##################################################
#
# General Notes:
# -- python uses spaces to figure out the beginnings
# and ends of functions/loops/etc. So make sure
# to preserve spacings properly (indent). This
# is easy to do if you use emacs with python mode
# and color coding.
# -- You will probably need to edit almost every
# single line of the go() function.
# -- If you need help on the individual function calls,
# then in the pyraf prompt, import the module and
# then print the documentation for that function:
# --> print kai.kailog.__doc__
# --> print range.__doc__
#
##################################################
# Import python and iraf modules
import numpy as np
import os, sys
import glob
# Import our own custom modules
from kai.reduce import calib
from kai.reduce import sky
from kai.reduce import data
from kai.reduce import util
from kai.reduce import dar
from kai.reduce import kai_util
from kai import instruments
##########
# Change the epoch, instrument, and distortion solution.
##########
[docs]
nirc2 = instruments.NIRC2() # don't necessarily need this as NIRC2 is the default.
##########
# Make electronic logs
# - run this first thing for a new observing run.
##########
[docs]
def makelog():
"""Make an electronic log from all the files in the ../raw/ directory.
The file will be called kai.log and stored in the same directory.
@author Jessica Lu
@author Sylvana Yelda
"""
kai_util.makelog('../raw', instrument=nirc2)
# If you are reducing OSIRIS, you need to flip the images first.
# raw_files = glob.glob('../raw/i*.fits')
# osiris.flip_images(raw_files)
# Download weather data we will need.
dar.get_atm_conditions('2020')
return
###############
# Analyze darks
###############
[docs]
def analyze_darks():
"""Analyze the dark_calib results
"""
util.mkdir('calib')
os.chdir('calib')
first_dark = 16
calib.analyzeDarkCalib(first_dark) # Doesn't support OSIRIS yet
os.chdir('../')
##########
# Reduce
##########
[docs]
def go():
"""Do the full data reduction.
@author Jessica Lu
@author Sylvana Yelda
"""
####################
#
# Calibration files:
# everything created under calib/
#
####################
# Darks - created in subdir darks/
# Files n0001 - n0009
# - darks needed to make bad pixel mask
# - store the resulting dark in the file name that indicates the
# integration time (2.8s) and the coadds (10ca).
# -- If you use the OSIRIS image, you must include the full filename in the list.
darkFiles = list(range(1, 9+1))
calib.makedark(darkFiles, 'dark_2.8s_10ca.fits', instrument=nirc2)
# Flats - created in subdir flats/
# Files n0037,n0039,n0041,n0043,n0045: lamps off for flats at K
# Files n0038,n0040,n0042,n0044,n0046: lamps on for flats at K
offFiles = [37, 39, 41, 43, 45]
onFiles = [38, 40, 42, 44, 46]
calib.makeflat(onFiles, offFiles, 'flat_kp.fits', instrument=nirc2)
# Masks (assumes files were created under calib/darks/ and calib/flats/)
calib.makemask('dark_2.8s_10ca.fits', 'flat_kp.fits',
'supermask.fits', instrument=nirc2)
####################
#
# Galactic Center
#
####################
##########
# K-band reduction
##########
#util.mkdir('kp')
#os.chdir('kp')
