mirror of
https://bitbucket.org/cosmicvoids/vide_public.git
synced 2025-07-04 15:21:11 +00:00
Imported Healpix, cfitsio, cosmotool. Added cmake tool to build dependencies (cfitsio, hdf5, netcdf, boost, healpix, gsl, ..). Adjusted CMakeLists.txt
This commit is contained in:
Guilhem Lavaux
parent
4bfb62f177
commit
51f6798f88
241 changed files with 243806 additions and 0 deletions
387
external/cfitsio/fpack.c
vendored
Normal file
387
external/cfitsio/fpack.c
vendored
Normal file
|
|
@ -0,0 +1,387 @@
|
|||
/* FPACK
|
||||
* R. Seaman, NOAO, with a few enhancements by W. Pence, HEASARC
|
||||
*
|
||||
* Calls fits_img_compress in the CFITSIO library by W. Pence, HEASARC
|
||||
*/
|
||||
|
||||
#include <ctype.h>
|
||||
/* #include <signal.h> */
|
||||
#include "fitsio.h"
|
||||
#include "fpack.h"
|
||||
|
||||
/* ================================================================== */
|
||||
int main(int argc, char *argv[])
|
||||
{
|
||||
fpstate fpvar;
|
||||
|
||||
if (argc <= 1) { fp_usage (); fp_hint (); exit (-1); }
|
||||
|
||||
fp_init (&fpvar);
|
||||
fp_get_param (argc, argv, &fpvar);
|
||||
|
||||
if (fpvar.listonly) {
|
||||
fp_list (argc, argv, fpvar);
|
||||
|
||||
} else {
|
||||
fp_preflight (argc, argv, FPACK, &fpvar);
|
||||
fp_loop (argc, argv, FPACK, fpvar);
|
||||
}
|
||||
|
||||
exit (0);
|
||||
}
|
||||
/* ================================================================== */
|
||||
int fp_get_param (int argc, char *argv[], fpstate *fpptr)
|
||||
{
|
||||
int gottype=0, gottile=0, wholetile=0, iarg, len, ndim, ii, doffset;
|
||||
char tmp[SZ_STR], tile[SZ_STR];
|
||||
|
||||
if (fpptr->initialized != FP_INIT_MAGIC) {
|
||||
fp_msg ("Error: internal initialization error\n"); exit (-1);
|
||||
}
|
||||
|
||||
tile[0] = 0;
|
||||
|
||||
/* flags must come first and be separately specified
|
||||
*/
|
||||
for (iarg = 1; iarg < argc; iarg++) {
|
||||
if ((argv[iarg][0] == '-' && strlen (argv[iarg]) == 2) ||
|
||||
!strncmp(argv[iarg], "-q", 2) || /* special case */
|
||||
!strncmp(argv[iarg], "-g1", 3) || /* special case */
|
||||
!strncmp(argv[iarg], "-g2", 3) || /* special case */
|
||||
!strncmp(argv[iarg], "-i2f", 4) || /* special case */
|
||||
!strncmp(argv[iarg], "-fast", 5) || /* special case */
|
||||
!strncmp(argv[iarg], "-n3ratio", 8) || /* special case */
|
||||
!strncmp(argv[iarg], "-n3min", 6) || /* special case */
|
||||
!strncmp(argv[iarg], "-BETAtable", 10) ) /* special case */
|
||||
{
|
||||
|
||||
/* Rice is the default, so -r is superfluous
|
||||
*/
|
||||
if ( argv[iarg][1] == 'r') {
|
||||
fpptr->comptype = RICE_1;
|
||||
if (gottype) {
|
||||
fp_msg ("Error: multiple compression flags\n");
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
gottype++;
|
||||
|
||||
} else if (argv[iarg][1] == 'p') {
|
||||
fpptr->comptype = PLIO_1;
|
||||
if (gottype) {
|
||||
fp_msg ("Error: multiple compression flags\n");
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
gottype++;
|
||||
|
||||
} else if (argv[iarg][1] == 'g') {
|
||||
