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modified irdap.py to conform to photutils 2.0 (CircularAperture and a… #16

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modified irdap.py to conform to photutils 2.0 (CircularAperture and a… #16

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12 changes: 7 additions & 5 deletions irdap/irdap.py
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Original file line number Diff line number Diff line change
Expand Up @@ -63,6 +63,8 @@
from skimage.registration import phase_cross_correlation
from .version import __version__
from .pca_adi import pca_adi
from photutils.aperture import CircularAperture
from photutils.aperture import aperture_photometry

# to avoid some warning from pandas and matplotlib
from pandas.plotting import register_matplotlib_converters
Expand Down Expand Up @@ -4921,8 +4923,8 @@ def compute_contrast(frame, filter_used, sigma_clip=True):
coord_apertures = np.stack([x, y]).T

# Define the apertures and compute the flux in them
apertures = photutils.CircularAperture(coord_apertures, 0.5*fwhm)
flux = np.array(photutils.aperture_photometry(frame, apertures)['aperture_sum'])
apertures = CircularAperture(coord_apertures, 0.5*fwhm)
flux = np.array(aperture_photometry(frame, apertures)['aperture_sum'])

if sigma_clip:
# Remove outliers from fluxes
Expand Down Expand Up @@ -5117,14 +5119,14 @@ def plot_contrast_point_source(path_table_star_flux, path_flux_left, path_flux_r

# Define same aperture as used for contrast above to extract flux with
coord_aperture = (511.5, 511.5)
aperture = photutils.CircularAperture(coord_aperture, 0.5*fwhm)
aperture = CircularAperture(coord_aperture, 0.5*fwhm)

# Determine star flux in left flux cubes
cube_flux_processed_left = pyfits.getdata(path_flux_left, header=True)[0]

reference_flux_left = 0
for frame, transmission_ratio_sel, dit_ratio_sel in zip(cube_flux_processed_left, transmission_ratio, dit_ratio):
flux = photutils.aperture_photometry(frame, aperture)['aperture_sum'][0]
flux = aperture_photometry(frame, aperture)['aperture_sum'][0]
reference_flux_left += flux * transmission_ratio_sel * dit_ratio_sel

# Divide by the number of frames because we actually need the mean of the different FLUX-files
Expand All @@ -5135,7 +5137,7 @@ def plot_contrast_point_source(path_table_star_flux, path_flux_left, path_flux_r

reference_flux_right = 0
for frame, transmission_ratio_sel, dit_ratio_sel in zip(cube_flux_processed_right, transmission_ratio, dit_ratio):
flux = photutils.aperture_photometry(frame, aperture)['aperture_sum'][0]
flux = aperture_photometry(frame, aperture)['aperture_sum'][0]
reference_flux_right += flux * transmission_ratio_sel * dit_ratio_sel

# Divide by the number of frames because we actually need the mean of the different FLUX-files
Expand Down