https://github.com/RadioAstronomySoftwareGroup/pyuvdata
Tip revision: c5a1b463f29b8164cda381e97e3d93a549be4179 authored by Bryna Hazelton on 29 April 2020, 15:53:31 UTC
Update changelog for new version, minor changelog correction.
Update changelog for new version, minor changelog correction.
Tip revision: c5a1b46
test_ms.py
# -*- mode: python; coding: utf-8 -*-
# Copyright (c) 2018 Radio Astronomy Software Group
# Licensed under the 2-clause BSD License
"""Tests for MS object.
"""
import pytest
import os
import shutil
import numpy as np
from pyuvdata import UVData
from pyuvdata.data import DATA_PATH
import pyuvdata.tests as uvtest
from ..uvfits import UVFITS
pytest.importorskip("casacore")
def test_cotter_ms():
"""Test reading in an ms made from MWA data with cotter (no dysco compression)"""
uvobj = UVData()
testfile = os.path.join(DATA_PATH, "1102865728_small.ms")
uvobj.read(testfile)
# check that a select on read works
uvobj2 = UVData()
uvtest.checkWarnings(
uvobj2.read,
[testfile],
{"freq_chans": np.arange(2)},
message="Warning: select on read keyword set",
)
uvobj.select(freq_chans=np.arange(2))
assert uvobj == uvobj2
del uvobj
def test_read_nrao():
"""Test reading in a CASA tutorial ms file."""
uvobj = UVData()
testfile = os.path.join(DATA_PATH, "day2_TDEM0003_10s_norx_1src_1spw.ms")
expected_extra_keywords = ["DATA_COL"]
uvobj.read(testfile)
assert sorted(expected_extra_keywords) == sorted(uvobj.extra_keywords.keys())
def test_read_lwa():
"""Test reading in an LWA ms file."""
uvobj = UVData()
testfile = os.path.join(DATA_PATH, "lwasv_cor_58342_05_00_14.ms.tar.gz")
expected_extra_keywords = ["DATA_COL"]
import tarfile
with tarfile.open(testfile) as tf:
new_filename = os.path.join(DATA_PATH, tf.getnames()[0])
tf.extractall(path=DATA_PATH)
uvobj.read(new_filename, file_type="ms")
assert sorted(expected_extra_keywords) == sorted(uvobj.extra_keywords.keys())
assert uvobj.history == uvobj.pyuvdata_version_str
# delete the untarred folder
shutil.rmtree(new_filename)
def test_no_spw():
"""Test reading in a PAPER ms converted by CASA from a uvfits with no spw axis."""
uvobj = UVData()
testfile_no_spw = os.path.join(DATA_PATH, "zen.2456865.60537.xy.uvcRREAAM.ms")
uvobj.read(testfile_no_spw)
del uvobj
def test_spwnotsupported():
"""Test errors on reading in an ms file with multiple spws."""
uvobj = UVData()
testfile = os.path.join(DATA_PATH, "day2_TDEM0003_10s_norx_1scan.ms")
pytest.raises(ValueError, uvobj.read, testfile)
del uvobj
def test_multi_len_spw():
"""Test errors on reading in an ms file with multiple spws with variable lenghth."""
uvobj = UVData()
testfile = os.path.join(DATA_PATH, "multi_len_spw.ms")
with pytest.raises(ValueError) as cm:
uvobj.read(testfile)
assert str(cm.value).startswith("Sorry. Files with more than one spectral")
def test_extra_pol_setup():
"""Test reading in an ms file with extra polarization setups (not used in data)."""
uvobj = UVData()
testfile = os.path.join(
DATA_PATH, "X5707_1spw_1scan_10chan_1time_1bl_noatm.ms.tar.gz"
)
import tarfile
with tarfile.open(testfile) as tf:
new_filename = os.path.join(DATA_PATH, tf.getnames()[0])
tf.extractall(path=DATA_PATH)
uvobj.read(new_filename, file_type="ms")
# delete the untarred folder
shutil.rmtree(new_filename)
def test_read_ms_read_uvfits():
"""
Test that a uvdata object instantiated from an ms file created with CASA's
importuvfits is equal to a uvdata object instantiated from the original
uvfits file (tests equivalence with importuvfits in uvdata).
Since the histories are different, this test sets both uvdata
histories to identical empty strings before comparing them.
"""
ms_uv = UVData()
uvfits_uv = UVData()
ms_file = os.path.join(DATA_PATH, "day2_TDEM0003_10s_norx_1src_1spw.ms")
uvfits_file = os.path.join(DATA_PATH, "day2_TDEM0003_10s_norx_1src_1spw.uvfits")
uvtest.checkWarnings(uvfits_uv.read, [uvfits_file], message="Telescope EVLA is not")
ms_uv.read(ms_file)
# set histories to identical blank strings since we do not expect
# them to be the same anyways.
ms_uv.history = ""
uvfits_uv.history = ""
# the objects won't be equal because uvfits adds some optional parameters
# and the ms sets default antenna diameters even though the uvfits file
# doesn't have them
assert uvfits_uv != ms_uv
# they are equal if only required parameters are checked:
assert uvfits_uv.__eq__(ms_uv, check_extra=False)
# set those parameters to none to check that the rest of the objects match
ms_uv.antenna_diameters = None
for p in uvfits_uv.extra():
fits_param = getattr(uvfits_uv, p)
ms_param = getattr(ms_uv, p)
if fits_param.name in UVFITS.uvfits_required_extra and ms_param.value is None:
fits_param.value = None
setattr(uvfits_uv, p, fits_param)
# extra keywords are also different, set both to empty dicts
uvfits_uv.extra_keywords = {}
ms_uv.extra_keywords = {}
assert uvfits_uv == ms_uv
del ms_uv
del uvfits_uv
def test_read_ms_write_uvfits(tmp_path):
"""
read ms, write uvfits test.
