def run_elli(input, xcntr, ycntr, eg, pa, sma):#,radd,background):
iraf.stsdas(_doprint=0)
iraf.tables(_doprint=0)
iraf.stsdas.analysis(_doprint=0)
iraf.stsdas.analysis.isophote(_doprint=0)
image_exist = 1
if(str(input)[:3] == 'ima'):
output = 'elli_' + input[6:-4] + 'txt'
if(str(input)[:3] == 'out'):
output = 'out_elli_' + str(input)[4:-7] + 'txt'
#unlearn geompar controlpar samplepar magpar ellipse
iraf.geompar(x0=xcntr, y0=ycntr, ellip0=eg, pa0=pa, sma0=10, minsma=0.1, \
maxsma=sma*5.0, step=0.1,recente="yes")
iraf.controlpar(conver=0.05, minit=10, maxit=50, hcenter="no", hellip="no",\
hpa="no", wander="", maxgerr=0.5, olthres=1,soft="no")
iraf.samplepar(integrm="bi-linear", usclip=3,lsclip=3, nclip=0, fflag=0.5)
iraf.magpar(mag0=0, refer=1, zerolev=0)
iraf.ellipse("".join(input), output="test", interac="no",Stdout="ellip", \
Stderr="err")
iraf.tprint("test.tab", prparam="no", prdata="yes", pwidth=80, plength=0, \
showrow="no", orig_row="no", showhdr="no", showunits="no", \
columns="SMA, INTENS, INT_ERR, MAG, MAG_LERR, MAG_UERR",\
rows="-", \
option="plain", align="yes", sp_col="", lgroup=0, Stdout=output)
for myfile in ['ellip','err','test.tab']:
if os.access(myfile,os.F_OK):
os.remove(myfile)
def run_elli_full(cutimage, output, xcntr, ycntr, eg, pa, sma,
sky): #,radd,background):
"""The function responsible for fit ellipse"""
EllGal = c.outdir + 'GalEllFit.fits'
fEl = pyfits.open(os.path.join(c.datadir, cutimage))
GaLaXy = fEl[0].data
fEl.close()
GaLaXy = GaLaXy - sky
hdu = pyfits.PrimaryHDU(GaLaXy.astype(n.float32))
hdu.writeto(EllGal)
try:
iraf.stsdas(_doprint=0)
iraf.tables(_doprint=0)
iraf.stsdas.analysis(_doprint=0)
iraf.stsdas.analysis.isophote(_doprint=0)
except:
iraf.stsdas()
iraf.tables()
iraf.stsdas.analysis()
iraf.stsdas.analysis.isophote()
image_exist = 1
iraf.unlearn('geompar')
iraf.geompar.x0 = xcntr
iraf.geompar.y0 = ycntr
iraf.geompar.ellip0 = eg
iraf.geompar.pa0 = pa
iraf.geompar.sma0 = 6.0
iraf.geompar.minsma = 0.1
iraf.geompar.maxsma = sma * 5.0
iraf.geompar.step = 0.1
iraf.geompar.recente = "no"
iraf.geompar.xylearn = "no"
iraf.unlearn('controlpar')
iraf.controlpar.conver = 0.05
iraf.controlpar.minit = 10
iraf.controlpar.maxit = 50
iraf.controlpar.hcenter = "no"
iraf.controlpar.hellip = "no"
iraf.controlpar.hpa = "no"
iraf.controlpar.wander = "INDEF"
iraf.controlpar.maxgerr = 0.5
iraf.controlpar.olthres = 1
iraf.controlpar.soft = "no"
iraf.samplepar.integrm = "bi-linear"
iraf.samplepar.usclip = 3
iraf.samplepar.lsclip = 3
iraf.samplepar.nclip = 0
iraf.samplepar.fflag = 0.5
iraf.unlearn('ellipse')
iraf.ellipse("".join(EllGal), output="test", interac="no",Stdout="ellip", \
Stderr="err")
iraf.tprint("test.tab", prparam="no", prdata="yes", pwidth=80, plength=0, \
showrow="no", orig_row="no", showhdr="no", showunits="no", \
columns="SMA, INTENS, INT_ERR, ELLIP, ELLIP_ERR, PA, PA_ERR, \
MAG, MAG_LERR, MAG_UERR, TMAG_E, TMAG_C, A3, \
A3_ERR, B3, B3_ERR, A4, A4_ERR, B4_ERR" , rows="-", \
