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/*
* makeit.c
*
* Main loop.
*
*%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
*
* This file part of: PSFEx
*
* Copyright: (C) 1997-2014 Emmanuel Bertin -- IAP/CNRS/UPMC
*
* License: GNU General Public License
*
* PSFEx is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
* PSFEx is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
* You should have received a copy of the GNU General Public License
* along with PSFEx. If not, see <http://www.gnu.org/licenses/>.
*
* Last modified: 26/02/2014
*
*%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%*/
#ifdef HAVE_CONFIG_H
#include "config.h"
#endif
#ifdef USE_THREADS
#ifdef HAVE_MKL
#include MKL_H
#endif
#endif
#include <math.h>
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#include <time.h>
#include "define.h"
#include "types.h"
#include "globals.h"
#include "fits/fitscat.h"
#include "check.h"
#include "context.h"
#include "cplot.h"
#include "diagnostic.h"
#include "field.h"
#include "homo.h"
#include "catout.h"
#include "pca.h"
#include "prefs.h"
#include "psf.h"
#include "sample.h"
#include "xml.h"
void write_error(const char *msg1, const char *msg2);
time_t thetime, thetime2;
/********************************** makeit ***********************************/
/*
*/
void makeit(void)
{
wcsstruct *wcs;
fieldstruct **fields,
*field;
psfstruct **cpsf,
*psf;
setstruct *set, *set2;
contextstruct *context, *fullcontext;
outcatstruct *outcat;
struct tm *tm;
char str[MAXCHAR];
char **incatnames,
*pstr;
float **psfbasiss,
*psfsteps, *psfbasis, *basis,
psfstep, step;
int c,i,p, ncat, ext, next, nmed, nbasis;
/* Install error logging */
error_installfunc(write_error);
incatnames = prefs.incat_name;
ncat = prefs.ncat;
/* Processing start date and time */
thetime = time(NULL);
tm = localtime(&thetime);
sprintf(prefs.sdate_start,"%04d-%02d-%02d",
tm->tm_year+1900, tm->tm_mon+1, tm->tm_mday);
sprintf(prefs.stime_start,"%02d:%02d:%02d",
tm->tm_hour, tm->tm_min, tm->tm_sec);
NFPRINTF(OUTPUT, "");
QPRINTF(OUTPUT,
"----- %s %s started on %s at %s with %d thread%s\n\n",
BANNER,
MYVERSION,
prefs.sdate_start,
prefs.stime_start,
prefs.nthreads,
prefs.nthreads>1? "s":"");
/* End here if no filename has been provided */
if (!ncat)
{
/*-- Processing end date and time */
thetime2 = time(NULL);
tm = localtime(&thetime2);
sprintf(prefs.sdate_end,"%04d-%02d-%02d",
tm->tm_year+1900, tm->tm_mon+1, tm->tm_mday);
sprintf(prefs.stime_end,"%02d:%02d:%02d",
tm->tm_hour, tm->tm_min, tm->tm_sec);
prefs.time_diff = difftime(thetime2, thetime);
/*-- Write XML */
if (prefs.xml_flag)
{
init_xml(0);
write_xml(prefs.xml_name);
end_xml();
}
return;
}
/* Create an array of PSFs (one PSF for each extension) */
QMALLOC(fields, fieldstruct *, ncat);
NFPRINTF(OUTPUT, "");
QPRINTF(OUTPUT, "----- %d input catalogues:\n", ncat);
for (c=0; c<ncat; c++)
{
fields[c] = field_init(incatnames[c]);
QPRINTF(OUTPUT, "%-20.20s: \"%-16.16s\" %3d extension%s %7d detection%s\n",
fields[c]->rcatname, fields[c]->ident,
fields[c]->next, fields[c]->next>1 ? "s":"",
fields[c]->ndet, fields[c]->ndet>1 ? "s":"");
}
QPRINTF(OUTPUT, "\n");
next = fields[0]->next;
if (prefs.xml_flag)
init_xml(ncat);
psfstep = prefs.psf_step;
psfsteps = NULL;
nbasis = 0;
psfbasis = NULL;
psfbasiss = NULL;
/* Initialize context */
NFPRINTF(OUTPUT, "Initializing contexts...");
context = context_init(prefs.context_name, prefs.context_group,
prefs.ncontext_group, prefs.group_deg, prefs.ngroup_deg,
CONTEXT_REMOVEHIDDEN);
fullcontext = context->npc?
