'>>> Order of function in y for bg fit ? ['
+ str(_ybgord0) + '] ? ')
if not ybgord0:
ybgord0 = _ybgord0
else:
_ybgord0 = ybgord0
try:
float(xbgord0)
float(ybgord0)
checkorder = 'no'
except:
print 'WARNING: value not valid !!'
checimsurfitkorder = 'yes'
iraf.imsurfit("original",
"bg",
xorder=xbgord0,
yorder=ybgord0,
regions="section",
section="sec")
else:
if not _interactive:
print 'select'
else:
agnkey.util.delete("tmplabel")
agnkey.util.delete("tmptbl")
ff = open('tmplabel', 'w')
ff.write('')
ff.close()
print ">>> Mark corners of bg-region with >b<, exit >q<"
iraf.tvmark(1,
"tmplabel",
autol='no',
def fringe_sub(inlist, inpref='', outpref='s', mskpref='none', iternum=50, nsigma=3, bpm='none', second=False, fr_x0=0.0, fr_y0=0.0, fr_step=5, surfit=False, xsorder=4, ysorder=4):
# load IRAF package
iraf.proto()
# check input image list
inimg_arr = check_input(inlist, inpref)
if isinstance(inimg_arr, int):
return 1
# check output
outimg_arr = check_outpref(outpref, inimg_arr)
if isinstance(outimg_arr, int):
return 1
# check mask images
if mskpref.lower() == 'none' or mskpref == '':
mask = 0
else:
mask = 1
mskimg_arr = check_inpref(mskpref, inimg_arr)
if isinstance(mskimg_arr, int):
return 1
# check bad pixel mask
if bpm.lower() != 'none':
bpmex = 1
if os.access(bpm, os.R_OK) == False:
print >> sys.stderr, 'cannot read bad pixel mask (%s)' % bpm
return 1
else:
bpmex = 0
# prefix for temoprary images
tmp = tempfile.NamedTemporaryFile(suffix='', prefix='', dir='/tmp')
tmp_prefix = tmp.name
tmp.close()
# subtract sky
for i in range(len(inimg_arr)):
if mask == 1:
iraf.unlearn('mimstat')
if not second:
ret = iraf.mimstat(inimg_arr[i], imasks=mskimg_arr[i]+'[pl]', format='no', fields='midpt', nclip=iternum, lsigma=nsigma, usigma=nsigma, Stdout=1)
else:
if bpmex == 1:
tmp_mask = tmp_prefix + os.path.basename(mask_img_arr[i])
iraf.imarith(maskimg_arr[i], '+', bpm, tmp_mask, verbose='no')
convert_maskfits_int(tmp_mask, tmp_mask)
ret = iraf.mimstat(inimg_arr[i], imasks=tmp_mask, format='no', fields='midpt', nclip=iternum, lsigma=nsigma, usigma=nsigma, Stdout=1)
else:
ret = iraf.mimstat(inimg_arr[i], imasks=mskimg_arr[i], format='no', fields='midpt', nclip=iternum, lsigma=nsigma, usigma=nsigma, Stdout=1)
else:
iraf.unlearn('imstat')
ret = iraf.imstat(inimg_arr[i], format='no', fields='midpt', nclip=iternum, lsigma=nsigma, usigma=nsigma, Stdout=1)
if len(ret) == 1:
objmed = float(ret[0])
else :
print >> sys.stderr, 'failed to calculate median of the object background'
return 1
# record input fits data into memory
im = pyfits.open(inimg_arr[i])
im_hdr = im[0].header
im_data = im[0].data
out_data = im_data - objmed
if surfit:
out_data_org = np.copy(out_data)
im.close()
# fringe subtraction for NB imaging
if mask == 1:
if bpmex == 1:
tmp_mask = tmp_prefix + os.path.basename(mask_img_arr[i])
mask_im = pyfits.open(tmp_mask)
else:
mask_im = pyfits.open(mskimg_arr[i])
if not second:
mask_data = mask_im[1].data
else:
mask_data = mask_im[0].data
mask_im.close()
x = np.ones(out_data.shape[0]*out_data.shape[1]).reshape(out_data.shape[0],out_data.shape[1])* np.arange(out_data.shape[1]) + 1
y = (np.ones(out_data.shape[1]*out_data.shape[0]).reshape(out_data.shape[1],out_data.shape[0]) * np.arange(out_data.shape[0]) + 1).T
r = np.sqrt((x-fr_x0)*(x-fr_x0) + (y-fr_y0)*(y-fr_y0))
rmax = np.max(r)
rmin = np.min(r)
r1 = rmin
while r1 <= rmax:
r2 = r1 + fr_step
idx = np.logical_and(r>=r1, r<r2)
out_subset = out_data[idx]
if mask == 1:
mask_subset = mask_data[idx]
idx_sky = np.where(mask_subset == 0)
#if len(out_subset[idx_sky]) != len(out_subset):
# print "masked:",inimg_arr[i],r1,r2,fr_x0,fr_y0,len(out_subset[idx_sky]),"/",len(out_subset),meanclip(out_subset[idx_sky],median=1)[0],meanclip(out_subset, median=1)[0]
med, sigma = meanclip(out_subset[idx_sky],median=1)
else:
med, sigma = meanclip(out_data[idx],median=1)
out_data[idx] = out_data[idx] - med