# Nite 1:
# SCI frames (don't forget to add 1 at end): 108-237
# reference star position in first image: [407.77, 673.87]
# use a different Strehl star at position: [521.79, 398.92]
# Sky frames (don't forget to add 1 at end): 252-261
#
# -- If you have more than one position angle, make sure to
# clean them seperatly.
# -- Strehl and Ref src should be the pixel coordinates of a bright
# (but non saturated) source in the first exposure of sci_files.
# -- If you use the OSIRIS image, you must include the full filename in the list.
sci_files1 = list(range(108, 237+1))
refSrc1 = [407.77, 673.87]
strSrc1 = [521.79, 398.92]
sky_files1 = list(range(252, 261+1))
#
sky.makesky(sky_files1, 'nite1', 'kp', instrument=nirc2)
data.clean(sci_files1, 'nite1', 'kp', refSrc1, strSrc1, instrument=nirc2)
# Nite 2:
# SCI frames (don't forget to add 1 at end): 1108-1237
# reference star position in first image: [407.77, 673.87]
# use a different Strehl star at position: [521.79, 398.92]
# Sky frames (don't forget to add 1 at end): 1252-1261 and 1400-1405
# -- If you use the OSIRIS image, you must include the full filename in the list.
sci_files2 = list(range(1108, 1237+1))
refSrc2 = [407.77, 673.87]
strSrc2 = [521.79, 398.92]
sky_files2 = list(range(1252, 1261+1)) + list(range(1400, 1405+1))
#
sky.makesky(sky_files2, 'nite2', 'kp', instrument=nirc2)
data.clean(sci_files2, 'nite2', 'kp', refSrc2, strSrc2, instrument=nirc2)
# Combine:
# Combine all of them together (from both nights).
# Do frame selection (trim=1).
# Weight by Strehl (weight='strehl').
# Make 3 submaps.
# -- If you use the OSIRIS image, you must include the full filename in the list.
sci_files = sci_files1 + sci_files2
data.calcStrehl(sci_files, 'kp', instrument=nirc2)
data.combine(sci_files, 'kp', '06junlgs', trim=1, weight='strehl',
submaps=3, instrument=nirc2)
os.chdir('../')
############
# Lp
############
#util.mkdir('lp')
#os.chdir('lp')
# Nite 1
sky_files = list(range(38, 53+1))
sci_files = list(range(87, 94+1)) + list(range(115,122+1))
refSrc = [695., 543.]
strSrc = [680., 839.]
sky.makesky_lp(sky_files, 'nite1', 'lp')
data.clean(sci_files, 'nite1', 'lp', refSrc, strSrc)
data.calcStrehl(sci_files, 'lp')
data.combine(sci_files, 'lp', '06junlgs',
trim=0, weight=None, submaps=3)
os.chdir('../')
#
# Could do other wavelengths or different fields (e.g. Arches).
# Can pass in a field flag, for example:
# data.clean(arch_files,'nite1','kp',refSrc,strSrc,
# field='f1')
# data.combine(arch_files,'kp','06maylgs1',trim=1,weight='strehl'
# field='f1',submaps=3)
#
############
# Jackknife
############
[docs]
def jackknife():
"""
Perform the Jackknife data reduction. The methodology is as follows:
For N total images, there are N stacked images created by data.combine(),
each of these combo frames consists of N-1 images. The suffix '_{i}' is
given to each jackknife combo frame (i.e. mag27maylgs_12_ks.fits would be
the 12th jackknife combo frame created). Submaps flag has been turned off
for this function, as it is not needed.
"""
##########
# Ks-band reduction
##########
# Nite 1
sci_files1 = list(range(173, 177+1))
sky_files1 = list(range(206, 215+1))
refSrc1 = [385., 440.] #This is the target nearest to center
sky.makesky(sky_files1, 'nite1', 'ks', instrument=nirc2)
data.clean(sci_files1, 'nite1', 'ks', refSrc1, refSrc1, instrument=nirc2)
# Nite 2
sci_files2 = list(range(195, 203+1))
sky_files2 = list(range(206, 215+1))
refSrc2 = [387., 443.] #This is the target nearest to center
sky.makesky(sky_files2, 'nite2', 'ks', instrument=nirc2)
data.clean(sci_files2, 'nite2', 'ks', refSrc2, refSrc2, instrument=nirc2)
#-----------------
sci_files = sci_files1 + sci_files2
for i in enumerate(sci_files, start=1):
jack_list = sci_files[:]
jack_list.remove(i[1])
data.calcStrehl(jack_list, 'ks', instrument=nirc2)
data.combine(jack_list, 'ks', '27maylgs', trim=1, weight='strehl',
instrument=nirc2, outSuffix='_' + str(i[0]))
os.chdir('reduce')