context_init(prefs.context_name, prefs.context_group,
prefs.ncontext_group, prefs.group_deg, prefs.ngroup_deg,
CONTEXT_KEEPHIDDEN)
: context;
if (context->npc && ncat<2)
warning("Hidden dependencies cannot be derived from",
" a single catalog");
else if (context->npc && prefs.stability_type == STABILITY_EXPOSURE)
warning("Hidden dependencies have no effect",
" in STABILITY_TYPE EXPOSURE mode");
/* Compute PSF steps */
if (!prefs.psf_step)
{
NFPRINTF(OUTPUT, "Computing optimum PSF sampling steps...");
if (prefs.newbasis_type==NEWBASIS_PCACOMMON
|| (prefs.stability_type == STABILITY_SEQUENCE
&& prefs.psf_mef_type == PSF_MEF_COMMON))
{
set = load_samples(incatnames, 0, ncat, ALL_EXTENSIONS, next, context);
psfstep = (float)((set->fwhm/2.35)*0.5);
end_set(set);
}
/*-- Need to derive a common pixel step for each ext */
else if (prefs.newbasis_type == NEWBASIS_PCAINDEPENDENT
|| context->npc
|| (prefs.stability_type == STABILITY_SEQUENCE
&& prefs.psf_mef_type == PSF_MEF_INDEPENDENT))
{
/*-- Run through all samples to derive a different pixel step for each extension */
QMALLOC(psfsteps, float, next);
for (ext=0 ; ext<next; ext++)
{
set = load_samples(incatnames, 0, ncat, ext, next, context);
psfsteps[ext] = (float)(psfstep? psfstep : (set->fwhm/2.35)*0.5);
end_set(set);
}
}
}
/* Derive a new common PCA basis for all extensions */
if (prefs.newbasis_type==NEWBASIS_PCACOMMON)
{
QMALLOC(cpsf, psfstruct *, ncat*next);
for (ext=0 ; ext<next; ext++)
for (c=0; c<ncat; c++)
{
sprintf(str, "Computing new PCA image basis from %s...",
fields[c]->rtcatname);
NFPRINTF(OUTPUT, str);
set = load_samples(incatnames, c, 1, ext, next, context);
step = psfstep;
cpsf[c+ext*ncat] = make_psf(set, psfstep, NULL, 0, context);
end_set(set);
}
nbasis = prefs.newbasis_number;
psfbasis = pca_onsnaps(cpsf, ncat*next, nbasis);
for (i=0 ; i<ncat*next; i++)
psf_end(cpsf[i]);
free(cpsf);
}
/* Derive a new PCA basis for each extension */
else if (prefs.newbasis_type == NEWBASIS_PCAINDEPENDENT)
{
nbasis = prefs.newbasis_number;
QMALLOC(psfbasiss, float *, next);
for (ext=0; ext<next; ext++)
{
if (psfsteps)
step = psfsteps[ext];
else
step = psfstep;
QMALLOC(cpsf, psfstruct *, ncat);
for (c=0; c<ncat; c++)
{
sprintf(str, "Computing new PCA image basis from %s...",
fields[c]->rtcatname);
NFPRINTF(OUTPUT, str);
set = load_samples(incatnames, c, 1, ext, next, context);
cpsf[c] = make_psf(set, step, NULL, 0, context);
end_set(set);
}
psfbasiss[ext] = pca_onsnaps(cpsf, ncat, nbasis);
for (c=0 ; c<ncat; c++)
psf_end(cpsf[c]);
free(cpsf);
}
}
if (context->npc && prefs.hidden_mef_type == HIDDEN_MEF_COMMON)
/*-- Derive principal components of PSF variation from the whole mosaic */
{
p = 0;
QMALLOC(cpsf, psfstruct *, ncat*next);
for (c=0; c<ncat; c++)
{
sprintf(str, "Computing hidden dependency parameter(s) from %s...",
fields[c]->rtcatname);
NFPRINTF(OUTPUT, str);
for (ext=0 ; ext<next; ext++)
{