r1 += fr_step
# save output fits file
hdu = pyfits.PrimaryHDU(out_data)
imgout = pyfits.HDUList([hdu])
imgout[0].header = im_hdr
if surfit:
tmp_fsub = tmp_prefix + "fsub" + os.path.basename(inimg_arr[i])
tmp_fsub_fit = tmp_prefix + "fsub_fit" + os.path.basename(inimg_arr[i])
imgout.writeto(tmp_fsub)
imgout.close()
iraf.imsurfit(tmp_fsub, tmp_fsub_fit, xsorder, ysorder)
imfit = pyfits.open(tmp_fsub_fit)
imfit_data = imfit[0].data
out_data_fs = np.copy(out_data_org - imfit_data)
r1 = rmin
while r1 <= rmax:
r2 = r1 + fr_step
idx = np.logical_and(r>=r1, r<r2)
out_subset = out_data_fs[idx]
if mask == 1:
mask_subset = mask_data[idx]
idx_sky = np.where(mask_subset == 0)
med, sigma = meanclip(out_subset[idx_sky],median=1)
else:
med, sigma = meanclip(out_data_fs[idx],median=1)
out_data_org[idx] = out_data_org[idx] - med
r1 += fr_step
hdu = pyfits.PrimaryHDU(out_data_org)
imgout = pyfits.HDUList([hdu])
imgout[0].header = im_hdr
imgout.writeto(outimg_arr[i])
imgout.close()
remove_temp_all(tmp_prefix)
else:
imgout.writeto(outimg_arr[i])
imgout.close()
if bpmex == 1:
remove_temp_all(tmp_prefix)
return 0
os.system("rm -f back.fits")
iraf.images()
iraf.images.imfit()
iraf.images.imutil()
#iraf.crutil()
if mode == 'MMIRS':
flipme = True
headers = iraf.imhead(fitsfile, long='yes', Stdout=1)
for line in headers:
if re.match('WAT', line):
flipme = False
if flipme:
print "not flipped"
iraf.imsurfit(fitsfile, 'back.fits', xorder=2, yorder=2, upper=2, lower=2, ngrow=15)
iraf.imarith(fitsfile, '-', 'back.fits', fitsfile)
iraf.imcopy(fitsfile + '[*,*]', fitsfile)
# iraf.cosmicrays(fitsfile, fitsfile, interactive='no')
else:
print "flipped"
else:
iraf.imsurfit(fitsfile, 'back.fits', xorder=2, yorder=2)
iraf.imarith(fitsfile, '-', 'back.fits', fitsfile)
hdu = rfits(fitsfile)
image = hdu.data
hdr = hdu.header
try:
def errore(img,
imgpsf,
coordlist,
size,
truemag,
fwhm0,
leng0,
_show,
_interactive,
_numiter,
z11,
z22,
midpt,
nax,
nay,
xbgord0,
ybgord0,
_recenter,
apco0,
dmax=51000,
dmin=-500):
import lsc
import os, sys, re, string
from numpy import array, mean, std, compress, average
from pyraf import iraf
if not _numiter: _numiter = 3
dartf = 100
while dartf >= size - 1:
if _interactive:
artfac0 = raw_input(
'>>> Dispersion of artificial star positions (in units of FWHM) [1] '
)
if not artfac0: artfac0 = 1
else:
artfac0 = 1
try:
artfac0 = float(artfac0)
if float(artfac0) >= size - 1:
print '!!! WARNING: ' + str(
artfac0) + ' too large (max ' + str(size) + '- 1)'
print 'try again....'
else:
dartf = artfac0
except:
print '#### WARNING: ' + str(artfac0) + ' should be a number !!!!'
print 'try again....'
lsc.util.delete("tmpar?")
lsc.util.delete('artskyfit.fits')
os.system('cp skyfit.fits artskyfit.fits')
i = 0
tmpart = []
while i <= 8:
lsc.util.delete(
"reserr.fit?,artbg.fit?,artstar.fit?,artres.fit?,artfit.fit?")
artrad = fwhm0 / 2.
#artseed = artseed+1234
artx = int(i / 3.) - 1
if i <= 2: arty = artx + i
if 3 <= i <= 5: arty = artx - 1 + i - 3
if i >= 6: arty = artx - 2 + i - 6
ff = open(img + ".sn.coo", 'r')
ss = ff.readline()
ff.close()
xbb = float(string.split(ss)[0])
ybb = float(string.split(ss)[1])
xbb = xbb + artx * fwhm0 * artfac0
ybb = ybb + arty * fwhm0 * artfac0
lsc.util.delete(coordlist)
ff = open(coordlist, 'w')
ff.write(str(xbb) + ' ' + str(ybb) + ' ' + str(truemag[0]) + " 1")
ff.close()
xb1 = int(float(xbb) - fwhm0 * float(leng0) / 2)
xb2 = int(float(xbb) + fwhm0 * float(leng0) / 2)
yb1 = int(float(ybb) - fwhm0 * float(leng0) / 2)
yb2 = int(float(ybb) + fwhm0 * float(leng0) / 2)
sec = "1 " + str(xb1) + " 1 " + str(nay) + '\n'
sec = sec + str(xb2) + ' ' + str(nax) + " 1 " + str(nay) + '\n'
sesc = sec + str(xb1) + ' ' + str(xb2) + " 1 " + str(yb1) + '\n'
sec = sec + str(xb1) + ' ' + str(xb2) + ' ' + str(yb2) + ' ' + str(
nay) + '\n'
ff = open('sec', 'w')
ff.write(sec)
ff.close()
lsc.util.delete("reserr.ar?")
