def airmass(img,overwrite=True,_observatory='lasilla'):
import lsc
from lsc.util import readhdr,readkey3, delete, updateheader
from pyraf import iraf
iraf.astutil(_doprint=0)
hdr=readhdr(img)
if readkey3(hdr,'UTC'):
_UT=(readkey3(hdr,'UTC')+(readkey3(hdr,'exptime')/2))/3600
_date=readkey3(hdr,'date-obs')
_date=_date[0:4]+'-'+_date[4:6]+'-'+_date[6:8]
_RA=readkey3(hdr,'RA')/15
_DEC=readkey3(hdr,'DEC')
f = file('airmass.txt','w')
f.write('mst = mst ("'+str(_date)+'",'+str(_UT)+', obsdb ("'+str(_observatory)+'", "longitude"))\n')
f.write('air = airmass ('+str(_RA)+','+str(_DEC)+',mst, obsdb ("'+str(_observatory)+'", "latitude"))\n')
f.write('print(air)\n')
f.close()
_air=iraf.astcalc(image=img, command="airmass.txt",Stdout=1)[0]
try: _air=float(_air)
except: _air=999
delete('airmass.txt')
if overwrite and _air<99.:
updateheader(img,0,{'AIRMASS':(_air,'mean airmass computed with astcalc')})
else: _air=''
return _air
def airmass(img, overwrite=True, _observatory='lasilla'):
import lsc
from lsc.util import readhdr, readkey3, delete, updateheader
from pyraf import iraf
iraf.astutil(_doprint=0)
hdr = readhdr(img)
if readkey3(hdr, 'UTC'):
_UT = (readkey3(hdr, 'UTC') + (readkey3(hdr, 'exptime') / 2)) / 3600
_date = readkey3(hdr, 'date-obs')
_date = _date[0:4] + '-' + _date[4:6] + '-' + _date[6:8]
_RA = readkey3(hdr, 'RA') / 15
_DEC = readkey3(hdr, 'DEC')
f = file('airmass.txt', 'w')
f.write('mst = mst ("' + str(_date) + '",' + str(_UT) + ', obsdb ("' +
str(_observatory) + '", "longitude"))\n')
f.write('air = airmass (' + str(_RA) + ',' + str(_DEC) +
',mst, obsdb ("' + str(_observatory) + '", "latitude"))\n')
f.write('print(air)\n')
f.close()
_air = iraf.astcalc(image=img, command="airmass.txt", Stdout=1)[0]
try:
_air = float(_air)
except:
_air = 999
delete('airmass.txt')
if overwrite and _air < 99.:
updateheader(
img, 0,
{'AIRMASS': (_air, 'mean airmass computed with astcalc')})
else:
_air = ''
return _air
def setairmass(inim, obs, ra, dec):
"""
setairmass -- update image headers with the effective airmass
obs -- SAO1-m : "sao"
ra -- target ra hh:mm:ss
dec -- target dec dd:mm:ss
location -- Put your observatory information.
*** Hourly airmass for Feige 56 ***
Epoch 2000.00: RA 12 06 47.3, dec 11 40 13
Epoch 2019.35: RA 12 07 46.6, dec 11 33 45
At midnight: UT date 2019 May 10, Moon 0.33 illum, 59 degr from obj
Local UT LMST HA secz par.angl. SunAlt MoonAlt
22 00 11 00 10 40 -1 28 1.186 -33.6 -6.3 52.1
23 00 12 00 11 40 -0 28 1.119 -12.4 -16.3 40.7
0 00 13 00 12 40 0 32 1.121 14.2 ... 29.1
1 00 14 00 13 40 1 32 1.194 34.7 ... 17.7
2 00 15 00 14 40 2 33 1.363 46.2 ... 6.6
3 00 16 00 15 40 3 33 1.701 51.8 ... ...
4 00 17 00 16 41 4 33 2.436 53.9 ... ...
5 00 18 00 17 41 5 33 4.691 53.8 ... ...
6 00 19 00 18 41 6 33 (v.low) 51.8 -15.8 ...
7 00 20 00 19 41 7 33 (down) 47.9 -5.7 ...
