def ecpsf(img, ofwhm, threshold, psfstars, distance, interactive, ds9, psffun='gauss', fixaperture=False, _catalog='', _datamax=None, show=False):
try:
import lsc, string
hdr = lsc.util.readhdr(img + '.fits')
instrument = lsc.util.readkey3(hdr, 'instrume')
print 'INSTRUMENT:', instrument
if 'PIXSCALE' in hdr:
scale = lsc.util.readkey3(hdr, 'PIXSCALE')
elif 'CCDSCALE' in hdr:
if 'CCDXBIN' in hdr:
scale = lsc.util.readkey3(hdr, 'CCDSCALE') * lsc.util.readkey3(hdr, 'CCDXBIN')
elif 'CCDSUM' in hdr:
scale = lsc.util.readkey3(hdr, 'CCDSCALE') * int(string.split(lsc.util.readkey3(hdr, 'CCDSUM'))[0])
if _datamax is None and 'kb' in instrument:
_datamax = 45000
elif _datamax is None:
_datamax = 65000
_wcserr = lsc.util.readkey3(hdr, 'wcserr')
print _wcserr
if float(_wcserr) == 0:
if 'L1FWHM' in hdr:
seeing = float(lsc.util.readkey3(hdr, 'L1FWHM'))
elif 'L1SEEING' in hdr:
seeing = float(lsc.util.readkey3(hdr, 'L1SEEING')) * scale
else:
seeing = 3
else:
seeing = 3
if 'PSF_FWHM' in hdr:
seeing = float(lsc.util.readkey3(hdr, 'PSF_FWHM'))
else:
sys.exit('astrometry not good')
#except: sys.exit('astrometry not good')
fwhm = seeing / scale
print 'FWHM[header] ', fwhm, ' in pixel'
if ofwhm: fwhm = float(ofwhm)
print ' FWHM[input] ', fwhm, ' in pixel'
xdim, ydim = iraf.hselect(img+'[0]', 'i_naxis1,i_naxis2', 'yes', Stdout=1)[0].split()
print img, fwhm, threshold, scale,xdim
#################################################################################
################### write file to compute psf _psf.coo ############
#################################################################################
if interactive:
iraf.display(img, 1, fill=True)
iraf.delete('tmp.lo?', verify=False)
print '_' * 80
print '>>> Mark reference stars with "a". Then "q"'
print '-' * 80
iraf.imexamine(img, 1, wcs='logical', logfile='tmp.log', keeplog=True)
xyrefer = iraf.fields('tmp.log', '1,2,6,15', Stdout=1)
xns, yns, _fws = [], [], []
############# write file for PSF #########################
ff = open('_psf.coo', 'w')
for i in range(len(xyrefer)):
xns.append(float(xyrefer[i].split()[0]))
yns.append(float(xyrefer[i].split()[1]))
_fws.append(float(xyrefer[i].split()[3]))
ff.write('%10.3f %10.3f %7.2f \n' % (xns[i], yns[i], float(_fws[i])))
ff.close()
fwhm = np.median(_fws)
elif _catalog:
print '\n#### use catalog to measure the psf'
ddd=iraf.wcsctran(input=_catalog,output='STDOUT',Stdout=1,image=img + '[0]',inwcs='world',outwcs='logical',
units='degrees degrees',columns='1 2',formats='%10.1f %10.1f',verbose='no')
ddd=[i for i in ddd if i[0]!='#']
ddd=[' '.join(i.split()[0:3]) for i in ddd]
line=''
for i in ddd:
a,b,c = string.split(i)
if float(a) < float(xdim) and float(b) < float(ydim) and float(b) > 0:
line = line + '%10s %10s %10s \n' % (a, b, c)
if line:
ff = open('_psf.coo', 'w')
ff.write(line)
ff.close()
else:
sys.exit('error: no catalog objects are in the field')
else:
############ run sextractor #####################################
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
tot = np.compress(abs(np.array(fluxrad) * 1.6 - fwhm) / fwhm < .5, fluxrad)
if len(tot) < 5:
print 'warning: fwhm from sexractor different from fwhm computed during pre-reduction'
print 'try using option --fwhm xxx'
ff = open('tmp.cursor', 'w')
image_hdu = fits.open(img + '.fits')
for i in range(len(xs)):
_xs = np.delete(xs, i)
_ys = np.delete(ys, i)
dist2 = np.sqrt((_xs - xs[i]) ** 2 + (_ys - ys[i]) ** 2)
########### cut star, not near other object ##########################
if abs(fluxrad[i] * 1.6 - fwhm) / fwhm < .5 and min(dist2) > distance * fwhm:
x1, x2 = int(xs[i] - fwhm * 3), int(xs[i] + fwhm * 3)
y1, y2 = int(ys[i] - fwhm * 3), int(ys[i] + fwhm * 3)
if x1 < 1: x1 = 1
if y1 < 1: y1 = 1
if x2 > int(xdim):
x2 = int(xdim)
if y2 > int(ydim):
y2 = int(ydim)
fmax = np.max(image_hdu[0].data[y1-1:y2, x1-1:x2])
########## cut saturated object ########################
if float(fmax) < _datamax: # not saturated
ff.write('%10.3f %10.3f 1 m \n' % (xs[i], ys[i]))
ff.close()
image_hdu.close()
iraf.delete('tmp.lo?,tmp.sta?,tmp.gk?', verify=False)
iraf.psfmeasure(img+'[0]', imagecur='tmp.cursor', logfile='tmp.log', radius=int(fwhm), iter=3,
display=False, StdoutG='tmp.gki')
ff = open('tmp.log')
righe = ff.readlines()
xn = [float(righe[3].split()[1])]
yn = [float(righe[3].split()[2])]
_fw = [float(righe[3].split()[4])]
for r in righe[4:-2]:
if len(r) > 0:
xn.append(float(r.split()[0]))
yn.append(float(r.split()[1]))
_fw.append(float(r.split()[3]))
print 'FWHM: ', righe[-1].split()[-1]
print 80 * "#"
######
############## eliminate double object identification ###########################
xns, yns, _fws = [xn[0]], [yn[0]], [_fw[0]]
for i in range(1, len(xn)):
if abs(xn[i] - xn[i - 1]) > .2 and abs(yn[i] - yn[i - 1]) > .2:
xns.append(xn[i])
yns.append(yn[i])
_fws.append(_fw[i])
######### write clean file for PSF #########################
fw = []
ff = open('_psf.coo', 'w')
for i in range(len(xns)):
if abs(_fws[i] - fwhm) / fwhm < .3:
ff.write('%10.3f %10.3f %7.2f \n' % (xns[i], yns[i], float(_fws[i])))
fw.append(_fws[i])
ff.close() ## End automatic selection
######################################################################################
################### write file of object to store in fits table #############
######################################################################################
if interactive:
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
ff = open('_psf2.coo', 'w')
for i in range(len(xs)):
ff.write('%10s %10s %10s \n' % (xs[i], ys[i], fluxrad[i]))
ff.close()
elif _catalog:
ddd=iraf.wcsctran(input=_catalog,output='STDOUT',Stdout=1,image=img + '[0]',inwcs='world',outwcs='logical',
units='degrees degrees',columns='1 2',formats='%10.1f %10.1f',verbose='no')
ddd=[i for i in ddd if i[0]!='#']
ddd=[' '.join(i.split()[0:3]) for i in ddd]
ff = open('_psf2.coo', 'w')
for i in ddd:
a,b,c = string.split(i)
ff.write('%10s %10s %10s \n' % (a, b, c))
ff.close()
else:
os.system('cp _psf.coo _psf2.coo')
# dflux = fluxrad - np.median(fluxrad)
# fstar = np.compress(dflux < np.std(fluxrad), fluxrad)
#################################################################################################################
print 80 * "#"
photmag, pst, fitmag = psffit(img, fwhm, psfstars, hdr, interactive, _datamax, psffun, fixaperture)
photmag2, fitmag2 = psffit2(img, fwhm, psfstars, hdr, _datamax, psffun, fixaperture)
radec = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag,
Stdout=1, image=img + '[0]', inwcs='logical', outwcs='world', columns="1 2",
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
radec2 = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag2,
Stdout=1, image=img + '[0]', inwcs='logical', outwcs='world', columns="1 2",
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
if ds9 == 0 and (interactive or show):
iraf.set(stdimage='imt1024')
iraf.display(img, 1, fill=True, Stdout=1)
iraf.tvmark(1, coords='STDIN', mark='circle', radii=15, label=True, Stdin=photmag, nxoffset=5, nyoffset=5, txsize=2)
iraf.tvmark(1, coords='STDIN', mark='circle', radii=35, label=False, Stdin=pst, color=208)
# iraf.tvmark(1, coords='STDIN', mark='cross', length=35, label=False, Stdin=fitmag2, color=204)
idpsf = []
for i in range(len(pst)):
idpsf.append(pst[i].split()[2])
dmag = []
for i in range(len(radec)):
ra, dec, idph, magp2, magp3, magp4, merrp2, merrp3, merrp4 = radec[i].split()
dmag.append(9.99)
for j in range(len(fitmag)):
raf, decf, idf, magf, magerrf = fitmag[j].split()
if idph == idf and idph in idpsf and \
magp3 != 'INDEF' and magf != 'INDEF':
dmag[i] = float(magp3) - float(magf)
break
_dmag = np.compress(np.array(dmag) < 9.99, np.array(dmag))
print '>>> Aperture correction (phot) %6.3f +/- %5.3f %3d ' % \
(np.mean(_dmag), np.std(_dmag), len(_dmag))
if len(_dmag) > 3:
_dmag = np.compress(np.abs(_dmag - np.median(_dmag)) < 2 * np.std(_dmag), _dmag)
print '>>> 2 sigma rejection) %6.3f +/- %5.3f %3d [default]' \
% (np.mean(_dmag), np.std(_dmag), len(_dmag))
print '>>> fwhm %s ' % (str(fwhm))
for i in range(len(dmag)):
if dmag[i] == 9.99:
dmag[i] = ''
else:
dmag[i] = '%6.3f' % (dmag[i])
exptime = lsc.util.readkey3(hdr, 'exptime')
object = lsc.util.readkey3(hdr, 'object').replace(' ', '')
filtro = lsc.util.readkey3(hdr, 'filter')
#######################################
rap, decp, magp2, magp3, magp4, smagf, merrp3, smagerrf = [], [], [], [], [], [], [], []
rap0, decp0 = [], []
for i in range(len(radec2)):
aa = radec2[i].split()
rap.append(aa[0])
decp.append(aa[1])
rap0.append(lsc.lscabsphotdef.deg2HMS(ra=aa[0]))
decp0.append(lsc.lscabsphotdef.deg2HMS(dec=aa[1]))
idp = aa[2]
magp2.append(aa[3])
magp3.append(aa[4])
magp4.append(aa[5])
merrp3.append(aa[7])
_smagf, _smagerrf = 9999, 9999
for j in range(len(fitmag2)):
raf, decf, idf, magf, magerrf = fitmag2[j].split()
if idf == idp:
_smagf = magf
_smagerrf = magerrf
break
smagf.append(_smagf)
smagerrf.append(_smagerrf)
tbhdu = fits.BinTableHDU.from_columns(fits.ColDefs([fits.Column(name='ra', format='20A', array=np.array(rap)),
fits.Column(name='dec', format='20A', array=np.array(decp)),
fits.Column(name='ra0', format='E', array=np.array(rap0)),