set = load_samples(incatnames, c, 1, ext, next, context);
if (psfsteps)
step = psfsteps[ext];
else
step = psfstep;
basis = psfbasiss? psfbasiss[ext] : psfbasis;
cpsf[p++] = make_psf(set, step, basis, nbasis, context);
end_set(set);
}
}
free(fullcontext->pc);
fullcontext->pc = pca_oncomps(cpsf, next, ncat, context->npc);
for (c=0 ; c<ncat*next; c++)
psf_end(cpsf[c]);
free(cpsf);
}
/* Compute "final" PSF models */
if (prefs.psf_mef_type == PSF_MEF_COMMON)
{
if (prefs.stability_type == STABILITY_SEQUENCE)
{
/*---- Load all the samples at once */
set = load_samples(incatnames, 0, ncat, ALL_EXTENSIONS, next, context);
step = psfstep;
basis = psfbasis;
field_count(fields, set, COUNT_LOADED);
psf = make_psf(set, step, basis, nbasis, context);
field_count(fields, set, COUNT_ACCEPTED);
end_set(set);
NFPRINTF(OUTPUT, "Computing final PSF model...");
context_apply(context, psf, fields, ALL_EXTENSIONS, 0, ncat);
psf_end(psf);
}
else
for (c=0; c<ncat; c++)
{
/*------ Load the samples for current exposure */
sprintf(str, "Computing final PSF model from %s...",
fields[c]->rtcatname);
NFPRINTF(OUTPUT, str);
set = load_samples(incatnames, c, 1, ALL_EXTENSIONS, next, context);
if (psfstep)
step = psfstep;
else
step = (float)((set->fwhm/2.35)*0.5);
basis = psfbasis;
field_count(fields, set, COUNT_LOADED);
psf = make_psf(set, step, basis, nbasis, fullcontext);
field_count(fields, set, COUNT_ACCEPTED);
end_set(set);
context_apply(fullcontext, psf, fields, ALL_EXTENSIONS, c, 1);
psf_end(psf);
}
}
else
for (ext=0 ; ext<next; ext++)
{
basis = psfbasiss? psfbasiss[ext] : psfbasis;
if (context->npc && prefs.hidden_mef_type == HIDDEN_MEF_INDEPENDENT)
/*------ Derive principal components of PSF components */
{
QMALLOC(cpsf, psfstruct *, ncat);
if (psfsteps)
step = psfsteps[ext];
else
step = psfstep;
for (c=0; c<ncat; c++)
{
if (next>1)
sprintf(str,
"Computing hidden dependency parameter(s) from %s[%d/%d]...",
fields[c]->rtcatname, ext+1, next);
else
sprintf(str, "Computing hidden dependency parameter(s) from %s...",
fields[c]->rtcatname);
NFPRINTF(OUTPUT, str);
set = load_samples(incatnames, c, 1, ext, next, context);
field_count(fields, set, COUNT_LOADED);
cpsf[c] = make_psf(set, step, basis, nbasis, context);
field_count(fields, set, COUNT_ACCEPTED);
end_set(set);
}
free(fullcontext->pc);
fullcontext->pc = pca_oncomps(cpsf, 1, ncat, context->npc);
for (c=0 ; c<ncat; c++)
psf_end(cpsf[c]);
free(cpsf);
}
if (prefs.stability_type == STABILITY_SEQUENCE)
{
/*------ Load all the samples at once */
if (next>1)
{
sprintf(str, "Computing final PSF model for extension [%d/%d]...",
ext+1, next);
NFPRINTF(OUTPUT, str);
}
else
NFPRINTF(OUTPUT, "Computing final PSF model...");
set = load_samples(incatnames, 0, ncat, ext, next, fullcontext);
if (psfstep)
step = psfstep;
else if (psfsteps)
step = psfsteps[ext];
else
step = (float)((set->fwhm/2.35)*0.5);
field_count(fields, set, COUNT_LOADED);