Read in ms file, write out as uvfits, read back in and check for
object equality.
"""
ms_uv = UVData()
uvfits_uv = UVData()
ms_file = os.path.join(DATA_PATH, "day2_TDEM0003_10s_norx_1src_1spw.ms")
testfile = str(tmp_path / "outtest.uvfits")
ms_uv.read(ms_file)
ms_uv.write_uvfits(testfile, spoof_nonessential=True)
uvtest.checkWarnings(uvfits_uv.read, [testfile], message="Telescope EVLA is not")
assert uvfits_uv == ms_uv
del ms_uv
del uvfits_uv
def test_read_ms_write_miriad(tmp_path):
"""
read ms, write miriad test.
Read in ms file, write out as miriad, read back in and check for
object equality.
"""
ms_uv = UVData()
miriad_uv = UVData()
ms_file = os.path.join(DATA_PATH, "day2_TDEM0003_10s_norx_1src_1spw.ms")
testfile = str(tmp_path / "outtest_miriad")
ms_uv.read(ms_file)
ms_uv.write_miriad(testfile, clobber=True)
uvtest.checkWarnings(miriad_uv.read, [testfile], message="Telescope EVLA is not")
assert miriad_uv == ms_uv
def test_multi_files():
"""
Reading multiple files at once.
"""
uv_full = UVData()
uv_multi = UVData()
uvfits_file = os.path.join(DATA_PATH, "day2_TDEM0003_10s_norx_1src_1spw.uvfits")
uvtest.checkWarnings(uv_full.read, [uvfits_file], message="Telescope EVLA is not")
testfile1 = os.path.join(DATA_PATH, "multi_1.ms")
testfile2 = os.path.join(DATA_PATH, "multi_2.ms")
uv_multi.read(np.array([testfile1, testfile2]))
# Casa scrambles the history parameter. Replace for now.
uv_multi.history = uv_full.history
# the objects won't be equal because uvfits adds some optional parameters
# and the ms sets default antenna diameters even though the uvfits file
# doesn't have them
assert uv_multi != uv_full
# they are equal if only required parameters are checked:
assert uv_multi.__eq__(uv_full, check_extra=False)
# set those parameters to none to check that the rest of the objects match
uv_multi.antenna_diameters = None
for p in uv_full.extra():
fits_param = getattr(uv_full, p)
ms_param = getattr(uv_multi, p)
if fits_param.name in UVFITS.uvfits_required_extra and ms_param.value is None:
fits_param.value = None
setattr(uv_full, p, fits_param)
# extra keywords are also different, set both to empty dicts
uv_full.extra_keywords = {}
uv_multi.extra_keywords = {}
assert uv_multi == uv_full
del uv_full
del uv_multi
def test_multi_files_axis():
"""
Reading multiple files at once, setting axis keyword
"""
uv_full = UVData()
uv_multi = UVData()
uvfits_file = os.path.join(DATA_PATH, "day2_TDEM0003_10s_norx_1src_1spw.uvfits")
uvtest.checkWarnings(uv_full.read, [uvfits_file], message="Telescope EVLA is not")
testfile1 = os.path.join(DATA_PATH, "multi_1.ms")
testfile2 = os.path.join(DATA_PATH, "multi_2.ms")
uv_multi.read([testfile1, testfile2], axis="freq")
# Casa scrambles the history parameter. Replace for now.
uv_multi.history = uv_full.history
# the objects won't be equal because uvfits adds some optional parameters
# and the ms sets default antenna diameters even though the uvfits file
# doesn't have them
assert uv_multi != uv_full
# they are equal if only required parameters are checked:
assert uv_multi.__eq__(uv_full, check_extra=False)
# set those parameters to none to check that the rest of the objects match
uv_multi.antenna_diameters = None
for p in uv_full.extra():
fits_param = getattr(uv_full, p)
ms_param = getattr(uv_multi, p)
if fits_param.name in UVFITS.uvfits_required_extra and ms_param.value is None:
fits_param.value = None
setattr(uv_full, p, fits_param)
# extra keywords are also different, set both to empty dicts
uv_full.extra_keywords = {}
uv_multi.extra_keywords = {}
assert uv_multi == uv_full
def test_bad_col_name():
"""
Test error with invalid column name.
"""
uvobj = UVData()
testfile = os.path.join(DATA_PATH, "day2_TDEM0003_10s_norx_1src_1spw.ms")
with pytest.raises(ValueError) as cm:
uvobj.read_ms(testfile, data_column="FOO")
assert str(cm.value).startswith("Invalid data_column value supplied")