fits.Column(name='dec0', format='E', array=np.array(decp0)),
fits.Column(name='magp2', format='E',
array=np.array(np.where((np.array(magp2) != 'INDEF'),
np.array(magp2), 9999), float)),
fits.Column(name='magp3', format='E',
array=np.array(np.where((np.array(magp3) != 'INDEF'),
np.array(magp3), 9999), float)),
fits.Column(name='merrp3', format='E',
array=np.array(np.where((np.array(merrp3) != 'INDEF'),
np.array(merrp3), 9999), float)),
fits.Column(name='magp4', format='E',
array=np.array(np.where((np.array(magp4) != 'INDEF'),
np.array(magp4), 9999), float)),
fits.Column(name='smagf', format='E',
array=np.array(np.where((np.array(smagf) != 'INDEF'),
np.array(smagf), 9999), float)),
fits.Column(name='smagerrf', format='E',
array=np.array(np.where((np.array(smagerrf) != 'INDEF'),
np.array(smagerrf), 9999),
float)),
]))
hdu = fits.PrimaryHDU(header=hdr)
thdulist = fits.HDUList([hdu, tbhdu])
lsc.util.delete(img + '.sn2.fits')
thdulist.writeto(img + '.sn2.fits')
lsc.util.updateheader(img + '.sn2.fits', 0, {'APCO': [np.mean(_dmag), 'Aperture correction']})
lsc.util.updateheader(img + '.sn2.fits', 0, {'APCOERR': [np.std(_dmag), 'Aperture correction error']})
lsc.util.updateheader(img + '.sn2.fits', 0, {'XDIM': [lsc.util.readkey3(hdr, 'naxis1'), 'x number of pixels']})
lsc.util.updateheader(img + '.sn2.fits', 0, {'YDIM': [lsc.util.readkey3(hdr, 'naxis2'), 'y number of pixels']})
lsc.util.updateheader(img + '.sn2.fits', 0,
{'PSF_FWHM': [fwhm * scale, 'FWHM (arcsec) - computed with daophot']})
os.chmod(img + '.sn2.fits', 0664)
os.chmod(img + '.psf.fits', 0664)
result = 1
except:
result = 0
fwhm = 0.0
traceback.print_exc()
return result, fwhm * scale
units='degrees degrees',
outwcs='logical',
columns='1 2',
formats='%10.1f %10.1f')
if _show:
iraf.tvmark(1,
'tmp.pix',
mark="circle",
number='yes',
radii=10,
nxoffse=5,
nyoffse=5,
color=214,
txsize=2)
xx0, yy0 = string.split(
iraf.fields('tmp.pix', '1,2', Stdout=1)[2])
print xx0, yy0
os.system('rm -rf tmp.*')
else:
xx0, yy0 = '', ''
else:
xx0 = ''
if xx0 == '' and not _interactive: skip = 1
if skip == 0:
if _interactive: xx0 = ''
_z1, _z2 = '', ''
z11, z22 = 0, 0
if xx0 == '':
#print '\n### coordinate not found, reduction should be interactive'
else:
_xpos, _ypos = '', ''
if _xpos and _ypos:
print 'use xpos and ypos from fits table'
print _xpos, _ypos
else:
print 'no xpos and ypos define, do that interactively'
jj = 0
while not _xpos or not _ypos:
print " MARK SN REGION WITH - x -, EXIT - q -"
try:
agnkey.util.delete('tmp.log')
zz1, zz2, goon = agnkey.util.display_image(img, 1, '', '', True)
# iraf.display(img,1,fill=True,Stdout=1)
iraf.imexamine(img, 1, wcs='logical', logfile='tmp.log', keeplog=True)
xytargets = iraf.fields('tmp.log', '1,2', Stdout=1)
_xpos, _ypos = string.split(xytargets[0])[0], string.split(xytargets[0])[1]
except:
_xpos, _ypos = '', ''
jj = jj + 1
if jj > 10:
goon = False
break
if goon:
print _xpos, _ypos, _mag
print img0, psfimg, _xpos, _ypos, _mag
imgout = re.sub('.fits', '.temp.fits', string.split(img0, '/')[-1])
agnkey.util.delete('_tmp.fits,_tmp2.fits,_tmp2.fits.art,' + imgout)
if _clean:
def ecpsf(img, ofwhm, threshold, interactive, ds9, fixaperture=False,_catalog=''):
try:
import agnkey
import string
hdr = agnkey.util.readhdr(img + '.fits')
instrument = agnkey.util.readkey3(hdr, 'instrume')
print 'INSTRUMENT:', instrument
if 'PIXSCALE' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'PIXSCALE')
elif 'CCDSCALE' in hdr:
if 'CCDXBIN' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'CCDSCALE') * agnkey.util.readkey3(hdr, 'CCDXBIN')
elif 'CCDSUM' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'CCDSCALE') * int(
string.split(agnkey.util.readkey3(hdr, 'CCDSUM'))[0])
if instrument in ['kb05', 'kb70', 'kb71', 'kb73', 'kb74', 'kb75', 'kb76', 'kb77', 'kb78', 'kb79']:
scale = pixelscale
_datamax = 45000
elif instrument in ['fl02', 'fl03', 'fl04']:
scale = pixelscale
_datamax = 120000
elif instrument in ['fs01', 'em03']:
scale = pixelscale
_datamax = 65000
elif instrument in ['fs02', 'fs03']:
scale = pixelscale
_datamax = 65000
elif instrument in ['em01']:
scale = pixelscale
_datamax = 65000
try:
_wcserr = agnkey.util.readkey3(hdr, 'wcserr')
if float(_wcserr) == 0:
if instrument in ['kb05', 'kb70', 'kb71', 'kb73', 'kb74', 'kb75', 'kb76', 'kb77', 'kb78', 'kb79']:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif instrument in ['fl02', 'fl03', 'fl04']:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif instrument in ['fs01', 'fs02', 'fs03', 'em03', 'em01']:
if 'L1FWHM' in hdr:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif 'L1SEEING' in hdr:
seeing = float(agnkey.util.readkey3(hdr, 'L1SEEING')) * scale
else:
seeing = 3
else:
seeing = 3
else:
seeing = float(agnkey.util.readkey3(hdr, 'PSF_FWHM'))
sys.exit('astrometry not good')
except:
sys.exit('astrometry not good')
fwhm = seeing / scale
print 'FWHM[header] ', fwhm, ' in pixel'
if ofwhm:
fwhm = float(ofwhm)
print ' FWHM[input] ', fwhm, ' in pixel'
if interactive:
iraf.display(img, 1, fill=True)
iraf.delete('tmp.lo?', verify=False)
print '_' * 80
print '>>> Mark reference stars with "a". Then "q"'
print '-' * 80
iraf.imexamine(img, 1, wcs='logical', logfile='tmp.log', keeplog=True)
xyrefer = iraf.fields('tmp.log', '1,2,6,15', Stdout=1)
xns, yns, _fws = [], [], []
ff = open('_ap.coo', 'w')
for i in range(len(xyrefer)):
xns.append(float(xyrefer[i].split()[0]))
yns.append(float(xyrefer[i].split()[1]))
_fws.append(float(xyrefer[i].split()[3]))
ff.write('%10.3f %10.3f %7.2f \n' % (xns[i], yns[i], float(_fws[i])))
ff.close()
elif _catalog:
# cat1=agnkey.agnastrodef.readtxt(_catalog)
# cat1['ra'],cat1['dec']
ddd=iraf.wcsctran(input=_catalog,output='STDOUT',Stdout=1,image=img,inwcs='world',outwcs='logical',
units='degrees degrees',columns='1 2',formats='%10.1f %10.1f',verbose='no')
ddd=[i for i in ddd if i[0]!='#']
ddd=[' '.join(i.split()[0:3]) for i in ddd]
ff = open('_ap.coo', 'w')
for i in ddd:
a,b,c = string.split(i)
#print a,b,c
ff.write('%10s %10s %10s \n' % (a, b, c))
ff.close()
print 'use catalog'
else:
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
ff = open('_ap.coo', 'w')
for i in range(len(xs)):
ff.write('%10.3f %10.3f %7.2f \n' % (xs[i], ys[i], float(fluxrad[i])))
ff.close() ## End automatic selection
print 80 * "#"
photmag = apfit(img, fwhm, hdr, interactive, _datamax, fixaperture)
radec = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag, \
Stdout=1, image=img, inwcs='logical', outwcs='world', columns="1 2", \
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
exptime = agnkey.util.readkey3(hdr, 'exptime')
object = agnkey.util.readkey3(hdr, 'object').replace(' ', '')
filtro = agnkey.util.readkey3(hdr, 'filter')
#######################################
rap, decp, magp2, magp3, magp4, smagf = [], [], [], [], [], []
merrp2, merrp3, merrp4, smagerrf = [], [], [], []
rap0, decp0 = [], []
for i in range(len(radec)):
aa = radec[i].split()
rap.append(aa[0])
decp.append(aa[1])
rap0.append(agnkey.agnabsphotdef.deg2HMS(ra=aa[0]))
decp0.append(agnkey.agnabsphotdef.deg2HMS(dec=aa[1]))
idp = aa[2]
magp2.append(aa[3])
magp3.append(aa[4])
magp4.append(aa[5])
merrp2.append(aa[6])
merrp3.append(aa[7])
merrp4.append(aa[8])
tbhdu = pyfits.new_table(pyfits.ColDefs([
pyfits.Column(name='ra', format='20A', array=np.array(rap)),
pyfits.Column(name='dec', format='20A', array=np.array(decp)),
pyfits.Column(name='ra0', format='E', array=np.array(rap0)),
pyfits.Column(name='dec0', format='E', array=np.array(decp0)),
pyfits.Column(name='magp2', format='E', array=np.array(np.where((np.array(magp2) != 'INDEF'),
np.array(magp2), 9999), float)),
pyfits.Column(name='magp3', format='E', array=np.array(np.where((np.array(magp3) != 'INDEF'),
np.array(magp3), 9999), float)),
pyfits.Column(name='magp4', format='E', array=np.array(np.where((np.array(magp4) != 'INDEF'),
np.array(magp4), 9999), float)),
pyfits.Column(name='merrp2', format='E', array=np.array(np.where((np.array(merrp2) != 'INDEF'),
np.array(merrp2), 9999), float)),
pyfits.Column(name='merrp3', format='E', array=np.array(np.where((np.array(merrp3) != 'INDEF'),
np.array(merrp3), 9999), float)),
pyfits.Column(name='merrp4', format='E', array=np.array(np.where((np.array(merrp4) != 'INDEF'),
np.array(merrp4), 9999), float)),
pyfits.Column(name='smagf', format='E', array=np.array(np.where((np.array(magp2) != 'INDEF'),
np.array(magp2), 9999), float)),
pyfits.Column(name='smagerrf', format='E', array=np.array(np.where((np.array(merrp2) != 'INDEF'),
np.array(merrp2), 9999), float)),
]))
hdu = pyfits.PrimaryHDU(header=hdr)
thdulist = pyfits.HDUList([hdu, tbhdu])
agnkey.util.delete(img + '.sn2.fits')
thdulist.writeto(img + '.sn2.fits')
agnkey.util.updateheader(img + '.sn2.fits', 0,
{'XDIM': [agnkey.util.readkey3(hdr, 'naxis1'), 'x number of pixels']})
agnkey.util.updateheader(img + '.sn2.fits', 0,
{'YDIM': [agnkey.util.readkey3(hdr, 'naxis2'), 'y number of pixels']})
agnkey.util.updateheader(img + '.sn2.fits', 0,
{'PSF_FWHM': [fwhm * scale, 'FWHM (arcsec) - computed with daophot']})
os.chmod(img + '.sn2.fits', 0664)
os.chmod(img + '.psf.fits', 0664)
result = 1
except:
result = 0
