def time_calibration(input_file):
"""
Obtain the calibration for time (hjd) by pyraf and the airmass for each image. Include in the header all information.
"""
original_path = os.getcwd()
save_path = input_file['save_path']
#change to save data reduction directory
os.chdir(save_path)
print '\n Reading the list of images ....\n'
planet = input_file['exoplanet'] #set exoplanet name
images = sorted(glob.glob('AB'+planet+'*.fits'))
print images
#include de RA,DEC and epoch of the exoplanet
RA,DEC,epoch = input_file['RA'],input_file['DEC'],input_file['epoch']
#obtain ST JD using iraf task and introduce in the header
for i in range(len(images)):
hdr = fits.getheader(images[i])
if int(split(hdr['UT'],':')[0]) < int(hdr['timezone']):
new_date = use.yesterday(hdr['date-obs'])
#print images[i], new_date
else:
new_date = hdr['date-obs']
year,month,day = split(new_date,'-')
iraf.asttimes(year=year,month=month,day=day,time=hdr['loctime'],obs=input_file['observatory'])
JD = iraf.asttimes.jd #obtain julian date
LMST = iraf.asttimes.lmst #obtain the sideral time
LMST = use.sexagesimal_format(LMST) #convert sideral time in sexagesimal format
iraf.hedit(images[i],'ST',LMST,add='yes',verify='no',show='no',update='yes') #create the ST keyword in the header
iraf.ccdhedit(images[i],'LMST',LMST,type='string') #include the mean sideral time in the header
iraf.ccdhedit(images[i],'JD',JD,type='string') #include de julian date in the header
#include RA, and DEC of the object in your header
iraf.ccdhedit(images[i],"RA",RA,type="string") #include right ascention in the header
iraf.ccdhedit(images[i],"DEC",DEC,type="string") #include declination in the header
iraf.ccdhedit(images[i],"epoch",epoch,type="string") #include epoch in the header
# use.update_progress((i+1.)/len(images))
print '\n Setting airmass ....\n'
for i in range(len(images)):
print '# ',images[i]
#iraf.hedit(images[i],'airmass',airmass,add='yes')
#iraf.hedit(images[i],'HJD',HJD,add='yes')
iraf.setairmass.observatory = input_file['observatory']
iraf.setairmass(images[i])
iraf.setjd.time = 'ut'
iraf.setjd(images[i])
print '\n.... done.\n'
#export information
hjd, jd, airmass, st = [],[],[],[]
for i in range(len(images)):
hdr = fits.getheader(images[i])
hjd.append(hdr['HJD'])
jd.append(hdr['JD'])
airmass.append(hdr['airmass'])
st.append(hdr['st'])
#saving the data
data = DataFrame([list(hjd),list(jd),list(st),list(airmass)]).T
data.columns = ['HJD','JD','ST','Airmass']
data.to_csv('results_iraf_calibrations.csv')
#change to workings directory
os.chdir(original_path)
return
def get_jd(fn):
try:
val = pyfits.getval(fn, 'JD')
return val
except KeyError:
from pyraf import iraf
iraf.hedit(images=fn,
fields='OBSERVAT',
value='ca',
add='Yes',
addonly='Yes',
delete='No',
verify='No',
show='Yes',
update='Yes')
iraf.setjd(images=fn,
observatory='ca',
date='date-obs',
time='date-obs',
exposure='exptime',
ra='ra',
dec='dec',
epoch='EQUINOX',
utdate='Yes',
uttime='Yes')
val = pyfits.getval(fn, 'JD')
return val
iraf.ccdhedit(images[i],'JD',JD,type='string') #include de julian date in the header
#include RA, and DEC of the object in your header
iraf.ccdhedit(images[i],"RA",RA,type="string") #include right ascention in the header
iraf.ccdhedit(images[i],"DEC",DEC,type="string") #include declination in the header
iraf.ccdhedit(images[i],"epoch",epoch,type="string") #include epoch in the header
# use.update_progress((i+1.)/len(images))
print '\n Setting airmass ....\n'
for i in range(len(images)):
print '# ',images[i]
#iraf.hedit(images[i],'airmass',airmass,add='yes')
#iraf.hedit(images[i],'HJD',HJD,add='yes')
iraf.setairmass.observatory = input_data['observatory']
iraf.setairmass(images[i])
iraf.setjd.time = 'ut'
iraf.setjd(images[i])
print '\n.... done.\n'
#export information
hjd, jd, airmass, st = [],[],[],[]
for i in range(len(images)):
hdr = fits.getheader(images[i])
hjd.append(hdr['HJD'])
jd.append(hdr['JD'])
airmass.append(hdr['airmass'])
st.append(hdr['st'])
#saving the data
data = DataFrame([list(hjd),list(jd),list(st),list(airmass)]).T
data.columns = ['HJD','JD','ST','Airmass']
data.to_csv('results_iraf_calibrations.csv')
iraf.hedit(ifile,
'UTMIDDLE',
