25 #include <muse_instrument.h>
26 #include "muse_data_format_z.h"
81 #define PRINT_USAGE(rc) \
82 fprintf(stderr, "Usage: %s [ -i INTABLE ] [ -r REFIMAGE [ -n extname ] ] " \
83 "[ -t ] ASCIIFILE IFUNUM OUTTABLE\n", argv[0]); \
84 cpl_end(); return (rc);
86 int main(
int argc,
char **argv)
93 cpl_init(CPL_INIT_DEFAULT);
94 if (getenv(
"ESOREX_MSG_LEVEL") && !strncmp(getenv(
"ESOREX_MSG_LEVEL"),
96 cpl_msg_set_level(CPL_MSG_DEBUG);
104 unsigned char nifu = 0;
105 cpl_boolean trimmedcoords = CPL_FALSE;
109 for (i = 1; i < argc; i++) {
110 if (strncmp(argv[i],
"-i", 3) == 0) {
118 }
else if (strncmp(argv[i],
"-r", 3) == 0) {
126 }
else if (strncmp(argv[i],
"-n", 3) == 0) {
134 }
else if (strncmp(argv[i],
"-t", 3) == 0) {
136 trimmedcoords = CPL_TRUE;
137 }
else if (strncmp(argv[i],
"-", 1) == 0) {
140 if (fname && toname) {
145 }
else if (nifu == 0) {
146 int ifunum = atoi(argv[i]);
147 if (ifunum < 1 || ifunum > kMuseNumIFUs) {
158 FILE *fp = fopen(fname,
"r");
166 printf(
"Converting coordinates from trimmed to raw data dimensions\n");
168 #define START_SIZE 10000
170 cpl_size irow = 0, nrow = cpl_table_get_nrow(table);
172 while (fscanf(fp,
"%d %d %d", &ix, &iy, &idq) == 3) {
174 cpl_table_set_size(table, nrow + START_SIZE);
175 nrow = cpl_table_get_nrow(table);
182 if (ix < 1 || ix > (kMuseOutputXRight + 4*kMusePreOverscanSize) ||
183 iy < 1 || iy > (kMuseOutputYTop + 4*kMusePreOverscanSize)) {
184 fprintf(stderr,
"Excluding bad pixel at given %d,%d %s coordinates, as "
185 "it would be outside the MUSE CCD!\n", iorig, jorig,
186 trimmedcoords ?
"trimmed" :
"raw");
189 cpl_table_set_int(table, MUSE_BADPIX_X, irow, ix);
190 cpl_table_set_int(table, MUSE_BADPIX_Y, irow, iy);
191 cpl_table_set_int(table, MUSE_BADPIX_DQ, irow++, idq);
193 cpl_table_set_size(table, irow);
194 printf(
"%"CPL_SIZE_FORMAT
" bad pixel%s read from \"%s\"\n", irow,
195 irow != 1 ?