fwhm = 0.0
traceback.print_exc()
return result, fwhm * scale
def ecpsf(img, ofwhm, threshold, psfstars, distance, interactive, psffun='gauss', fixaperture=False, _catalog='', _datamax=None, show=False):
try:
import lsc, string
hdr = lsc.util.readhdr(img + '.fits')
instrument = lsc.util.readkey3(hdr, 'instrume')
print 'INSTRUMENT:', instrument
if 'PIXSCALE' in hdr:
scale = lsc.util.readkey3(hdr, 'PIXSCALE')
elif 'CCDSCALE' in hdr:
if 'CCDXBIN' in hdr:
scale = lsc.util.readkey3(hdr, 'CCDSCALE') * lsc.util.readkey3(hdr, 'CCDXBIN')
elif 'CCDSUM' in hdr:
scale = lsc.util.readkey3(hdr, 'CCDSCALE') * int(string.split(lsc.util.readkey3(hdr, 'CCDSUM'))[0])
if _datamax is None:
_datamax = lsc.util.readkey3(hdr, 'datamax')
_wcserr = lsc.util.readkey3(hdr, 'wcserr')
print _wcserr
if float(_wcserr) == 0:
if 'L1FWHM' in hdr:
seeing = float(lsc.util.readkey3(hdr, 'L1FWHM'))
elif 'L1SEEING' in hdr:
seeing = float(lsc.util.readkey3(hdr, 'L1SEEING')) * scale
else:
seeing = 3
else:
seeing = 3
if 'PSF_FWHM' in hdr:
seeing = float(lsc.util.readkey3(hdr, 'PSF_FWHM'))
else:
sys.exit('astrometry not good')
#except: sys.exit('astrometry not good')
fwhm = seeing / scale
print 'FWHM[header] ', fwhm, ' in pixel'
if ofwhm: fwhm = float(ofwhm)
print ' FWHM[input] ', fwhm, ' in pixel'
xdim, ydim = iraf.hselect(img+'[0]', 'i_naxis1,i_naxis2', 'yes', Stdout=1)[0].split()
print img, fwhm, threshold, scale,xdim
#################################################################################
################### write file to compute psf _psf.coo ############
#################################################################################
if _catalog:
print '\n#### use catalog to measure the psf'
ddd=iraf.wcsctran(input=_catalog,output='STDOUT',Stdout=1,image=img + '[0]',inwcs='world',outwcs='logical',
units='degrees degrees',columns='1 2',formats='%10.1f %10.1f',verbose='no')
ddd=[i for i in ddd if i[0]!='#']
ddd=[' '.join(i.split()[0:3]) for i in ddd]
line=''
for i in ddd:
a,b,c = string.split(i)
if float(a) < float(xdim) and float(b) < float(ydim) and float(b) > 0:
line = line + '%10s %10s %10s \n' % (a, b, c)
if line:
ff = open('_psf.coo', 'w')
ff.write(line)
ff.close()
else:
sys.exit('error: no catalog objects are in the field')
elif interactive:
iraf.display(img + '[0]', 1, fill=True)
iraf.delete('tmp.lo?', verify=False)
print '_' * 80
print '>>> Mark reference stars with "a". Then "q"'
print '-' * 80
iraf.imexamine(img, 1, wcs='logical', logfile='tmp.log', keeplog=True)
xyrefer = iraf.fields('tmp.log', '1,2,6,15', Stdout=1)
xns, yns, _fws = [], [], []
############# write file for PSF #########################
ff = open('_psf.coo', 'w')
for i in range(len(xyrefer)):
xns.append(float(xyrefer[i].split()[0]))
yns.append(float(xyrefer[i].split()[1]))
_fws.append(float(xyrefer[i].split()[3]))
ff.write('%10.3f %10.3f %7.2f \n' % (xns[i], yns[i], float(_fws[i])))
ff.close()
fwhm = np.median(_fws)
else:
############ run sextractor #####################################
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
tot = np.compress(abs(np.array(fluxrad) * 1.6 - fwhm) / fwhm < .5, fluxrad)
if len(tot) < 5:
print 'warning: fwhm from sexractor different from fwhm computed during pre-reduction'
print 'try using option --fwhm xxx'
ff = open('tmp.cursor', 'w')
image_hdu = fits.open(img + '.fits')
for i in range(len(xs)):
_xs = np.delete(xs, i)
_ys = np.delete(ys, i)
dist2 = np.sqrt((_xs - xs[i]) ** 2 + (_ys - ys[i]) ** 2)
########### cut star, not near other object ##########################
if abs(fluxrad[i] * 1.6 - fwhm) / fwhm < .5 and min(dist2) > distance * fwhm:
x1, x2 = int(xs[i] - fwhm * 3), int(xs[i] + fwhm * 3)
y1, y2 = int(ys[i] - fwhm * 3), int(ys[i] + fwhm * 3)
if x1 < 1: x1 = 1
if y1 < 1: y1 = 1
if x2 > int(xdim):
x2 = int(xdim)
if y2 > int(ydim):
y2 = int(ydim)
fmax = np.max(image_hdu[0].data[y1-1:y2, x1-1:x2])
########## cut saturated object ########################
if float(fmax) < _datamax: # not saturated
ff.write('%10.3f %10.3f 1 m \n' % (xs[i], ys[i]))
ff.close()
image_hdu.close()
iraf.delete('tmp.lo?,tmp.sta?,tmp.gk?', verify=False)
iraf.psfmeasure(img+'[0]', imagecur='tmp.cursor', logfile='tmp.log', radius=int(fwhm), iter=3,
display=False, StdoutG='tmp.gki')
ff = open('tmp.log')
righe = ff.readlines()
xn = [float(righe[3].split()[1])]
yn = [float(righe[3].split()[2])]
_fw = [float(righe[3].split()[4])]
for r in righe[4:-2]:
if len(r) > 0:
xn.append(float(r.split()[0]))
yn.append(float(r.split()[1]))
_fw.append(float(r.split()[3]))
print 'FWHM: ', righe[-1].split()[-1]
print 80 * "#"
######
############## eliminate double object identification ###########################
xns, yns, _fws = [xn[0]], [yn[0]], [_fw[0]]
for i in range(1, len(xn)):
if abs(xn[i] - xn[i - 1]) > .2 and abs(yn[i] - yn[i - 1]) > .2:
xns.append(xn[i])
yns.append(yn[i])
_fws.append(_fw[i])
######### write clean file for PSF #########################
fw = []
ff = open('_psf.coo', 'w')
for i in range(len(xns)):
if abs(_fws[i] - fwhm) / fwhm < .3:
ff.write('%10.3f %10.3f %7.2f \n' % (xns[i], yns[i], float(_fws[i])))
fw.append(_fws[i])
ff.close() ## End automatic selection
######################################################################################
################### write file of object to store in fits table #############
######################################################################################
if _catalog:
ddd=iraf.wcsctran(input=_catalog,output='STDOUT',Stdout=1,image=img + '[0]',inwcs='world',outwcs='logical',
units='degrees degrees',columns='1 2',formats='%10.1f %10.1f',verbose='no')
ddd=[i for i in ddd if i[0]!='#']
ddd=[' '.join(i.split()[0:3]) for i in ddd]
ff = open('_psf2.coo', 'w')
for i in ddd:
a,b,c = string.split(i)
ff.write('%10s %10s %10s \n' % (a, b, c))
ff.close()
elif interactive:
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
ff = open('_psf2.coo', 'w')
for i in range(len(xs)):
ff.write('%10s %10s %10s \n' % (xs[i], ys[i], fluxrad[i]))
ff.close()
else:
os.system('cp _psf.coo _psf2.coo')
# dflux = fluxrad - np.median(fluxrad)
# fstar = np.compress(dflux < np.std(fluxrad), fluxrad)
#################################################################################################################
print 80 * "#"
photmag, pst, fitmag = psffit(img, fwhm, psfstars, hdr, interactive, _datamax, psffun, fixaperture)
photmag2, fitmag2 = psffit2(img, fwhm, psfstars, hdr, _datamax, psffun, fixaperture)
radec = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag,
Stdout=1, image=img + '[0]', inwcs='logical', outwcs='world', columns="1 2",
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
radec2 = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag2,
Stdout=1, image=img + '[0]', inwcs='logical', outwcs='world', columns="1 2",
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
if interactive or show:
iraf.set(stdimage='imt1024')
iraf.display(img + '[0]', 1, fill=True, Stdout=1)
iraf.tvmark(1, coords='STDIN', mark='circle', radii=15, label=True, Stdin=photmag, nxoffset=5, nyoffset=5, txsize=2)
iraf.tvmark(1, coords='STDIN', mark='circle', radii=35, label=False, Stdin=pst, color=208)
# iraf.tvmark(1, coords='STDIN', mark='cross', length=35, label=False, Stdin=fitmag2, color=204)
idpsf = []
for i in range(len(pst)):
idpsf.append(pst[i].split()[2])
dmag = []
for i in range(len(radec)):
ra, dec, idph, magp2, magp3, magp4, merrp2, merrp3, merrp4 = radec[i].split()
dmag.append(9.99)
for j in range(len(fitmag)):
raf, decf, idf, magf, magerrf = fitmag[j].split()
if idph == idf and idph in idpsf and \
magp3 != 'INDEF' and magf != 'INDEF':
dmag[i] = float(magp3) - float(magf)
break
_dmag = np.compress(np.array(dmag) < 9.99, np.array(dmag))
print '>>> Aperture correction (phot) %6.3f +/- %5.3f %3d ' % \
(np.mean(_dmag), np.std(_dmag), len(_dmag))
if len(_dmag) > 3:
_dmag = np.compress(np.abs(_dmag - np.median(_dmag)) < 2 * np.std(_dmag), _dmag)
print '>>> 2 sigma rejection) %6.3f +/- %5.3f %3d [default]' \
% (np.mean(_dmag), np.std(_dmag), len(_dmag))
print '>>> fwhm %s ' % (str(fwhm))
for i in range(len(dmag)):
if dmag[i] == 9.99:
dmag[i] = ''
else:
dmag[i] = '%6.3f' % (dmag[i])
exptime = lsc.util.readkey3(hdr, 'exptime')
object = lsc.util.readkey3(hdr, 'object').replace(' ', '')
filtro = lsc.util.readkey3(hdr, 'filter')
#######################################
rap, decp, magp2, magp3, magp4, smagf, merrp3, smagerrf = [], [], [], [], [], [], [], []
rap0, decp0 = [], []
for i in range(len(radec2)):
aa = radec2[i].split()
rap.append(aa[0])
decp.append(aa[1])
rap0.append(lsc.lscabsphotdef.deg2HMS(ra=aa[0]))
decp0.append(lsc.lscabsphotdef.deg2HMS(dec=aa[1]))
idp = aa[2]
magp2.append(aa[3])
magp3.append(aa[4])
magp4.append(aa[5])
merrp3.append(aa[7])
_smagf, _smagerrf = 9999, 9999
for j in range(len(fitmag2)):
raf, decf, idf, magf, magerrf = fitmag2[j].split()
if idf == idp:
_smagf = magf
_smagerrf = magerrf
break
smagf.append(_smagf)
smagerrf.append(_smagerrf)
tbhdu = fits.BinTableHDU.from_columns(fits.ColDefs([fits.Column(name='ra', format='20A', array=np.array(rap)),
fits.Column(name='dec', format='20A', array=np.array(decp)),