"""
import glob
import os, sys
from pyraf import iraf
from astropy.time import Time
from astropy.io import fits
from astropy import units as u
hdr = fits.getheader(inim)
t = Time(hdr['date-obs'],
format='isot',
scale='utc',
location=(126.95333299999999 * u.deg, 37.45704167 * u.deg,
190 * u.m))
st = t.sidereal_time('apparent') # in hourangle
set_observatory(obs)
st_hms = str(int(st.hms.h)).zfill(2) + ':' + str(int(
st.hms.m)).zfill(2) + ':' + str(int(st.hms.s)).zfill(2)
iraf.hedit(images=inim, fields='st', value=st_hms, add='yes', verify='yes')
iraf.hedit(images=inim, fields='ra', value=ra, add='yes', verify='yes')
iraf.hedit(images=inim, fields='dec', value=dec, add='yes')
print('OK.')
iraf.astutil()
iraf.setairmass(images=inim,
observatory=obs,
equinox='epoch',
date="date-obs",
exposure="exptime",
airmass="airmass",
show='yes',
ut="date-obs",
override='yes')
def ImportPackages():
iraf.noao(_doprint=0)
iraf.rv(_doprint=0)
iraf.imred(_doprint=0)
iraf.kpnoslit(_doprint=0)
iraf.ccdred(_doprint=0)
iraf.astutil(_doprint=0)
iraf.keywpars.setParam('ra','CAT-RA')
iraf.keywpars.setParam('dec','CAT-DEC')
iraf.keywpars.setParam('ut','UT')
iraf.keywpars.setParam('utmiddl','UT-M_E')
iraf.keywpars.setParam('exptime','EXPTIME')
iraf.keywpars.setParam('epoch','CAT-EPOC')
iraf.keywpars.setParam('date_ob','DATE-OBS')
iraf.keywpars.setParam('hjd','HJD')
iraf.keywpars.setParam('mjd_obs','MJD-OBS')
iraf.keywpars.setParam('vobs','VOBS')
iraf.keywpars.setParam('vrel','VREL')
iraf.keywpars.setParam('vhelio','VHELIO')
iraf.keywpars.setParam('vlsr','VLSR')
iraf.keywpars.setParam('vsun','VSUN')
iraf.keywpars.setParam('mode','ql')
iraf.fxcor.setParam('continu','both')
iraf.fxcor.setParam('filter','none')
iraf.fxcor.setParam('rebin','smallest')
iraf.fxcor.setParam('pixcorr','no')
iraf.fxcor.setParam('apodize','0.2')
iraf.fxcor.setParam('function','gaussian')
iraf.fxcor.setParam('width','INDEF')
iraf.fxcor.setParam('height','0.')
iraf.fxcor.setParam('peak','no')
iraf.fxcor.setParam('minwidt','3.')
iraf.fxcor.setParam('maxwidt','21.')
iraf.fxcor.setParam('weights','1.')
iraf.fxcor.setParam('backgro','0.')
iraf.fxcor.setParam('window','INDEF')
iraf.fxcor.setParam('wincent','INDEF')
iraf.fxcor.setParam('verbose','long')
iraf.fxcor.setParam('imupdat','no')
iraf.fxcor.setParam('graphic','stdgraph')
iraf.fxcor.setParam('interac','yes')
iraf.fxcor.setParam('autowri','yes')
iraf.fxcor.setParam('autodra','yes')
iraf.fxcor.setParam('ccftype','image')
iraf.fxcor.setParam('observa','lapalma')
iraf.fxcor.setParam('mode','ql')
return 0
def rvcorrect(infile='rv.obs', observatory='Palomar'):
from pyraf import iraf
iraf.astutil(_doprint=0)
iraf.unlearn('rvcorrect')
iraf.rvcorrect.files = infile
iraf.rvcorrect.observatory = observatory
corr = iraf.rvcorrect(Stdout=1)
hjds = []
vlsrs = []
for line in corr:
if not line.startswith('#'):
tok = line.split()
hjds.append(tok[0])
vlsrs.append(tok[3])
return hjds, vlsrs
def precess_coords(file, epoch=2000.0):
'''This function takes a file, accesses its header keywords (RA,DEC and
EPOCH), precesses the coordinates to the proviced epoch and returns
the RA and DEC as a tuple of string representations.'''
