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KMOS Pipeline Reference Manual
1.2.6
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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: $ 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 print_xcal_angle_msg_once = FALSE; 01392 double rotangle_found; 01393 KMO_TRY_EXIT_IF_NULL( 01394 lcal = kmo_dfs_load_cal_image(frameset, LCAL, i, FALSE, 0., FALSE, NULL, 01395 &rotangle_found, -1, 0, 0)); 01396 if (i==1) { 01397 print_cal_angle_msg_once = TRUE; 01398 print_xcal_angle_msg_once = TRUE; 01399 } 01400 if (tmp_band_method != NULL) { 01401 band_method = atoi(tmp_band_method); 01402 } 01403 01404 // get filter for this detector 01405 // ESO INS FILTi ID 01406 KMO_TRY_EXIT_IF_NULL( 01407 keyword = cpl_sprintf("%s%d%s", IFU_FILTID_PREFIX, i, IFU_FILTID_POSTFIX)); 01408 filter_id = cpl_propertylist_get_string(main_header_tel, keyword); 01409 cpl_free(keyword); keyword = NULL; 01410 01411 KMO_TRY_EXIT_IF_NULL( 01412 band_table = kmo_dfs_load_table(frameset, WAVE_BAND, 1, 0)); 01413 KMO_TRY_EXIT_IF_ERROR( 01414 kmclipm_setup_grid_band_lcal(&gd, lcal, filter_id, 01415 band_method, band_table)); 01416 cpl_image_delete(lcal); lcal = NULL; 01417 cpl_table_delete(band_table); band_table = NULL; 01418 01419 // load sub_header of original F2D image 01420 KMO_TRY_EXIT_IF_NULL( 01421 sub_header_orig = kmclipm_propertylist_load( cpl_frame_get_filename(obj_frame), i)); 01422 01423 for (j = 0; j < KMOS_IFUS_PER_DETECTOR; j++) { 01424 ifu_nr = (i-1)*KMOS_IFUS_PER_DETECTOR + j + 1; 01425 // check if IFU is valid according to main header keywords & 01426 // calibration files 01427 // AND check if there is a sky frame available for this IFU 01428 kmo_collapse_objSkyStruct(obj_sky_struct, ifu_nr, 01429 &obj_frame, &sky_frame); 01430 01431 KMO_TRY_EXIT_IF_NULL( 01432 punused_ifus = cpl_array_get_data_int_const(unused_ifus_after[i-1])); 01433 01434 // Search for keyword ESO OCS ARMi NOTUSED 01435 // If not present (CPL_ERROR_DATA_NOT_FOUND) we will eventually 01436 // process standard star 01437 KMO_TRY_EXIT_IF_NULL( 01438 keyword = cpl_sprintf("%s%d%s", IFU_VALID_PREFIX, ifu_nr, IFU_VALID_POSTFIX)); 01439 tmp_str = cpl_propertylist_get_string(main_header_tel, keyword); 01440 cpl_free(keyword); keyword = NULL; 01441 01442 if ((cpl_error_get_code() == CPL_ERROR_DATA_NOT_FOUND) && 01443 (bounds[2*(ifu_nr-1)] != -1) && 01444 (bounds[2*(ifu_nr-1)+1] != -1) && 01445 (sky_frame != NULL) && 01446 (punused_ifus[j] == 0)) 01447 { 01448 cpl_error_reset(); 01449 // IFU is valid 01450 01451 if (sky_frame != NO_CORRESPONDING_SKYFRAME) { 01452 cpl_msg_info("","Processing standard star in IFU %d " 01453 "(obj: %s, sky: %s)", ifu_nr, 01454 cpl_frame_get_filename(obj_frame), 01455 cpl_frame_get_filename(sky_frame)); 01456 } else { 01457 sky_frame = NULL; 01458 cpl_msg_warning("","Processing standard star in IFU %d " 01459 "(obj: %s, no corresponding sky frame", 01460 ifu_nr, cpl_frame_get_filename(obj_frame)); 01461 } 01462 01463 nr_std_stars++; 01464 01465 char *ggg = cpl_sprintf("%s%d", PRO_STD, ifu_nr); 01466 KMO_TRY_EXIT_IF_ERROR( 01467 cpl_propertylist_update_int(main_header_tel, ggg, 1)); 01468 cpl_free(ggg); ggg = NULL; 01469 01470 // calculate WCS and make copies of sub_header 01471 KMO_TRY_EXIT_IF_NULL( 01472 tmp_sub_header = cpl_propertylist_duplicate(sub_header_orig)); 01473 KMO_TRY_EXIT_IF_ERROR( 01474 kmo_calc_wcs_gd(main_header_tel, tmp_sub_header, ifu_nr, gd)); 01475 KMO_TRY_EXIT_IF_NULL( 01476 stored_sub_tel_data_headers[ifu_nr-1] = 01477 cpl_propertylist_duplicate(tmp_sub_header)); 01478 KMO_TRY_EXIT_IF_NULL( 01479 stored_sub_psf_headers[ifu_nr-1] = 01480 cpl_propertylist_duplicate(tmp_sub_header)); 01481 if (save_cubes) { 01482 KMO_TRY_EXIT_IF_NULL( 01483 stored_sub_cube_data_headers[ifu_nr-1] = 01484 cpl_propertylist_duplicate(tmp_sub_header)); 01485 } 01486 cpl_propertylist_delete(tmp_sub_header); 01487 tmp_sub_header = NULL; 01488 01489 // 01490 // adjust telluric-headers: copy CRPIX3 to CRPIX1, 01491 // 01492 cpl_propertylist_update_double(stored_sub_tel_data_headers[ifu_nr-1], CRVAL1, 01493 cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CRVAL3)); 01494 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CRVAL2); 01495 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CRVAL3); 01496 KMO_TRY_CHECK_ERROR_STATE(); 01497 01498 // CRPIX 01499 cpl_propertylist_update_double(stored_sub_tel_data_headers[ifu_nr-1], CRPIX1, 01500 cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CRPIX3)); 01501 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CRPIX2); 01502 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CRPIX3); 01503 KMO_TRY_CHECK_ERROR_STATE(); 01504 01505 // CDELT 01506 cdelt3 = cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CDELT3); 01507 cpl_propertylist_update_double(stored_sub_tel_data_headers[ifu_nr-1], CDELT1, 01508 cdelt3); 01509 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CDELT2); 01510 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CDELT3); 01511 KMO_TRY_CHECK_ERROR_STATE(); 01512 01513 // CTYPE 01514 cpl_propertylist_update_string(stored_sub_tel_data_headers[ifu_nr-1], CTYPE1, 01515 cpl_propertylist_get_string(stored_sub_tel_data_headers[ifu_nr-1], CTYPE3)); 01516 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CTYPE2); 01517 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CTYPE3); 01518 KMO_TRY_CHECK_ERROR_STATE(); 01519 01520 // CUNIT 01521 cpl_propertylist_update_string(stored_sub_tel_data_headers[ifu_nr-1], CUNIT1, 01522 cpl_propertylist_get_string(stored_sub_tel_data_headers[ifu_nr-1], CUNIT3)); 01523 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CUNIT2); 01524 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CUNIT3); 01525 01526 // CDx_x 01527 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD1_1); 01528 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD1_2); 01529 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD1_3); 01530 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD2_1); 01531 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD2_2); 01532 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD2_3); 01533 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD3_1); 01534 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD3_2); 01535 cpl_propertylist_erase(stored_sub_tel_data_headers[ifu_nr-1], CD3_3); 01536 KMO_TRY_CHECK_ERROR_STATE(); 01537 01538 // 01539 // adjust psf-headers: delete CRPIX3 etc. 01540 // 01541 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CRPIX3); 01542 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CRPIX3); 01543 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CDELT3); 01544 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CRVAL3); 01545 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CTYPE3); 01546 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CUNIT3); 01547 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD1_3); 01548 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD2_3); 01549 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD3_1); 01550 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD3_2); 01551 cpl_propertylist_erase(stored_sub_psf_headers[ifu_nr-1], CD3_3); 01552 KMO_TRY_CHECK_ERROR_STATE(); 01553 01554 KMO_TRY_EXIT_IF_ERROR( 01555 kmo_reconstruct_sci(ifu_nr, 01556 bounds[2*(ifu_nr-1)], 01557 bounds[2*(ifu_nr-1)+1], 01558 obj_frame, 01559 STD, 01560 sky_frame, 01561 STD, 01562 flat_frame, 01563 xcal_frame, 01564 ycal_frame, 01565 lcal_frame, 01566 NULL, 01567 &gd, 01568 &stored_data_cube[ifu_nr-1], 01569 &stored_noise_cube[ifu_nr-1], 01570 flux, 01571 background, 01572 xcal_interpolation)); 01573 01574 // divide illumination correction from the data_cube 01575 // (illumination noise will be very small versus 01576 // noise_cube, so it is skipped here) 01577 if (cpl_frameset_count_tags(frameset, ILLUM_CORR) == 1) { 01578 KMO_TRY_EXIT_IF_NULL( 01579 illum_corr = kmo_dfs_load_image_frame(illum_frame, ifu_nr, 01580 FALSE, FALSE, NULL)); 01581 KMO_TRY_EXIT_IF_ERROR( 01582 cpl_imagelist_divide_image(stored_data_cube[ifu_nr-1], illum_corr)); 01583 cpl_image_delete(illum_corr); illum_corr = NULL; 01584 } 01585 01586 // calculate QC_STD_TRACE 01587 // (the distance of the PSF to the centre) 01588 KMO_TRY_EXIT_IF_ERROR( 01589 kmo_calculate_std_trace(stored_data_cube[ifu_nr-1], fmethod, &std_trace)); 01590 01591 KMO_TRY_EXIT_IF_ERROR( 01592 kmclipm_update_property_double(stored_sub_psf_headers[ifu_nr-1], 01593 QC_STD_TRACE, std_trace, 01594 "[pix] distance of PSF and centre of IFU")); 01595 01596 KMO_TRY_EXIT_IF_NULL( 01597 identified_slices = cpl_vector_new(cpl_imagelist_get_size(stored_data_cube[ifu_nr-1]))); 01598 KMO_TRY_EXIT_IF_ERROR( 01599 cpl_vector_fill(identified_slices, 1.0)); 01600 01601 // collapse cube and get PSF image 01602 KMO_TRY_EXIT_IF_ERROR( 01603 kmclipm_make_image(stored_data_cube[ifu_nr-1], NULL, 01604 &stored_psf_data[ifu_nr-1], NULL, 01605 identified_slices, 01606 cmethod, 01607 cpos_rej, cneg_rej, citer, 01608 cmax, cmin)); 01609 cpl_vector_delete(identified_slices); 01610 identified_slices= NULL; 01611 01612 // fit a 2D profile to get a mask and fwhm in x and y, 01613 KMO_TRY_EXIT_IF_NULL( 01614 tmp_vec = kmo_fit_profile_2D(stored_psf_data[ifu_nr-1], 01615 NULL, 01616 fmethod, 01617 &stored_mask[ifu_nr-1], 01618 &pl_psf)); 01619 01620 // normalise mask to 1 and clip values below 0.5 01621 cpl_image_divide_scalar(stored_mask[ifu_nr-1], cpl_image_get_max(stored_mask[ifu_nr-1])); 01622 KMO_TRY_CHECK_ERROR_STATE(); 01623 01624 int dummy=0; 01625 for (gx = 1; gx <= cpl_image_get_size_x(stored_mask[ifu_nr-1]); gx++) { 01626 for (gy = 1; gy <= cpl_image_get_size_y(stored_mask[ifu_nr-1]); gy++) { 01627 if (cpl_image_get(stored_mask[ifu_nr-1], gx, gy, &dummy) < 0.5) { 01628 cpl_image_set(stored_mask[ifu_nr-1], gx, gy, 0.); 01629 } else { 01630 cpl_image_set(stored_mask[ifu_nr-1], gx, gy, 1.); 01631 } 01632 } 01633 } 01634 KMO_TRY_CHECK_ERROR_STATE(); 01635 01636 // update subheader with fit parameters 01637 KMO_TRY_EXIT_IF_ERROR( 01638 cpl_propertylist_append(stored_sub_tel_data_headers[ifu_nr-1], pl_psf)); 01639 cpl_propertylist_delete(pl_psf); pl_psf = NULL; 01640 01641 // store QC_SPAT_RES (RMS of fwhm_x and fwhm_y) 01642 double factor_fwhm = 2*sqrt(2*log(2)); 01643 double spat_res = pow(cpl_vector_get(tmp_vec, 4) * factor_fwhm, 2); 01644 spat_res += pow(cpl_vector_get(tmp_vec, 5) * factor_fwhm, 2); 01645 spat_res /= 2; 01646 KMO_TRY_EXIT_IF_ERROR( 01647 kmclipm_update_property_double(stored_sub_psf_headers[ifu_nr-1], 01648 QC_SPAT_RES, 01649 sqrt(spat_res)*KMOS_PIX_RESOLUTION, 01650 "[arcsec] mean fwhm resolution of PSF")); 01651 cpl_vector_delete(tmp_vec); tmp_vec = NULL; 01652 01653 // extract spectrum in masked area 01654 KMO_TRY_EXIT_IF_ERROR( 01655 kmo_priv_extract_spec(stored_data_cube[ifu_nr-1], 01656 stored_noise_cube[ifu_nr-1], 01657 stored_mask[ifu_nr-1], 01658 &tmp_spec_data, 01659 &tmp_spec_noise)); 01660 01661 // store to save to disk later on 01662 stored_starspec_data[ifu_nr-1] = cpl_vector_duplicate(tmp_spec_data); 01663 if (tmp_spec_noise != NULL) { 01664 stored_starspec_noise[ifu_nr-1] = cpl_vector_duplicate(tmp_spec_noise); 01665 } 01666 KMO_TRY_CHECK_ERROR_STATE(); 01667 01668 // if magnitude is provided 01669 // calculate zeropoint and throughput 01670 if (has_magnitude) { 01671 // extract spectrum of whole are for QC THRUHput and ZEROPOINT 01672 KMO_TRY_EXIT_IF_ERROR( 01673 kmo_priv_extract_spec(stored_data_cube[ifu_nr-1], 01674 NULL, 01675 NULL, 01676 &spec_qc, 01677 NULL)); 01678 01679 // multiply spectrum with area of IFU (196) to get the sum 01680 const cpl_image *tmp_img = cpl_imagelist_get(stored_data_cube[ifu_nr-1], 0); 01681 int tmpx = cpl_image_get_size_x(tmp_img), 01682 tmpy = cpl_image_get_size_x(tmp_img); 01683 cpl_vector_multiply_scalar(spec_qc, tmpx*tmpy); 01684 } 01685 01686 // calculate abscissa of output spectrum 01687 KMO_TRY_EXIT_IF_NULL( 01688 lambda_x = kmo_create_lambda_vec(gd.l.dim, 1, 01689 gd.l.start, 01690 gd.l.delta)); 01691 // 01692 // spectrum correction 01693 // 01694 if ((strcmp(star_type, "O") == 0) || 01695 (strcmp(star_type, "B") == 0) || 01696 (strcmp(star_type, "A") == 0) || 01697 (strcmp(star_type, "F") == 0)) 01698 { 01699 // we have a OBAF star 01700 01701 // if ATMOS_MODEL is present, lines will