psf = make_psf(set, step, basis, nbasis, fullcontext);
field_count(fields, set, COUNT_ACCEPTED);
end_set(set);
context_apply(fullcontext, psf, fields, ext, 0, ncat);
psf_end(psf);
}
else
for (c=0; c<ncat; c++)
{
/*-------- Load the samples for current exposure */
if (next>1)
sprintf(str, "Reading data from %s[%d/%d]...",
fields[c]->rtcatname, ext+1, next);
else
sprintf(str, "Reading data from %s...",
fields[c]->rtcatname);
NFPRINTF(OUTPUT, str);
set = load_samples(incatnames, c, 1, ext, next, context);
if (psfstep)
step = psfstep;
else if (psfsteps)
step = psfsteps[ext];
else
step = (float)((set->fwhm/2.35)*0.5);
if (next>1)
sprintf(str, "Computing final PSF model for %s[%d/%d]...",
fields[c]->rtcatname, ext+1, next);
else
sprintf(str, "Computing final PSF model for %s...",
fields[c]->rtcatname);
NFPRINTF(OUTPUT, str);
field_count(fields, set, COUNT_LOADED);
psf = make_psf(set, step, basis, nbasis, context);
field_count(fields, set, COUNT_ACCEPTED);
end_set(set);
context_apply(context, psf, fields, ext, c, 1);
psf_end(psf);
}
}
free(psfsteps);
if (psfbasiss)
{
for (ext=0; ext<next; ext++)
free(psfbasiss[ext]);
free(psfbasiss);
}
else if (psfbasis)
free(psfbasis);
/* Compute diagnostics and check-images */
#ifdef USE_THREADS
/* Force MKL using a single thread as diagnostic code is already multithreaded*/
#ifdef HAVE_MKL
if (prefs.context_nsnap>2)
mkl_set_num_threads(1);
#endif
#endif
QIPRINTF(OUTPUT,
" filename [ext] accepted/total samp. chi2/dof FWHM ellip."
" resi. asym.");
/* Initialize output catalog */
if (prefs.outcat_type != CAT_NONE)
outcat = init_outcat(prefs.outcat_name, context->ncontext);
for (c=0; c<ncat; c++)
{
field = fields[c];
for (ext=0 ; ext<next; ext++)
{
psf = field->psf[ext];
wcs = field->wcs[ext];
if (next>1)
sprintf(str, "Computing diagnostics for %s[%d/%d]...",
field->rtcatname, ext+1, next);
else
sprintf(str, "Computing diagnostics for %s...",
field->rtcatname);
NFPRINTF(OUTPUT, str);
/*---- Check PSF with individual datasets */
set2 = load_samples(incatnames, c, 1, ext, next, context);
psf->samples_loaded = set2->nsample;
if (set2->nsample>1)
{
/*------ Remove bad PSF candidates */
psf_clean(psf, set2, prefs.prof_accuracy);
psf->chi2 = set2->nsample? psf_chi2(psf, set2) : 0.0;
}
psf->samples_accepted = set2->nsample;
/*---- Compute diagnostics and field statistics */
psf_diagnostic(psf);
psf_wcsdiagnostic(psf, wcs);
nmed = psf->nmed;
field_stats(fields, set2);
/*---- Display stats for current catalog/extension */
if (next>1)
sprintf(str, "[%d/%d]", ext+1, next);
else
str[0] = '\0';
QPRINTF(OUTPUT, "%-17.17s%-7.7s %5d/%-5d %6.2f %6.2f %6.2f %4.2f"
" %5.2f %5.2f\n",
ext==0? field->rtcatname : "",
str,
psf->samples_accepted, psf->samples_loaded,
psf->pixstep,
psf->chi2,
psf->moffat_fwhm,
psf->moffat_ellipticity,
psf->pfmoffat_residuals,
psf->sym_residuals);
/*---- Save "Check-images" */
for (i=0; i<prefs.ncheck_type; i++)