/* test for modifiers following the 'g' */
|
||||
if (argv[iarg][2] == '2')
|
||||
fpptr->comptype = GZIP_2;
|
||||
else
|
||||
fpptr->comptype = GZIP_1;
|
||||
|
||||
if (gottype) {
|
||||
fp_msg ("Error: multiple compression flags\n");
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
gottype++;
|
||||
/*
|
||||
} else if (argv[iarg][1] == 'b') {
|
||||
fpptr->comptype = BZIP2_1;
|
||||
if (gottype) {
|
||||
fp_msg ("Error: multiple compression flags\n");
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
gottype++;
|
||||
*/
|
||||
} else if (argv[iarg][1] == 'h') {
|
||||
fpptr->comptype = HCOMPRESS_1;
|
||||
if (gottype) {
|
||||
fp_msg ("Error: multiple compression flags\n");
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
gottype++;
|
||||
|
||||
} else if (argv[iarg][1] == 'd') {
|
||||
fpptr->comptype = NOCOMPRESS;
|
||||
if (gottype) {
|
||||
fp_msg ("Error: multiple compression flags\n");
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
gottype++;
|
||||
|
||||
} else if (!strcmp(argv[iarg], "-i2f")) {
|
||||
/* this means convert integer images to float, and then */
|
||||
/* quantize and compress the float image. This lossy */
|
||||
/* compression method may give higher compression than the */
|
||||
/* lossless compression method that is usually applied to */
|
||||
/* integer images. */
|
||||
|
||||
fpptr->int_to_float = 1;
|
||||
|
||||
} else if (!strcmp(argv[iarg], "-n3ratio")) {
|
||||
/* this is the minimum ratio between the MAD noise sigma */
|
||||
/* and the q parameter value in the case where the integer */
|
||||
/* image is quantized and compressed like a float image. */
|
||||
if (++iarg >= argc) {
|
||||
fp_usage (); exit (-1);
|
||||
} else {
|
||||
fpptr->n3ratio = (float) atof (argv[iarg]);
|
||||
}
|
||||
} else if (!strcmp(argv[iarg], "-n3min")) {
|
||||
/* this is the minimum MAD noise sigma in the case where the */
|
||||
/* integer image is quantized and compressed like a float image. */
|
||||
if (++iarg >= argc) {
|
||||
fp_usage (); exit (-1);
|
||||
} else {
|
||||
fpptr->n3min = (float) atof (argv[iarg]);
|
||||
}
|
||||
} else if (argv[iarg][1] == 'q') {
|
||||
/* test for modifiers following the 'q' */
|
||||
if (argv[iarg][2] == 't') {
|
||||
fpptr->dither_offset = -1; /* dither based on tile checksum */
|
||||
|
||||
} else if (isdigit(argv[iarg][2])) { /* is a number appended to q? */
|
||||
doffset = atoi(argv[iarg]+2);
|
||||
|
||||
if (doffset == 0) {
|
||||
fpptr->no_dither = 1; /* don't dither the quantized values */
|
||||
} else if (doffset > 0 && doffset <= 10000) {
|
||||
fpptr->dither_offset = doffset;
|
||||
} else {
|
||||
fp_msg ("Error: invalid q suffix\n");
|
||||
fp_usage (); exit (-1);
|
||||
}
|
||||
}
|
||||
|
||||
if (++iarg >= argc) {
|
||||
fp_usage (); exit (-1);
|
||||
} else {
|
||||
fpptr->quantize_level = (float) atof (argv[iarg]);
|
||||
}
|
||||
} else if (argv[iarg][1] == 'n') {
|
||||
if (++iarg >= argc) {
|
||||
fp_usage (); exit (-1);
|
||||
} else {
|
||||
