Tibeuleu/FOC_Reduction
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update user privileges, correct and add axis error estimation, replot for NGC1068

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Thibault Barnouin
2021-09-13 17:38:22 +02:00
parent 4e0861129d
commit 5f3d86a55c
311 changed files with 172 additions and 36 deletions
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src/FOC_reduction.py
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@@ -17,11 +17,11 @@ from lib.convex_hull import image_hull
def main():
##### User inputs
## Input and output locations
# globals()['data_folder'] = "../data/NGC1068_x274020/"
# infiles = ['x274020at.c0f.fits','x274020bt.c0f.fits','x274020ct.c0f.fits',
# 'x274020dt.c0f.fits','x274020et.c0f.fits','x274020ft.c0f.fits',
# 'x274020gt.c0f.fits','x274020ht.c0f.fits','x274020it.c0f.fits']
# globals()['plots_folder'] = "../plots/NGC1068_x274020/"
globals()['data_folder'] = "../data/NGC1068_x274020/"
infiles = ['x274020at.c0f.fits','x274020bt.c0f.fits','x274020ct.c0f.fits',
'x274020dt.c0f.fits','x274020et.c0f.fits','x274020ft.c0f.fits',
'x274020gt.c0f.fits','x274020ht.c0f.fits','x274020it.c0f.fits']
globals()['plots_folder'] = "../plots/NGC1068_x274020/"
# globals()['data_folder'] = "../data/NGC1068_x14w010/"
# infiles = ['x14w0101t_c0f.fits','x14w0102t_c0f.fits','x14w0103t_c0f.fits',
@@ -77,9 +77,9 @@ def main():
# infiles = ['x3nl0201r_c0f.fits','x3nl0202r_c0f.fits','x3nl0203r_c0f.fits']
# globals()['plots_folder'] = "../plots/MKN78_x3nl020/"
globals()['data_folder'] = "../data/PictorA_x25d040/"
infiles = ['x25d0401t_c0f.fits','x25d0402t_c0f.fits','x25d0403t_c0f.fits']
globals()['plots_folder'] = "../plots/PictorA_x25d040/"
# globals()['data_folder'] = "../data/PictorA_x25d040/"
# infiles = ['x25d0401t_c0f.fits','x25d0402t_c0f.fits','x25d0403t_c0f.fits']
# globals()['plots_folder'] = "../plots/PictorA_x25d040/"
## Reduction parameters
# Deconvolution
@@ -112,10 +112,10 @@ def main():
rotate_stokes = True #rotation to North convention can give erroneous results
rotate_data = False #rotation to North convention can give erroneous results
# Polarization map output
figname = 'PictorA_FOC' #target/intrument name
figname = 'NGC1068_FOC' #target/intrument name
figtype = '_combine_FWHM020_rot' #additionnal informations
SNRp_cut = 20. #P measurments with SNR>3
SNRi_cut = 120. #I measurments with SNR>30, which implies an uncertainty in P of 4.7%.
SNRp_cut = 15. #P measurments with SNR>3
SNRi_cut = 80. #I measurments with SNR>30, which implies an uncertainty in P of 4.7%.
step_vec = 1 #plot all vectors in the array. if step_vec = 2, then every other vector will be plotted
##### Pipeline start
@@ -144,7 +144,7 @@ def main():
for data in data_array:
if (data < 0.).any():
print("ETAPE 4 : ", data)
#Align and rescale images with oversampling.
# Align and rescale images with oversampling.
data_array, error_array, data_mask = proj_red.align_data(data_array, headers, error_array, upsample_factor=int(Dxy.min()), ref_center=align_center, return_shifts=False)
for data in data_array:
if (data < 0.).any():
@@ -154,7 +154,7 @@ def main():
shape = np.array([vertex[1]-vertex[0],vertex[3]-vertex[2]])
rectangle = [vertex[2], vertex[0], shape[1], shape[0], 0., 'w']
# Rotate data to have North up
# Rotate data to have North up
ref_header = copy.deepcopy(headers[0])
if rotate_data:
alpha = ref_header['orientat']
@@ -196,6 +196,11 @@ def main():
Stokes_test = proj_fits.save_Stokes(I_stokes, Q_stokes, U_stokes, Stokes_cov, P, debiased_P, s_P, s_P_P, PA, s_PA, s_PA_P, headers, figname+figtype, data_folder=data_folder, return_hdul=True)
## Step 5:
# Crop to desired Region of Interest (ROI)
# StokesCrop = proj_plots.crop_map(copy.deepcopy(Stokes_test), copy.deepcopy(data_mask), SNRp_cut=SNRp_cut, SNRi_cut=SNRi_cut)
# StokesCrop.run()
# Stokes_crop, data_mask = StokesCrop.crop()
# Plot polarization map (Background is either total Flux, Polarization degree or Polarization degree error).
proj_plots.polarization_map(copy.deepcopy(Stokes_test), data_mask, rectangle=None, SNRp_cut=SNRp_cut, SNRi_cut=SNRi_cut, step_vec=step_vec, savename=figname+figtype, plots_folder=plots_folder, display=None)
proj_plots.polarization_map(copy.deepcopy(Stokes_test), data_mask, rectangle=None, SNRp_cut=SNRp_cut, SNRi_cut=SNRi_cut, step_vec=step_vec, savename=figname+figtype+"_P_flux", plots_folder=plots_folder, display='Pol_Flux')