option="plain", align="yes", sp_col="", lgroup=0, Stdout=output)
for myfile in ['ellip', 'err', 'test.tab', EllGal]:
if os.access(c.outdir + myfile, os.F_OK):
os.remove(c.outdir + myfile)
def run_elli_full(input, output, xcntr, ycntr, eg, pa, sma, sky):#,radd,background):
"""The function responsible for fit ellipse"""
EllGal = 'GalEllFit.fits'
fEl = pyfits.open(input)
GaLaXy = fEl[0].data
fEl.close()
GaLaXy = GaLaXy - sky
hdu = pyfits.PrimaryHDU(GaLaXy.astype(n.float32))
hdu.writeto(EllGal)
try:
iraf.stsdas(_doprint=0)
iraf.tables(_doprint=0)
iraf.stsdas.analysis(_doprint=0)
iraf.stsdas.analysis.isophote(_doprint=0)
except:
iraf.stsdas()
iraf.tables()
iraf.stsdas.analysis()
iraf.stsdas.analysis.isophote()
image_exist = 1
iraf.unlearn('geompar')
iraf.geompar.x0=xcntr
iraf.geompar.y0=ycntr
iraf.geompar.ellip0=eg
iraf.geompar.pa0=pa
iraf.geompar.sma0=6.0
iraf.geompar.minsma=0.1
iraf.geompar.maxsma=sma*5.0
iraf.geompar.step=0.1
iraf.geompar.recente="no"
iraf.geompar.xylearn="no"
iraf.unlearn('controlpar')
iraf.controlpar.conver=0.05
iraf.controlpar.minit=10
iraf.controlpar.maxit=50
iraf.controlpar.hcenter="no"
iraf.controlpar.hellip="no"
iraf.controlpar.hpa="no"
iraf.controlpar.wander="INDEF"
iraf.controlpar.maxgerr=0.5
iraf.controlpar.olthres=1
iraf.controlpar.soft="no"
iraf.samplepar.integrm="bi-linear"
iraf.samplepar.usclip=3
iraf.samplepar.lsclip=3
iraf.samplepar.nclip=0
iraf.samplepar.fflag=0.5
iraf.unlearn('ellipse')
iraf.ellipse("".join(EllGal), output="test", interac="no",Stdout="ellip", \
Stderr="err")
iraf.tprint("test.tab", prparam="no", prdata="yes", pwidth=80, plength=0, \
showrow="no", orig_row="no", showhdr="no", showunits="no", \
columns="SMA, INTENS, INT_ERR, ELLIP, ELLIP_ERR, PA, PA_ERR, \
MAG, MAG_LERR, MAG_UERR, TMAG_E, TMAG_C, A3, \
A3_ERR, B3, B3_ERR, A4, A4_ERR, B4_ERR", rows="-", \
option="plain", align="yes", sp_col="", lgroup=0, Stdout=output)
for myfile in ['ellip','err','test.tab', EllGal]:
if os.access(myfile,os.F_OK):
os.remove(myfile)
def run_elli(input, output, xcntr, ycntr, eg, pa, sma):#,radd,background):
"""The function resposible for fit ellipse"""
iraf.stsdas(_doprint=0)
iraf.tables(_doprint=0)
iraf.stsdas.analysis(_doprint=0)
iraf.stsdas.analysis.isophote(_doprint=0)
image_exist = 1
# if(str(input)[:3] == 'ima'):
# output = 'elli_' + input[6:-4] + 'txt'
# if(str(input)[:3] == 'out'):
# output = 'out_elli_' + str(input)[4:-7] + 'txt'
# else:
# output = 'elli_' + input[:-5] + '.txt'
#unlearn geompar controlpar samplepar magpar ellipse
iraf.unlearn('geompar')
iraf.geompar.x0=xcntr
iraf.geompar.y0=ycntr
iraf.geompar.ellip0=eg
iraf.geompar.pa0=pa
iraf.geompar.sma0=10
iraf.geompar.minsma=0.1
iraf.geompar.maxsma=sma*5.0
iraf.geompar.step=0.1
iraf.geompar.recente="no"
iraf.geompar.xylearn="no"
iraf.unlearn('controlpar')
iraf.controlpar.conver=0.05
iraf.controlpar.minit=10
iraf.controlpar.maxit=50
iraf.controlpar.hcenter="no"
iraf.controlpar.hellip="no"
iraf.controlpar.hpa="no"
iraf.controlpar.wander="INDEF"