fpptr->rescale_noise = (float) atof (argv[iarg]);
|
||||
}
|
||||
} else if (argv[iarg][1] == 's') {
|
||||
if (++iarg >= argc) {
|
||||
fp_usage (); exit (-1);
|
||||
} else {
|
||||
fpptr->scale = (float) atof (argv[iarg]);
|
||||
}
|
||||
} else if (argv[iarg][1] == 't') {
|
||||
if (gottile) {
|
||||
fp_msg ("Error: multiple tile specifications\n");
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
gottile++;
|
||||
|
||||
if (++iarg >= argc) {
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
strncpy (tile, argv[iarg], SZ_STR); /* checked below */
|
||||
|
||||
} else if (argv[iarg][1] == 'v') {
|
||||
fpptr->verbose = 1;
|
||||
|
||||
} else if (argv[iarg][1] == 'w') {
|
||||
wholetile++;
|
||||
if (gottile) {
|
||||
fp_msg ("Error: multiple tile specifications\n");
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
gottile++;
|
||||
|
||||
} else if (argv[iarg][1] == 'F') {
|
||||
fpptr->clobber++; /* overwrite existing file */
|
||||
|
||||
} else if (argv[iarg][1] == 'D') {
|
||||
fpptr->delete_input++;
|
||||
|
||||
} else if (argv[iarg][1] == 'Y') {
|
||||
fpptr->do_not_prompt++;
|
||||
|
||||
} else if (argv[iarg][1] == 'S') {
|
||||
fpptr->to_stdout++;
|
||||
|
||||
} else if (argv[iarg][1] == 'L') {
|
||||
fpptr->listonly++;
|
||||
|
||||
} else if (argv[iarg][1] == 'C') {
|
||||
fpptr->do_checksums = 0;
|
||||
|
||||
} else if (argv[iarg][1] == 'T') {
|
||||
fpptr->test_all = 1;
|
||||
|
||||
} else if (argv[iarg][1] == 'R') {
|
||||
if (++iarg >= argc) {
|
||||
fp_usage (); fp_hint (); exit (-1);
|
||||
} else
|
||||
strncpy (fpptr->outfile, argv[iarg], SZ_STR);
|
||||
|
||||
} else if (argv[iarg][1] == 'H') {
|
||||
fp_help (); exit (0);
|
||||
|
||||
} else if (argv[iarg][1] == 'V') {
|
||||
fp_version (); exit (0);
|
||||
|
||||
} else if (!strcmp(argv[iarg], "-BETAtable")) {
|
||||
fpptr->do_tables = 1;
|
||||
fp_msg ("Caution: -BETAtable is for feasibility studies, not general use.\n");
|
||||
|
||||
} else if (!strcmp(argv[iarg], "-fast")) {
|
||||
fpptr->do_fast = 1;
|
||||
|
||||
} else {
|
||||
fp_msg ("Error: unknown command line flag `");
|
||||
fp_msg (argv[iarg]); fp_msg ("'\n");
|
||||
fp_usage (); fp_hint (); exit (-1);
|
||||
}
|
||||
|
||||
} else
|
||||
break;
|
||||
}
|
||||
|
||||
if (fpptr->scale != 0. &&
|
||||
fpptr->comptype != HCOMPRESS_1 && fpptr->test_all != 1) {
|
||||
|
||||
fp_msg ("Error: `-s' requires `-h or -T'\n"); exit (-1);
|
||||
}
|
||||
|
||||
if (fpptr->quantize_level == 0) {
|
||||
|
||||
if ((fpptr->comptype != GZIP_1) && (fpptr->comptype != GZIP_2)) {
|
||||
fp_msg ("Error: `-q 0' only allowed with GZIP\n"); exit (-1);
|
||||
}
|
||||
|
||||
if (fpptr->int_to_float == 1) {
|
||||
fp_msg ("Error: `-q 0' not allowed with -i2f\n"); exit (-1);
|
||||
}
|
||||
}
|
||||
|
||||
if (wholetile) {
|
||||
for (ndim=0; ndim < MAX_COMPRESS_DIM; ndim++)
|
||||
fpptr->ntile[ndim] = (long) 0;
|
||||
|
||||
} else if (gottile) {
|
||||
len = strlen (tile);
|
||||
for (ii=0, ndim=0; ii < len; ) {
|
||||
if (! (isdigit (tile[ii]) || tile[ii] == ',')) {
