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import os
import pytest
import numpy as np
from pynpoint.core.pypeline import Pypeline
from pynpoint.readwrite.fitsreading import FitsReadingModule
from pynpoint.processing.psfpreparation import PSFpreparationModule, AngleInterpolationModule, \
AngleCalculationModule, SDIpreparationModule, \
SortParangModule
from pynpoint.util.tests import create_config, create_star_data, create_ifs_data, remove_test_data
class TestPsfPreparation:
def setup_class(self) -> None:
self.limit = 1e-10
self.test_dir = os.path.dirname(__file__) + '/'
create_star_data(self.test_dir+'prep')
create_ifs_data(self.test_dir+'prep_ifs')
create_config(self.test_dir+'PynPoint_config.ini')
self.pipeline = Pypeline(self.test_dir, self.test_dir, self.test_dir)
def teardown_class(self) -> None:
remove_test_data(self.test_dir, folders=['prep', 'prep_ifs'])
def test_read_data(self) -> None:
module = FitsReadingModule(name_in='read',
image_tag='read',
input_dir=self.test_dir+'prep')
self.pipeline.add_module(module)
self.pipeline.run_module('read')
data = self.pipeline.get_data('read')
assert np.sum(data) == pytest.approx(105.54278879805277, rel=self.limit, abs=0.)
assert data.shape == (10, 11, 11)
module = FitsReadingModule(name_in='read_ifs',
image_tag='read_ifs',
input_dir=self.test_dir+'prep_ifs',
ifs_data=True)
self.pipeline.add_module(module)
self.pipeline.run_module('read_ifs')
data = self.pipeline.get_data('read_ifs')
assert np.sum(data) == pytest.approx(749.8396528807369, rel=self.limit, abs=0.)
assert data.shape == (3, 10, 21, 21)
def test_angle_interpolation(self) -> None:
module = AngleInterpolationModule(name_in='angle1',
data_tag='read')
self.pipeline.add_module(module)
self.pipeline.run_module('angle1')
data = self.pipeline.get_data('header_read/PARANG')
assert np.sum(data) == pytest.approx(900., rel=self.limit, abs=0.)
assert data.shape == (10, )
def test_angle_calculation(self) -> None:
self.pipeline.set_attribute('read', 'LATITUDE', -25.)
self.pipeline.set_attribute('read', 'LONGITUDE', -70.)
self.pipeline.set_attribute('read', 'DIT', 1.)
self.pipeline.set_attribute('read', 'RA', (90., 90., 90., 90.), static=False)
self.pipeline.set_attribute('read', 'DEC', (-51., -51., -51., -51.), static=False)
self.pipeline.set_attribute('read', 'PUPIL', (90., 90., 90., 90.), static=False)
date = ('2012-12-01T07:09:00.0000', '2012-12-01T07:09:01.0000',
'2012-12-01T07:09:02.0000', '2012-12-01T07:09:03.0000')
self.pipeline.set_attribute('read', 'DATE', date, static=False)
module = AngleCalculationModule(instrument='NACO',
name_in='angle2',
data_tag='read')
self.pipeline.add_module(module)
self.pipeline.run_module('angle2')
data = self.pipeline.get_data('header_read/PARANG')
assert np.sum(data) == pytest.approx(-550.2338293743467, rel=self.limit, abs=0.)
assert data.shape == (10, )
self.pipeline.set_attribute('read', 'RA', (60000.0, 60000.0, 60000.0, 60000.0),
static=False)
self.pipeline.set_attribute('read', 'DEC', (-510000., -510000., -510000., -510000.),
static=False)
module = AngleCalculationModule(instrument='SPHERE/IRDIS',
name_in='angle3',
data_tag='read')
self.pipeline.add_module(module)
with pytest.warns(UserWarning) as warning:
self.pipeline.run_module('angle3')
warning_0 = 'For SPHERE data it is recommended to use the header keyword \'ESO INS4 ' \
'DROT2 RA\' to specify the object\'s right ascension. The input will be ' \
'parsed accordingly. Using the regular \'RA\' keyword will lead to wrong ' \
'parallactic angles.'