lsc.util.delete("artlist.ma?")
lsc.util.delete("artsky.fit?")
lsc.util.delete("artbg.fit?")
lsc.util.delete("artbgs.fit?")
lsc.util.delete("artsn.fit?")
lsc.util.delete("artres.fit?")
lsc.util.delete("artlist.al?")
iraf.addstar("artskyfit",
coordlist,
imgpsf,
"reserr",
nstar=1,
veri='no',
simple='yes',
verb='no')
# reserr = skyfit + artificial star ########
inp = "artbg.fits[" + str(xb1) + ":" + str(xb2) + "," + str(
yb1) + ":" + str(yb2) + "]"
out = "artsky.fits[" + str(xb1) + ":" + str(xb2) + "," + str(
yb1) + ":" + str(yb2) + "]"
iraf.imsurfit("reserr",
"artbg",
xorder=xbgord0,
yorder=ybgord0,
regions="section",
section="sec")
midpt = np.mean(fits.getdata('artbg.fits'))
iraf.imcopy('reserr.fits', 'artsky.fits')
iraf.imcopy(inp, 'artbgs.fits')
iraf.imcopy("artbgs.fits", out)
iraf.imarith("reserr",
"-",
"artsky",
"artsn",
calctype="r",
pixtype="r",
verb='no')
iraf.imarith("artsn", "+", midpt, "artsn", verb='no')
artap1, artap2, artap3, artmag1, artmag2, artmag3, artfitmag, arttruemag, artmagerr, artcentx, artcenty = \
fitsn(img,imgpsf,coordlist,_recenter,fwhm0,'reserr','artsn','artres',_show,_interactive,z11,z22,midpt,size,apco0,dmax,dmin)
for ii in range(0, _numiter):
lsc.util.delete("reserr.ar?")
lsc.util.delete("artlist.ma?")
lsc.util.delete("artsky.fit?")
lsc.util.delete("artbg.fit?")
lsc.util.delete("artbgs.fit?")
lsc.util.delete("artsn.fit?")
lsc.util.delete("artres.fit?")
lsc.util.delete("artlist.al?")
iraf.imsurfit("skyfit",
"artbg",
xorder=xbgord0,
yorder=ybgord0,
regions="section",
section="sec")
midpt = np.mean(fits.getdata('artbg.fits'))
iraf.imcopy("reserr.fits", "artsky.fits")
iraf.imcopy(inp, "artbgs.fits")
iraf.imcopy("artbgs.fits", out)
iraf.imarith("reserr",
"-",
"artsky",
"artsn",
calctype="r",
pixtype="r",
verb='no')
iraf.imarith("artsn.fits", "+", midpt, "artsn.fits", verb='no')
artap1, artap2, artap3, artmag1, artmag2, artmag3, artfitmag, arttruemag, artmagerr, artcentx, artcenty = \
fitsn(img,imgpsf,coordlist,_recenter,fwhm0,'reserr','artsn','artres',_show,_interactive,z11,z22,midpt,size,0,dmax,dmin)
#######
if i == 0: era = 'yes'
else: era = 'no'
artx = .5 + .25 * artx
arty = .5 + .25 * arty
if _show:
_tmp1, _tmp2, goon = lsc.util.display_image('skyfit.fits',
1,
'',
'',
False,
_xcen=artx,
_ycen=arty,
_xsize=.25,
_ysize=.25,
_erase=era)
try:
tmpart.append(float(arttruemag[0]))
except:
pass
i = i + 1
for i in tmpart:
print i
print " ########## "
try:
media = mean(array(tmpart))
arterr = std(array(tmpart))
arterr2 = std(
compress((average(tmpart) - std(tmpart) < array(tmpart)) &
(array(tmpart) < average(tmpart) + std(tmpart)),
array(tmpart)))
except:
media = 0
arterr = 0
arterr2 = 0
print '### average = %6.6s \t arterr= %6.6s ' % (str(media), str(arterr))
print '### %6.6s \t (error at 1 sigma rejection) ' % (str(arterr2))
lsc.util.delete(
"reserr.fit?,artbg.fit?,artstar.fit?,artres.fit?,artfit.fit?,artskyfit.fit?"