be removed 01702 if (cpl_frameset_count_tags(frameset, ATMOS_MODEL) == 1) { 01703 // interpolate ATMOS_MODEL to same scale as data 01704 KMO_TRY_EXIT_IF_NULL( 01705 tmp_frame = kmo_dfs_get_frame(frameset, ATMOS_MODEL)); 01706 01707 KMO_TRY_EXIT_IF_NULL( 01708 atmos_model = kmo_interpolate_vector_wcs(tmp_frame, lambda_x)); 01709 cpl_vector *tmp_spec_data_orig = NULL; 01710 int plot_it = 0; 01711 if (plot_it) { 01712 // store original spectrum 01713 KMO_TRY_EXIT_IF_NULL( 01714 tmp_spec_data_orig = cpl_vector_duplicate(tmp_spec_data)); 01715 } 01716 // remove band-specific lines 01717 if (strcmp(filter_id, "H") == 0) { 01718 for (l = 0; l < nr_lines_h; l++) { 01719 KMO_TRY_EXIT_IF_ERROR( 01720 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_h[l], lines_width_h[l])); 01721 } 01722 } else if (strcmp(filter_id, "HK") == 0) { 01723 for (l = 0; l < nr_lines_hk; l++) { 01724 KMO_TRY_EXIT_IF_ERROR( 01725 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_hk[l], lines_width_hk[l])); 01726 } 01727 } else if (strcmp(filter_id, "K") == 0) { 01728 for (l = 0; l < nr_lines_k; l++) { 01729 KMO_TRY_EXIT_IF_ERROR( 01730 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_k[l], lines_width_k[l])); 01731 } 01732 } else if (strcmp(filter_id, "IZ") == 0) { 01733 for (l = 0; l < nr_lines_iz; l++) { 01734 KMO_TRY_EXIT_IF_ERROR( 01735 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_iz[l], lines_width_iz[l])); 01736 } 01737 } else if (strcmp(filter_id, "YJ") == 0) { 01738 for (l = 0; l < nr_lines_yj; l++) { 01739 KMO_TRY_EXIT_IF_ERROR( 01740 kmo_remove_line(tmp_spec_data, lambda_x, atmos_model, lines_center_yj[l], lines_width_yj[l])); 01741 } 01742 } 01743 if (plot_it) { 01744 cpl_vector *tmp_spec_data_atmo = NULL; 01745 cpl_vector *tmp_spec_data_new = NULL; 01746 KMO_TRY_EXIT_IF_NULL( 01747 tmp_spec_data_atmo = cpl_vector_duplicate(tmp_spec_data_orig)); 01748 KMO_TRY_EXIT_IF_NULL( 01749 tmp_spec_data_new = cpl_vector_duplicate(tmp_spec_data)); 01750 KMO_TRY_EXIT_IF_ERROR( 01751 cpl_vector_divide(tmp_spec_data_atmo, atmos_model)); 01752 01753 char *sss = cpl_sprintf("atmo_div_%s.fits", filter_id); 01754 if (i == 1) { 01755 cpl_vector_save(tmp_spec_data_atmo, sss, CPL_BPP_IEEE_DOUBLE, stored_sub_tel_data_headers[ifu_nr-1], CPL_IO_CREATE); 01756 } else { 01757 cpl_vector_save(tmp_spec_data_atmo, sss, CPL_BPP_IEEE_DOUBLE, stored_sub_tel_data_headers[ifu_nr-1], CPL_IO_EXTEND); 01758 } 01759 01760 cpl_vector *med_vec = cpl_vector_duplicate(tmp_spec_data_orig); 01761 double median = cpl_vector_get_median(med_vec); 01762 cpl_vector_delete(med_vec); 01763 int ii = 0; 01764 for (ii = 0; ii < cpl_vector_get_size(tmp_spec_data_orig); ii++) { 01765 if (cpl_vector_get(tmp_spec_data_orig, ii) < median/8) 01766 cpl_vector_set(tmp_spec_data_orig, ii, 0); 01767 if (cpl_vector_get(tmp_spec_data_atmo, ii) < median/8) 01768 cpl_vector_set(tmp_spec_data_atmo, ii, 0); 01769 if (cpl_vector_get(tmp_spec_data_new, ii) < median/8) 01770 cpl_vector_set(tmp_spec_data_new, ii, 0); 01771 01772 if (cpl_vector_get(tmp_spec_data_orig, ii) > 3*median) 01773 cpl_vector_set(tmp_spec_data_orig, ii, 3*median); 01774 if (cpl_vector_get(tmp_spec_data_atmo, ii) > 3*median) 01775 cpl_vector_set(tmp_spec_data_atmo, ii, 3*median); 01776 if (cpl_vector_get(tmp_spec_data_new, ii) > 3*median) 01777 cpl_vector_set(tmp_spec_data_new, ii, 3*median); 01778 } 01779 01780 double *pspec_dup = cpl_vector_get_data(tmp_spec_data_atmo); 01781 for (ii = 0; ii < cpl_vector_get_size(tmp_spec_data_atmo); ii++) { 01782 if (kmclipm_is_nan_or_inf(pspec_dup[ii])) { 01783 pspec_dup[ii] = 0.; 01784 } 01785 } 01786 01787 cpl_bivector *plots[3]; 01788 plots[0] = cpl_bivector_wrap_vectors((cpl_vector*)lambda_x, tmp_spec_data_orig); 01789 plots[1] = cpl_bivector_wrap_vectors((cpl_vector*)lambda_x, tmp_spec_data_atmo); 01790 plots[2] = cpl_bivector_wrap_vectors((cpl_vector*)lambda_x, tmp_spec_data_new); 01791 char *options[3] = {"w l t 'original'", 01792 "w l t 'atmo divided'", 01793 "w l t 'lines removed'"}; 01794 sss = cpl_sprintf("set title '%s-band line removal (DET #%d)';", filter_id, i); 01795 cpl_plot_bivectors(sss, 