iraf.controlpar.maxgerr=0.5
iraf.controlpar.olthres=1
iraf.controlpar.soft="no"
iraf.samplepar.integrm="bi-linear"
iraf.samplepar.usclip=3
iraf.samplepar.lsclip=3
iraf.samplepar.nclip=0
iraf.samplepar.fflag=0.5
iraf.magpar.mag0=c.mag_zero
iraf.magpar.refer=1
iraf.magpar.zerolev=0
iraf.ellipse("".join(input), output="test", interac="no",Stdout="ellip", \
Stderr="err")
iraf.tprint("test.tab", prparam="no", prdata="yes", pwidth=80, plength=0, \
showrow="no", orig_row="no", showhdr="no", showunits="no", \
columns="SMA, INTENS, INT_ERR, MAG, MAG_LERR, MAG_UERR, \
TFLUX_E", rows="-", \
option="plain", align="yes", sp_col="", lgroup=0, Stdout=output)
for myfile in ['ellip','err','test.tab']:
if os.access(myfile,os.F_OK):
os.remove(myfile)
def getBgrd(tablename):
iraf.tables()
dumpfile = tablename + '_dump.txt'
try:
os.remove(dumpfile)
except OSError:
pass
iraf.tdump(table=tablename, columns='INTENS', datafile=dumpfile)
file = open(dumpfile, "r")
lineList = file.readlines()
lastLine = lineList[-1]
lastLine = lastLine.replace('\t', '')
lastLine = lastLine.replace('\s', '')
lastLine = lastLine.replace('\n', '')
bg = float(lastLine)
file.close()
os.remove(dumpfile)
print(bg)
threshold = float(coordLines[27].split()[3])
coordFile.close()
print(objname, filter_, fwhm, sigma, threshold)
print('creating psf...')
iraf.images(_doprint=0)
iraf.tv(_doprint=0)
iraf.ptools(_doprint=0)
iraf.noao(_doprint=0)
iraf.digiphot(_doprint=0)
iraf.photcal(_doprint=0)
iraf.apphot(_doprint=0)
iraf.imutil(_doprint=0)
iraf.daophot(_doprint=0)
iraf.tables(_doprint=0)
iraf.unlearn(iraf.ptools.pselect, iraf.tables.tcreate, iraf.tables.tmatch,
iraf.tables.tinfo, iraf.tables.tdump)
# first measure the psf for the image
iraf.unlearn(iraf.phot, iraf.datapars, iraf.photpars, iraf.centerpars,
iraf.fitskypars)
iraf.apphot.phot.setParam('interactive', "no")
iraf.apphot.phot.setParam('verify', "no")
iraf.datapars.setParam('datamax', "INDEF")
iraf.datapars.setParam('gain', "gain")
iraf.datapars.setParam('ccdread', "rdnoise")
iraf.datapars.setParam('exposure', "exptime")
iraf.datapars.setParam('airmass', "airmass")
os.system(s)
repeatflag = 0
print 'i think repeatflag = 0 ', repeatflag
print 'repeatflag = ', repeatflag
os.system('mkdir Finished')
os.system('mkdir NearbyObjects')
os.system('mkdir PartialImages')
os.system('mkdir OffCenter')
raw_input('Make sure ds9 is open. Hit return when ready.')
iraf.stsdas()
iraf.analysis()
iraf.isophote()
iraf.tables()
iraf.ttools()
mipsfiles = glob.glob('*cutout-24.fits')
mipsfiles.sort()
mipswcsfiles = glob.glob('*cutout-24-rot.fits')
mipswcsfiles.sort()
sdssrfiles = glob.glob('*cutout-sdss.fits')
sdssrfiles.sort()
ipa = 0
xcenter = 23.0
ycenter = 23.0
minr = 2
initialr = 6
print 'i think repeatflag = 0', repeatflag
return
else:
s='mv *'+imprefix+'* Finished/'
os.system(s)
repeatflag=0
print 'i think repeatflag = 0 ', repeatflag
print 'repeatflag = ',repeatflag
raw_input('Make sure ds9 is open. Hit return when ready.')
