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import sys
import pytest
import numpy as np
from astropy.io import fits as pyfits
from astropy import units as u
from .. import StokesSpectralCube
from ..lower_dimensional_structures import (OneDSpectrum,
VaryingResolutionOneDSpectrum)
from . import path
from radio_beam import Beam
from .. import SpectralCube, VaryingResolutionSpectralCube
from ..dask_spectral_cube import DaskSpectralCube
@pytest.mark.skipif(
sys.byteorder!="little",
reason="https://github.com/radio-astro-tools/spectral-cube/issues/903",
)
def test_lmv_fits():
c1 = SpectralCube.read(path('example_cube.fits'))
c2 = SpectralCube.read(path('example_cube.lmv'))
assert c1.shape == c2.shape
# should be able to do this, but it is not true:
#assert c1.header == c2.header
# should also be able to do this, but it is again false:
#assert c1.wcs==c2.wcs
def test_3d_4d_stokes(data_adv, data_advs, use_dask):
f3 = pyfits.open(data_adv)
f4 = pyfits.open(data_advs)
f3b = pyfits.PrimaryHDU(data=f3[0].data, header=f4[0].header)
c1 = SpectralCube.read(f3, use_dask=use_dask)
c2 = SpectralCube.read(f4, use_dask=use_dask)
c3 = SpectralCube.read(f3b, use_dask=use_dask)
assert c1.shape == c3.shape
# c2 has a different shape on disk...
f3.close()
f4.close()
def test_4d_stokes(data_advs, use_dask):
f = pyfits.open(data_advs)
c = StokesSpectralCube.read(f, use_dask=use_dask)
assert isinstance(c, StokesSpectralCube)
if use_dask:
assert isinstance(c.I, DaskSpectralCube)
else:
assert isinstance(c.I, SpectralCube)
f.close()
def test_4d_stokes_read_3d(data_adv, use_dask):
# Regression test for a bug that caused StokesSpectralCube.read to not work
# correctly when reading in a 3D FITS file.
f = pyfits.open(data_adv)
c = StokesSpectralCube.read(f, use_dask=use_dask)
assert isinstance(c, StokesSpectralCube)
f.close()
def test_3d_beams(data_vda_beams, use_dask):
c = SpectralCube.read(data_vda_beams, use_dask=use_dask)
np.testing.assert_almost_equal(c.beams[0].major.value, 0.4)
np.testing.assert_almost_equal(c.beams[0].minor.value, 0.1)
def test_4d_beams(data_sdav_beams, use_dask):
c = SpectralCube.read(data_sdav_beams, use_dask=use_dask)
np.testing.assert_almost_equal(c.beams[0].major.value, 0.4)
np.testing.assert_almost_equal(c.beams[0].minor.value, 0.1)
def test_4d_beams_nounits(data_sdav_beams_nounits, use_dask):
c = SpectralCube.read(data_sdav_beams_nounits, use_dask=use_dask)
np.testing.assert_almost_equal(c.beams[0].major.value, 0.4)
np.testing.assert_almost_equal(c.beams[0].minor.value, 0.1)
assert c.beams[0].major.unit == u.arcsec
assert c.beams[0].minor.unit == u.arcsec
def test_3d_beams_roundtrip(tmpdir, data_vda_beams, use_dask):
c = SpectralCube.read(data_vda_beams, use_dask=use_dask)
np.testing.assert_almost_equal(c.beams[0].major.value, 0.4)
np.testing.assert_almost_equal(c.beams[0].minor.value, 0.1)
c.write(tmpdir.join('vda_beams_out.fits').strpath)
c2 = SpectralCube.read(tmpdir.join('vda_beams_out.fits').strpath, use_dask=use_dask)
# assert c==c2 # this is not implemented?
assert np.all(c.filled_data[:] == c2.filled_data[:])
#assert c.wcs == c2.wcs # not implemented correctly?
np.testing.assert_almost_equal(c2.beams[0].major.value, 0.4)
np.testing.assert_almost_equal(c2.beams[0].minor.value, 0.1)
assert c2.beams[0].major.unit == u.arcsec
assert c2.beams[0].minor.unit == u.arcsec
def test_4d_beams_roundtrip(tmpdir, data_sdav_beams, use_dask):
# not sure if 4d can round-trip...
c = SpectralCube.read(data_sdav_beams, use_dask=use_dask)
np.testing.assert_almost_equal(c.beams[0].major.value, 0.4)
np.testing.assert_almost_equal(c.beams[0].minor.value, 0.1)
c.write(tmpdir.join('sdav_beams_out.fits').strpath)
c2 = SpectralCube.read(tmpdir.join('sdav_beams_out.fits').strpath, use_dask=use_dask)
# assert c==c2 # this is not implemented?
assert np.all(c.filled_data[:] == c2.filled_data[:])
#assert c.wcs == c2.wcs # not implemented correctly?
np.testing.assert_almost_equal(c2.beams[0].major.value, 0.4)
np.testing.assert_almost_equal(c2.beams[0].minor.value, 0.1)
assert c2.beams[0].major.unit == u.arcsec
assert c2.beams[0].minor.unit == u.arcsec
def test_1d(data_5_spectral):
hdul = pyfits.open(data_5_spectral)
hdu = hdul[0]
spec = OneDSpectrum.from_hdu(hdu)
np.testing.assert_almost_equal(spec, np.arange(5, dtype='float'))
hdul.close()
def test_1d_beams(data_5_spectral_beams, use_dask):
hdu = pyfits.open(data_5_spectral_beams)
spec = OneDSpectrum.from_hdu(hdu)
np.testing.assert_almost_equal(spec, np.arange(5, dtype='float'))
assert isinstance(spec, VaryingResolutionOneDSpectrum)
assert hasattr(spec, 'beams')
assert len(spec.beams) == 5
hdu.close()
def test_aips_beams_units(tmpdir, data_455_degree_beams, use_dask):
"""
regression test for #737, AIPS beam unit specs (degrees)
"""
c = SpectralCube.read(data_455_degree_beams, use_dask=use_dask)
np.testing.assert_almost_equal(c.beams[0].major.value, 0.4/3600)
np.testing.assert_almost_equal(c.beams[0].minor.value, 0.1/3600)
np.testing.assert_almost_equal(c.beams[0].major.to(u.arcsec).value, 0.4)
np.testing.assert_almost_equal(c.beams[0].minor.to(u.arcsec).value, 0.1)
def test_vrsc_fullstokes_read_fits(data_advs_beams_fullstokes):
'''
Test reading a spectral line data cube with full stokes and a beam table.
'''
c = StokesSpectralCube.read(data_advs_beams_fullstokes)
for component in ['I', 'Q', 'U', 'V']:
assert isinstance(c[component], VaryingResolutionSpectralCube)
assert hasattr(c[component], 'beams')
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