01796 (const char**)options, "", (const cpl_bivector**)plots, 3); 01797 // cpl_plot_bivectors("set title 'Spectrum with lines removed'; set xrange [2.14:2.19];", 01798 // (const char**)options, "", (const cpl_bivector**)plots, 2); 01799 cpl_bivector_unwrap_vectors(plots[0]); 01800 cpl_bivector_unwrap_vectors(plots[1]); 01801 cpl_bivector_unwrap_vectors(plots[2]); 01802 cpl_free(sss); sss = NULL; 01803 cpl_vector_delete(tmp_spec_data_orig); tmp_spec_data_orig = NULL; 01804 cpl_vector_delete(tmp_spec_data_atmo); tmp_spec_data_atmo = NULL; 01805 cpl_vector_delete(tmp_spec_data_new); tmp_spec_data_new = NULL; 01806 } 01807 cpl_vector_delete(atmos_model); atmos_model = NULL; 01808 } else { 01809 if (line_warning == FALSE) { 01810 cpl_msg_warning("", "No atmospheric model (ATMOS_MODEL) provided! " 01811 "Won't remove any lines."); 01812 line_warning = TRUE; 01813 } 01814 } 01815 } else if (strcmp(star_type, "G") == 0) { 01816 // we have a G star 01817 if (cpl_frameset_count_tags(frameset, SOLAR_SPEC) == 1) { 01818 // interpolate SOLAR_SPEC to same scale as data 01819 // and divide it 01820 KMO_TRY_EXIT_IF_NULL( 01821 tmp_frame = kmo_dfs_get_frame(frameset, SOLAR_SPEC)); 01822 01823 // check if SOLAR_SPEC is the filter_id-one 01824 KMO_TRY_EXIT_IF_NULL( 01825 tmp_sub_header = kmclipm_propertylist_load(cpl_frame_get_filename(tmp_frame), 0)); 01826 KMO_TRY_EXIT_IF_NULL( 01827 tmp_str = cpl_propertylist_get_string(tmp_sub_header, FILT_ID)); 01828 KMO_TRY_ASSURE(strcmp(filter_id, tmp_str) == 0, 01829 CPL_ERROR_ILLEGAL_INPUT, 01830 "SOLAR_SPEC model must have primary " 01831 "keyword '%s' equal '%s'!!!", 01832 FILT_ID, filter_id); 01833 cpl_propertylist_delete(tmp_sub_header); tmp_sub_header = NULL; 01834 01835 KMO_TRY_EXIT_IF_NULL( 01836 solar_spec = kmo_interpolate_vector_wcs(tmp_frame, lambda_x)); 01837 01838 // values are set to zero if solar_spec isn't 01839 // overlapping wavelength range of star apectrum 01840 // completely 01841 KMO_TRY_EXIT_IF_ERROR( 01842 cpl_vector_divide(tmp_spec_data, solar_spec)); 01843 cpl_vector_delete(solar_spec); solar_spec = NULL; 01844 } else { 01845 if (print_warning_once == TRUE) { 01846 cpl_msg_warning("","No solar spectrum (SOLAR_SPEC) provided! " 01847 "Can't divide it from extracted " 01848 "standard star spectrum!"); 01849 print_warning_once = FALSE; 01850 } 01851 } 01852 } else { 01853 // cpl_msg_warning("","No startype was provided! Can't" 01854 // " divide solar spectrum for G stars " 01855 // "or fit a profile to atmospheric " 01856 // "transmission for OBAF stars."); 01857 } 01858 01859 if (star_temperature > 0.0) { 01860 // divide blackbody from tmp_spec_data 01861 KMO_TRY_EXIT_IF_ERROR( 01862 kmo_divide_blackbody(tmp_spec_data, lambda_x, star_temperature)); 01863 } 01864 01865 cpl_vector_delete(lambda_x); lambda_x = NULL; 01866 01867 // normalise telluric and its noise 01868 // mean is taken in lambda defined range 01869 KMO_TRY_EXIT_IF_ERROR( 01870 kmo_calc_band_mean(stored_sub_tel_data_headers[ifu_nr-1], 01871 filter_id, 01872 tmp_spec_data, 01873 tmp_spec_noise, 01874 &mean_data, 01875 &mean_noise)); 01876 01877 KMO_TRY_EXIT_IF_ERROR( 01878 cpl_vector_divide_scalar(tmp_spec_data, mean_data)); 01879 01880 if (tmp_spec_noise != NULL) { 01881 KMO_TRY_EXIT_IF_ERROR( 01882 cpl_vector_divide_scalar(tmp_spec_noise, mean_noise)); 01883 01884 // set noise spectrum also to zero when solar_spec is too short 01885 KMO_TRY_EXIT_IF_NULL( 01886 ptmp_spec_data = cpl_vector_get_data_const(tmp_spec_data)); 01887 KMO_TRY_EXIT_IF_NULL( 01888 ptmp_spec_noise = cpl_vector_get_data(tmp_spec_noise)); 01889 for (k = 0; k < cpl_vector_get_size(tmp_spec_data); k++) { 01890 if (ptmp_spec_data[k] == 0.0) { 01891 ptmp_spec_noise[k] = 0.0; 01892 } 01893 } 01894 } 01895 KMO_TRY_CHECK_ERROR_STATE(); 01896 01897 // store telluric & error spectrum 01898 stored_telluric_data[ifu_nr-1] = tmp_spec_data; 01899 stored_telluric_noise[ifu_nr-1] = tmp_spec_noise; 01900 01901 // if magnitude is provided 01902 // calculate zeropoint and throughput 01903 if (has_magnitude) { 01904 // calculate QC THROUGHPUT 01905 crpix1 = cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CRPIX1); 01906 crval1 = cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CRVAL1); 01907 cdelt1 = cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], CDELT1); 01908 KMO_TRY_CHECK_ERROR_STATE(); 01909 01910 KMO_TRY_EXIT_IF_ERROR( 01911 kmo_calc_counts(spec_qc, filter_id, 01912 crpix1, crval1, cdelt1, 01913 &counts1, &counts2)); 01914 KMO_TRY_CHECK_ERROR_STATE(); 01915 01916 counts1 /= exptime; 01917 counts2 /= exptime; 01918 01919 stored_qc_throughput[ifu_nr-1] = 01920 kmo_calc_throughput(magnitude1, magnitude2, counts1, counts2, 01921 cpl_propertylist_get_double(stored_sub_tel_data_headers[ifu_nr-1], GAIN), 01922 filter_id); 01923 KMO_TRY_CHECK_ERROR_STATE(); 01924 01925 if (kmclipm_is_nan_or_inf(stored_qc_throughput[ifu_nr-1])) { 01926 stored_qc_throughput[ifu_nr-1] = -1; 01927 } 01928 KMO_TRY_EXIT_IF_ERROR( 01929 kmclipm_update_property_double(stored_sub_tel_data_headers[ifu_nr-1], 01930 QC_THROUGHPUT, 01931 stored_qc_throughput[ifu_nr-1], 01932 "[] IFU throughput")); 01933 01934 // calculate QC ZEROPOINT 01935 zeropoint = kmo_calc_zeropoint(magnitude1, magnitude2, counts1, counts2, cdelt3, filter_id); 01936 if (kmclipm_is_nan_or_inf(zeropoint)) { 01937 zeropoint = -1; 01938 } 01939 KMO_TRY_CHECK_ERROR_STATE(); 01940 01941 KMO_TRY_EXIT_IF_ERROR( 01942 kmclipm_update_property_double(stored_sub_tel_data_headers[ifu_nr-1], 01943 QC_ZEROPOINT, 01944 zeropoint, 01945 "[mag] IFU zeropoint")); 01946 } 01947 cpl_vector_delete(spec_qc);spec_qc = NULL; 01948 } else { 01949 cpl_error_reset(); 01950 // IFU is invalid 01951 KMO_TRY_EXIT_IF_NULL( 01952 stored_sub_tel_data_headers[ifu_nr-1] = 01953 cpl_propertylist_duplicate(sub_header_orig)); 01954 KMO_TRY_EXIT_IF_NULL( 01955 stored_sub_tel_noise_headers[ifu_nr-1] = 01956 cpl_propertylist_duplicate(sub_header_orig)); 01957 KMO_TRY_EXIT_IF_NULL( 01958 stored_sub_psf_headers[ifu_nr-1] = 01959 cpl_propertylist_duplicate(sub_header_orig)); 01960 if (save_cubes) { 01961 KMO_TRY_EXIT_IF_NULL( 01962 stored_sub_cube_data_headers[ifu_nr-1] = 01963 cpl_propertylist_duplicate(sub_header_orig)); 01964 KMO_TRY_EXIT_IF_NULL( 01965 stored_sub_cube_noise_headers[ifu_nr-1] = 01966 cpl_propertylist_duplicate(sub_header_orig)); 01967 } 01968 } 01969 01970 // create EXTNAME keyword as DATA 01971 KMO_TRY_EXIT_IF_NULL( 01972 extname = kmo_extname_creator(ifu_frame, ifu_nr, EXT_DATA)); 01973 KMO_TRY_EXIT_IF_ERROR( 01974 kmclipm_update_property_string(stored_sub_tel_data_headers[ifu_nr-1], 01975 EXTNAME, extname, "FITS extension name")); 01976 KMO_TRY_EXIT_IF_ERROR( 01977 kmclipm_update_property_string(stored_sub_psf_headers[ifu_nr-1], 01978 EXTNAME, extname, "FITS extension name")); 01979 if (save_cubes) { 01980 KMO_TRY_EXIT_IF_ERROR( 01981 kmclipm_update_property_string(stored_sub_cube_data_headers[ifu_nr-1], 01982 EXTNAME, extname, "FITS extension name")); 01983 } 01984 cpl_free(extname); extname = NULL; 01985 01986 // create EXTNAME keyword as NOISE 01987 if (stored_sub_tel_noise_headers[ifu_nr-1] == NULL) { 01988 KMO_TRY_EXIT_IF_NULL( 01989 stored_sub_tel_noise_headers[ifu_nr-1] = 01990 cpl_propertylist_duplicate( 01991 stored_sub_tel_data_headers[ifu_nr-1])); 01992 } 01993 KMO_TRY_EXIT_IF_NULL( 01994 extname = kmo_extname_creator(ifu_frame, ifu_nr, EXT_NOISE)); 01995 KMO_TRY_EXIT_IF_ERROR( 01996 kmclipm_update_property_string(stored_sub_tel_noise_headers[ifu_nr-1], 01997 EXTNAME, extname, "FITS extension name")); 01998 if (save_cubes) { 01999 KMO_TRY_EXIT_IF_NULL( 02000 stored_sub_cube_noise_headers[ifu_nr-1] = 02001 cpl_propertylist_duplicate( 02002 stored_sub_cube_data_headers[ifu_nr-1])); 02003 KMO_TRY_EXIT_IF_ERROR( 02004 kmclipm_update_property_string(stored_sub_cube_noise_headers[ifu_nr-1], 02005 EXTNAME, extname, "FITS extension name")); 02006 } 02007 cpl_free(extname); extname = NULL; 02008 } // for j ifus (load, process & store) 02009 cpl_propertylist_delete(sub_header_orig); sub_header_orig = NULL; 02010 } // for i detectors (load, process & store) 02011 KMO_TRY_CHECK_ERROR_STATE(); 02012 02013 // write QC parameter: nr of std stars 02014 