iraf.stsdas()
iraf.analysis()
iraf.isophote()
iraf.tables()
iraf.ttools()
#t=os.getcwd()
#s=t.split('cutouts')
#t=s[1].split('/')
#prefix=t[1]
#s=prefix+'*cutout-24.fits'
#mipsfiles=glob.glob(s)
#s=prefix+'*cutout-sdss.fits'
#print s
fileprefix=sys.argv[1]
print fileprefix
sdssrfiles=glob.glob(fileprefix)
print sdssrfiles
for n in self.dataset.frames:
basename = os.path.splitext(os.path.basename(self.dataset.frames[n]['irafpath']))[0]
shutil.copy(os.path.join(self.pars.wdir, self.dataset.masterdir, 'master.final'),
os.path.join(self.pars.wdir, self.irafphotdir, basename + '.coord'))
f2.write(os.path.join(self.pars.wdir, self.irafphotdir, basename + '.phot') + '\n')
f3.write(os.path.join(self.pars.wdir, self.irafphotdir, basename + '.coord') + '\n')
f2.close()
f3.close()
logging.info('Photometry will be performed using the following apertures: %s' % self. apsizestr)
# initialize IRAF
iraf.noao(Stdout=1)
iraf.digiphot(Stdout=1)
iraf.daophot(Stdout=1, verify='no')
iraf.tables(Stdout=1)
iraf.ttools(Stdout=1)
iraf.astutil(Stdout=1)
# set some parameters for iraf photometry
iraf.fitskypars.setParam('salgori', self.pars.iraf_phot['salgori'])
iraf.fitskypars.setParam('annulus', self.pars.iraf_phot['annulus'])
iraf.fitskypars.setParam('dannulu', self.pars.iraf_phot['dannulu'])
iraf.centerpars.setParam('calgori', self.pars.iraf_phot['calgori'])
iraf.centerpars.setParam('cbox', self.pars.iraf_phot['cbox'])
iraf.centerpars.setParam('maxshif', self.pars.iraf_phot['maxshif'])
iraf.photpars.setParam('apertur', self.apsizestr)
o = iraf.phot(image='@'+os.path.join(self.pars.wdir, self.dataset.framesdir, 'imagelist'), wcsin='world',
coords='@'+os.path.join(self.pars.wdir, self.irafphotdir, 'coordlist'),
output='@'+os.path.join(self.pars.wdir, self.irafphotdir, 'outputlist'),
threshold = float(coordLines[27].split()[3])
coordFile.close()
print(objname, filter_, fwhm, sigma, threshold)
print('creating psf...')
iraf.images(_doprint=0)
iraf.tv(_doprint=0)
iraf.ptools(_doprint=0)
iraf.noao(_doprint=0)
iraf.digiphot(_doprint=0)
iraf.photcal(_doprint=0)
iraf.apphot(_doprint=0)
iraf.imutil(_doprint=0)
iraf.daophot(_doprint=0)
iraf.tables(_doprint=0)
iraf.unlearn(iraf.ptools.pselect,iraf.tables.tcreate,iraf.tables.tmatch,iraf.tables.tinfo,iraf.tables.tdump)
# first measure the psf for the image
iraf.unlearn(iraf.phot,iraf.datapars,iraf.photpars,iraf.centerpars,iraf.fitskypars)
iraf.apphot.phot.setParam('interactive',"no")
iraf.apphot.phot.setParam('verify',"no")
iraf.datapars.setParam('datamax',"INDEF")
iraf.datapars.setParam('gain',"gain")
iraf.datapars.setParam('ccdread',"rdnoise")
iraf.datapars.setParam('exposure',"exptime")
iraf.datapars.setParam('airmass',"airmass")
iraf.datapars.setParam('filter',"filter")
iraf.datapars.setParam('obstime',"time-obs")