warning_1 = 'For SPHERE data it is recommended to use the header keyword \'ESO INS4 ' \
'DROT2 DEC\' to specify the object\'s declination. The input will be parsed ' \
'accordingly. Using the regular \'DEC\' keyword will lead to wrong ' \
'parallactic angles.'
if len(warning) == 2:
assert warning[0].message.args[0] == warning_0
assert warning[1].message.args[0] == warning_1
data = self.pipeline.get_data('header_read/PARANG')
assert np.sum(data) == pytest.approx(1704.2202367435675, rel=self.limit, abs=0.)
assert data.shape == (10, )
module = AngleCalculationModule(instrument='SPHERE/IFS',
name_in='angle4',
data_tag='read')
self.pipeline.add_module(module)
with pytest.warns(UserWarning) as warning:
self.pipeline.run_module('angle4')
warning_0 = 'AngleCalculationModule has not been tested for SPHERE/IFS data.'
warning_1 = 'For SPHERE data it is recommended to use the header keyword \'ESO INS4 ' \
'DROT2 RA\' to specify the object\'s right ascension. The input will be ' \
'parsed accordingly. Using the regular \'RA\' keyword will lead to wrong ' \
'parallactic angles.'
warning_2 = 'For SPHERE data it is recommended to use the header keyword \'ESO INS4 ' \
'DROT2 DEC\' to specify the object\'s declination. The input will be parsed ' \
'accordingly. Using the regular \'DEC\' keyword will lead to wrong ' \
'parallactic angles.'
if len(warning) == 3:
assert warning[0].message.args[0] == warning_0
assert warning[1].message.args[0] == warning_1
assert warning[2].message.args[0] == warning_2
data = self.pipeline.get_data('header_read/PARANG')
assert np.sum(data) == pytest.approx(-890.8506514377593, rel=self.limit, abs=0.)
assert data.shape == (10, )
def test_angle_sort(self) -> None:
index = self.pipeline.get_data('header_read/INDEX')
self.pipeline.set_attribute('read', 'INDEX', index[::-1], static=False)
module = SortParangModule(name_in='sort1',
image_in_tag='read',
image_out_tag='read_sorted')
self.pipeline.add_module(module)
self.pipeline.run_module('sort1')
self.pipeline.set_attribute('read', 'INDEX', index, static=False)
parang = self.pipeline.get_data('header_read/PARANG')[::-1]
parang_sort = self.pipeline.get_data('header_read_sorted/PARANG')
assert np.sum(parang) == pytest.approx(np.sum(parang_sort), rel=self.limit, abs=0.)
parang_set = [0., 1., 2., 3., 4., 5., 6., 7., 8., 9.]
self.pipeline.set_attribute('read_ifs', 'PARANG', parang_set, static=False)
data = self.pipeline.get_data('read_sorted')
assert np.sum(data[0]) == pytest.approx(9.71156815235485, rel=self.limit, abs=0.)
def test_angle_sort_ifs(self) -> None:
index = self.pipeline.get_data('header_read_ifs/INDEX')
self.pipeline.set_attribute('read_ifs', 'INDEX', index[::-1], static=False)
module = SortParangModule(name_in='sort2',
image_in_tag='read_ifs',
image_out_tag='read_ifs_sorted')
self.pipeline.add_module(module)
self.pipeline.run_module('sort2')
self.pipeline.set_attribute('read_ifs', 'INDEX', index, static=False)
parang = self.pipeline.get_data('header_read_ifs/PARANG')[::-1]
parang_sort = self.pipeline.get_data('header_read_ifs_sorted/PARANG')
assert np.sum(parang) == pytest.approx(np.sum(parang_sort), rel=self.limit, abs=0.)