iraf.noao()
iraf.astutil()
if not iraf.imaccess(file):
print "Error: can't open image frame %s" % (file)
return None
ra = get_header(file, 'RA', str)[file]
dec = get_header(file, 'DEC', str)[file]
in_epoch = get_header(file, 'EPOCH', str)[file]
f = open('iraf.tempfile', 'w')
f.write('%s %s %s %.1f\n' % (ra, dec, in_epoch, epoch))
f.close()
result = iraf.precess(input='iraf.tempfile',
startyear=1950,
endyear=2000,
Stdout=1)
#os.unlink('iraf.tempfile')
return string.split(result[0])[0:2]
try:
print 'Trying /home/lemoen/'
os.chdir('/home/lemoen/')
except:
print 'We must be on corvus then... trying /home/ezietsman/'
os.chdir('/home/ezietsman/')
from pyraf import iraf
os.chdir(cd)
try:
os.remove('splot.log')
except:
pass
# load NOAO package
iraf.noao()
iraf.astutil()
iraf.onedspec()
times = []
results = []
fwhm = []
for i in range(61,395):
print i
# open spectrum and calculate continuum level near Ha line then write to cursor file
data = pf.getdata('fec2117_%04d.fits'%i)
head = pf.getheader('fec2117_%04d.fits'%i)
start = head['CRVAL1']
step = head['CDELT1']
folderroot = '/Users/lucaizzo/Documents/NOT/test/'
os.chdir(folderroot)
import numpy as np
from astropy.io import fits
from matplotlib import pyplot as plt
import shutil
import sys
from pyraf import iraf
iraf.noao(_doprint=0)
iraf.imred(_doprint=0)
iraf.ccdred(_doprint=0)
iraf.twodspec(_doprint=0)
iraf.longslit(_doprint=0)
iraf.kpnoslit(_doprint=0)
iraf.astutil(_doprint=0)
iraf.onedspec(_doprint=0)
iraf.twodspec.longslit.dispaxis = 2
#read object keywords
for file in os.listdir(os.getcwd()):
if file.endswith('.fits'):
testfile = file
hduo = fits.open(testfile)
#name targets (science & standard)
target = hduo[0].header['OBJECT']
#target2 = 'SP0644p375'
#std = 'SP0305+261'
# As we will tweak the database, do a backup first
backupfile(imgdb, dbbudir, "hjd")
db = KirbyBase()
images = db.select(imgdb, ['gogogo'], [True], ['recno','imgname','mjd','date'], sortFields=['imgname'], returnType='dict')
if db.getFieldNames(imgdb).count("hjd") == 0 :
db.addFields(imgdb, ['hjd:str'])
if db.getFieldNames(imgdb).count("jd") == 0 :
db.addFields(imgdb, ['jd:str'])
print "Number of images :", len(images)
iraf.astutil()
iraf.unlearn(iraf.astutil.setjd)
# header keyworkds
iraf.astutil.setjd.observa = "lapalma"
iraf.astutil.setjd.date = "date"
iraf.astutil.setjd.time = "utstart"
iraf.astutil.setjd.exposure = "exptime"
iraf.astutil.setjd.ra = "ra"
iraf.astutil.setjd.dec = "dec"
iraf.astutil.setjd.epoch = "epoch"
iraf.astutil.setjd.jd = "jd"
iraf.astutil.setjd.hjd = "hjd"
iraf.astutil.setjd.ljd = "ljd"
from lmfit import minimize, Parameters, report_fit
#import cosmics
iraf.noao(_doprint=0,Stdout="/dev/null")
iraf.rv(_doprint=0,Stdout="/dev/null")
iraf.imred(_doprint=0,Stdout="/dev/null")
iraf.ccdred(_doprint=0,Stdout="/dev/null")
iraf.images(_doprint=0,Stdout="/dev/null")
iraf.immatch(_doprint=0,Stdout="/dev/null")
iraf.onedspec(_doprint=0,Stdout="/dev/null")
iraf.twodspec(_doprint=0,Stdout="/dev/null")
iraf.apextract(_doprint=0,Stdout="/dev/null")
iraf.imutil(_doprint=0,Stdout="/dev/null")
iraf.echelle(_doprint=0,Stdout="/dev/null")
iraf.astutil(_doprint=0,Stdout="/dev/null")
iraf.apextract.dispaxi=1
iraf.echelle.dispaxi=1
#fixes a bug with latest versions of iraf
iraf.ccdred.instrum='blank.txt'
os.environ['PYRAF_BETA_STATUS'] = '1'
# REFS NEW: ecEC59550 ecEC59758 ecEC59795 ecEC59842 ecEC59844 ecEC59864 ecEC59866 ecEC59881 ecEC59883 ecEC59885
observations = {
'cemp_cand': {'ORIG_DIR':'/home/nandir/IRAF_Echelle_Asiago/CEMP_obs/201712/',
'biases':['EC60040', 'EC60041', 'EC60042', 'EC60043', 'EC60044'],
'flats':['EC60046', 'EC60047', 'EC60048'],
'objects': ['EC60089'],
# toggles make_lcs = 0 run_pdm_vik = 0 get_pdm_err = 0 # use this one! run_pdm_iraf = 1 name,period=GetPDMInputs() # make boot strapped lcs if make_lcs > 0: made=MakeBootStrapLCs(name) # run pdm if run_pdm_vik > 0: for i in range(0,1): ran=RunPDM(name[i],period[i]) if get_pdm_err > 0: periods,pdm_stats=GetPDMError() if run_pdm_iraf > 0: iraf=LoadIRAF() iraf.noao(_doprint=0) iraf.astutil(_doprint=0) for i in range(4,5): periods=PDM_IRAF(name[i],period[i])
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'),
interactive='no', verify='no', Stdout=1)
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()