KMO_TRY_EXIT_IF_ERROR( 02015 kmclipm_update_property_int(main_header_tel, QC_NR_STD_STARS, 02016 nr_std_stars, "[] Nr. of std stars")); 02017 02018 // update which IFUs are not used 02019 kmo_print_unused_ifus(unused_ifus_after, TRUE); 02020 02021 KMO_TRY_EXIT_IF_ERROR( 02022 kmo_set_unused_ifus(unused_ifus_after, main_header_tel, "kmo_std_star")); 02023 02024 KMO_TRY_EXIT_IF_NULL( 02025 main_header_psf = cpl_propertylist_duplicate(main_header_tel)); 02026 02027 if (has_magnitude) { 02028 // calculate QC THROUGHPUT MEAN and QC THROUGHPUT SDV 02029 // and update main header 02030 KMO_TRY_EXIT_IF_ERROR( 02031 kmo_calc_mean_throughput(stored_qc_throughput, 02032 nr_devices * KMOS_IFUS_PER_DETECTOR, 02033 &throughput_mean, 02034 &throughput_sdv)); 02035 KMO_TRY_EXIT_IF_ERROR( 02036 kmclipm_update_property_double(main_header_tel, QC_THROUGHPUT_MEAN, 02037 throughput_mean, "[] mean throughput for all detectors")); 02038 KMO_TRY_EXIT_IF_ERROR( 02039 kmclipm_update_property_double(main_header_tel, QC_THROUGHPUT_SDV, 02040 throughput_sdv, "[] stdev throughput for all detectors")); 02041 } 02042 KMO_TRY_CHECK_ERROR_STATE(); 02043 02044 // 02045 // save output data 02046 // 02047 if (!suppress_extension) { 02048 KMO_TRY_EXIT_IF_NULL( 02049 fn_suffix = cpl_sprintf("%s", suffix)); 02050 } else { 02051 KMO_TRY_EXIT_IF_NULL( 02052 fn_suffix = cpl_sprintf("%s", "")); 02053 } 02054 02055 // save primary extension 02056 cpl_msg_info("","Saving STD exposure No. %d", nr_exp+1); 02057 KMO_TRY_EXIT_IF_ERROR( 02058 kmo_dfs_save_main_header(frameset, filename_telluric, fn_suffix, 02059 obj_frame, main_header_tel, parlist, 02060 cpl_func)); 02061 KMO_TRY_EXIT_IF_ERROR( 02062 kmo_dfs_save_main_header(frameset, filename_starspec, fn_suffix, 02063 obj_frame, main_header_tel, parlist, 02064 cpl_func)); 02065 KMO_TRY_EXIT_IF_ERROR( 02066 kmo_dfs_save_main_header(frameset, filename_mask, fn_suffix, 02067 obj_frame, main_header_psf, parlist, 02068 cpl_func)); 02069 KMO_TRY_EXIT_IF_ERROR( 02070 kmo_dfs_save_main_header(frameset, filename_psf, fn_suffix, 02071 obj_frame, main_header_psf, parlist, 02072 cpl_func)); 02073 if (save_cubes) { 02074 KMO_TRY_EXIT_IF_ERROR( 02075 kmo_dfs_save_main_header(frameset, filename_cubes, fn_suffix, 02076 obj_frame, main_header_psf, parlist, 02077 cpl_func)); 02078 } 02079 02080 // save stored frames 02081 for (i = 1; i <= nr_devices; i++) { 02082 for (j = 0; j < KMOS_IFUS_PER_DETECTOR; j++) { 02083 ifu_nr = (i-1)*KMOS_IFUS_PER_DETECTOR + j + 1; 02084 02085 // save telluric-vector 02086 kmclipm_vector *ddd = NULL; 02087 if (stored_telluric_data[ifu_nr-1] != NULL) 02088 ddd = kmclipm_vector_create(cpl_vector_duplicate(stored_telluric_data[ifu_nr-1])); 02089 KMO_TRY_EXIT_IF_ERROR( 02090 kmo_dfs_save_vector(ddd, filename_telluric, fn_suffix, 02091 stored_sub_tel_data_headers[ifu_nr-1], 02092 0./0.)); 02093 kmclipm_vector_delete(ddd); ddd =NULL; 02094 02095 if (stored_telluric_noise[ifu_nr-1] != NULL) 02096 ddd = kmclipm_vector_create(cpl_vector_duplicate(stored_telluric_noise[ifu_nr-1])); 02097 KMO_TRY_EXIT_IF_ERROR( 02098 kmo_dfs_save_vector(ddd, filename_telluric, fn_suffix, 02099 stored_sub_tel_noise_headers[ifu_nr-1], 02100 0./0.)); 02101 kmclipm_vector_delete(ddd); ddd =NULL; 02102 02103 // save star_spec-vector 02104 if (stored_starspec_data[ifu_nr-1] != NULL) 02105 ddd = kmclipm_vector_create(cpl_vector_duplicate(stored_starspec_data[ifu_nr-1])); 02106 KMO_TRY_EXIT_IF_ERROR( 02107 kmo_dfs_save_vector(ddd, filename_starspec, fn_suffix, 02108 stored_sub_tel_data_headers[ifu_nr-1], 02109 0./0.)); 02110 kmclipm_vector_delete(ddd); ddd =NULL; 02111 02112 if (stored_starspec_noise[ifu_nr-1] != NULL) 02113 ddd = kmclipm_vector_create(cpl_vector_duplicate(stored_starspec_noise[ifu_nr-1])); 02114 KMO_TRY_EXIT_IF_ERROR( 02115 kmo_dfs_save_vector(ddd, filename_starspec, fn_suffix, 02116 stored_sub_tel_noise_headers[ifu_nr-1], 02117 0./0.)); 02118 kmclipm_vector_delete(ddd); ddd =NULL; 02119 02120 // save psf-image 02121 KMO_TRY_EXIT_IF_ERROR( 02122 kmo_dfs_save_image(stored_psf_data[ifu_nr-1], 02123 filename_psf, fn_suffix, 02124 stored_sub_psf_headers[ifu_nr-1], 