if (prefs.check_type[i])
{
sprintf(str, "Saving CHECK-image #%d...", i+1);
NFPRINTF(OUTPUT, str);
check_write(field, set2, prefs.check_name[i], prefs.check_type[i],
ext, next, prefs.check_cubeflag);
}
/*---- Write Catalog */
if (prefs.outcat_type != CAT_NONE)
write_outcat(outcat, set2);
/*---- Free memory */
end_set(set2);
}
}
if (prefs.outcat_type != CAT_NONE)
end_outcat(outcat);
#ifdef USE_THREADS
/* Back to multithreaded MKL */
#ifdef HAVE_MKL
mkl_set_num_threads(prefs.nthreads);
#endif
#endif
/* Save result */
for (c=0; c<ncat; c++)
{
sprintf(str, "Saving PSF model and metadata for %s...",
fields[c]->rtcatname);
NFPRINTF(OUTPUT, str);
/*-- Create a file name with a "PSF" extension */
if (*prefs.psf_dir)
{
if ((pstr = strrchr(incatnames[c], '/')))
pstr++;
else
pstr = incatnames[c];
sprintf(str, "%s/%s", prefs.psf_dir, pstr);
}
else
strcpy(str, incatnames[c]);
if (!(pstr = strrchr(str, '.')))
pstr = str+strlen(str);
sprintf(pstr, "%s", prefs.psf_suffix);
field_psfsave(fields[c], str);
/* Create homogenisation kernels */
if (prefs.homobasis_type != HOMOBASIS_NONE)
{
for (ext=0; ext<next; ext++)
{
if (next>1)
sprintf(str, "Computing homogenisation kernel for %s[%d/%d]...",
fields[c]->rtcatname, ext+1, next);
else
sprintf(str, "Computing homogenisation kernel for %s...",
fields[c]->rtcatname);
NFPRINTF(OUTPUT, str);
if (*prefs.homokernel_dir)
{
if ((pstr = strrchr(incatnames[c], '/')))
pstr++;
else
pstr = incatnames[c];
sprintf(str, "%s/%s", prefs.homokernel_dir, pstr);
}
else
strcpy(str, incatnames[c]);
if (!(pstr = strrchr(str, '.')))
pstr = str+strlen(str);
sprintf(pstr, "%s", prefs.homokernel_suffix);
psf_homo(fields[c]->psf[ext], str, prefs.homopsf_params,
prefs.homobasis_number, prefs.homobasis_scale, ext, next);
}
}
#ifdef HAVE_PLPLOT
/* Plot diagnostic maps for all catalogs */
cplot_ellipticity(fields[c]);
cplot_fwhm(fields[c]);
cplot_moffatresi(fields[c]);
cplot_asymresi(fields[c]);
cplot_counts(fields[c]);
cplot_countfrac(fields[c]);
cplot_modchi2(fields[c]);
cplot_modresi(fields[c]);
#endif
/*-- Update XML */
if (prefs.xml_flag)
update_xml(fields[c]);
}
/* Processing end date and time */
thetime2 = time(NULL);
tm = localtime(&thetime2);
sprintf(prefs.sdate_end,"%04d-%02d-%02d",
tm->tm_year+1900, tm->tm_mon+1, tm->tm_mday);
sprintf(prefs.stime_end,"%02d:%02d:%02d",
tm->tm_hour, tm->tm_min, tm->tm_sec);
prefs.time_diff = difftime(thetime2, thetime);
/* Write XML */
if (prefs.xml_flag)
{
NFPRINTF(OUTPUT, "Writing XML file...");
write_xml(prefs.xml_name);
end_xml();
}
/* Free memory */
for (c=0; c<ncat; c++)
field_end(fields[c]);
free(fields);
if (context->npc)
context_end(fullcontext);
context_end(context);
return;
}
/****** make_psf *************************************************************
PROTO psfstruct *make_psf(setstruct *set, float psfstep,
float *basis, int nbasis, contextstruct *context)
PURPOSE Make PSFs from a set of FITS binary catalogs.
