/usr/lib/python3/dist-packages/photutils/detection/tests/test_core.py is in python3-photutils 0.4-1.
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from __future__ import (absolute_import, division, print_function,
unicode_literals)
import numpy as np
from numpy.testing import assert_array_equal, assert_allclose
import pytest
from ..core import detect_threshold, find_peaks
from ...datasets import make_4gaussians_image, make_wcs
try:
import scipy # noqa
HAS_SCIPY = True
except ImportError:
HAS_SCIPY = False
try:
import skimage # noqa
HAS_SKIMAGE = True
except ImportError:
HAS_SKIMAGE = False
DATA = np.array([[0, 1, 0], [0, 2, 0], [0, 0, 0]]).astype(np.float)
REF1 = np.array([[0, 0, 0], [0, 1, 0], [0, 0, 0]])
PEAKDATA = np.array([[1, 0, 0], [0, 0, 0], [0, 0, 1]]).astype(np.float)
PEAKREF1 = np.array([[0, 0], [2, 2]])
@pytest.mark.skipif('not HAS_SCIPY')
class TestDetectThreshold(object):
def test_snr(self):
"""Test basic snr."""
threshold = detect_threshold(DATA, snr=0.1)
ref = 0.4 * np.ones((3, 3))
assert_allclose(threshold, ref)
def test_snr_zero(self):
"""Test snr=0."""
threshold = detect_threshold(DATA, snr=0.0)
ref = (1. / 3.) * np.ones((3, 3))
assert_allclose(threshold, ref)
def test_background(self):
threshold = detect_threshold(DATA, snr=1.0, background=1)
ref = (5. / 3.) * np.ones((3, 3))
assert_allclose(threshold, ref)
def test_background_image(self):
background = np.ones((3, 3))
threshold = detect_threshold(DATA, snr=1.0, background=background)
ref = (5. / 3.) * np.ones((3, 3))
assert_allclose(threshold, ref)
def test_background_badshape(self):
wrong_shape = np.zeros((2, 2))
with pytest.raises(ValueError):
detect_threshold(DATA, snr=2., background=wrong_shape)
def test_error(self):
threshold = detect_threshold(DATA, snr=1.0, error=1)
ref = (4. / 3.) * np.ones((3, 3))
assert_allclose(threshold, ref)
def test_error_image(self):
error = np.ones((3, 3))
threshold = detect_threshold(DATA, snr=1.0, error=error)
ref = (4. / 3.) * np.ones((3, 3))
assert_allclose(threshold, ref)
def test_error_badshape(self):
wrong_shape = np.zeros((2, 2))
with pytest.raises(ValueError):
detect_threshold(DATA, snr=2., error=wrong_shape)
def test_background_error(self):
threshold = detect_threshold(DATA, snr=2.0, background=10., error=1.)
ref = 12. * np.ones((3, 3))
assert_allclose(threshold, ref)
def test_background_error_images(self):
background = np.ones((3, 3)) * 10.
error = np.ones((3, 3))
threshold = detect_threshold(DATA, snr=2.0, background=background,
error=error)
ref = 12. * np.ones((3, 3))
assert_allclose(threshold, ref)
def test_mask_value(self):
"""Test detection with mask_value."""
threshold = detect_threshold(DATA, snr=1.0, mask_value=0.0)
ref = 2. * np.ones((3, 3))
assert_array_equal(threshold, ref)
def test_image_mask(self):
"""
Test detection with image_mask.
sig=10 and iters=1 to prevent sigma clipping after applying the mask.
"""
mask = REF1.astype(np.bool)
threshold = detect_threshold(DATA, snr=1., error=0, mask=mask,
sigclip_sigma=10, sigclip_iters=1)
ref = (1. / 8.) * np.ones((3, 3))
assert_array_equal(threshold, ref)
def test_image_mask_override(self):
"""Test that image_mask overrides mask_value."""
mask = REF1.astype(np.bool)
threshold = detect_threshold(DATA, snr=0.1, error=0, mask_value=0.0,
mask=mask, sigclip_sigma=10,
sigclip_iters=1)
ref = np.ones((3, 3))
assert_array_equal(threshold, ref)
@pytest.mark.skipif('not HAS_SCIPY')
@pytest.mark.skipif('not HAS_SKIMAGE')
class TestFindPeaks(object):
def test_box_size(self):
"""Test with box_size."""
tbl = find_peaks(PEAKDATA, 0.1, box_size=3)
assert_array_equal(tbl['x_peak'], PEAKREF1[:, 1])
assert_array_equal(tbl['y_peak'], PEAKREF1[:, 0])
assert_array_equal(tbl['peak_value'], [1., 1.])
def test_footprint(self):
"""Test with footprint."""
tbl = find_peaks(PEAKDATA, 0.1, footprint=np.ones((3, 3)))
assert_array_equal(tbl['x_peak'], PEAKREF1[:, 1])
assert_array_equal(tbl['y_peak'], PEAKREF1[:, 0])
assert_array_equal(tbl['peak_value'], [1., 1.])
def test_subpixel_regionsize(self):
"""Test that data cutout has at least 6 values."""
with pytest.raises(ValueError):
find_peaks(PEAKDATA, 0.1, box_size=2, subpixel=True)
def test_mask(self):
"""Test with mask."""
mask = np.zeros_like(PEAKDATA, dtype=bool)
mask[0, 0] = True
tbl = find_peaks(PEAKDATA, 0.1, box_size=3, mask=mask)
assert len(tbl) == 1
assert_array_equal(tbl['x_peak'], PEAKREF1[1, 0])
assert_array_equal(tbl['y_peak'], PEAKREF1[1, 1])
assert_array_equal(tbl['peak_value'], 1.0)
def test_maskshape(self):
"""Test if make shape doesn't match data shape."""
with pytest.raises(ValueError):
find_peaks(PEAKDATA, 0.1, mask=np.ones((5, 5)))
def test_npeaks(self):
"""Test npeaks."""
tbl = find_peaks(PEAKDATA, 0.1, box_size=3, npeaks=1)
assert_array_equal(tbl['x_peak'], PEAKREF1[1, 1])
assert_array_equal(tbl['y_peak'], PEAKREF1[1, 0])
def test_border_width(self):
"""Test border exclusion."""
tbl = find_peaks(PEAKDATA, 0.1, box_size=3, border_width=3)
assert_array_equal(len(tbl), 0)
def test_zerodet(self):
"""Test with large threshold giving no sources."""
tbl = find_peaks(PEAKDATA, 5., box_size=3, border_width=3)
assert_array_equal(len(tbl), 0)
def test_constant_data(self):
"""Test constant data."""
tbl = find_peaks(np.ones((5, 5)), 0.1, box_size=3.)
assert_array_equal(len(tbl), 0)
def test_box_size_int(self):
"""Test non-integer box_size."""
tbl1 = find_peaks(PEAKDATA, 0.1, box_size=5.)
tbl2 = find_peaks(PEAKDATA, 0.1, box_size=5.5)
assert_array_equal(tbl1, tbl2)
def test_wcs(self):
"""Test with WCS."""
data = make_4gaussians_image()
wcs = make_wcs(data.shape)
tbl = find_peaks(data, 100, wcs=wcs, subpixel=True)
cols = ['icrs_ra_peak', 'icrs_dec_peak', 'icrs_ra_centroid',
'icrs_dec_centroid']
for col in cols:
assert col in tbl.colnames
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