int fits_update_keycard(fitsfile* fptr, char* keystring, int* status) {
static char keyname[FLEN_KEYWORD];
/* update directly the full card */
int l;
fits_get_keyname(keystring, keyname, &l, status);
fits_update_card(fptr, keyname, keystring, status);
fits_print_error(*status);
return *status;
}
int fits_update_keycomment(fitsfile* fptr, char* keystring, int* status) {
static char keyname[FLEN_KEYWORD];
static char keycomment[FLEN_COMMENT];
/* decode current name and new name, then modify it */
if (!stringsep2(keystring, keyname, keycomment, '=')) return *status;
fits_modify_comment(fptr, keyname, keycomment, status);
fits_print_error(*status);
return *status;
}
int fits_update_keyname(fitsfile* fptr, char* keystring, int* status) {
static char oldname[FLEN_KEYWORD];
static char newname[FLEN_KEYWORD];
/* decode current name and new name, then modify it */
if (!stringsep2(keystring, oldname, newname, '=')) return *status;
fits_modify_name(fptr, oldname, newname, status);
fits_print_error(*status);
return *status;
}
int fits_close(fitsfile *fptr, int *status) {
int iomode;
fits_file_mode(fptr, &iomode, status);
if (iomode == READWRITE) {
fits_write_date(fptr, status);
}
fits_close_file(fptr, status);
fits_print_error(*status);
return *status;
}
int fits_update_keyvalue(fitsfile* fptr, char* keystring, int* status) {
static char keyname[FLEN_KEYWORD];
static char keyval[FLEN_VALUE];
/* decode the string, recognize the type, and update the key */
if (!stringsep2(keystring, keyname, keyval, '=')) return *status;
int datatype = fits_detect_key_type(keyval);
fits_update_key_from_str(fptr, datatype, keyname, keyval, 0, status);
fits_print_error(*status);
return *status;
}
fitsfile* fits_init(char *filename, int iomode, int *nrelhdu, int *status) {
*status = 0;
fitsfile *fptr;
if (fits_open_file(&fptr, filename, iomode, status)) {
fits_print_error(*status);
return 0;
}
/* Get the current HDU position and number of HDUs*/
int hdupos, nhdu;
fits_get_hdu_num (fptr, &hdupos);
fits_get_num_hdus(fptr, &nhdu, status);
/* will process only a single header if a specific extension was given,
otherwise all HDUs */
if (hdupos != 1 || strchr(filename, '[') || nhdu == 1)
*nrelhdu = 0;
else *nrelhdu = nhdu-hdupos;
return fptr;
}
int fits_print_header(fitsfile* fptr, int* status) {
/* get # of keywords */
int nkeys = 0;
fits_get_hdrspace(fptr, &nkeys, 0, status);
if (*status && nkeys == 0) return *status;
/* Standard string lengths defined in fitsio.h */
static char card[FLEN_CARD];
int i;
/* Read and print each keywords */
for (i=1; i<=nkeys; i++) {
if (fits_read_record(fptr, i, card, status)) break;
printf("%s\n", card);
}
/* terminate listing with END */
printf("END\n");
fits_print_error(*status);
return *status;
}
int main(int argc, char *argv[])
{
char opt, *framename, *listname, *outname, *e_outname, buffer[BUFSIZ];
int n, row, col, cX, cY, npatch, npxi, npxt, nprof;
int flag_autoname, flag_verbose, status, bitmask[YAR][XAR];
long xsize, ysize, lowleft[DIM], upright[DIM], increment[DIM] = {1L, 1L}, framesize[DIM];
float mask_val, cutoff, framefragment[YAR][XAR];
struct star* patchstars;
FILE *listfile;
fitsfile *frame, *maskedframe;
extern char *optarg;
extern int opterr;
framename = NULL;
listname = NULL;
outname = NULL;
mask_val = DEFAULT_MASK;
cutoff = DEFAULT_CUTOFF;
flag_autoname = 1;
flag_verbose = 0;
opterr = 0;
while ((opt=getopt(argc, argv, "f:l:o:m:c:v")) != -1) {
switch (opt) {
case 'f':
framename = optarg;
break;
case 'l':
listname = optarg;
break;
case 'o':
flag_autoname = 0;
outname = optarg;
break;
case 'm':
mask_val = atof(optarg);
break;
case 'c':
cutoff = atof(optarg);
break;
case 'v':
flag_verbose = 1;
break;
default:
usage(argv);
}
}
/* check mandatory parameters: */
if (framename == NULL || listname == NULL)
usage(argv);
if (cutoff < 0.0) {
fprintf(stderr, " WARNING: invalid cut-off value (%.1f ADU), using default (%.1f ADU)\n",
cutoff, DEFAULT_CUTOFF);
cutoff = DEFAULT_CUTOFF;
}
/* read ID and coordinates from any single-lined Daophot output, detect and skip the header if necessary: */
if ((listfile=fopen(listname, "r")) == NULL) {
file_read_error(listname);
} else {
npatch = line_count(listfile);
if (has_daophot_header(listfile) == 1) {
npatch -= DAO_HEADER_SIZE;