INPUT Pointer to a sample set,
PSF sampling step,
Pointer to basis image vectors,
Number of basis vectors,
Pointer to context structure.
OUTPUT Pointer to the PSF structure.
NOTES Diagnostics are computed only if diagflag != 0.
AUTHOR E. Bertin (IAP)
VERSION 03/09/2009
***/
psfstruct *make_psf(setstruct *set, float psfstep,
float *basis, int nbasis, contextstruct *context)
{
psfstruct *psf;
basistypenum basistype;
float pixsize[2];
pixsize[0] = (float)prefs.psf_pixsize[0];
pixsize[1] = (float)prefs.psf_pixsize[1];
// NFPRINTF(OUTPUT,"Initializing PSF modules...");
psf = psf_init(context, prefs.psf_size, psfstep, pixsize, set->nsample);
psf->samples_loaded = set->nsample;
psf->fwhm = set->fwhm;
/* Make the basic PSF-model (1st pass) */
// NFPRINTF(OUTPUT,"Modeling the PSF (1/3)...");
psf_make(psf, set, 0.2);
if (basis && nbasis)
{
QMEMCPY(basis, psf->basis, float, nbasis*psf->size[0]*psf->size[1]);
psf->nbasis = nbasis;
}
else
{
// NFPRINTF(OUTPUT,"Generating the PSF model...");
basistype = prefs.basis_type;
if (basistype==BASIS_PIXEL_AUTO)
basistype = (psf->fwhm < PSF_AUTO_FWHM)? BASIS_PIXEL : BASIS_NONE;
psf_makebasis(psf, set, basistype, prefs.basis_number);
}
psf_refine(psf, set);
/* Remove bad PSF candidates */
if (set->nsample>1)
{
psf_clean(psf, set, 0.2);
/*-- Make the basic PSF-model (2nd pass) */
// NFPRINTF(OUTPUT,"Modeling the PSF (2/3)...");
psf_make(psf, set, 0.1);
psf_refine(psf, set);
}
/* Remove bad PSF candidates */
if (set->nsample>1)
{
psf_clean(psf, set, 0.1);
/*-- Make the basic PSF-model (3rd pass) */
// NFPRINTF(OUTPUT,"Modeling the PSF (3/3)...");
psf_make(psf, set, 0.05);
psf_refine(psf, set);
}
/* Remove bad PSF candidates */
if (set->nsample>1)
psf_clean(psf, set, 0.05);
psf->samples_accepted = set->nsample;
/* Refine the PSF-model */
psf_make(psf, set, prefs.prof_accuracy);
psf_refine(psf, set);
/* Clip the PSF-model */
psf_clip(psf);
/*-- Just check the Chi2 */
psf->chi2 = set->nsample? psf_chi2(psf, set) : 0.0;
return psf;
}
/****** write_error ********************************************************
PROTO void write_error(const char *msg1, const char *msg2)
PURPOSE Manage files in case of a catched error
INPUT a character string,
another character string
OUTPUT RETURN_OK if everything went fine, RETURN_ERROR otherwise.
NOTES -.
AUTHOR E. Bertin (IAP)
VERSION 02/12/2013
***/
void write_error(const char *msg1, const char *msg2)
{
char error[MAXCHAR];
sprintf(error, "%s%s", msg1,msg2);
if (prefs.xml_flag)
write_xmlerror(prefs.xml_name, error);
end_xml();
return;
}
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