)
lsc.util.delete("reserr.ar?")
lsc.util.delete("artlist.co?")
return arterr2, arterr
def wirc_flatscale(infiles,inflat,outflat,clipfrac=0.03,
clobber=globclob):
# "infiles" is a list of filenames
inlist=','.join(infiles)
bpmfile=get_head(infiles[0],'BPM')
# Make a median combination of input files
imcmb1=iraf.mktemp("iqwircc")+".fits"
iraf.imcombine(inlist,imcmb1,combine="median",reject="none",
project=no,outtype="real",outlimits="",offsets="",
masktype="none",blank=0.0,scale="!SKYBKG",zero="none",
weight="none",statsec="",lthreshold="INDEF",
hthreshold="INDEF",nkeep=1)
[naxis1,naxis2]=get_head(imcmb1,['NAXIS1','NAXIS2'])
npixall=float(naxis1)*float(naxis2)
# Calculate sky background & divide, subtract 1
skybkg=wirc_sky(imcmb1,bpmfile)
imcmb2=iraf.mktemp("iqwircc")+".fits"
iraf.imarith(imcmb1,'/',skybkg,imcmb2,verbose=no,noact=no)
iraf.imdel(imcmb1,verify=no,go_ahead=yes)
iraf.imarith(imcmb2,'-',1.0,imcmb1,verbose=no,noact=no)
# Surface fit to median image
imsurf1=iraf.mktemp("iqwircs")+".fits"
iraf.imsurfit(imcmb1,imsurf1,xorder=6,yorder=6,type_output="fit",
function="chebyshev",cross_terms=yes,
xmedian=21,ymedian=21,median_percent=50.0,
lower=0.0,upper=0.0,ngrow=0,niter=0,
regions="all",rows="*",columns="*",border=50,
sections="",circle="",div_min="INDEF")
# Corresponding bad pixel mask
imbpm1=iraf.mktemp("iqwircb")+".pl"
iraf.imexpr("abs(x)>%.3f ? 0 : 1" % clipfrac,imbpm1,x=imsurf1)
# Subtract 1.0 from flatfield
imflat1=iraf.mktemp("iqwircf")+".fits"
iraf.imarith(inflat,'-',1.0,imflat1,verbose=no,noact=no)
# Surface fit to the flatfield
imsurf2=iraf.mktemp("iqwircs")+".fits"
iraf.imsurfit(imflat1,imsurf2,xorder=6,yorder=6,type_output="fit",
function="chebyshev",cross_terms=yes,
xmedian=21,ymedian=21,median_percent=50.0,
lower=0.0,upper=0.0,ngrow=0,niter=0,
regions="all",rows="*",columns="*",border=50,
sections="",circle="",div_min="INDEF")
# Corresponding bad pixel mask
imbpm2=iraf.mktemp("iqwircb")+".pl"
iraf.imexpr("abs(x)>%.3f ? 0 : 1" % clipfrac,imbpm2,x=imsurf2)
# Combine bad pixel masks for median + flat
imbpm3=iraf.mktemp("iqwircb")+".pl"
iraf.imexpr("(x>0 || y>0) ? 1 : 0",imbpm3,x=imbpm1,y=imbpm2)
# Calculate the ratio image
imratio=iraf.mktemp("iqwircr")+".fits"
iraf.imexpr("z>0 ? 0 : x/y",imratio,x=imsurf1,y=imsurf2,z=imbpm3)
# Mimstat on the ratio image
mimstat=iraf.mimstatistics(imratio,imasks=imbpm3,omasks="",
fields='image,npix,mean,stddev,min,max,mode',
lower='INDEF',upper='INDEF',nclip=4,
lsigma=5.0,usigma=5.0,binwidth=0.1,
format=no,Stdout=1,Stderr=1)
mimels=mimstat[0].split()
npix=float(mimels[1])
xmult=float(mimels[2])
# Check that a reasonable number of pixels have made the grade
check_exist(outflat,'w',clobber=clobber)
if npix<0.05*npixall:
print "Less than 5% of pixels passed the cut... preserving flatfield"
iraf.imcopy(inflat,outflat,verbose=no)
xmult=1.0
else:
# Create the final flatfield image
iraf.imexpr("x*%.3f + 1" % xmult,outflat,x=imflat1)
# Update header keywords
update_head(outflat,'RESCALE',1,"Flatfield has been rescaled")
update_head(outflat,'ORIGFLAT',inflat,
"Input flatfield name (before rescaling)")
update_head(outflat,'XMULT',xmult,
"Multiplied ORIGFLAT by this factor to rescale")
# Clean up
iraf.imdel(imcmb1,verify=no,go_ahead=yes)
iraf.imdel(imcmb2,verify=no,go_ahead=yes)
iraf.imdel(imsurf1,verify=no,go_ahead=yes)
iraf.imdel(imsurf2,verify=no,go_ahead=yes)
iraf.imdel(imbpm1,verify=no,go_ahead=yes)
iraf.imdel(imbpm2,verify=no,go_ahead=yes)
iraf.imdel(imbpm3,verify=no,go_ahead=yes)
iraf.imdel(imflat1,verify=no,go_ahead=yes)
iraf.imdel(imratio,verify=no,go_ahead=yes)
fitsfiles = sys.argv[1]
mode = sys.argv[2]
spottol = int(sys.argv[3])
fitsfile = average(fitsfiles)
if fitsfile.find('/') is -1:
fitsfile = "%s/%s" % (os.getcwd(), fitsfile)
os.system("rm -f back.fits")
iraf.images()
iraf.images.imfit()
iraf.images.imutil()
iraf.crutil()
iraf.set(uparm="./uparm")
if mode == 'MMIRS':
iraf.imsurfit(fitsfile, 'back.fits', xorder=3, yorder=3, upper=2, lower=2, ngrow=35, rows='[20:510]', columns='[20:510]')
iraf.imarith(fitsfile, '-', 'back.fits', fitsfile)
iraf.cosmicrays(fitsfile,fitsfile,interactive='no',threshold=20,fluxratio=3,window=7)
else:
iraf.imsurfit(fitsfile, 'back.fits', xorder=2, yorder=2, upper=2, lower=2, ngrow=15)
iraf.imarith(fitsfile, '-', 'back.fits', fitsfile)
hdu = rfits(fitsfile)
hdu.verify('fix')
image = hdu.data
hdr = hdu.header
try:
rot = hdr['ROT']
except KeyError:
rot = 0.0
def errore(img,imgpsf,coordlist,size,truemag,fwhm0,leng0,_show,_interactive,_numiter,z11,z22,midpt,nax,nay,xbgord0,ybgord0,_recenter,apco0,dmax,dmin):
import lsc
import os,sys,re,string
from numpy import array,mean,std,compress,average
from pyraf import iraf
if not _numiter: _numiter=3
dartf=100
while dartf>=size-1:
if _interactive:
artfac0 =raw_input('>>> Dispersion of artificial star positions (in units of FWHM) [1] ')
if not artfac0: artfac0=1
else:
artfac0=1
try:
artfac0=float(artfac0)
if float(artfac0)>=size-1:
print '!!! WARNING: '+str(artfac0)+' too large (max '+str(size)+'- 1)'
print 'try again....'
else:
dartf = artfac0
except:
print '#### WARNING: '+str(artfac0)+' should be a number !!!!'
print 'try again....'
lsc.util.delete("tmpar?")
lsc.util.delete('artskyfit.fits')
os.system('cp skyfit.fits artskyfit.fits')
i=0
tmpart=[]
while i<=8:
lsc.util.delete("reserr.fit?,artbg.fit?,artstar.fit?,artres.fit?,artfit.fit?")
artrad = fwhm0/2.
#artseed = artseed+1234
artx = int(i/3.)-1
if i<=2: arty = artx+i
if 3<=i<=5: arty = artx-1+i-3
if i>=6: arty = artx-2+i-6
ff=open(img+".sn.coo",'r')
ss=ff.readline()
ff.close()
xbb=float(string.split(ss)[0])
ybb=float(string.split(ss)[1])
xbb=xbb+artx*fwhm0*artfac0
ybb=ybb+arty*fwhm0*artfac0
lsc.util.delete(coordlist)
ff=open(coordlist,'w')
ff.write(str(xbb)+' '+str(ybb)+' '+str(truemag[0])+" 1")
ff.close()
xb1 = int(float(xbb)-fwhm0*float(leng0)/2)
xb2 = int(float(xbb)+fwhm0*float(leng0)/2)
yb1 = int(float(ybb)-fwhm0*float(leng0)/2)
yb2 = int(float(ybb)+fwhm0*float(leng0)/2)
sec="1 "+str(xb1)+" 1 "+str(nay)+'\n'
sec=sec+str(xb2)+' '+str(nax)+" 1 "+str(nay)+'\n'
sesc=sec+str(xb1)+' '+str(xb2)+" 1 "+str(yb1)+'\n'
sec=sec+str(xb1)+' '+str(xb2)+' '+str(yb2)+' '+str(nay)+'\n'
ff = open('sec','w')
ff.write(sec)
ff.close()
lsc.util.delete("reserr.ar?")
lsc.util.delete("artlist.ma?")
lsc.util.delete("artsky.fit?")
lsc.util.delete("artbg.fit?")
lsc.util.delete("artbgs.fit?")
lsc.util.delete("artsn.fit?")
lsc.util.delete("artres.fit?")
lsc.util.delete("artlist.al?")
iraf.addstar("artskyfit",coordlist,imgpsf,"reserr",nstar=1,veri='no',simple='yes',verb='no')
# reserr = skyfit + artificial star ########
inp = "artbg.fits["+str(xb1)+":"+str(xb2)+","+str(yb1)+":"+str(yb2)+"]"
out = "artsky.fits["+str(xb1)+":"+str(xb2)+","+str(yb1)+":"+str(yb2)+"]"
iraf.imsurfit("reserr","artbg",xorder=xbgord0,yorder=ybgord0,regions="section",section="sec")
midpt=np.mean(fits.getdata('artbg.fits'))
iraf.imcopy('reserr.fits','artsky.fits')
iraf.imcopy(inp,'artbgs.fits')
iraf.imcopy("artbgs.fits",out)
iraf.imarith("reserr","-","artsky","artsn",calctype="r",pixtype="r",verb='no')
iraf.imarith("artsn","+",midpt,"artsn",verb='no')
artap1, artap2, artap3, artmag1, artmag2, artmag3, artfitmag, arttruemag, artmagerr, artcentx, artcenty = \
fitsn(img,imgpsf,coordlist,_recenter,fwhm0,'reserr','artsn','artres',_show,_interactive,dmax,dmin,z11,z22,midpt,size,apco0)
for ii in range(0,_numiter):
lsc.util.delete("reserr.ar?")
