parser.add_argument('input', help='path to input data dir', type=str)
parser.add_argument('-o', '--output', help='output dir',
type=str, default=os.path.join(cwd, 'phot_out'))
parser.add_argument('-m', '--movie', help='make movie of extracted images',
type=bool, default=True)
parser.add_argument('-a', '--aor', help='aor name', type=str, default=None)
args = parser.parse_args()
data_dir = os.path.abspath(args.input)
if data_dir.startswith('r'):
_, aor = os.path.split(args.input)
else:
aor = args.aor
pickle_dir = os.path.join(args.output, 'pickles')
plot_dir = os.path.join(args.output, 'plots')
mkdirs(pickle_dir, plot_dir) # FIXME: make more pythonic
# read data
time, cube = read_data(data_dir)
# make movie
if args.movie:
movie_dir = os.path.join(out_dir, 'movies')
outpath = os.path.join(movie_dir, '{}_frames.mp4'.format(aor))
make_movie(cube, outpath, fps=60)
par['setup']['chain_length'] = args.length
par['setup']['two_stage'] = args.twostage
par['setup']['burn_in'] = 500 # FIXME should be in YAML file or from argparse
ep = pld.Exoplanet(par, geom=args.geometry)
if args.midtime:
ep.guess_mid_time()
base_name = '{}_{}_{}'.format(ep.star, ep.planet, ep.aor)
# FIXME: should move this to Exoplanet constructor, i.e. ep.base_name
# create output dir
output_dir = os.path.join(args.output, base_name)
util.mkdirs(output_dir) # FIXME: must be a more pythonic way to do this
# fit
ep.fit_pld()
ep.fit_astro()
ep.fit_mle(tol=1e-12, quiet=False) # FIXME: should be in YAML file or argparse
ep.lm_astro()
# plot
name = base_name + '_fit_mle.pdf'
outpath = os.path.join(output_dir, name)
ep.plot(outpath=outpath)
# dump binned/corrected time and flux
name = base_name + '_corrected.txt'
outpath = os.path.join(output_dir, name)