|
||||
fp_msg ("Error: `-t' requires comma separated tile dims, ");
|
||||
fp_msg ("e.g., `-t 100,100'\n"); exit (-1);
|
||||
}
|
||||
|
||||
if (tile[ii] == ',') { ii++; continue; }
|
||||
|
||||
fpptr->ntile[ndim] = atol (&tile[ii]);
|
||||
for ( ; isdigit(tile[ii]); ii++);
|
||||
|
||||
if (++ndim > MAX_COMPRESS_DIM) {
|
||||
fp_msg ("Error: too many dimensions for `-t', max=");
|
||||
sprintf (tmp, "%d\n", MAX_COMPRESS_DIM); fp_msg (tmp);
|
||||
exit (-1);
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
if (iarg >= argc) {
|
||||
fp_msg ("Error: no FITS files to compress\n");
|
||||
fp_usage (); exit (-1);
|
||||
} else
|
||||
fpptr->firstfile = iarg;
|
||||
|
||||
return(0);
|
||||
}
|
||||
|
||||
/* ================================================================== */
|
||||
int fp_usage (void)
|
||||
{
|
||||
fp_msg ("usage: fpack ");
|
||||
fp_msg (
|
||||
"[-r|-h|-g|-p] [-w|-t <axes>] [-q <level>] [-s <scale>] [-n <noise>] -v <FITS>\n");
|
||||
fp_msg ("more: [-T] [-R] [-F] [-D] [-Y] [-S] [-L] [-C] [-H] [-V] [-i2f]\n");
|
||||
return(0);
|
||||
}
|
||||
|
||||
/* ================================================================== */
|
||||
int fp_hint (void)
|
||||
{ fp_msg (" `fpack -H' for help\n");
|
||||
return(0);
|
||||
}
|
||||
|
||||
/* ================================================================== */
|
||||
int fp_help (void)
|
||||
{
|
||||
fp_msg ("fpack, a FITS image compression program. Version ");
|
||||
fp_version ();
|
||||
fp_usage ();
|
||||
fp_msg ("\n");
|
||||
|
||||
fp_msg ("Flags must be separate and appear before filenames:\n");
|
||||
fp_msg (" -r Rice compression [default], or\n");
|
||||
fp_msg (" -h Hcompress compression, or\n");
|
||||
fp_msg (" -g or -g1 GZIP_1 (per-tile) compression, or\n");
|
||||
fp_msg (" -g2 GZIP_2 (per-tile) compression (with byte shuffling), or\n");
|
||||
/*
|
||||
fp_msg (" -b BZIP2 (per-tile) compression, or\n");
|
||||
*/
|
||||
fp_msg (" -p PLIO compression (only for positive 8 or 16-bit integer images).\n");
|
||||
fp_msg (" -d Tile the image without compression (debugging mode).\n");
|
||||
|
||||
fp_msg (" -w Compress the whole image as a single large tile.\n");
|
||||
fp_msg (" -t <axes> Comma separated list of tile dimensions [default is row by row].\n");
|
||||
|
||||
fp_msg (" -q <level> Quantized level spacing when converting floating point images to\n");
|
||||
fp_msg (" scaled integers. (+value relative to sigma of background noise;\n");
|
||||
fp_msg (" -value is absolute). Default q value of 4 gives a compression ratio\n");
|
||||
fp_msg (" of about 6 with very high fidelity (only 0.26% increase in noise).\n");
|
||||
fp_msg (" Using q values of 2, or 1 will give compression ratios of\n");
|
||||
fp_msg (" about 8, or 10, respectively (with 1.0% or 4.1% noise increase).\n");
|
||||
fp_msg (" The scaled quantized values are randomly dithered using a seed \n");
|
||||
fp_msg (" value determined from the system clock at run time.\n");
|
||||