fits.Column(name='ra0', format='E', array=np.array(rap0)),
fits.Column(name='dec0', format='E', array=np.array(decp0)),
fits.Column(name='magp2', format='E',
array=np.array(np.where((np.array(magp2) != 'INDEF'),
np.array(magp2), 9999), float)),
fits.Column(name='magp3', format='E',
array=np.array(np.where((np.array(magp3) != 'INDEF'),
np.array(magp3), 9999), float)),
fits.Column(name='merrp3', format='E',
array=np.array(np.where((np.array(merrp3) != 'INDEF'),
np.array(merrp3), 9999), float)),
fits.Column(name='magp4', format='E',
array=np.array(np.where((np.array(magp4) != 'INDEF'),
np.array(magp4), 9999), float)),
fits.Column(name='smagf', format='E',
array=np.array(np.where((np.array(smagf) != 'INDEF'),
np.array(smagf), 9999), float)),
fits.Column(name='smagerrf', format='E',
array=np.array(np.where((np.array(smagerrf) != 'INDEF'),
np.array(smagerrf), 9999),
float)),
]))
hdu = fits.PrimaryHDU(header=hdr)
thdulist = fits.HDUList([hdu, tbhdu])
lsc.util.delete(img + '.sn2.fits')
thdulist.writeto(img + '.sn2.fits')
lsc.util.updateheader(img + '.sn2.fits', 0, {'APCO': [np.mean(_dmag), 'Aperture correction']})
lsc.util.updateheader(img + '.sn2.fits', 0, {'APCOERR': [np.std(_dmag), 'Aperture correction error']})
lsc.util.updateheader(img + '.sn2.fits', 0, {'XDIM': [lsc.util.readkey3(hdr, 'naxis1'), 'x number of pixels']})
lsc.util.updateheader(img + '.sn2.fits', 0, {'YDIM': [lsc.util.readkey3(hdr, 'naxis2'), 'y number of pixels']})
lsc.util.updateheader(img + '.sn2.fits', 0,
{'PSF_FWHM': [fwhm * scale, 'FWHM (arcsec) - computed with daophot']})
os.chmod(img + '.sn2.fits', 0664)
os.chmod(img + '.psf.fits', 0664)
result = 1
except:
result = 0
fwhm = 0.0
traceback.print_exc()
return result, fwhm * scale
xpa('zoom to fit')
xpa('catalog ua2')
xpa('catalog server cds')
xpa('catalog size 10 10 arcmin')
xpa('catalog save "' + userPath + '/tmp.cat"')
xpa('catalog filter "' + mag + '<' + str(magsel) + '"')
xpa('catalog symbol shape text')
if environ == 'mac':
xpa('catalog save sb "' + userPath + '/tmp.catsel"')
elif environ == 'linux':
xpa('catalog save sb "' + userPath + '/tmp.catsel"')
xpa('raise')
iraf.fields('tmp.catsel', '1,2', Stdout='tmp.tv')
answ = 'no'
while answ != 'yes':
print '>> Identify (minimum 2, preferably 3) reference stars (mark with "a") in your image'
iraf.imexamine(img, 1, logfile='tmp.coo', keeplog='yes')
iraf.tvmark(1,
'tmp.coo',
mark="circle",
number='yes',
radii=10,
nxoffse=10,
nyoffse=10,
color=214,
txsize=2)
ff.write(ra + ' ' + dec + ' ' + '10 10')
ff.close()
iraf.agetim('tmp.reg', 'tmpdss', imsurve='dss1@cadc', wcsedit='yes')
iraf.display('tmpdss', 2)
answ = raw_input('>> Change cuts (y/n) ? [n]')
if len(answ) > 0:
while string.lower(answ) == 'y':
z1, z2 = string.split(raw_input('z1 z2 ? '))
iraf.display('tmpdss', 2, z1=z1, z2=z2, zscale='no', zrange='no')
answ = raw_input('>> Change cuts (y/n) ? [n]')
if len(answ) == 0: answ = 'n'
iraf.agetcat('tmpdss', 'tmp.cat', catalog='usno2@cadc')
iraf.afiltcat('tmp.cat', 'tmp.catsel', fexpr="mag1<=" + str(magsel))
iraf.fields('tmp.catsel', '2,3', Stdout='tmp.tv')
iraf.wcsctran('tmp.tv',
'tmp.pix',
'tmpdss',
inwcs='world',
units='degrees degrees',
outwcs='logical',
columns='1 2',
formats='%10.1f %10.1f')
iraf.tvmark(2,
'tmp.pix',
mark="circle",
number='yes',
radii=5,
nxoffse=5,
nyoffse=5,
def ecpsf(img, ofwhm, threshold, psfstars, distance, interactive, ds9, psffun='gauss', fixaperture=False,_catalog='',_datamax=''):
try:
import agnkey
hdr = agnkey.util.readhdr(img + '.fits')
instrument = agnkey.util.readkey3(hdr, 'instrume')
print 'INSTRUMENT:', instrument
if 'PIXSCALE' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'PIXSCALE')
elif 'CCDSCALE' in hdr:
if 'CCDXBIN' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'CCDSCALE') * agnkey.util.readkey3(hdr, 'CCDXBIN')
elif 'CCDSUM' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'CCDSCALE') * int(
string.split(agnkey.util.readkey3(hdr, 'CCDSUM'))[0])
if 'kb' in instrument:
scale = pixelscale
if not _datamax:
_datamax = 45000
elif 'fl' in instrument:
scale = pixelscale
if not _datamax:
_datamax = 60000
elif 'fs' in instrument:
scale = pixelscale
if not _datamax:
_datamax = 65000
try:
#if 1==1:
if 'WCSERR' in hdr:
_wcserr = hdr['WCSERR']
elif 'WCS_ERR' in hdr:
_wcserr = hdr['WCS_ERR']
print _wcserr
if float(_wcserr) == 0:
if 'kb' in instrument:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif 'fl' in instrument:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif 'fs' in instrument:
if 'L1FWHM' in hdr:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif 'L1SEEING' in hdr:
seeing = float(agnkey.util.readkey3(hdr, 'L1SEEING')) * scale
else:
seeing = 3
else:
seeing = 3
else:
seeing = float(agnkey.util.readkey3(hdr, 'PSF_FWHM'))
sys.exit('astrometry not good')
except ValueError:
# except:
sys.exit('astrometry not good')
fwhm = seeing / scale
print 'FWHM[header] ', fwhm, ' in pixel'
if ofwhm: fwhm = float(ofwhm)
print ' FWHM[input] ', fwhm, ' in pixel'
xdim, ydim = iraf.hselect(img+'.fits[0]', 'i_naxis1,i_naxis2', 'yes', Stdout=1)[0].split()
print img, fwhm, threshold, scale
#################################################################################
################### write file to compute psf _psf.coo ############
#################################################################################
if interactive:
iraf.set(stdimage='imt1024')
iraf.display(img+'.fits[0]', 1, fill=True)
iraf.delete('tmp.lo?', verify=False)
print '_' * 80
print '>>> Mark reference stars with "a". Then "q"'
print '-' * 80
iraf.imexamine(img+'[0]', 1, wcs='logical', logfile='tmp.log', keeplog=True)
xyrefer = iraf.fields('tmp.log', '1,2,6,15', Stdout=1)
xns, yns, _fws = [], [], []
############# write file for PSF #########################
ff = open('_psf.coo', 'w')
for i in range(len(xyrefer)):
xns.append(float(xyrefer[i].split()[0]))
yns.append(float(xyrefer[i].split()[1]))
_fws.append(float(xyrefer[i].split()[3]))
ff.write('%10.3f %10.3f %7.2f \n' % (xns[i], yns[i], float(_fws[i])))
ff.close()
fwhm = np.median(_fws)
else:
############ run sextractor #####################################
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
_ra1,_dec1,xx11,yy11,_mag,_dist = agnkey.agnastrodef.starsfields(img+'.fits',20,19)
if len(_ra1):
dist,pos0,pos1 = agnkey.agnastrodef.crossmatchxy(xs,ys,xx11,yy11,10)
if len(pos0):
xs = xs[pos0]
ys = ys[pos0]
ran = ran[pos0]
decn = decn[pos0]
magbest = magbest[pos0]
classstar = classstar[pos0]
fluxrad = fluxrad[pos0]
bkg = bkg[pos0]
ff = open('tmp.cursor', 'w')
for i in range(len(xs)):
x1, x2 = int(xs[i] - fwhm * 3), int(xs[i] + fwhm * 3)
y1, y2 = int(ys[i] - fwhm * 3), int(ys[i] + fwhm * 3)
sect = '[' + str(x1) + ':' + str(x2) + ',' + str(y1) + ':' + str(y2) + ']'
try:
fmax = iraf.imstat(img+'.fits[0]' + sect, fields='max', Stdout=1)[1]
########## cut saturated object ########################
if float(fmax) < _datamax: # not saturated
ff.write('%10.3f %10.3f 1 m \n' % (xs[i], ys[i]))
except:
print sect
# print 'problem here'
# pass
ff.close()
iraf.delete('tmp.lo?,tmp.sta?,tmp.gk?', verify=False)
iraf.psfmeasure(img+'[0]', imagecur='tmp.cursor', logfile='tmp.log', radius=int(fwhm), iter=3,
display=False, StdoutG='tmp.gki')
ff = open('tmp.log')
righe = ff.readlines()
xn = [float(righe[3].split()[1])]
yn = [float(righe[3].split()[2])]
_fw = [float(righe[3].split()[4])]
for r in righe[4:-2]:
if len(r) > 0:
xn.append(float(r.split()[0]))
yn.append(float(r.split()[1]))
_fw.append(float(r.split()[3]))
print 'FWHM: ', righe[-1].split()[-1]
print 80 * "#"
######
############## eliminate double object identification ###########################
xns, yns, _fws = [xn[0]], [yn[0]], [_fw[0]]
for i in range(1, len(xn)):
if abs(xn[i] - xn[i - 1]) > .2 and abs(yn[i] - yn[i - 1]) > .2:
xns.append(xn[i])
yns.append(yn[i])
_fws.append(_fw[i])
######### write clean file for PSF #########################
fw = []
ff = open('_psf.coo', 'w')
for i in range(len(xns)):
ff.write('%10.3f %10.3f %7.2f \n' % (xns[i], yns[i], float(_fws[i])))
fw.append(_fws[i])
ff.close() ## End automatic selection
######################################################################################
################### write file of object to store in fits table #############
######################################################################################
if interactive:
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
ff = open('_psf2.coo', 'w')
for i in range(len(xs)):
ff.write('%10s %10s %10s \n' % (xs[i], ys[i], fluxrad[i]))
ff.close()
elif _catalog:
print '\n#### use catalog '
ddd=iraf.wcsctran(input=_catalog,output='STDOUT',Stdout=1,image=img,inwcs='world',outwcs='logical',
units='degrees degrees',columns='1 2',formats='%10.1f %10.1f',verbose='no')
ddd=[i for i in ddd if i[0]!='#']
ddd=[' '.join(i.split()[0:3]) for i in ddd]
ff = open('_psf2.coo', 'w')
for i in ddd:
a,b,c = string.split(i)
ff.write('%10s %10s %10s \n' % (a, b, c))
ff.close()
print 'use catalog'
else:
os.system('cp _psf.coo _psf2.coo')
# print '\n### use sextractor'
# xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
# ff = open('_psf2.coo', 'w')
# for i in range(len(xs)):
# ff.write('%10s %10s %10s \n' % (xs[i], ys[i], fluxrad[i]))
# ff.close()
###################################################################################