line_skip(listfile, DAO_HEADER_SIZE);
}
if (npatch <= 0) {
fclose(listfile);
fprintf(stderr, " couldn't read contents of '%s', exiting.\n\n", listname);
exit(EXIT_FAILURE);
}
patchstars = calloc(npatch, sizeof(struct star));
if (patchstars == NULL) {
fclose(listfile);
memory_error();
}
for (n=0; n < npatch; n++) {
fgets(buffer, BUFSIZ, listfile);
sscanf(buffer, "%d %lf %lf", &patchstars[n].num, &patchstars[n].X, &patchstars[n].Y);
}
fclose(listfile);
}
status = 0;
fits_open_file(&frame, framename, READONLY, &status);
if (status != 0) {
free(patchstars);
file_read_error(framename);
}
fits_get_img_size(frame, DIM, framesize, &status); fits_print_error(status);
xsize = framesize[0];
ysize = framesize[1];
printf(" %s: %ld x %ld pixels\n", framename, xsize, ysize);
printf(" %s: %d stars in the list\n", listname, npatch);
printf(" mask value: %.1f ADU\n", mask_val);
printf(" cut-off level: %.1f ADU\n", cutoff);
if (flag_autoname == 1) {
outname = expand_filename(framename, "-msk", 0, 0);
if (outname == NULL) {
free(patchstars);
fits_close_file(frame, &status);
memory_error();
}
}
printf(" output file: %s\n", outname);
/* force cfitsio to overwrite already existing file (prepend ! to the filename) */
e_outname = prepend_bang(outname);
if (e_outname == NULL) {
free(patchstars);
fits_close_file(frame, &status);
memory_error();
}
/* create output (masked) frame: */
fits_create_file(&maskedframe, e_outname, &status); fits_print_error(status);
free(e_outname);
if (flag_autoname == 1) /* only necessary if outname was created automatically */
free(outname);
fits_copy_file(frame, maskedframe, 1, 1, 1, &status); fits_print_error(status);
npxt = 0;
nprof = 0;
/* process the stars in the list: */
for (n=0; n < npatch; n++)
{
if (flag_verbose == 1)
printf("\n star #%d:\n", patchstars[n].num);
/* cfitsio doesn't understand fractional pixels, round the coordinates to nearest integer: */
cX = rint(patchstars[n].X);
cY = rint(patchstars[n].Y);
/* make sure center is in the picture, skip this star if it is not: */
if (cX < 1 || cY < 1 || cX > xsize || cY > ysize) {
printf(" star #%d is outside the frame (%d,%d), skipping.\n", patchstars[n].num, cX, cY);
continue;
}
/*
* in fitsio pixel index runs from 1 to N, not from 0 to N-1.
* consider XAR=21 (reading 10 pixels right and left from center), XSIZE=2044.
* example 1: star with x=10. fitsio will reach and try to read pixel at x=0, ILLEGAL.
* example 2: star with x=2034. fitsio will reach and try to read pixel at x=2044, LEGAL.
* we have to use LESS OR EQUAL when checking lower and left boundary,
* for upper and right boundary only using GREATER is fine
*/
else if (cX <= (XAR-1)/2 || cY <= (YAR-1)/2 || cX > xsize-(XAR-1)/2 || cY > ysize-(YAR-1)/2) {
printf(" star #%d is too close to the edge or partially outside the frame (%d,%d), skipping.\n",
patchstars[n].num, cX, cY);
continue;
}
if (flag_verbose == 1)
printf(" coordinates of star #%d center in current frame: (%d,%d)\n", patchstars[n].num, cX, cY);
/* compute the coordinates of lower left and upper right pixel: */
lowleft[0] = cX - (XAR-1)/2;
lowleft[1] = cY - (YAR-1)/2;
upright[0] = cX + (XAR-1)/2;
upright[1] = cY + (YAR-1)/2;
/* load frame fragment with the star into table: */
fits_read_subset(frame, TFLOAT, lowleft, upright, increment, 0, framefragment, 0, &status); fits_print_error(status);
/* initialise the bitmask with zeros: */
for (row=0; row < YAR; row++)
for (col=0; col < XAR; col++)
bitmask[row][col] = 0;
/* detect holes and write to bitmask: */
for (row=YAR-1; row >= 0; row--)
examine_row(framefragment, bitmask, row, cutoff);
for (col=0; col < XAR; col++)
examine_col(framefragment, bitmask, col, cutoff);
npxi = apply_bitmask(framefragment, bitmask, mask_val);
npxt += npxi;
if (npxi > 0)
++nprof;
if (flag_verbose == 1) {
printf("\n");
print_bitmask(bitmask);
printf("\n star %d: %d pixels masked\n", patchstars[n].num, npxi);
}
/* write the modified frame subsection to output frame: */
fits_write_subset(maskedframe, TFLOAT, lowleft, upright, framefragment, &status); fits_print_error(status);
}
printf(" %d pixels were masked in %d stars.\n", npxt, nprof);
fits_close_file(frame, &status); fits_print_error(status);
fits_close_file(maskedframe, &status); fits_print_error(status);
free(patchstars);
return 0;
}