value=utmiddle.strftime('%H:%M:%S.%f'),
add=yes,
delete=no,
addonly=no,
verify=no)
flist.close()
print 'Setting Julian Date Keywords'
iraf.setjd('@targets_extracted',
date='date-obs',
exposure='exptime',
ra='ra',
dec='dec',
epoch='equinox',
utdate=yes,
uttime=yes,
listonly=no)
iraf.setairmass('@targets_extracted',
date='date-obs',
exposure='exptime',
ra='ra',
dec='dec',
equinox='equinox',
utmiddle='utmiddle',
st='lst',
airmass='airmass',
show=yes,
update=yes,
VHELIO = retrieve_RV(object_name, RV_standard_dat)
append_VHELIO(file_location, str(VHELIO))
############################
### Apply header changes ###
############################
### Apply setJD to both images
iraf.setjd(
images="normspec_" + file_name + "," + RV_Standards,
observatory=")_.observatory",
date="date-obs",
time="ut",
exposure="exptime",
ra="ra",
dec="dec",
epoch="equinox",
jd="jd",
hjd="hjd",
ljd="ljd",
utdate=1,
uttime=1,
listonly=0,
)
### Add required header information to both images
### Add EPOCH keyward to fits header
iraf.hedit(
images="normspec_" + file_name + "," + RV_Standards,
fields="EPOCH",
value="2000.0",
add=1,
os.system("mv -f n_synthetic.fits synthetic.fits")
#################
### Run fxcor ###
#################
### Apply setJD to object image
iraf.setjd(
images = "normspec_" + file_name,\
observatory = ")_.observatory",\
date = "date-obs",\
time = "ut",\
exposure = "exptime",\
ra = "ra",\
dec = "dec",\
epoch = "equinox",\
jd = "jd",\
hjd = "hjd",\
ljd = "ljd",\
utdate = 1,\
uttime = 1,\
listonly = 0)
### Add required header information to object image
### Add EPOCH keyward to fits header
iraf.hedit(
images = "normspec_" + file_name,\
fields = "EPOCH",\
value = "2000.0",\
add = 1,\
print '\nThis is the list of local time: \n'
print '\nImage ** Local Time (isot format) ** Sideral Time (hours min seg)\n'
for i in range(len(images)):
print images[i], ' ** ', local_time[i], ' ** ', sideraltime[i]
print '\nSetting coordinates to our ' + planet + ': \n'
RA = Angle(file['RA'] + file['u.RA'])
DEC = Angle(file['DEC'] + file['u.DEC'])
coordinates = SkyCoord(RA, DEC, frame=file['frame'])
print '\nCoordinates: ', coordinates
print '\nIncluding RA,DEC,epoch in the header of the images ....\n'
#RA in hours
for i in range(len(images)):
iraf.ccdhedit(images[i], 'RA', coordinates.ra.hour, type='string')
iraf.ccdhedit(images[i], 'DEC', coordinates.dec.deg, type='string')
iraf.ccdhedit(images[i], 'epoch', file['epoch'], type='string')
iraf.ccdhedit(images[i], 'st', sideraltime[i].hour, type='string')
update_progress((i + 1.) / len(images))
print '\nCalibrating your airmass correction: \n'
print 'Setting observatory: ', file['observatory']
iraf.setairmass('AB' + planet + '*.fits')
iraf.setairmass.observatory = file['observatory']
print '\n.... done.\n'
#Setting Julian Date
print '\n Setting Julian Date\n'
iraf.setjd.time = "ut"
iraf.setjd('AB' + planet + '*.fist')
print '\n.... done.\n'
print '\nImage ** Local Time (isot format) ** Sideral Time (hours min seg)\n'
for i in range(len(images)):
print images[i],' ** ',local_time[i],' ** ',sideraltime[i]
print '\nSetting coordinates to our '+planet+': \n'
RA = Angle(file['RA']+file['u.RA'])
DEC = Angle(file['DEC']+file['u.DEC'])
coordinates = SkyCoord(RA,DEC,frame=file['frame'])
print '\nCoordinates: ',coordinates
print '\nIncluding RA,DEC,epoch in the header of the images ....\n'
#RA in hours
for i in range(len(images)):
iraf.ccdhedit(images[i],'RA',coordinates.ra.hour,type='string')
iraf.ccdhedit(images[i],'DEC',coordinates.dec.deg,type='string')
iraf.ccdhedit(images[i],'epoch',file['epoch'],type='string')
iraf.ccdhedit(images[i],'st',sideraltime[i].hour,type='string')
update_progress((i+1.)/len(images))
print '\nCalibrating your airmass correction: \n'
print 'Setting observatory: ',file['observatory']
iraf.setairmass('AB'+planet+'*.fits')
iraf.setairmass.observatory = file['observatory']
print '\n.... done.\n'
#Setting Julian Date
print '\n Setting Julian Date\n'
iraf.setjd.time = "ut"
iraf.setjd('AB'+planet+'*.fist')
print '\n.... done.\n'
def Rename(im,FLAG_END=False):
#FLAG_END = False
BIN1X1 = '1 1'
BIN2X2 = '2 2'
BIN3X3 = '3 3'
BIN4X4 = '4 4'
while True:
oldname = im.name.split('.')