print 80 * "#"
photmag, pst, fitmag = psffit(img, fwhm, psfstars, hdr, interactive, _datamax, psffun, fixaperture)
photmag2, fitmag2 = psffit2(img, fwhm, psfstars, hdr, _datamax, psffun, fixaperture)
radec = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag, \
Stdout=1, image=img+'.fits[0]', inwcs='logical', outwcs='world', columns="1 2", \
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
radec2 = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag2, \
Stdout=1, image=img+'.fits[0]', inwcs='logical', outwcs='world', columns="1 2", \
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
if ds9 == 0 and interactive:
iraf.set(stdimage='imt1024')
iraf.display(img, 1, fill=True, Stdout=1)
iraf.tvmark(1, coords='STDIN', mark='circle', radii=15, label=False, Stdin=photmag)
iraf.tvmark(1, coords='STDIN', mark='rectangle', length=35, label=False, Stdin=pst)
iraf.tvmark(1, coords='STDIN', mark='cross', length=35, label=False, Stdin=fitmag2, color=204)
idpsf = []
for i in range(len(pst)):
idpsf.append(pst[i].split()[2])
dmag = []
for i in range(len(radec)):
ra, dec, idph, magp2, magp3, magp4, merrp2, merrp3, merrp4 = radec[i].split()
dmag.append(9.99)
for j in range(len(fitmag)):
raf, decf, idf, magf, magerrf = fitmag[j].split()
if idph == idf and idph in idpsf and \
magp3 != 'INDEF' and magf != 'INDEF':
dmag[i] = float(magp3) - float(magf)
break
_dmag = np.compress(np.array(dmag) < 9.99, np.array(dmag))
print '>>> Aperture correction (phot) %6.3f +/- %5.3f %3d ' % \
(np.mean(_dmag), np.std(_dmag), len(_dmag))
if len(_dmag) > 3:
_dmag = np.compress(abs(_dmag - np.median(_dmag)) < 2 * np.std(_dmag), _dmag)
print '>>> 2 sigma rejection) %6.3f +/- %5.3f %3d [default]' \
% (np.mean(_dmag), np.std(_dmag), len(_dmag))
print '>>> fwhm %s ' % (str(fwhm))
for i in range(len(dmag)):
if dmag[i] == 9.99:
dmag[i] = ''
else:
dmag[i] = '%6.3f' % (dmag[i])
exptime = agnkey.util.readkey3(hdr, 'exptime')
object = agnkey.util.readkey3(hdr, 'object').replace(' ', '')
filtro = agnkey.util.readkey3(hdr, 'filter')
#######################################
rap, decp, magp2, magp3, magp4, smagf = [], [], [], [], [], []
merrp2, merrp3, merrp4, smagerrf = [], [], [], []
rap0, decp0 = [], []
for i in range(len(radec2)):
aa = radec2[i].split()
rap.append(aa[0])
decp.append(aa[1])
rap0.append(agnkey.agnabsphotdef.deg2HMS(ra=aa[0]))
decp0.append(agnkey.agnabsphotdef.deg2HMS(dec=aa[1]))
idp = aa[2]
magp2.append(aa[3])
magp3.append(aa[4])
magp4.append(aa[5])
merrp2.append(aa[6])
merrp3.append(aa[7])
merrp4.append(aa[8])
_smagf, _smagerrf = 9999, 9999
for j in range(len(fitmag2)):
raf, decf, idf, magf, magerrf = fitmag2[j].split()
if idf == idp:
_smagf = magf
_smagerrf = magerrf
break
smagf.append(_smagf)
smagerrf.append(_smagerrf)
new_cols = pyfits.ColDefs([
pyfits.Column(name='ra', format='20A', array=np.array(rap)),
pyfits.Column(name='dec', format='20A', array=np.array(decp)),
pyfits.Column(name='ra0', format='E', array=np.array(rap0)),
pyfits.Column(name='dec0', format='E', array=np.array(decp0)),
pyfits.Column(name='magp2', format='E', array=np.array(np.where((np.array(magp2) != 'INDEF'),
np.array(magp2), 9999), float)),
pyfits.Column(name='magp3', format='E', array=np.array(np.where((np.array(magp3) != 'INDEF'),
np.array(magp3), 9999), float)),
pyfits.Column(name='magp4', format='E', array=np.array(np.where((np.array(magp4) != 'INDEF'),
np.array(magp4), 9999), float)),
pyfits.Column(name='merrp2', format='E', array=np.array(np.where((np.array(merrp2) != 'INDEF'),
np.array(merrp2), 9999), float)),
pyfits.Column(name='merrp3', format='E', array=np.array(np.where((np.array(merrp3) != 'INDEF'),
np.array(merrp3), 9999), float)),
pyfits.Column(name='merrp4', format='E', array=np.array(np.where((np.array(merrp4) != 'INDEF'),
np.array(merrp4), 9999), float)),
pyfits.Column(name='smagf', format='E', array=np.array(np.where((np.array(smagf) != 'INDEF'),
np.array(smagf), 9999), float)),
pyfits.Column(name='smagerrf', format='E', array=np.array(np.where((np.array(smagerrf) != 'INDEF'),
np.array(smagerrf), 9999), float)),
])
tbhdu = pyfits.BinTableHDU.from_columns(new_cols)
hdu = pyfits.PrimaryHDU(header=hdr)
thdulist = pyfits.HDUList([hdu, tbhdu])
agnkey.util.delete(img + '.sn2.fits')
thdulist.writeto(img + '.sn2.fits')
agnkey.util.updateheader(img + '.sn2.fits', 0, {'APCO': [np.mean(_dmag), 'Aperture correction']})
agnkey.util.updateheader(img + '.sn2.fits', 0, {'APCOERR': [np.std(_dmag), 'Aperture correction error']})
agnkey.util.updateheader(img + '.sn2.fits', 0,
{'XDIM': [agnkey.util.readkey3(hdr, 'naxis1'), 'x number of pixels']})
agnkey.util.updateheader(img + '.sn2.fits', 0,
{'YDIM': [agnkey.util.readkey3(hdr, 'naxis2'), 'y number of pixels']})
agnkey.util.updateheader(img + '.sn2.fits', 0,
{'PSF_FWHM': [fwhm * scale, 'FWHM (arcsec) - computed with daophot']})
os.chmod(img + '.sn2.fits', 0664)
os.chmod(img + '.psf.fits', 0664)
result = 1
except IOError as e:
print e
result = 0
fwhm = 0.0
traceback.print_exc()
return result, fwhm * scale
if _ra and _dec:
os.system('rm -rf tmp.*')
lll=[]
for jj in range(0,len(_ra)):
lll.append(str(_ra[jj]) + ' ' + str(_dec[jj]))
#lll = [str(_ra) + ' ' + str(_dec)]
iraf.wcsctran('STDIN', 'tmp.pix', img + '[0]', Stdin=lll, inwcs='world', units='degrees degrees',
outwcs='logical', columns='1 2', formats='%10.1f %10.1f')
if _show:
iraf.tvmark(1, 'tmp.pix', mark="circle", number='yes', radii=10, nxoffse=5, nyoffse=5,
color=214, txsize=2)
xxsn, yysn = [], []
for kk in iraf.fields('tmp.pix', '1,2', Stdout=1):
if kk:
xxsn.append(string.split(kk)[0])
yysn.append(string.split(kk)[1])
xxsn = array(xxsn,float)
yysn = array(yysn,float)
print 'SN coordinate ',xxsn, yysn
if _ra0 and _dec0:
os.system('rm -rf tmp.*')
lll = [str(_ra0) + ' ' + str(_dec0)]
iraf.wcsctran('STDIN', 'tmp.pix', img, Stdin=lll, inwcs='world', units='degrees degrees',
outwcs='logical', columns='1 2', formats='%10.1f %10.1f')
if _show:
def sn_coordinate(imgl, _interactive):
from math import sqrt
from snoopy2 import src
import snoopy2
from pyraf import iraf
import string
import os
imgl = src.replace_directory(imgl)
if imgl[-5:] != '.fits':
imgllong = imgl + '.fits'
else:
imgllong = imgl
listastandard = snoopy2.__path__[
0] + '/standard/fluxstandard/supernovaelist.txt'
f = open(listastandard, 'r')
liststd = f.readlines()
f.close()
star, ra, dec = [], [], []
for i in liststd:
vector = string.split(i)
star.append(vector[0])
#print vector
ra.append(
float(vector[1]) + ((float(vector[2]) +
(float(vector[3]) / 60.)) / 60.))
if float(vector[4]) > 0:
dec.append(
float(vector[4]) + ((float(vector[5]) +
(float(vector[6]) / 60.)) / 60.))
else:
aa = -1 * ((abs(float(vector[4]))) +
((float(vector[5]) + (float(vector[6]) / 60.)) / 60.))
dec.append(aa)
print ra[-1], dec[-1], star[-1]
_telescope = src.telescope(imgllong)
_system = src.check_system(_telescope, imgllong, Stdout=True)
_header = src.read_parameter(_telescope, _system)
if _telescope == 'other':
print 'other'
_xdimen = src.xdimen(imgllong, _telescope)
_ydimen = src.ydimen(imgllong, _telescope)
xcenter = int(float(_xdimen) / 2)
ycenter = int(float(_ydimen) / 2)
f = open('_tmp.tv', 'w')
f.write(str(xcenter) + ' ' + str(ycenter) + '\n')
f.close()
iraf.delete('tmp.coo')
iraf.wcsctran('_tmp.tv',
'tmp.coo',
imgl,
inwcs='logical',
units='degrees degrees',
outwcs='world',
columns='1 2',
formats='%10.8f %10.8f')
sss = iraf.fields('tmp.coo', '1,2', Stdout=1)
_RA, _DEC = string.split(sss[2])
_RA = float(_RA) / 15.
_DEC = float(_DEC)
else:
_RA = src.RA(imgllong, _header, _telescope)
_DEC = src.DEC(imgllong, _header, _telescope)
print _RA, _DEC
ra0 = ''
if _RA and _DEC:
for st in range(len(star)):
distance = sqrt((float(_RA) - float(ra[st]))**2 +
(float(_DEC) - float(dec[st]))**2)
print st, distance
if distance <= 0.5:
print str(star[st]), str(_RA), str(_DEC), str(distance)
refstar = string.split(star[st])[0]
ra0, dec0 = ra[st], dec[st]
if _interactive:
print ''
print '############################################'
question = raw_input(
'Is this the right object ? [y/n] [y]')
print '############################################'
print ''
if not question: question = 'y'
if question in ['Yes', 'Y', 'y', 'YES', 'yes']:
break
else:
ra0, dec0 = '', ''
else:
print '############################################'
print ' object found ' + str(refstar)
print '############################################'
break
if ra0:
os.system('rm -rf tmp.*')
ff = open('tmp.tv', 'w')
ff.write(str(ra0 * 15.) + ' ' + str(dec0))
ff.close()
iraf.wcsctran('tmp.tv',
'tmp.pix',
imgl,
inwcs='world',
units='degrees degrees',
outwcs='logical',
columns='1 2',
formats='%10.1f %10.1f')
iraf.tvmark(1,
'tmp.pix',
mark="circle",
number='yes',
radii=10,
nxoffse=5,
nyoffse=5,
color=214,
txsize=2)
xx, yy = string.split(iraf.fields('tmp.pix', '1,2', Stdout=1)[2])
print xx, yy
os.system('rm -rf tmp.*')
else:
xx, yy = '', ''
print '### WARNING: no object in the list'
return xx, yy
print '####################################### '
print "#### Error with the header !!!!"
