tel = NULL; 02162 cpl_propertylist_delete(main_header_psf); main_header_psf = NULL; 02163 cpl_vector_delete(atmos_model); atmos_model = NULL; 02164 cpl_vector_delete(solar_spec); solar_spec = NULL; 02165 cpl_table_delete(spec_type_LUT); spec_type_LUT = NULL; 02166 cpl_vector_delete(identified_slices); identified_slices = NULL; 02167 cpl_propertylist_delete(sub_header_orig); sub_header_orig = NULL; 02168 for (i = 0; i < nr_devices * KMOS_IFUS_PER_DETECTOR; i++) { 02169 cpl_vector_delete(stored_telluric_data[i]); stored_telluric_data[i] = NULL; 02170 cpl_vector_delete(stored_telluric_noise[i]); stored_telluric_noise[i] = NULL; 02171 cpl_vector_delete(stored_starspec_data[i]); stored_starspec_data[i] = NULL; 02172 cpl_vector_delete(stored_starspec_noise[i]); stored_starspec_noise[i] = NULL; 02173 cpl_image_delete(stored_psf_data[i]); stored_psf_data[i] = NULL; 02174 cpl_propertylist_delete(stored_sub_tel_data_headers[i]); stored_sub_tel_data_headers[i] = NULL; 02175 cpl_propertylist_delete(stored_sub_tel_noise_headers[i]); stored_sub_tel_noise_headers[i] = NULL; 02176 if (save_cubes) { 02177 cpl_propertylist_delete(stored_sub_cube_data_headers[i]); stored_sub_cube_data_headers[i] = NULL; 02178 cpl_propertylist_delete(stored_sub_cube_noise_headers[i]); stored_sub_cube_noise_headers[i] = NULL; 02179 } 02180 cpl_propertylist_delete(stored_sub_psf_headers[i]); stored_sub_psf_headers[i] = NULL; 02181 cpl_image_delete(stored_mask[i]); stored_mask[i] = NULL; 02182 cpl_imagelist_delete(stored_data_cube[i]); stored_data_cube[i] = NULL; 02183 cpl_imagelist_delete(stored_noise_cube[i]); stored_noise_cube[i] = NULL; 02184 } 02185 cpl_free(stored_telluric_data); stored_telluric_data = NULL; 02186 cpl_free(stored_telluric_noise); stored_telluric_noise = NULL; 02187 cpl_free(stored_starspec_data); stored_starspec_data = NULL; 02188 cpl_free(stored_starspec_noise); stored_starspec_noise = NULL; 02189 cpl_free(stored_psf_data); stored_psf_data = NULL; 02190 cpl_free(stored_sub_tel_data_headers); stored_sub_tel_data_headers = NULL; 02191 cpl_free(stored_sub_tel_noise_headers); stored_sub_tel_noise_headers = NULL; 02192 if (save_cubes) { 02193 cpl_free(stored_sub_cube_data_headers); stored_sub_cube_data_headers = NULL; 02194 cpl_free(stored_sub_cube_noise_headers); stored_sub_cube_noise_headers = NULL; 02195 } 02196 cpl_free(stored_sub_psf_headers); stored_sub_psf_headers = NULL; 02197 cpl_free(stored_qc_throughput); stored_qc_throughput = NULL; 02198 cpl_free(suffix); suffix = NULL; 02199 cpl_free(fn_suffix); fn_suffix = NULL; 02200 cpl_free(stored_mask); stored_mask = NULL; 02201 cpl_free(stored_data_cube); stored_data_cube = NULL; 02202 cpl_free(stored_noise_cube); stored_noise_cube = NULL; 02203 cpl_free(grat_id); grat_id = NULL; 02204 cpl_frameset_delete(frameset_std); frameset_std = NULL; 02205 02206 return ret_val; 02207 } 02208
1.7.6.1