data = self.pipeline.get_data('read_ifs_sorted')
assert np.sum(data[0, 0]) == pytest.approx(21.185139976163477, rel=self.limit, abs=0.)
def test_angle_interpolation_mismatch(self) -> None:
self.pipeline.set_attribute('read', 'NDIT', [9, 9, 9, 9], static=False)
module = AngleInterpolationModule(name_in='angle5',
data_tag='read')
self.pipeline.add_module(module)
with pytest.warns(UserWarning) as warning:
self.pipeline.run_module('angle5')
warning_0 = 'There is a mismatch between the NDIT and NFRAMES values. The parallactic ' \
'angles are calculated with a linear interpolation by using NFRAMES steps. ' \
'A frame selection should be applied after the parallactic angles are ' \
'calculated.'
if len(warning) == 1:
assert warning[0].message.args[0] == warning_0
data = self.pipeline.get_data('header_read/PARANG')
assert np.sum(data) == pytest.approx(900., rel=self.limit, abs=0.)
assert data.shape == (10, )
def test_psf_preparation_norm_mask(self) -> None:
module = PSFpreparationModule(name_in='prep1',
image_in_tag='read',
image_out_tag='prep1',
mask_out_tag='mask1',
norm=True,
cent_size=0.1,
edge_size=1.0)
self.pipeline.add_module(module)
self.pipeline.run_module('prep1')
data = self.pipeline.get_data('prep1')
assert np.sum(data) == pytest.approx(-1.5844830188044685, rel=self.limit, abs=0.)
assert data.shape == (10, 11, 11)
data = self.pipeline.get_data('mask1')
assert np.sum(data) == pytest.approx(52, rel=self.limit, abs=0.)
assert data.shape == (11, 11)
def test_psf_preparation_none(self) -> None:
module = PSFpreparationModule(name_in='prep2',
image_in_tag='read',
image_out_tag='prep2',
mask_out_tag='mask2',
norm=False,
cent_size=None,
edge_size=None)
self.pipeline.add_module(module)
self.pipeline.run_module('prep2')
data = self.pipeline.get_data('prep2')
assert np.sum(data) == pytest.approx(105.54278879805277, rel=self.limit, abs=0.)
assert data.shape == (10, 11, 11)
def test_psf_preparation_no_mask_out(self) -> None:
module = PSFpreparationModule(name_in='prep3',
image_in_tag='read',
image_out_tag='prep3',
mask_out_tag=None,
norm=False,
cent_size=None,
edge_size=None)
self.pipeline.add_module(module)
self.pipeline.run_module('prep3')
data = self.pipeline.get_data('prep3')
assert np.sum(data) == pytest.approx(105.54278879805277, rel=self.limit, abs=0.)
assert data.shape == (10, 11, 11)
def test_psf_preparation_sdi(self) -> None:
module = PSFpreparationModule(name_in='prep4',
image_in_tag='read_ifs',
image_out_tag='prep4',
mask_out_tag=None,
norm=False,
cent_size=None,
edge_size=None)
self.pipeline.add_module(module)
self.pipeline.run_module('prep4')
data = self.pipeline.get_data('prep4')
assert np.sum(data) == pytest.approx(749.8396528807369, rel=self.limit, abs=0.)
assert data.shape == (3, 10, 21, 21)
def test_sdi_preparation(self) -> None:
module = SDIpreparationModule(name_in='sdi',
wavelength=(0.65, 0.6),
width=(0.1, 0.5),
image_in_tag='read',
image_out_tag='sdi')
self.pipeline.add_module(module)
self.pipeline.run_module('sdi')
data = self.pipeline.get_data('sdi')
assert np.sum(data) == pytest.approx(21.084666133914183, rel=self.limit, abs=0.)
assert data.shape == (10, 11, 11)
attribute = self.pipeline.get_attribute('sdi', 'History: SDIpreparationModule')
assert attribute == '(line, continuum) = (0.65, 0.6)'
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