print '### telescope not in the list '
print '### if you want to continue anyway,'
print '### run "svother.py" to correct header '
print '######################################## '
##########################################################################
src.delete(coordinatelist + ".tv")
src.delete(coordinatelist + "_templ.coo")
src.delete("_templ.*")
try:
dir_system = subdirectory[_system]
iraf.fields('home$coordinate_std/' + dir_system + coordinatelist + '.list',
'2,3,1',
Stdout=coordinatelist + '.tv')
iraf.fields('home$coordinate_std/' + dir_system + coordinatelist + '.list',
'1',
Stdout='_templ.coo')
iraf.wcsctran(coordinatelist + '.tv',
'_templ.coo2',
'home$coordinate_std/' + dir_system + coordinatelist +
'_templ.fits',
inwcs='world',
units='degrees degrees',
outwcs='logical',
columns='1 2',
formats='%10.1f %10.1f')
a = iraf.fields('_templ.coo', '1', Stdout=1)
b = iraf.fields('_templ.coo2', '1,2', Stdout=1)[2:]
def ecpsf(img,
ofwhm,
threshold,
interactive,
ds9,
fixaperture=False,
_catalog=''):
try:
import agnkey
import string
hdr = agnkey.util.readhdr(img + '.fits')
instrument = agnkey.util.readkey3(hdr, 'instrume')
print 'INSTRUMENT:', instrument
if 'PIXSCALE' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'PIXSCALE')
elif 'CCDSCALE' in hdr:
if 'CCDXBIN' in hdr:
pixelscale = agnkey.util.readkey3(
hdr, 'CCDSCALE') * agnkey.util.readkey3(hdr, 'CCDXBIN')
elif 'CCDSUM' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'CCDSCALE') * int(
string.split(agnkey.util.readkey3(hdr, 'CCDSUM'))[0])
if instrument in [
'kb05', 'kb70', 'kb71', 'kb73', 'kb74', 'kb75', 'kb76', 'kb77',
'kb78', 'kb79'
]:
scale = pixelscale
_datamax = 45000
elif instrument in ['fl02', 'fl03', 'fl04']:
scale = pixelscale
_datamax = 120000
elif instrument in ['fs01', 'em03']:
scale = pixelscale
_datamax = 65000
elif instrument in ['fs02', 'fs03']:
scale = pixelscale
_datamax = 65000
elif instrument in ['em01']:
scale = pixelscale
_datamax = 65000
try:
_wcserr = agnkey.util.readkey3(hdr, 'wcserr')
if float(_wcserr) == 0:
if instrument in [
'kb05', 'kb70', 'kb71', 'kb73', 'kb74', 'kb75', 'kb76',
'kb77', 'kb78', 'kb79'
]:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif instrument in ['fl02', 'fl03', 'fl04']:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif instrument in ['fs01', 'fs02', 'fs03', 'em03', 'em01']:
if 'L1FWHM' in hdr:
seeing = float(agnkey.util.readkey3(hdr,
'L1FWHM')) * .75
elif 'L1SEEING' in hdr:
seeing = float(agnkey.util.readkey3(
hdr, 'L1SEEING')) * scale
else:
seeing = 3
else:
seeing = 3
else:
seeing = float(agnkey.util.readkey3(hdr, 'PSF_FWHM'))
sys.exit('astrometry not good')
except:
sys.exit('astrometry not good')
fwhm = seeing / scale
print 'FWHM[header] ', fwhm, ' in pixel'
if ofwhm:
fwhm = float(ofwhm)
print ' FWHM[input] ', fwhm, ' in pixel'
if interactive:
iraf.display(img, 1, fill=True)
iraf.delete('tmp.lo?', verify=False)
print '_' * 80
print '>>> Mark reference stars with "a". Then "q"'
print '-' * 80
iraf.imexamine(img,
1,
wcs='logical',
logfile='tmp.log',
keeplog=True)
xyrefer = iraf.fields('tmp.log', '1,2,6,15', Stdout=1)
xns, yns, _fws = [], [], []
ff = open('_ap.coo', 'w')
for i in range(len(xyrefer)):
xns.append(float(xyrefer[i].split()[0]))
yns.append(float(xyrefer[i].split()[1]))
_fws.append(float(xyrefer[i].split()[3]))
ff.write('%10.3f %10.3f %7.2f \n' %
(xns[i], yns[i], float(_fws[i])))
ff.close()
elif _catalog:
# cat1=agnkey.agnastrodef.readtxt(_catalog)
# cat1['ra'],cat1['dec']
ddd = iraf.wcsctran(input=_catalog,
output='STDOUT',
Stdout=1,
image=img,
inwcs='world',
outwcs='logical',
units='degrees degrees',
columns='1 2',
formats='%10.1f %10.1f',
verbose='no')
ddd = [i for i in ddd if i[0] != '#']
ddd = [' '.join(i.split()[0:3]) for i in ddd]
ff = open('_ap.coo', 'w')
for i in ddd:
a, b, c = string.split(i)
#print a,b,c
ff.write('%10s %10s %10s \n' % (a, b, c))
ff.close()
print 'use catalog'
else:
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(
img, fwhm, threshold, scale)
ff = open('_ap.coo', 'w')
for i in range(len(xs)):
ff.write('%10.3f %10.3f %7.2f \n' %
(xs[i], ys[i], float(fluxrad[i])))
ff.close() ## End automatic selection
print 80 * "#"
photmag = apfit(img, fwhm, hdr, interactive, _datamax, fixaperture)
radec = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag, \
Stdout=1, image=img, inwcs='logical', outwcs='world', columns="1 2", \
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
exptime = agnkey.util.readkey3(hdr, 'exptime')
object = agnkey.util.readkey3(hdr, 'object').replace(' ', '')
filtro = agnkey.util.readkey3(hdr, 'filter')
#######################################
rap, decp, magp2, magp3, magp4, smagf = [], [], [], [], [], []
merrp2, merrp3, merrp4, smagerrf = [], [], [], []
rap0, decp0 = [], []
for i in range(len(radec)):
aa = radec[i].split()
rap.append(aa[0])
decp.append(aa[1])
rap0.append(agnkey.agnabsphotdef.deg2HMS(ra=aa[0]))
decp0.append(agnkey.agnabsphotdef.deg2HMS(dec=aa[1]))
idp = aa[2]
magp2.append(aa[3])
magp3.append(aa[4])
magp4.append(aa[5])
merrp2.append(aa[6])
merrp3.append(aa[7])
merrp4.append(aa[8])
tbhdu = pyfits.new_table(
pyfits.ColDefs([
pyfits.Column(name='ra', format='20A', array=np.array(rap)),
pyfits.Column(name='dec', format='20A', array=np.array(decp)),
pyfits.Column(name='ra0', format='E', array=np.array(rap0)),
pyfits.Column(name='dec0', format='E', array=np.array(decp0)),
pyfits.Column(name='magp2',
format='E',
array=np.array(
np.where((np.array(magp2) != 'INDEF'),
np.array(magp2), 9999), float)),
pyfits.Column(name='magp3',
format='E',
array=np.array(
np.where((np.array(magp3) != 'INDEF'),
np.array(magp3), 9999), float)),
pyfits.Column(name='magp4',
format='E',
array=np.array(
np.where((np.array(magp4) != 'INDEF'),
np.array(magp4), 9999), float)),
pyfits.Column(name='merrp2',
format='E',
array=np.array(
np.where((np.array(merrp2) != 'INDEF'),
np.array(merrp2), 9999), float)),
pyfits.Column(name='merrp3',
format='E',
array=np.array(
np.where((np.array(merrp3) != 'INDEF'),
np.array(merrp3), 9999), float)),
pyfits.Column(name='merrp4',
format='E',
array=np.array(
np.where((np.array(merrp4) != 'INDEF'),
np.array(merrp4), 9999), float)),
pyfits.Column(name='smagf',
format='E',
array=np.array(
np.where((np.array(magp2) != 'INDEF'),
np.array(magp2), 9999), float)),
pyfits.Column(name='smagerrf',
format='E',
array=np.array(
np.where((np.array(merrp2) != 'INDEF'),
np.array(merrp2), 9999), float)),
]))
hdu = pyfits.PrimaryHDU(header=hdr)
thdulist = pyfits.HDUList([hdu, tbhdu])
agnkey.util.delete(img + '.sn2.fits')
thdulist.writeto(img + '.sn2.fits')
agnkey.util.updateheader(img + '.sn2.fits', 0, {
'XDIM':
[agnkey.util.readkey3(hdr, 'naxis1'), 'x number of pixels']
})
agnkey.util.updateheader(img + '.sn2.fits', 0, {
'YDIM':
[agnkey.util.readkey3(hdr, 'naxis2'), 'y number of pixels']
})
agnkey.util.updateheader(img + '.sn2.fits', 0, {
'PSF_FWHM':
[fwhm * scale, 'FWHM (arcsec) - computed with daophot']
})
os.chmod(img + '.sn2.fits', 0664)
os.chmod(img + '.psf.fits', 0664)
result = 1
except:
result = 0
fwhm = 0.0
traceback.print_exc()
return result, fwhm * scale
def fwhm_computation(img, tmpfiltercoo, stars, system, interactive):
from snoopy2 import src
import snoopy2
import string, os
from numpy import compress
from numpy import array
from numpy import average
from numpy import mean
from numpy import median
from numpy import std
from pyraf import iraf
from numpy import log10
_telescope = src.telescope(img)
_header = src.read_parameter(_telescope, system)
_xdimen = src.xdimen(img, _telescope)
_ydimen = src.ydimen(img, _telescope)
_filter = src.filter(img, _header, _telescope)
try:
filter = src.filtername(_telescope, _filter, system)
except:
filter = _filter
_exptime = src.exptime(img, _header, _telescope)
iraf.delete("tmp.imex_output", verify='no')
stars_pos = []
alllines = []
ff = open(tmpfiltercoo, 'r')
for j in range(0, 3):
exl = ff.readline()
for j in range(len(stars)):
alllines.append(ff.readline())
xx = string.split(alllines[-1])[0:2]
os.system('echo ' + xx[0] + ' ' + xx[1] + '> tmp.two')
pp = iraf.imexam(input=img,
frame=1,
logfile='',
keeplog='no',
imagecur='tmp.two',
defkey='m',
wcs='logical',
use_disp='no',
Stdout=1)
if not 1. <= float(xx[0]) <= float(_xdimen) or not 1. <= float(
xx[1]) <= float(_ydimen):
stars_pos.append(0)
elif string.split(pp[1])[-1] == string.split(pp[1])[-2]:
stars_pos.append(0)
else:
stars_pos.append(1)
ff.close()
ff = open('tmp.' + img + 'good.coo', 'w')
for i in range(len(stars_pos)):
if stars_pos[i]:
ff.write(alllines[i])
ff.close()
for i in range(len(alllines)):
if stars_pos[i]:
ff = open('tmp.one', 'w')
xx = string.split(alllines[i])[0:2]
ff.write(xx[0] + ' ' + xx[1] + ' a')
ff.close()
try:
iraf.imexam(input=img,
frame=1,
logfile='tmp.imex_output',
keeplog='yes',
imagecur='tmp.one',
wcs='logical',
use_disp='no')
except:
if not os.path.isfile('tmp.imex_output'):
os.system("echo '# [1] " + str(img) + " - " +
str(coordinatelist) + "' > tmp.imex_output")
os.system(
"echo '# COL LINE COORDINATES R MAG FLUX SKY PEAK E PA BETA ENCLOSED MOFFAT DIRECT' >> tmp.imex_output"
)
os.system(
"echo '999. 999. 999. 999. INDEF INDEF INDEF INDEF INDEF INDEF INDEF INDEF INDEF INDEF INDEF' >> tmp.imex_output"
)
else:
os.system(
"echo '999. 999. 999. 999. INDEF INDEF INDEF INDEF INDEF INDEF INDEF INDEF INDEF INDEF INDEF' >> tmp.imex_output"
)
_fwhm0 = iraf.fields('tmp.imex_output', '15', Stdout=1)
_mag = iraf.fields('tmp.imex_output', '6', Stdout=1)
_fwhm, _magime = [], []
j = 0
for i in range(len(stars)):
if stars_pos[i]:
try:
_magime.append(float(_mag[j]) + 2.5 * log10(_exptime))
except:
_magime.append(float(9999))
try:
_fwhm.append(float(_fwhm0[j]))
except:
_fwhm.append(float(9999))
j = j + 1
else:
_magime.append(float(9999))
_fwhm.append(float(9999))
fwhm_ave = compress((array(_fwhm) < 999), _fwhm)
fwhm_ave1 = compress(
(average(fwhm_ave) - 2 * std(fwhm_ave) < array(fwhm_ave)) &
(array(fwhm_ave) < average(fwhm_ave) + std(fwhm_ave) * 2),
array(fwhm_ave))
_fwhm_ave = mean(
compress((average(fwhm_ave1) - 2 * std(fwhm_ave1) < array(fwhm_ave1)) &
(array(fwhm_ave1) < average(fwhm_ave1) + std(fwhm_ave1) * 2),
array(fwhm_ave1)))
fwhm_ave22 = compress(
(average(fwhm_ave) - 2 * std(fwhm_ave) < array(fwhm_ave)) &
(array(fwhm_ave) < average(fwhm_ave) + std(fwhm_ave) * 2),
array(fwhm_ave))
_fwhm_ave2 = median(
compress(
(average(fwhm_ave22) - 2 * std(fwhm_ave22) < array(fwhm_ave22)) &
(array(fwhm_ave22) < average(fwhm_ave22) + std(fwhm_ave22) * 2),
array(fwhm_ave22)))
checkfwhm = 'yes'
while checkfwhm == 'yes':
print '################ FWHM(median) = ' + str(_fwhm_ave2) + ' '
print '################ FWHM(mean) = ' + str(_fwhm_ave) + ' '
if interactive:
fwhm_ave = raw_input('################ FWHM = [' +
str(_fwhm_ave2) + '] ? ')
else:
fwhm_ave = str(_fwhm_ave2)
try:
if not fwhm_ave: fwhm_ave = _fwhm_ave2
else: fwhm_ave = float(fwhm_ave)
checkfwhm = 'no'
except:
print 'WARNING: FWHM not good !!!!'