02125 0./0.)); 02126 02127 // save mask-image 02128 KMO_TRY_EXIT_IF_ERROR( 02129 kmo_dfs_save_image(stored_mask[ifu_nr-1], 02130 filename_mask, fn_suffix, 02131 stored_sub_psf_headers[ifu_nr-1], 02132 0./0.)); 02133 // save reonstructed cubes 02134 if (save_cubes) { 02135 KMO_TRY_EXIT_IF_ERROR( 02136 kmo_dfs_save_cube(stored_data_cube[ifu_nr-1], 02137 filename_cubes, fn_suffix, 02138 stored_sub_cube_data_headers[ifu_nr-1], 02139 0./0.)); 02140 KMO_TRY_EXIT_IF_ERROR( 02141 kmo_dfs_save_cube(stored_noise_cube[ifu_nr-1], 02142 filename_cubes, fn_suffix, 02143 stored_sub_cube_noise_headers[ifu_nr-1], 02144 0./0.)); 02145 } 02146 } // for j ifus (save stored) 02147 } // for i detectors (save stored) 02148 KMO_TRY_CHECK_ERROR_STATE(); 02149 } // if (frameCnt == 0) 02150 } 02151 KMO_CATCH 02152 { 02153 KMO_CATCH_MSG(); 02154 ret_val = -1; 02155 } 02156 02157 kmo_delete_objSkyStruct(obj_sky_struct); 02158 kmo_free_fits_desc(&desc1); 02159 kmo_free_fits_desc(&desc2); 02160 kmo_free_unused_ifus(unused_ifus_before); unused_ifus_before = NULL; 02161 kmo_free_unused_ifus(unused_ifus_after); unused_ifus_after = NULL; 02162 cpl_free(bounds); bounds = NULL; 02163 cpl_propertylist_delete(main_header_tel); main_header_tel = NULL; 02164 cpl_propertylist_delete(main_header_psf); main_header_psf = NULL; 02165 cpl_vector_delete(atmos_model); atmos_model = NULL; 02166 cpl_vector_delete(solar_spec); solar_spec = NULL; 02167 cpl_table_delete(spec_type_LUT); spec_type_LUT = NULL; 02168 cpl_vector_delete(identified_slices); identified_slices = NULL; 02169 cpl_propertylist_delete(sub_header_orig); sub_header_orig = NULL; 02170 for (i = 0; i < nr_devices * KMOS_IFUS_PER_DETECTOR; i++) { 02171 cpl_vector_delete(stored_telluric_data[i]); stored_telluric_data[i] = NULL; 02172 cpl_vector_delete(stored_telluric_noise[i]); stored_telluric_noise[i] = NULL; 02173 cpl_vector_delete(stored_starspec_data[i]); stored_starspec_data[i] = NULL; 02174 cpl_vector_delete(stored_starspec_noise[i]); stored_starspec_noise[i] = NULL; 02175 cpl_image_delete(stored_psf_data[i]); stored_psf_data[i] = NULL; 02176 cpl_propertylist_delete(stored_sub_tel_data_headers[i]); stored_sub_tel_data_headers[i] = NULL; 02177 cpl_propertylist_delete(stored_sub_tel_noise_headers[i]); stored_sub_tel_noise_headers[i] = NULL; 02178 if (save_cubes) { 02179 cpl_propertylist_delete(stored_sub_cube_data_headers[i]); stored_sub_cube_data_headers[i] = NULL; 02180 cpl_propertylist_delete(stored_sub_cube_noise_headers[i]); stored_sub_cube_noise_headers[i] = NULL; 02181 } 02182 cpl_propertylist_delete(stored_sub_psf_headers[i]); stored_sub_psf_headers[i] = NULL; 02183 cpl_image_delete(stored_mask[i]); stored_mask[i] = NULL; 02184 cpl_imagelist_delete(stored_data_cube[i]); stored_data_cube[i] = NULL; 02185 cpl_imagelist_delete(stored_noise_cube[i]); stored_noise_cube[i] = NULL; 02186 } 02187 cpl_free(stored_telluric_data); stored_telluric_data = NULL; 02188 cpl_free(stored_telluric_noise); stored_telluric_noise = NULL; 02189 cpl_free(stored_starspec_data); stored_starspec_data = NULL; 02190 cpl_free(stored_starspec_noise); stored_starspec_noise = NULL; 02191 cpl_free(stored_psf_data); stored_psf_data = NULL; 02192 cpl_free(stored_sub_tel_data_headers); stored_sub_tel_data_headers = NULL; 02193 cpl_free(stored_sub_tel_noise_headers); stored_sub_tel_noise_headers = NULL; 02194 if (save_cubes) { 02195 cpl_free(stored_sub_cube_data_headers); stored_sub_cube_data_headers = NULL; 02196 cpl_free(stored_sub_cube_noise_headers); stored_sub_cube_noise_headers = NULL; 02197 } 02198 cpl_free(stored_sub_psf_headers); stored_sub_psf_headers = NULL; 02199 cpl_free(stored_qc_throughput); stored_qc_throughput = NULL; 02200 cpl_free(suffix); suffix = NULL; 02201 cpl_free(fn_suffix); fn_suffix = NULL; 02202 cpl_free(stored_mask); stored_mask = NULL; 02203 cpl_free(stored_data_cube); stored_data_cube = NULL; 02204 cpl_free(stored_noise_cube); stored_noise_cube = NULL; 02205 cpl_free(grat_id); grat_id = NULL; 02206 cpl_frameset_delete(frameset_std); frameset_std = NULL; 02207 02208 return ret_val; 02209 } 02210
1.7.6.1