"s" :
"", fname);
197 if (cpl_msg_get_level() == CPL_MSG_DEBUG) {
198 printf(
"first 10 entries of the new table, as converted from ASCII:\n");
199 cpl_table_dump(table, 0, 10, stdout);
206 cpl_propertylist *htest = cpl_propertylist_load(tiname, 0);
208 cpl_propertylist_delete(htest);
210 printf(
"WARNING: could not open input table \"%s\"!\n", tiname);
216 char *chan = cpl_sprintf(
"CHAN%02hhu", nifu);
217 cpl_table *intable = NULL;
220 cpl_errorstate state = cpl_errorstate_get();
223 cpl_errorstate_set(state);
230 cpl_boolean savedsomething = rc == CPL_ERROR_NONE;
233 inext = cpl_fits_find_extension(toname, chan);
235 cpl_propertylist *pheader = NULL,
238 printf(
"WARNING: no pre-existing data, creating minimal header from "
240 pheader = cpl_propertylist_new();
241 cpl_propertylist_append_string(pheader,
"TELESCOP",
"ESO-VLT-U4");
242 cpl_propertylist_append_string(pheader,
"INSTRUME",
"MUSE");
243 cpl_propertylist_append_string(pheader,
"OBJECT",
244 "Bad pixel table for MUSE (BADPIX_TABLE)");
245 header = cpl_propertylist_new();
246 cpl_propertylist_append_string(header,
"EXTNAME", chan);
247 cpl_propertylist_append_string(header,
"ESO DET CHIP NAME", chan);
249 printf(
"Using primary header from \"%s\" as starting point\n", riname);
250 pheader = cpl_propertylist_load_regexp(riname, 0,
"TELESCOP|INSTRUME|"
254 cpl_propertylist_erase_regexp(pheader,
"ESO DET DEV[0-9] (SHUT |EXP )|"
255 "ESO DET (EXP |[DU]IT|NDIT|DKTM)", 0);
256 cpl_propertylist_erase_regexp(pheader,
"ESO DET (CHIP |OUT[1-4])", 0);
257 cpl_propertylist_update_string(pheader,
"OBJECT",
258 "Bad pixel table for MUSE (BADPIX_TABLE)");
259 int refext = cpl_fits_find_extension(riname, extname);
261 printf(
"Using extension header from \"%s[%s]\" (%d)\n", riname, extname,
263 header = cpl_propertylist_load_regexp(riname, refext,
264 "^EXT|ESO DET (CHIP |OUT[1-4])", 0);
266 printf(
"WARNING: no pre-existing extension found, creating minimal "
267 "extension header from scratch!\n");
268 header = cpl_propertylist_new();
269 cpl_propertylist_append_string(header,
"EXTNAME", chan);
270 cpl_propertylist_append_string(header,
"ESO DET CHIP NAME", chan);
273 if (savedsomething) {
275 rc = cpl_table_save(table, NULL, header, toname, CPL_IO_EXTEND);
278 cpl_propertylist_update_string(pheader,
"PIPEFILE", toname);
279 cpl_propertylist_set_comment(pheader,
"PIPEFILE",
280 "pretend to be a pipeline output file");
281 cpl_propertylist_update_string(pheader,
"ESO PRO CATG", MUSE_TAG_BADPIX_TABLE);
282 cpl_propertylist_set_comment(pheader,
"ESO PRO CATG",
283 "MUSE bad pixel table");
284 rc = cpl_table_save(table, pheader, header, toname, CPL_IO_CREATE);
286 if (rc != CPL_ERROR_NONE) {
287 fprintf(stderr,
"Saving to \"%s\" failed (rc=%d): %s\n", toname, rc,
288 cpl_error_get_message());
290 printf(
"Saved to \"%s\" (%s)\n", toname,
291 savedsomething ?
"new extension" :
"new file");
293 cpl_propertylist_delete(pheader);
294 cpl_propertylist_delete(header);
297 cpl_table_delete(table);
299 if (cpl_msg_get_level() == CPL_MSG_DEBUG) {
300 printf(
"Output file \"%s\" has primary header and %"CPL_SIZE_FORMAT
301 " extensions\n", toname, cpl_fits_count_extensions(toname));
302 cpl_errorstate_dump(0, CPL_FALSE, NULL);
cpl_error_code muse_quality_copy_badpix_table(const char *aInFile, const char *aOutFile, int aExtension, const cpl_table *aTable)
Copy bad pixel table on disk, replacing the table in one extension.
cpl_table * muse_quality_merge_badpix_from_file(const cpl_table *aTable, const char *aInFile, const char *aExtname, int *aExt)
Merge bad pixel table in memory with table from file on disk.
cpl_table * muse_cpltable_new(const muse_cpltable_def *aDef, cpl_size aLength)
Create an empty table according to the specified definition.
cpl_error_code muse_quadrants_coords_to_raw(cpl_propertylist *aHeader, int *aX, int *aY)
Convert coordinates of a trimmed image to raw-image coordinates.