newname = os.path.join(im.path,oldname[1] + '.' + oldname[0] + '.' + oldname[2])
acqnewname = os.path.join(im.path,oldname[1] + 'acq.' + oldname[0] + '.' + oldname[2])
# acqnewname = oldname[1] + '.' + oldname[0] + '.' + oldname[2]
if os.path.isfile(newname):
print "Goodname already exist!"
pass
else:
if os.path.isfile(im.fname):
if PYRAF:
fimg = pyfits.open(im.fname,ignore_missing_end=True)
imhdr = fimg[0].header
CCDSUM = imhdr['CCDSUM']
IMTITLE = imhdr['OBJECT']
if 'acq' in IMTITLE:
newname = acqnewname
i.imcopy(im.fname+'[*,*,1]',newname)
elif 'HgAr' in IMTITLE:
i.imcopy(im.fname+'[*,*,1]',newname)
i.hedit(newname,fields='OBSTYPE',value='COMP', update='yes',addonly='no',delete='no',verify='no')
elif 'Quartz' in IMTITLE:
i.imcopy(im.fname+'[*,*,1]',newname)
i.hedit(newname,fields='OBSTYPE',value='FLAT', update='yes',addonly='no',delete='no',verify='no')
else:
i.imcopy(im.fname+'[*,*,1]',newname)
i.astutil(_doprint=0)
i.hedit(newname,fields='OBSERVAT',value='SOAR',add='yes',verify='no')
i.hedit(newname,fields='EPOCH',value='2000',add='yes',verify='no')
i.setjd.setParam('time','UT')
i.setjd(newname)
if CCDSUM == BIN1X1:
i.hedit(newname,fields='DETSIZE',value='[1:4069,1:1896]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='DATASEC',value='[28:4096,1:1896]',update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='TRIMSEC',value='[28:4096,1:1896]',update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='DETSEC', value='[1:4069,1:1896]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='CCDSEC', value='[1:4069,1:1896]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='CCDSIZE',value='[1:4069,1:1896]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='BIASSEC',value='[5:15,40:1860]', update='yes',addonly='no',delete='no',verify='no')
elif CCDSUM == BIN2X2:
print "2x2"
i.hedit(newname,fields='DETSIZE',value='[1:2071,1:948]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='TRIMSEC',value='[12:2054,1:948]',update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='CCDSIZE',value='[1:2071,1:948]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='DETSEC', value='[1:2071,1:948]', update='yes',addonly='yes',delete='no',verify='no')
i.hedit(newname,fields='BIASSEC',value='[2:8,20:930]', update='yes',addonly='yes',delete='no',verify='no')
i.hedit(newname,fields='CCDSEC', value='[1:2071,1:948]', update='yes',addonly='yes',delete='no',verify='no')
elif CCDSUM == BIN3X3:
print "3x3"
i.hedit(newname,fields='DETSIZE',value='[1:1356,1:632]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='TRIMSEC',value='[10:1365,1:632]',update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='CCDSIZE',value='[1:1356,1:632]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='DETSEC', value='[1:1356,1:632]', update='yes',addonly='yes',delete='no',verify='no')
i.hedit(newname,fields='BIASSEC',value='[3:5,13:629]', update='yes',addonly='yes',delete='no',verify='no')
i.hedit(newname,fields='CCDSEC', value='[1:1356,1:632]', update='yes',addonly='yes',delete='no',verify='no')
elif CCDSUM == BIN4X4:
print "4x4"
i.hedit(newname,fields='DETSIZE',value='[1:1036,1:474]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='TRIMSEC',value='[6:1028,1:474]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='CCDSIZE',value='[1:1036,1:474]', update='yes',addonly='no',delete='no',verify='no')
i.hedit(newname,fields='DETSEC', value='[1:1036,1:474]', update='yes',addonly='yes',delete='no',verify='no')
i.hedit(newname,fields='BIASSEC',value='[1:4,10:465]', update='yes',addonly='yes',delete='no',verify='no')
i.hedit(newname,fields='CCDSEC', value='[1:1036,1:474]', update='yes',addonly='yes',delete='no',verify='no')
else:
print "ERROR: It's neither 1x1, 2x2, 3x3 or 4x4."
return -1
#sys.exit(1)
if not im.next:
return newname
#sys.exit(1)
if FLAG_END:
return newname
break
else:
im.add()