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make_stamps_t80share.py
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make_stamps_t80share.py
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"""
Make stamps using t80share machine.
"""
from __future__ import print_function, division
import os
import warnings
from getpass import getpass
import numpy as np
import astropy.units as u
from astropy.table import Table
from astropy.io import fits
from astropy.coordinates import SkyCoord
from astropy.wcs import WCS
from astropy.nddata.utils import Cutout2D
from tqdm import tqdm
from astropy.wcs import FITSFixedWarning
import context
def make_stamps_t80share(names, coords, sizes, outdir=None, redo=False,
img_types=None, bands=None, tiles_dir=None):
""" Produces stamps of objects in S-PLUS from a table of names,
coordinates.
Parameters
----------
names: np.array
Array containing the name/id of the objects.
coords: astropy.coordinates.SkyCoord
Coordinates of the objects.
size: np.array
Size of the stamps (in pixels)
outdir: str
Path to the output directory. If not given, stamps are saved in the
current directory.
redo: bool
Option to rewrite stamp in case it already exists.
img_types: list
List containing the image types to be used in stamps. Default is [
"swp', "swpweight"] to save both the images and the weight images
with uncertainties.
bands: list
List of bands for the stamps. Defaults produces stamps for all
filters in S-PLUS. Options are 'U', 'F378', 'F395', 'F410', 'F430', 'G',
'F515', 'R', 'F660', 'I', 'F861', and 'Z'.
"""
names = np.atleast_1d(names)
sizes = np.atleast_1d(sizes)
if len(sizes) == 1:
sizes = np.full(len(names), sizes[0])
sizes = sizes.astype(np.int)
img_types = ["swp", "swpweight"] if img_types is None else img_types
outdir = os.getcwd() if outdir is None else outdir
tiles_dir = "/storage/share/all_coadded/" if tiles_dir is None else \
tiles_dir
header_keys = ["OBJECT", "FILTER", "EXPTIME", "GAIN", "TELESCOP",
"INSTRUME", "AIRMASS"]
bands = context.bands if bands is None else bands
############################################################################
# Selecting tiles from S-PLUS footprint
fields = Table.read(os.path.join(context._path, "data",
"all_tiles_final.csv"))
field_coords = SkyCoord(fields["RA"], fields["DEC"],
unit=(u.hourangle, u.degree))
idx, d2d, d3d = field_coords.match_to_catalog_sky(coords)
idx = np.where(d2d < 2 * u.degree)
fields = fields[idx]
############################################################################
# Producing stamps
for field in tqdm(fields, desc="Fields"):
field_coords = SkyCoord(field["RA"], field["DEC"],
unit=(u.hourangle, u.degree))
field_name = field["NAME"]
tile_dir = os.path.join(tiles_dir, field["NAME"])
d2d = coords.separation(field_coords)
idx = np.where(d2d < 2 * u.degree)[0]
fnames = names[idx]
fcoords = coords[idx]
fsizes = sizes[idx]
for img_type in tqdm(img_types, desc="Data types", leave=False,
position=1):
for band in tqdm(bands, desc="Bands", leave=False, position=2):
fitsfile = os.path.join(tile_dir, "{}_{}_{}.fits".format(
field["NAME"], band, img_type))
fzfile = fitsfile.replace(".fits", ".fz")
if os.path.exists(fitsfile):
header = fits.getheader(fitsfile)
data = fits.getdata(fitsfile)
elif os.path.exists(fzfile):
f = fits.open(fzfile)[1]
header = f.header
data = f.data
else:
continue
wcs = WCS(header)
xys = wcs.all_world2pix(fcoords.ra, fcoords.dec, 1)
for i, (name, size) in enumerate(tqdm(zip(fnames, fsizes),
desc="Galaxies", leave=False, position=3)):
galdir = os.path.join(outdir, name)
output = os.path.join(galdir,
"{0}_{1}_{2}_{3}x{3}_{4}.fits".format(
name, field_name, band, size, img_type))
if os.path.exists(output) and not redo:
continue
try:
cutout = Cutout2D(data, position=fcoords[i],
size=size * u.pixel, wcs=wcs)
except ValueError:
continue
if np.all(cutout.data == 0):
continue
hdu = fits.ImageHDU(cutout.data)
for key in header_keys:
if key in header:
hdu.header[key] = header[key]
hdu.header["TILE"] = hdu.header["OBJECT"]
hdu.header["OBJECT"] = name
if "HIERARCH OAJ PRO FWHMMEAN" in header:
hdu.header["PSFFWHM"] = header["HIERARCH OAJ " \
"PRO FWHMMEAN"]
hdu.header["X0TILE"] = (xys[0][i], "Location in tile")
hdu.header["Y0TILE"] = (xys[1][i], "Location in tile")
hdu.header.update(cutout.wcs.to_header())
hdulist = fits.HDUList([fits.PrimaryHDU(), hdu])
if not os.path.exists(galdir):
os.mkdir(galdir)
hdulist.writeto(output, overwrite=True)
def make_stamps_GCs():
""" Sample of local galaxies with GC samples. """
catalog = Table.read(os.path.join(context.tables_dir, "sample_GCs.fits"))
names = np.array(["NGC" + "{}".format(_.split()[1]).zfill(6) for _
in catalog["galaxy"]])
ras = np.array([ _ for _ in catalog["ra"]])
decs = np.array([ _ for _ in catalog["dec"]])
wdir = os.path.join(context.data_dir, "sample_gc_galaxies")
outdir = os.path.join(context.data_dir, wdir, "cutouts")
for _dir in [wdir, outdir]:
if not os.path.exists(_dir):
os.mkdir(_dir)
sizes = np.array(1 + 6 * catalog["size"].data /
context.ps.value).astype(np.int)
coords = SkyCoord(ras, decs, unit=(u.degree, u.degree))
make_stamps_t80share(names, coords, sizes, outdir=outdir)
def make_stamps_fornax():
pass
if __name__ == "__main__":
make_stamps_GCs()
# make_stamps_fornax()