lsc.util.delete("artlist.ma?")
lsc.util.delete("artsky.fit?")
lsc.util.delete("artbg.fit?")
lsc.util.delete("artbgs.fit?")
lsc.util.delete("artsn.fit?")
lsc.util.delete("artres.fit?")
lsc.util.delete("artlist.al?")
iraf.imsurfit("skyfit","artbg",xorder=xbgord0,yorder=ybgord0,regions="section",section="sec")
midpt = np.mean(fits.getdata('artbg.fits'))
iraf.imcopy("reserr.fits","artsky.fits")
iraf.imcopy(inp,"artbgs.fits")
iraf.imcopy("artbgs.fits",out)
iraf.imarith("reserr","-","artsky","artsn",calctype="r",pixtype="r",verb='no')
iraf.imarith("artsn.fits","+",midpt,"artsn.fits",verb='no')
artap1, artap2, artap3, artmag1, artmag2, artmag3, artfitmag, arttruemag, artmagerr, artcentx, artcenty = \
fitsn(img,imgpsf,coordlist,_recenter,fwhm0,'reserr','artsn','artres',_show,_interactive,dmax,dmin,z11,z22,midpt,size,0)
#######
if i==0: era='yes'
else: era='no'
artx = .5+.25*artx
arty = .5+.25*arty
if _show:
_tmp1,_tmp2,goon=lsc.util.display_image('skyfit.fits',1,'', '', False, _xcen=artx, _ycen=arty, _xsize=.25, _ysize=.25, _erase=era)
try:
tmpart.append(float(arttruemag[0]))
except: pass
i=i+1
for i in tmpart: print i
print " ########## "
try:
media = mean(array(tmpart))
arterr = std(array(tmpart))
arterr2 = std(compress((average(tmpart)-std(tmpart)<array(tmpart))&(array(tmpart)<average(tmpart)+std(tmpart)),array(tmpart)))
except:
media = 0
arterr = 0
arterr2 = 0
print '### average = %6.6s \t arterr= %6.6s ' % (str(media),str(arterr))
print '### %6.6s \t (error at 1 sigma rejection) ' % (str(arterr2))
lsc.util.delete("reserr.fit?,artbg.fit?,artstar.fit?,artres.fit?,artfit.fit?,artskyfit.fit?")
lsc.util.delete("reserr.ar?")
lsc.util.delete("artlist.co?")
return arterr2,arterr
mode = sys.argv[2]
spottol = int(sys.argv[3])
fitsfile = average(fitsfiles)
if fitsfile.find("/") is -1:
fitsfile = "%s/%s" % (os.getcwd(), fitsfile)
os.system("rm -f back.fits")
iraf.images()
iraf.images.imfit()
iraf.images.imutil()
iraf.crutil()
iraf.set(uparm="./uparm")
if mode == "MMIRS":
iraf.imsurfit(
fitsfile, "back.fits", xorder=3, yorder=3, upper=2, lower=2, ngrow=35, rows="[20:510]", columns="[20:510]"
)
iraf.imarith(fitsfile, "-", "back.fits", fitsfile)
iraf.cosmicrays(fitsfile, fitsfile, interactive="no", threshold=20, fluxratio=3, window=7)
else:
iraf.imsurfit(fitsfile, "back.fits", xorder=2, yorder=2, upper=2, lower=2, ngrow=15)
iraf.imarith(fitsfile, "-", "back.fits", fitsfile)
hdu = rfits(fitsfile)
hdu.verify("fix")
image = hdu.data
hdr = hdu.header
try:
rot = hdr["ROT"]
except KeyError:
rot = 0.0
else:
_xbgord0 = xbgord0
ybgord0 = raw_input(
'>>> Order of function in y for bg fit ? [' + str(_ybgord0) + '] ? ')
if not ybgord0:
ybgord0 = _ybgord0
else:
_ybgord0 = ybgord0
try:
float(xbgord0)
float(ybgord0)
checkorder = 'no'
except:
print 'WARNING: value not valid !!'
