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# Licensed under a 3-clause BSD style license - see LICENSE.rst
"""
=============
CadcClass TAP plus
=============
"""
from io import BytesIO
from urllib.parse import urlsplit, parse_qs
import os
import sys
from astropy.table import Table as AstroTable
from astropy.io.fits.hdu.hdulist import HDUList
from astropy.io.votable.tree import VOTableFile, Resource, Table, Field
from astropy.io.votable import parse
from astroquery.utils.commons import parse_coordinates, FileContainer
from astropy import units as u
from astropy.utils.exceptions import AstropyDeprecationWarning
import pytest
import tempfile
import requests
try:
pyvo_OK = True
from pyvo.auth import authsession
from astroquery.cadc import Cadc, conf
import astroquery.cadc.core as cadc_core
except ImportError:
pyvo_OK = False
pytest.skip("Install pyvo for the cadc module.", allow_module_level=True)
except AstropyDeprecationWarning as ex:
if str(ex) == \
'The astropy.vo.samp module has now been moved to astropy.samp':
print('AstropyDeprecationWarning: {}'.format(str(ex)))
else:
raise ex
try:
from unittest.mock import Mock, patch, PropertyMock
except ImportError:
pytest.skip("Install mock for the cadc tests.", allow_module_level=True)
def data_path(filename):
data_dir = os.path.join(os.path.dirname(__file__), 'data')
return os.path.join(data_dir, filename)
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_get_tables():
# default parameters
table_set = PropertyMock()
table_set.keys.return_value = ['table1', 'table2']
table_set.values.return_value = ['tab1val', 'tab2val', 'tab3val']
with patch('astroquery.cadc.core.pyvo.dal.TAPService', autospec=True) as tapservice_mock:
tapservice_mock.return_value.tables = table_set
cadc = Cadc()
assert len(cadc.get_tables(only_names=True)) == 2
assert len(cadc.get_tables()) == 3
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_get_table():
table_set = PropertyMock()
tables_result = [Mock() for _ in range(3)]
tables_result[0].name = 'tab1'
tables_result[1].name = 'tab2'
tables_result[2].name = 'tab3'
table_set.values.return_value = tables_result
with patch('astroquery.cadc.core.pyvo.dal.TAPService', autospec=True) as tapservice_mock:
tapservice_mock.return_value.tables = table_set
cadc = Cadc()
assert cadc.get_table('tab2').name == 'tab2'
assert cadc.get_table('foo') is None
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_get_collections():
cadc = Cadc()
def mock_run_query(query, output_format=None, maxrec=None,
output_file=None):
assert query == \
'select distinct collection, energy_emBand from caom2.EnumField'
assert output_format is None
assert maxrec is None
assert output_file is None
table = AstroTable(rows=[('CFHT', 'Optical'), ('CFHT', 'Infrared'),
('JCMT', 'Millimeter'), ('DAO', 'Optical'),
('DAO', 'Infrared')],
names=('collection', 'energy_emBand'))
return table
cadc.exec_sync = mock_run_query
result = cadc.get_collections()
assert len(result) == 3
assert 'CFHT' in result
assert 'JCMT' in result
assert 'DAO' in result
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_load_async_job():
with patch('astroquery.cadc.core.pyvo.dal.TAPService', autospec=True) as tapservice_mock:
with patch('astroquery.cadc.core.pyvo.dal.AsyncTAPJob',
autospec=True) as tapjob_mock:
tapservice_mock.return_value.baseurl.return_value = 'https://www.example.com/tap'
mock_job = Mock()
mock_job.job_id = '123'
tapjob_mock.return_value = mock_job
cadc = Cadc()
jobid = '123'
job = cadc.load_async_job(jobid)
assert job.job_id == '123'
@pytest.mark.skip('Disabled until job listing available in pyvo')
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_list_async_jobs():
with patch('astroquery.cadc.core.pyvo.dal.TAPService', autospec=True) as tapservice_mock:
tapservice_mock.return_value.baseurl.return_value = 'https://www.example.com/tap'
cadc = Cadc()
cadc.list_async_jobs()
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x, y=None: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_auth():
# the Cadc() will cause a remote data call to TAP service capabilities
# To avoid this, use an anonymous session and replace it with an
# auth session later
cadc = Cadc(auth_session=requests.Session())
cadc.cadctap._session = authsession.AuthSession()
user = 'user'
password = 'password'
cert = 'cert'
with pytest.raises(AttributeError):
cadc.login(None, None, None)
with pytest.raises(AttributeError):
cadc.login(user=user)
with pytest.raises(AttributeError):