checkfwhm = 'yes'
#fwhm[filter]=fwhm_ave
iraf.hedit(img, 'qubafwhm', fwhm_ave, add='yes', update='yes', verify='no')
return fwhm_ave, _magime, stars_pos, _fwhm
def register_module(img, _system, coordinatelist, interactive, logincl,
_filter):
from snoopy2 import src
import snoopy2
import string, os
# logincl=src.open_program()
from pyraf import iraf
iraf.astcat(_doprint=0)
iraf.imcoords(_doprint=0)
iraf.set(stdimage='imt1024')
iraf.tv.rimexam.backgrou = 'yes'
subdirectory = ['optical/', 'infrared/', 'sloan/']
iraf.delete(coordinatelist + ".tv", verify='no')
iraf.delete(coordinatelist + "_templ.coo", verify='no')
iraf.delete("_templ.*", verify='no')
try:
dir_system = subdirectory[_system]
iraf.fields('home$coordinate_std/' + dir_system + coordinatelist +
'.list',
'2,3,1',
Stdout=coordinatelist + '.tv')
iraf.fields('home$coordinate_std/' + dir_system + coordinatelist +
'.list',
'1',
Stdout='_templ.coo')
iraf.wcsctran(coordinatelist + '.tv',
'_templ.coo2',
'home$coordinate_std/' + dir_system + coordinatelist +
'_templ.fits',
inwcs='world',
units='degrees degrees',
outwcs='logical',
columns='1 2',
formats='%10.1f %10.1f')
a = iraf.fields('_templ.coo', '1', Stdout=1)
b = iraf.fields('_templ.coo2', '1,2', Stdout=1)[2:]
ff = open(coordinatelist + '_templ.coo', 'w')
for i in range(len(a)):
ff.write(b[i] + '\t' + a[i] + ' \n')
ff.close()
if _system == 0 or _system == 2:
standard = iraf.fields('home$coordinate_std/' + dir_system +
coordinatelist + '.list',
'1,4,5,6,7,8',
Stdout=1)
else:
standard = iraf.fields('home$coordinate_std/' + dir_system +
coordinatelist + '.list',
'1,4,5,6',
Stdout=1)
except Exception as e:
print e
print "WARNING: no coordinate " + coordinatelist + " file found in " + snoopy2.__path__[
0] + '/coordinate_std/' + dir_system + ' !!! '
src.close_program(logincl)
stars = []
for i in standard:
nome = string.split(i)
stars.append(nome[0])
# _filter='XXX'
src.delete("tmp." + img + ".coo")
iraf.wcsctran(coordinatelist + '.tv',
'tmp.' + img + '.coo',
img,
inwcs='world',
units='degrees degrees',
outwcs='logical',
columns='1 2',
formats='%10.1f %10.1f')
if interactive:
print '######### Select FRAME TILE on your DS9 !!!!!'
_z1, _z2, goon = src.display_image(
snoopy2.__path__[0] + '/coordinate_std/' + dir_system +
coordinatelist + '_templ.fits', 2, '', '', False)
if not goon: src.close_program(logincl)
iraf.tvmark(2,
coordinatelist + '_templ.coo',
mark="circle",
number='no',
label='yes',
radii=20,
nxoffse=15,
nyoffse=15,
color=214,
txsize=4)
_z1, _z2, goon = src.display_image(img, 1, '', '', False)
if not goon: src.close_program(logincl)
iraf.tvmark(1,
'tmp.' + img + '.coo',
mark="circle",
number='no',
label='yes',
radii=20,
nxoffse=15,
nyoffse=15,
color=205,
txsize=2)
answ = raw_input(
'is the astrometry of the field good ? \n [y/n] ? [y] ')
if not answ: answ = 'y'
if answ == 'n':
try:
src.delete('tmp.' + img + '.coo')
src.delete('tmp.ccdb')
iraf.ccmap('_first.ccmap',
'tmp.ccdb',
images=img,
fitgeome='rscale',
lngunit='degrees',
update='yes',
interact=False)
iraf.wcsctran('_first_image.tv',
'tmp.' + img + '.coo',
img,
inwcs='world',
units='degrees degrees',
outwcs='logical',
columns='1 2',
formats='%10.1f %10.1f')
iraf.tvmark(1,
'tmp.' + img + '.coo',
mark="circle",
number='no',
label='yes',
radii=20,
nxoffse=15,
nyoffse=15,
color=206,
txsize=4)
answ = raw_input(
'AND NOW, is the astrometry of the field good [y/n] ? [y] '
)
if not answ: answ = 'y'
except:
pass
while answ == 'n':
_z1, _z2, goon = src.display_image(img, 1, '', '', False)
if not goon: src.close_program(logincl)
print '>> Identify (minimum 2, preferably 3) reference stars (mark with "a")'
iraf.delete('tmp.coo', verify='no')
iraf.imexamine(img, 1, logfile='tmp.coo', keeplog='yes')
iraf.tvmark(1,
'tmp.coo',
mark="circle",
number='yes',
label='no',
radii=15,
nxoffse=15,
nyoffse=15,
color=214,
txsize=4)
xycoo = iraf.fields('tmp.coo', '1,2,13', Stdout=1)
print '>> Identify reference stars'
idcat = []
for i in range(len(xycoo)):
idcat.append(raw_input('Star ' + str(i + 1) + '= ? '))
ff = open(coordinatelist + '.tv', 'r')
rr = ff.readlines()
ff.close()
gg = open('tmp.ccmap', 'w')
fw = []
for i in range(len(idcat)):
idpos = stars.index(idcat[i])
_rr = string.split(rr[idpos])
_x, _y, _fw = string.split(xycoo[i])
gg.write(_x + ' ' + _y + ' ' + _rr[0] + ' ' + _rr[1] + ' \n')
fw.append(float(_fw))
gg.close()
iraf.delete('_first_image.tv', verify='no')
iraf.delete('_first.ccmap', verify='no')
os.system('cp ' + coordinatelist + '.tv _first_image.tv')
os.system('cp tmp.ccmap _first.ccmap')
iraf.ccmap('tmp.ccmap',
'tmp.ccdb',
images=img,
fitgeome='rscale',
lngunit='degrees',
update='yes',
interact=False)
_z1, _z2, goon = src.display_image(img, 1, '', '', False)
if not goon: src.close_program(logincl)
iraf.delete('tmp.' + img + '.coo', verify='no')
iraf.wcsctran(coordinatelist + '.tv',
'tmp.' + img + '.coo',
img,
inwcs='world',
units='degrees degrees',
outwcs='logical',
columns='1 2',
formats='%10.1f %10.1f')
iraf.tvmark(1,
'tmp.' + img + '.coo',
mark="circle",
number='yes',
label='no',
radii=20,
nxoffse=15,
nyoffse=15,
color=205,
txsize=4)
iraf.delete("tmp.ccmap", verify='no')
iraf.delete("tmp.coo", verify='no')
iraf.delete("tmp.ccdb", verify='no')
answ = raw_input(
'is the astrometry of the field good [y/n] ? [y]')
if not answ: answ = 'y'
iraf.delete("tmp.star", verify='no')
iraf.ccfind('home$coordinate_std/' + dir_system + coordinatelist + '.list',
'tmp.star',
img,
lngcolu=2,
latcolu=3,
lngunit='degrees',
usewcs='yes')
iraf.ccmap('tmp.star',
'tmp.ccdb',
images=img,
fitgeome='rscale',
xcolum=9,
ycolum=10,
lngcolum=2,
latcolumn=3,
lngunit='degrees',
update='yes',
interact=False)
iraf.delete('tmp.' + img + '.coo', verify='no')
iraf.wcsctran(coordinatelist + '.tv',
'tmp.' + img + '.coo',
img,
inwcs='world',
units='degrees degrees',
outwcs='logical',
columns='1 2',
formats='%10.1f %10.1f')
iraf.delete("tmp.ccdb", verify='no')
iraf.delete("tmp.star", verify='no')
iraf.delete("tmp.coo", verify='no')
return stars, 'tmp.' + img + '.coo'
def ecpsf(img, ofwhm, threshold, psfstars, distance, interactive, ds9, psffun='gauss', fixaperture=False,_catalog='',_datamax=''):
try:
import agnkey
hdr = agnkey.util.readhdr(img + '.fits')
instrument = agnkey.util.readkey3(hdr, 'instrume')
print ('INSTRUMENT:', instrument)
if 'PIXSCALE' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'PIXSCALE')
elif 'CCDSCALE' in hdr:
if 'CCDXBIN' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'CCDSCALE') * agnkey.util.readkey3(hdr, 'CCDXBIN')
elif 'CCDSUM' in hdr:
pixelscale = agnkey.util.readkey3(hdr, 'CCDSCALE') * int(
string.split(agnkey.util.readkey3(hdr, 'CCDSUM'))[0])
if 'kb' in instrument:
scale = pixelscale
if not _datamax:
_datamax = 45000
elif 'fl' in instrument:
scale = pixelscale
if not _datamax:
_datamax = 60000
elif 'fa' in instrument:
scale = pixelscale
if not _datamax:
_datamax = 60000
elif 'fs' in instrument:
scale = pixelscale
if not _datamax:
_datamax = 65000
try:
#if 1==1:
if 'WCSERR' in hdr:
_wcserr = hdr['WCSERR']
elif 'WCS_ERR' in hdr:
_wcserr = hdr['WCS_ERR']
print _wcserr
if float(_wcserr) == 0:
if 'kb' in instrument:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif 'fl' in instrument:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif 'fa' in instrument:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif 'fs' in instrument:
if 'L1FWHM' in hdr:
seeing = float(agnkey.util.readkey3(hdr, 'L1FWHM')) * .75
elif 'L1SEEING' in hdr:
seeing = float(agnkey.util.readkey3(hdr, 'L1SEEING')) * scale
else:
seeing = 3
else:
seeing = 3
else:
seeing = float(agnkey.util.readkey3(hdr, 'PSF_FWHM'))
sys.exit('astrometry not good')
except ValueError:
# except:
sys.exit('astrometry not good')
fwhm = seeing / scale
print 'FWHM[header] ', fwhm, ' in pixel'
if ofwhm: fwhm = float(ofwhm)
print ' FWHM[input] ', fwhm, ' in pixel'
xdim, ydim = iraf.hselect(img+'.fits[0]', 'i_naxis1,i_naxis2', 'yes', Stdout=1)[0].split()
print img, fwhm, threshold, scale
#################################################################################
################### write file to compute psf _psf.coo ############
#################################################################################
if interactive:
iraf.set(stdimage='imt1024')
iraf.display(img+'.fits[0]', 1, fill=True)
iraf.delete('tmp.lo?', verify=False)
print '_' * 80
print '>>> Mark reference stars with "a". Then "q"'
print '-' * 80
iraf.imexamine(img+'[0]', 1, wcs='logical', logfile='tmp.log', keeplog=True)
xyrefer = iraf.fields('tmp.log', '1,2,6,15', Stdout=1)
xns, yns, _fws = [], [], []
############# write file for PSF #########################