fp_msg (" Use -q0 instead of -q to suppress random dithering.\n");
|
||||
fp_msg (" Use -qt to compute random dithering seed from first tile checksum.\n");
|
||||
fp_msg (" Use -qN, (N in range 1 to 10000) to use a specific dithering seed.\n");
|
||||
fp_msg (" Floating-point images can be losslessly compressed by selecting\n");
|
||||
fp_msg (" the GZIP algorithm and specifying -q 0, but this is slower and often\n");
|
||||
fp_msg (" produces much less compression than the default quantization method.\n");
|
||||
fp_msg (" -i2f Convert integer images to floating point, then quantize and compress\n");
|
||||
fp_msg (" using the specified q level. When used appropriately, this lossy\n");
|
||||
fp_msg (" compression method can give much better compression than the normal\n");
|
||||
fp_msg (" lossless compression methods without significant loss of information.\n");
|
||||
fp_msg (" The -n3ratio and -n3min flags control the minimum noise thresholds;\n");
|
||||
fp_msg (" Images below these thresholds will be losslessly compressed.\n");
|
||||
fp_msg (" -n3ratio Minimum ratio of background noise sigma divided by q. Default = 1.2.\n");
|
||||
fp_msg (" -n3min Minimum background noise sigma. Default = 6. The -i2f flag will be ignored\n");
|
||||
fp_msg (" if the noise level in the image does not exceed both thresholds.\n");
|
||||
fp_msg (" -s <scale> Scale factor for lossy Hcompress [default = 0 = lossless]\n");
|
||||
fp_msg (" (+values relative to RMS noise; -value is absolute)\n");
|
||||
fp_msg (" -n <noise> Rescale scaled-integer images to reduce noise and improve compression.\n");
|
||||
fp_msg (" -v Verbose mode; list each file as it is processed.\n");
|
||||
fp_msg (" -T Show compression algorithm comparison test statistics; files unchanged.\n");
|
||||
fp_msg (" -R <file> Write the comparison test report (above) to a text file.\n");
|
||||
fp_msg (" -BETAtable Compress FITS binary tables using prototype method.\n");
|
||||
fp_msg (" This option is ONLY for experimental use! Do NOT use\n");
|
||||
fp_msg (" on FITS data files that are to be publicly distributed.\n");
|
||||
fp_msg (" -fast Used with -BETAtable to favor speed over maximum compression.\n");
|
||||
|
||||
fp_msg ("\nkeywords shared with funpack:\n");
|
||||
|
||||
fp_msg (" -F Overwrite input file by output file with same name.\n");
|
||||
fp_msg (" -D Delete input file after writing output.\n");
|
||||
fp_msg (" -Y Suppress prompts to confirm -F or -D options.\n");
|
||||
|
||||
fp_msg (" -S Output compressed FITS files to STDOUT.\n");
|
||||
fp_msg (" -L List contents; files unchanged.\n");
|
||||
|
||||
fp_msg (" -C Don't update FITS checksum keywords.\n");
|
||||
|
||||
fp_msg (" -H Show this message.\n");
|
||||
fp_msg (" -V Show version number.\n");
|
||||
|
||||
fp_msg ("\n <FITS> FITS files to pack; enter '-' (a hyphen) to read input from stdin stream.\n");
|
||||
fp_msg (" Refer to the fpack User's Guide for more extensive help.\n");
|
||||
return(0);
|
||||
}
|
||||
Loading…
Add table
Add a link
Reference in a new issue