checimsurfitkorder = 'yes'
iraf.imsurfit("original", "bg", xorder=xbgord0, yorder=ybgord0, regions="section",
section="sec")
else:
if not _interactive:
print 'select'
xb1 = int(min(xxsn) - fwhm0*_fb)
xb2 = int(max(xxsn) + fwhm0*_fb)
yb1 = int(min(yysn) - fwhm0*_fb)
yb2 = int(max(yysn) + fwhm0*_fb)
else:
lsc.util.delete("tmplabel")
lsc.util.delete("tmptbl")
ff = open('tmplabel', 'w')
ff.write('')
ff.close()
print ">>> Mark corners of bg-region with >b<, exit >q<"
def makefringing(listimg, _output, _xorder, _yorder, _interactive, combine='average', rejection='avsigclip'):
# print "LOGX:: Entering `makefringing` method/function in %(__file__)s" %
# globals()
import os
import string
import re
import ntt
from ntt.util import readhdr, readkey3, delete, updateheader
from pyraf import iraf
from pyfits import open as popen
from numpy import median, where, mean
iraf.noao(_doprint=0)
iraf.nproto(_doprint=0)
if _interactive == True:
listimg2 = []
for img in listimg:
_exptime = readkey3(readhdr(img), 'exptime')
if float(_exptime) >= 100:
answ = 'xxx'
while answ.lower() not in ['y', 'n', 's', 'a']:
iraf.display(img, frame=1, fill='yes')
answ = raw_input(
'use this image (yes,no,stop (not more images),all) [[y]/n/s/a] ? ')
if not answ:
answ = 'y'
if answ.lower() == 'y':
listimg2.append(img)
elif answ.lower() == 'a':
listimg2 = listimg[:]
if answ.lower() in ['a', 's']:
break
listimg = listimg2[:]
iraf.nproto.objmasks1.fitxord = 1
iraf.nproto.objmasks1.fityord = 1
listmask = []
ff = open('_listmask', 'w')
gg = open('_listobg', 'w')
hh = open('_listobgz', 'w')
for img in listimg:
_exptime = readkey3(readhdr(img), 'exptime')
gg.write(img + '\n')
hh.write('z_' + img + '\n')
ff.write('mask_' + img + '\n')
listmask.append('mask_' + img)
os.system('rm -rf mask_' + img)
os.system('rm -rf t_' + img)
os.system('rm -rf z_' + img)
iraf.imsurfit(img, 't_' + img, xorder=_xorder,
yorder=_yorder, type_ou='residual', regions='all')
iraf.imarith('t_' + img, '/', _exptime, 'z_' + img)
os.system('rm -rf t_' + img)
gg.close()
ff.close()
hh.close()
os.system('rm ' + _output)
iraf.objmasks(images='@_listobgz', objmasks='@_listmask', omtype='boolean',
blksize=-16, convolv='block 3 3', hsigma=5, lsigma=3, minpix=10, ngrow=2, agrow=4.)
iraf.imcombine('@_listobgz', output=_output, masktyp='!OBJMASK', maskval=0, combine=_combine, reject=_rejection,
scale='none', statsec='[100:800,100:800]', offsets='', rdnoise='', gain='', nlow=1, nhigh=1, logfile='imcombinelog')
for img in listimg:
os.system('rm -rf mask_' + img)
os.system('rm -rf z_' + img)
os.system('rm _listmask')
os.system('rm _listobg')
iraf.display(_output, frame=2, fill='yes')
def makefringing(listimg,
_output,
_xorder,
_yorder,
_interactive,
combine='average',
rejection='avsigclip'):
# print "LOGX:: Entering `makefringing` method/function in %(__file__)s" %
# globals()
import os
import string
import re
import ntt
from ntt.util import readhdr, readkey3, delete, updateheader
from pyraf import iraf
from pyfits import open as popen
from numpy import median, where, mean
iraf.noao(_doprint=0)
iraf.nproto(_doprint=0)
if _interactive == True:
listimg2 = []
for img in listimg:
_exptime = readkey3(readhdr(img), 'exptime')
if float(_exptime) >= 100:
answ = 'xxx'
while answ.lower() not in ['y', 'n', 's', 'a']:
iraf.display(img, frame=1, fill='yes')
answ = raw_input(
'use this image (yes,no,stop (not more images),all) [[y]/n/s/a] ? '
)
if not answ:
answ = 'y'
if answ.lower() == 'y':
listimg2.append(img)
elif answ.lower() == 'a':
listimg2 = listimg[:]
if answ.lower() in ['a', 's']:
break
listimg = listimg2[:]
iraf.nproto.objmasks1.fitxord = 1
iraf.nproto.objmasks1.fityord = 1
listmask = []
ff = open('_listmask', 'w')
gg = open('_listobg', 'w')
hh = open('_listobgz', 'w')
for img in listimg:
_exptime = readkey3(readhdr(img), 'exptime')
gg.write(img + '\n')
hh.write('z_' + img + '\n')
ff.write('mask_' + img + '\n')
listmask.append('mask_' + img)
os.system('rm -rf mask_' + img)
os.system('rm -rf t_' + img)
os.system('rm -rf z_' + img)
iraf.imsurfit(img,
't_' + img,
xorder=_xorder,
yorder=_yorder,
type_ou='residual',
regions='all')
iraf.imarith('t_' + img, '/', _exptime, 'z_' + img)
os.system('rm -rf t_' + img)
gg.close()
ff.close()
hh.close()
os.system('rm ' + _output)
iraf.objmasks(images='@_listobgz',
objmasks='@_listmask',
omtype='boolean',
blksize=-16,
convolv='block 3 3',
hsigma=5,
lsigma=3,
minpix=10,
ngrow=2,
agrow=4.)