ff = open('_psf.coo', 'w')
for i in range(len(xyrefer)):
xns.append(float(xyrefer[i].split()[0]))
yns.append(float(xyrefer[i].split()[1]))
_fws.append(float(xyrefer[i].split()[3]))
ff.write('%10.3f %10.3f %7.2f \n' % (xns[i], yns[i], float(_fws[i])))
ff.close()
fwhm = np.median(_fws)
else:
############ run sextractor #####################################
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
_ra1,_dec1,xx11,yy11,_mag,_dist = agnkey.agnastrodef.starsfields(img+'.fits',20,19)
if len(_ra1):
dist,pos0,pos1 = agnkey.agnastrodef.crossmatchxy(xs,ys,xx11,yy11,10)
if len(pos0):
xs = xs[pos0]
ys = ys[pos0]
ran = ran[pos0]
decn = decn[pos0]
magbest = magbest[pos0]
classstar = classstar[pos0]
fluxrad = fluxrad[pos0]
bkg = bkg[pos0]
ff = open('tmp.cursor', 'w')
for i in range(len(xs)):
x1, x2 = int(xs[i] - fwhm * 3), int(xs[i] + fwhm * 3)
y1, y2 = int(ys[i] - fwhm * 3), int(ys[i] + fwhm * 3)
sect = '[' + str(x1) + ':' + str(x2) + ',' + str(y1) + ':' + str(y2) + ']'
try:
fmax = iraf.imstat(img+'.fits[0]' + sect, fields='max', Stdout=1)[1]
########## cut saturated object ########################
if float(fmax) < _datamax: # not saturated
ff.write('%10.3f %10.3f 1 m \n' % (xs[i], ys[i]))
except:
print sect
# print 'problem here'
# pass
ff.close()
iraf.delete('tmp.lo?,tmp.sta?,tmp.gk?', verify=False)
iraf.psfmeasure(img+'[0]', imagecur='tmp.cursor', logfile='tmp.log', radius=int(fwhm), iter=3,
display=False, StdoutG='tmp.gki')
ff = open('tmp.log')
righe = ff.readlines()
xn = [float(righe[3].split()[1])]
yn = [float(righe[3].split()[2])]
_fw = [float(righe[3].split()[4])]
for r in righe[4:-2]:
if len(r) > 0:
xn.append(float(r.split()[0]))
yn.append(float(r.split()[1]))
_fw.append(float(r.split()[3]))
print 'FWHM: ', righe[-1].split()[-1]
print 80 * "#"
######
############## eliminate double object identification ###########################
xns, yns, _fws = [xn[0]], [yn[0]], [_fw[0]]
for i in range(1, len(xn)):
if abs(xn[i] - xn[i - 1]) > .2 and abs(yn[i] - yn[i - 1]) > .2:
xns.append(xn[i])
yns.append(yn[i])
_fws.append(_fw[i])
######### write clean file for PSF #########################
fw = []
ff = open('_psf.coo', 'w')
for i in range(len(xns)):
ff.write('%10.3f %10.3f %7.2f \n' % (xns[i], yns[i], float(_fws[i])))
fw.append(_fws[i])
ff.close() ## End automatic selection
######################################################################################
################### write file of object to store in fits table #############
######################################################################################
if interactive:
xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
ff = open('_psf2.coo', 'w')
for i in range(len(xs)):
ff.write('%10s %10s %10s \n' % (xs[i], ys[i], fluxrad[i]))
ff.close()
elif _catalog:
print '\n#### use catalog '
ddd=iraf.wcsctran(input=_catalog,output='STDOUT',Stdout=1,image=img,inwcs='world',outwcs='logical',
units='degrees degrees',columns='1 2',formats='%10.1f %10.1f',verbose='no')
ddd=[i for i in ddd if i[0]!='#']
ddd=[' '.join(i.split()[0:3]) for i in ddd]
ff = open('_psf2.coo', 'w')
for i in ddd:
a,b,c = string.split(i)
ff.write('%10s %10s %10s \n' % (a, b, c))
ff.close()
print 'use catalog'
else:
os.system('cp _psf.coo _psf2.coo')
# print '\n### use sextractor'
# xs, ys, ran, decn, magbest, classstar, fluxrad, bkg = runsex(img, fwhm, threshold, scale)
# ff = open('_psf2.coo', 'w')
# for i in range(len(xs)):
# ff.write('%10s %10s %10s \n' % (xs[i], ys[i], fluxrad[i]))
# ff.close()
###################################################################################
print 80 * "#"
photmag, pst, fitmag = psffit(img, fwhm, psfstars, hdr, interactive, _datamax, psffun, fixaperture)
photmag2, fitmag2 = psffit2(img, fwhm, psfstars, hdr, _datamax, psffun, fixaperture)
radec = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag, \
Stdout=1, image=img+'.fits[0]', inwcs='logical', outwcs='world', columns="1 2", \
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
radec2 = iraf.wcsctran(input='STDIN', output='STDOUT', Stdin=photmag2, \
Stdout=1, image=img+'.fits[0]', inwcs='logical', outwcs='world', columns="1 2", \
format='%13.3H %12.2h', min_sig=9, mode='h')[3:]
if ds9 == 0 and interactive:
iraf.set(stdimage='imt1024')
iraf.display(img, 1, fill=True, Stdout=1)
iraf.tvmark(1, coords='STDIN', mark='circle', radii=15, label=False, Stdin=photmag)
iraf.tvmark(1, coords='STDIN', mark='rectangle', length=35, label=False, Stdin=pst)
iraf.tvmark(1, coords='STDIN', mark='cross', length=35, label=False, Stdin=fitmag2, color=204)
idpsf = []
for i in range(len(pst)):
idpsf.append(pst[i].split()[2])
dmag = []
for i in range(len(radec)):
ra, dec, idph, magp2, magp3, magp4, merrp2, merrp3, merrp4 = radec[i].split()
dmag.append(9.99)
for j in range(len(fitmag)):
raf, decf, idf, magf, magerrf = fitmag[j].split()
if idph == idf and idph in idpsf and \
magp3 != 'INDEF' and magf != 'INDEF':
dmag[i] = float(magp3) - float(magf)
break
_dmag = np.compress(np.array(dmag) < 9.99, np.array(dmag))
print '>>> Aperture correction (phot) %6.3f +/- %5.3f %3d ' % \
(np.mean(_dmag), np.std(_dmag), len(_dmag))
if len(_dmag) > 3:
_dmag = np.compress(abs(_dmag - np.median(_dmag)) < 2 * np.std(_dmag), _dmag)
print '>>> 2 sigma rejection) %6.3f +/- %5.3f %3d [default]' \
% (np.mean(_dmag), np.std(_dmag), len(_dmag))
print '>>> fwhm %s ' % (str(fwhm))
for i in range(len(dmag)):
if dmag[i] == 9.99:
dmag[i] = ''
else:
dmag[i] = '%6.3f' % (dmag[i])
exptime = agnkey.util.readkey3(hdr, 'exptime')
object = agnkey.util.readkey3(hdr, 'object').replace(' ', '')
filtro = agnkey.util.readkey3(hdr, 'filter')
#######################################
rap, decp, magp2, magp3, magp4, smagf = [], [], [], [], [], []
merrp2, merrp3, merrp4, smagerrf = [], [], [], []
rap0, decp0 = [], []
for i in range(len(radec2)):
aa = radec2[i].split()
rap.append(aa[0])
decp.append(aa[1])
rap0.append(agnkey.agnabsphotdef.deg2HMS(ra=aa[0]))
decp0.append(agnkey.agnabsphotdef.deg2HMS(dec=aa[1]))
idp = aa[2]
magp2.append(aa[3])
magp3.append(aa[4])
magp4.append(aa[5])
merrp2.append(aa[6])
merrp3.append(aa[7])
merrp4.append(aa[8])
_smagf, _smagerrf = 9999, 9999
for j in range(len(fitmag2)):
raf, decf, idf, magf, magerrf = fitmag2[j].split()
if idf == idp:
_smagf = magf
_smagerrf = magerrf
break
smagf.append(_smagf)
smagerrf.append(_smagerrf)
new_cols = pyfits.ColDefs([
pyfits.Column(name='ra', format='20A', array=np.array(rap)),
pyfits.Column(name='dec', format='20A', array=np.array(decp)),
pyfits.Column(name='ra0', format='E', array=np.array(rap0)),
pyfits.Column(name='dec0', format='E', array=np.array(decp0)),
pyfits.Column(name='magp2', format='E', array=np.array(np.where((np.array(magp2) != 'INDEF'),
np.array(magp2), 9999), float)),
pyfits.Column(name='magp3', format='E', array=np.array(np.where((np.array(magp3) != 'INDEF'),
np.array(magp3), 9999), float)),
pyfits.Column(name='magp4', format='E', array=np.array(np.where((np.array(magp4) != 'INDEF'),
np.array(magp4), 9999), float)),
pyfits.Column(name='merrp2', format='E', array=np.array(np.where((np.array(merrp2) != 'INDEF'),
np.array(merrp2), 9999), float)),
pyfits.Column(name='merrp3', format='E', array=np.array(np.where((np.array(merrp3) != 'INDEF'),
np.array(merrp3), 9999), float)),
pyfits.Column(name='merrp4', format='E', array=np.array(np.where((np.array(merrp4) != 'INDEF'),
np.array(merrp4), 9999), float)),
pyfits.Column(name='smagf', format='E', array=np.array(np.where((np.array(smagf) != 'INDEF'),
np.array(smagf), 9999), float)),
pyfits.Column(name='smagerrf', format='E', array=np.array(np.where((np.array(smagerrf) != 'INDEF'),
np.array(smagerrf), 9999), float)),
])
tbhdu = pyfits.BinTableHDU.from_columns(new_cols)
hdu = pyfits.PrimaryHDU(header=hdr)
thdulist = pyfits.HDUList([hdu, tbhdu])
agnkey.util.delete(img + '.sn2.fits')
thdulist.writeto(img + '.sn2.fits')
agnkey.util.updateheader(img + '.sn2.fits', 0, {'APCO': [np.mean(_dmag), 'Aperture correction']})
agnkey.util.updateheader(img + '.sn2.fits', 0, {'APCOERR': [np.std(_dmag), 'Aperture correction error']})
agnkey.util.updateheader(img + '.sn2.fits', 0,
{'XDIM': [agnkey.util.readkey3(hdr, 'naxis1'), 'x number of pixels']})
agnkey.util.updateheader(img + '.sn2.fits', 0,
{'YDIM': [agnkey.util.readkey3(hdr, 'naxis2'), 'y number of pixels']})
agnkey.util.updateheader(img + '.sn2.fits', 0,
{'PSF_FWHM': [fwhm * scale, 'FWHM (arcsec) - computed with daophot']})
os.chmod(img + '.sn2.fits', 0664)
os.chmod(img + '.psf.fits', 0664)
result = 1
except IOError as e:
print e
result = 0
fwhm = 0.0
traceback.print_exc()
return result, fwhm * scale