cadc.login(password=password)
cadc.login(certificate_file=cert)
assert cadc.cadctap._session.credentials.get(
'ivo://ivoa.net/sso#tls-with-certificate').cert == cert
# reset and try with user password/cookies
cadc.cadctap._session = authsession.AuthSession()
post_mock = Mock()
cookie = 'ABC'
mock_resp = Mock()
mock_resp.text = cookie
post_mock.return_value.cookies = requests.cookies.RequestsCookieJar()
post_mock.return_value = mock_resp
cadc._request = post_mock
cadc.login(user=user, password=password)
assert cadc.cadctap._session.credentials.get(
'ivo://ivoa.net/sso#cookie').cookies[cadc_core.CADC_COOKIE_PREFIX] == \
'"{}"'.format(cookie)
# make sure that caps is reset at the end of the test
@patch('astroquery.cadc.core.get_access_url.caps', {})
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_get_access_url():
# testing implementation of requests.get method:
def get(url, **kwargs):
class ServiceResponse:
def __init__(self):
self.text = 'ivo://cadc.nrc.ca/mytap = http://my.org/mytap'
def raise_for_status(self):
pass
class CapabilitiesResponse:
def __init__(self):
caps_file = data_path('tap_caps.xml')
self.text = open(caps_file, 'r').read()
def raise_for_status(self):
pass
if url == conf.CADC_REGISTRY_URL:
return ServiceResponse()
else:
return CapabilitiesResponse()
# now use it in testing
with patch.object(cadc_core.requests, 'get', get):
cadc_core.get_access_url.caps = {}
assert 'http://my.org/mytap' == cadc_core.get_access_url('mytap')
assert 'https://www.cadc-ccda.hia-iha.nrc-cnrc.gc.ca/argus/tables' == \
cadc_core.get_access_url('mytap',
'ivo://ivoa.net/std/VOSI#tables-1.1')
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x, y=None: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_get_data_urls():
def get(*args, **kwargs):
class CapsResponse:
def __init__(self):
self.status_code = 200
self.content = b''
def raise_for_status(self):
pass
return CapsResponse()
class Result:
pass
file1 = Mock()
file1.semantics = '#this'
file1.access_url = 'https://get.your.data/path'
file2 = Mock()
file2.semantics = '#aux'
file2.access_url = 'https://get.your.data/auxpath'
file3 = Mock()
file3.semantics = '#preview'
file3.access_url = 'https://get.your.data/previewpath'
# add the package file that should be filtered out
package_file_old = Mock()
package_file_old.semantics = 'http://www.opencadc.org/caom2#pkg'
package_file = Mock()
package_file.semantics = '#package'
result = [file1, file2, file3, package_file_old, package_file]
with patch('pyvo.dal.adhoc.DatalinkResults.from_result_url') as \
dl_results_mock:
dl_results_mock.return_value = result
cadc = Cadc()
cadc._request = get # mock the request
assert [file1.access_url] == \
cadc.get_data_urls({'publisherID': ['ivo://cadc.nrc.ca/foo']})
assert [file1.access_url, file2.access_url, file3.access_url] == \
cadc.get_data_urls({'publisherID': ['ivo://cadc.nrc.ca/foo']},
include_auxiliaries=True)
with pytest.raises(AttributeError):
cadc.get_data_urls(None)
with pytest.raises(AttributeError):
cadc.get_data_urls({'noPublisherID': 'test'})
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x, y=None: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_misc():
cadc = Cadc()
coords = '08h45m07.5s +54d18m00s'
coords_ra = parse_coordinates(coords).fk5.ra.degree
coords_dec = parse_coordinates(coords).fk5.dec.degree
assert "SELECT * from caom2.Observation o join caom2.Plane p ON " \
"o.obsID=p.obsID WHERE INTERSECTS( CIRCLE('ICRS', " \
"{}, {}, 0.3), position_bounds) = 1 " \
"AND (quality_flag IS NULL OR quality_flag != 'junk') " \
"AND collection='CFHT' AND dataProductType='image'".\
format(coords_ra, coords_dec) == \
cadc._args_to_payload(**{'coordinates': coords,
'radius': 0.3 * u.deg, 'collection':
'CFHT',
'data_product_type': 'image'})['query']
# no collection or data_product_type
assert "SELECT * from caom2.Observation o join caom2.Plane p ON " \
"o.obsID=p.obsID WHERE INTERSECTS( CIRCLE('ICRS', " \
"{}, {}, 0.3), position_bounds) = 1 AND (quality_flag IS NULL OR " \
"quality_flag != 'junk')".format(coords_ra, coords_dec) == \
cadc._args_to_payload(**{'coordinates': coords,
'radius': '0.3 deg'})['query']
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x, y=None: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_get_image_list():
def get(*args, **kwargs):
class CapsResponse:
def __init__(self):
self.status_code = 200
self.content = b''
def raise_for_status(self):
pass
return CapsResponse()
class Params:
def __init__(self, **param_dict):
self.__dict__.update(param_dict)
coords = '08h45m07.5s +54d18m00s'
coords_ra = parse_coordinates(coords).fk5.ra.degree
coords_dec = parse_coordinates(coords).fk5.dec.degree
radius = 0.1*u.deg
uri = 'im_an_ID'
run_id = 'im_a_RUNID'
pos = 'CIRCLE {} {} {}'.format(coords_ra, coords_dec, radius.value)
service_def1 = Mock()
service_def1.access_url = \
b'https://www.cadc-ccda.hia-iha.nrc-cnrc.gc.ca/caom2ops/sync'
service_def1.input_params = [Params(name='ID', value=uri),
Params(name='RUNID', value=run_id)]
service_def2 = Mock()
service_def2.access_url = \
b'https://www.cadc-ccda.hia-iha.nrc-cnrc.gc.ca/caom2ops/async'
service_def2.input_params = [Params(name='ID', value=uri),
Params(name='RUNID', value=run_id)]
result = Mock()
service_def_list = [service_def1, service_def2]
result.bysemantics.return_value = service_def_list
with patch('pyvo.dal.adhoc.DatalinkResults.from_result_url') as dl_results_mock:
dl_results_mock.return_value = result
cadc = Cadc()
cadc._request = get # Mock the request
url_list = cadc.get_image_list(
{'publisherID': ['ivo://cadc.nrc.ca/foo']}, coords, radius)
assert len(url_list) == 1
params = parse_qs(urlsplit(url_list[0]).query)
assert params['ID'][0] == uri
assert params['RUNID'][0] == run_id
assert params['POS'][0] == pos
with pytest.raises(TypeError):
cadc.get_image_list(None)
with pytest.raises(AttributeError):
cadc.get_image_list(None, coords, radius)
with pytest.raises(TypeError):
cadc.get_image_list({'publisherID': [
'ivo://cadc.nrc.ca/foo']}, coords, 0.1)
@patch('astroquery.cadc.core.get_access_url',
Mock(side_effect=lambda x, y=None: 'https://some.url'))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_exec_sync():
# save results in a file
# create the VOTable result
# example from http://docs.astropy.org/en/stable/io/votable/
votable = VOTableFile()
resource = Resource()
votable.resources.append(resource)
table = Table(votable)
resource.tables.append(table)
table.fields.extend([
Field(votable, name="filename", datatype="char", arraysize="*"),
Field(votable, name="matrix", datatype="double", arraysize="2x2")])
table.create_arrays(2)
table.array[0] = ('test1.xml', [[1, 0], [0, 1]])
table.array[1] = ('test2.xml', [[0.5, 0.3], [0.2, 0.1]])
buffer = BytesIO()
votable.to_xml(buffer)
cadc = Cadc(auth_session=requests.Session())
response = Mock()
response.to_table.return_value = buffer.getvalue()
cadc.cadctap.search = Mock(return_value=response)
output_file = '{}/test_vooutput.xml'.format(tempfile.mkdtemp())
cadc.exec_sync('some query', output_file=output_file)
actual = parse(output_file)
assert len(votable.resources) == len(actual.resources) == 1
assert len(votable.resources[0].tables) ==\
len(actual.resources[0].tables) == 1
actual_table = actual.resources[0].tables[0]
try:
# TODO remove when astropy LTS upgraded
from astropy.utils.diff import report_diff_values
assert report_diff_values(table, actual_table, fileobj=sys.stdout)
except ImportError:
pass
@patch('astroquery.cadc.core.CadcClass.exec_sync', Mock())
@patch('astroquery.cadc.core.CadcClass.get_image_list',
Mock(side_effect=lambda x, y, z: ['https://some.url']))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_get_images():
with patch('astroquery.utils.commons.get_readable_fileobj', autospec=True) as readable_fobj_mock:
readable_fobj_mock.return_value = open(data_path('query_images.fits'), 'rb')
cadc = Cadc()
fits_images = cadc.get_images('08h45m07.5s +54d18m00s', 0.01*u.deg,
get_url_list=True)
assert fits_images == ['https://some.url']
fits_images = cadc.get_images('08h45m07.5s +54d18m00s', '0.01 deg')
assert fits_images is not None
assert isinstance(fits_images[0], HDUList)
@patch('astroquery.cadc.core.CadcClass.exec_sync', Mock())
@patch('astroquery.cadc.core.CadcClass.get_image_list',
Mock(side_effect=lambda x, y, z: ['https://some.url']))
@pytest.mark.skipif(not pyvo_OK, reason='not pyvo_OK')
def test_get_images_async():
with patch('astroquery.utils.commons.get_readable_fileobj', autospec=True) as readable_fobj_mock:
readable_fobj_mock.return_value = open(data_path('query_images.fits'), 'rb')
cadc = Cadc()
readable_objs = cadc.get_images_async('08h45m07.5s +54d18m00s',
0.01*u.arcmin,
get_url_list=True)
assert readable_objs == ['https://some.url']
readable_objs = cadc.get_images_async('08h45m07.5s +54d18m00s',
'0.01 arcsec')
assert readable_objs is not None
assert isinstance(readable_objs[0], FileContainer)
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