iraf.imcombine('@_listobgz',
output=_output,
masktyp='!OBJMASK',
maskval=0,
combine=_combine,
reject=_rejection,
scale='none',
statsec='[100:800,100:800]',
offsets='',
rdnoise='',
gain='',
nlow=1,
nhigh=1,
logfile='imcombinelog')
for img in listimg:
os.system('rm -rf mask_' + img)
os.system('rm -rf z_' + img)
os.system('rm _listmask')
os.system('rm _listobg')
iraf.display(_output, frame=2, fill='yes')
def errore(size, truemag, fwhm0, leng0):
from pyraf import iraf
import string, os, sys
dartf = 100
while dartf >= size - 1:
artfac0 = raw_input(
'>>> Dispersion of artificial star positions (in units of FWHM) [1] '
)
if not artfac0: artfac0 = 1
try:
artfac0 = float(artfac0)
if float(artfac0) >= size - 1:
print '!!! WARNING: ' + str(
artfac0) + ' too large (max ' + str(size) + '- 1)'
print 'try again....'
else:
dartf = artfac0
except:
print '#### WARNING: ' + str(artfac0) + ' should be a number !!!!'
print 'try again....'
iraf.delete("tmpar?", ve='no')
i = 0
tmpart = []
while i <= 8:
iraf.delete(
"reserr.fit?,artbg.fit?,artstar.fit?,artres.fit?,artfit.fit?,artskyfit.fit?",
ve='no')
artrad = fwhm0 / 2.
#artseed = artseed+1234
artx = int(i / 3.) - 1
if i <= 2: arty = artx + i
if 3 <= i <= 5: arty = artx - 1 + i - 3
if i >= 6: arty = artx - 2 + i - 6
ff = open(img + ".sn.coo", 'r')
ss = ff.readline()
ff.close()
xbb = float(string.split(ss)[0])
ybb = float(string.split(ss)[1])
xbb = xbb + artx * fwhm0 * artfac0
ybb = ybb + arty * fwhm0 * artfac0
print xbb, ybb
iraf.delete("artlist.coo", ve='no')
ff = open("artlist.coo", 'w')
ff.write(str(xbb) + ' ' + str(ybb) + ' ' + str(truemag[0]) + " 1")
ff.close()
xb1 = int(float(xbb) - fwhm0 * float(leng0) / 2)
xb2 = int(float(xbb) + fwhm0 * float(leng0) / 2)
yb1 = int(float(ybb) - fwhm0 * float(leng0) / 2)
yb2 = int(float(ybb) + fwhm0 * float(leng0) / 2)
sec = "1 " + str(xb1) + " 1 " + str(nay) + '\n'
sec = sec + str(xb2) + ' ' + str(nax) + " 1 " + str(nay) + '\n'
sec = sec + str(xb1) + ' ' + str(xb2) + " 1 " + str(yb1) + '\n'
sec = sec + str(xb1) + ' ' + str(xb2) + ' ' + str(yb2) + ' ' + str(
nay) + '\n'
ff = open('sec', 'w')
ff.write(sec)
ff.close()
iraf.delete("reserr.art", ve='no')
iraf.delete("artlist.mag", ve='no')
iraf.delete("artlist.als", ve='no')
iraf.addstar("skyfit",
"artlist.coo",
imgpsf,
"reserr",
nstar=1,
veri='no',
simple='yes')
iraf.imsurfit("reserr",
"artbg",
xorder=xbgord0,
yorder=ybgord0,
regions="section",
section="sec")
iraf.imarith("reserr", "-", "artbg", "artstar")
iraf.phot("artstar", "artlist.coo", "artlist.mag", veri='no')
iraf.allstar("artstar",
"artlist.mag",
imgpsf,
"artlist.als",
"",
"artres",
veri='no',
verb='no')
iraf.imarith("artstar", "-", "artres", "artfit")
iraf.imarith("reserr", "-", "artfit", "artskyfit")
if i == 0: era = 'yes'
else: era = 'no'
artx = .5 + .25 * artx
arty = .5 + .25 * arty
iraf.display("artskyfit",
1,
fill='yes',
erase=era,
xcen=artx,
ycen=arty,
xsize=.25,
ysize=.25)
try:
tmpart.append(
float(
iraf.txdump("artlist.als", "mag", expr='yes',
Stdout=1)[0]))
except:
pass
i = i + 1
for i in tmpart:
print i
print " ########## "
try:
media = mean(array(tmpart))
arterr = std(array(tmpart))
arterr2 = std(
compress((average(tmpart) - std(tmpart) < array(tmpart)) &
(array(tmpart) < average(tmpart) + std(tmpart)),
array(tmpart)))
except:
media = 0
arterr = 0
arterr2 = 0
print '### average = %6.6s \t arterr= %6.6s ' % (str(media), str(arterr))
print '### %6.6s \t (error at 1 sigma rejection) ' % (str(arterr2))
iraf.delete(
"reserr.fit?,artbg.fit?,artstar.fit?,artres.fit?,artfit.fit?,artskyfit.fit?",
ve='no')
iraf.delete("reserr.art", ve='no')
iraf.delete("artlist.*", ve='no')
return arterr2, arterr