class MetricSetSubsetTestCase(unittest.TestCase):
"""Test case for MetricSet.subset."""
def setUp(self):
self.m1 = Metric('pkgA.m1', 'In pkgA', '', tags='testing')
self.m2 = Metric('pkgA.m2', 'In pkgA', '', tags='other')
self.m3 = Metric('pkgB.m3', 'In pkgB', '', tags='testing')
self.metric_set = MetricSet([self.m1, self.m2, self.m3])
def test_subset_A(self):
subset = self.metric_set.subset('pkgA')
self.assertEqual(len(subset), 2)
self.assertIn(self.m1.name, subset)
self.assertIn(self.m2.name, subset)
self.assertNotIn(self.m3.name, subset)
def test_subset_B(self):
subset = self.metric_set.subset('pkgB')
self.assertEqual(len(subset), 1)
self.assertNotIn(self.m1.name, subset)
self.assertNotIn(self.m2.name, subset)
self.assertIn(self.m3.name, subset)
def test_subset_testing_tag(self):
subset = self.metric_set.subset(tags=['testing'])
self.assertEqual(len(subset), 2)
self.assertIn(self.m1.name, subset)
self.assertNotIn(self.m2.name, subset)
self.assertIn(self.m3.name, subset)
def test_subset_A_testing_tag(self):
subset = self.metric_set.subset(package='pkgA', tags=['testing'])
self.assertEqual(len(subset), 1)
self.assertIn(self.m1.name, subset)
self.assertNotIn(self.m2.name, subset)
self.assertNotIn(self.m3.name, subset)
def test_insert(self):
"""Test MetricSet.insert."""
m1 = Metric('validate_drp.test',
'test',
'',
reference_url='example.com',
reference_doc='Doc',
reference_page=1)
metric_set = MetricSet()
metric_set.insert(m1)
self.assertEqual(m1, metric_set['validate_drp.test'])
def test_setitem_delitem(self):
"""Test adding and deleting metrics."""
m1 = Metric('validate_drp.test',
'test',
'',
reference_url='example.com',
reference_doc='Doc',
reference_page=1)
metric_set = MetricSet()
self.assertEqual(len(metric_set), 0)
metric_set['validate_drp.test'] = m1
self.assertEqual(len(metric_set), 1)
self.assertEqual(metric_set['validate_drp.test'], m1)
with self.assertRaises(KeyError):
# inconsistent metric names
metric_set['validate_drp.new_test'] = m1
with self.assertRaises(TypeError):
# Not a metric name
n = Name('validate_drp')
m2 = Metric(n, 'test', '')
metric_set[n] = m2
del metric_set['validate_drp.test']
self.assertEqual(len(metric_set), 0)
def ingest_data(filenames, metrics_package):
"""Load JSON files into a list of lsst.validate.base measurement Jobs.
Parameters
----------
filenames : list of str
Filenames of JSON files to load.
Returns
-------
job_list : list of lsst.validate.base.Job
Each element is the Job representation of the JSON file.
"""
jobs = {}
# Read in JSON output from metrics run
for filename in filenames:
with open(filename) as fh:
data = json.load(fh)
job = Job.deserialize(**data)
filter_name = job.meta['filter_name']
metrics = MetricSet.load_metrics_package(metrics_package)
job.metrics.update(metrics)
specs = SpecificationSet.load_metrics_package(metrics_package)
job.specs.update(specs)
jobs[filter_name] = job
return jobs
def main():
try:
default_metrics_package_dir = getPackageDir('verify_metrics')
except lsst.pex.exceptions.NotFoundError:
default_metrics_package_dir = None
parser = argparse.ArgumentParser(
description=__doc__,
formatter_class=argparse.RawDescriptionHelpFormatter)
parser.add_argument("package_dir",
default=default_metrics_package_dir,
type=str,
nargs='?',
help="Filepath of the metrics package to be checked.")
args = parser.parse_args()
print('Linting {}.'.format(args.package_dir))
metric_repo = MetricSet.load_metrics_package(args.package_dir)
print('Passed: metrics/')
print('\tParsed {0:d} metric sets.'.format(len(metric_repo)))
spec_set = SpecificationSet.load_metrics_package(args.package_dir)
print('Passed: specs/')
print('\tParsed {0:d} specifications.'.format(len(spec_set)))
print("\nAll tests passed.")
def __init__(self, repository, collection, metrics_package, spec, dataset_name):
# Hard coding verify_metrics as the packager for now.
# It would be easy to pass this in as an argument, if necessary.
self.metrics = MetricSet.load_metrics_package(package_name_or_path='verify_metrics',
subset=metrics_package)
self.butler = Butler(repository)
self.registry = self.butler.registry
self.spec = spec
self.collection = collection
self.dataset_name = dataset_name
def setUp(self):
"""Use YAML in data/metrics for metric definitions."""
self.metrics_yaml_dirname = os.path.join(os.path.dirname(__file__),
'data')
self.metric_set = MetricSet.load_metrics_package(
self.metrics_yaml_dirname)
self.pa1_meas = Measurement(self.metric_set['testing.PA1'],
4. * u.mmag)
self.am1_meas = Measurement(self.metric_set['testing.AM1'],
2. * u.marcsec)
self.pa2_meas = Measurement(self.metric_set['testing.PA2'],
10. * u.mmag)
def setUp(self):
# Mock metrics
self.metric_photrms = Metric('test.PhotRms', 'Photometric RMS', 'mmag')
self.metric_photmed = Metric('test.PhotMedian', 'Median magntidue',
'mag')
self.metric_set = MetricSet([self.metric_photrms, self.metric_photmed])
# Mock specifications
self.spec_photrms_design = ThresholdSpecification(
'test.PhotRms.design', 20. * u.mmag, '<')
self.spec_set = SpecificationSet([self.spec_photrms_design])
# Mock measurements
self.meas_photrms = Measurement(self.metric_photrms,
15 * u.mmag,
notes={'note': 'value'})
self.meas_photrms.extras['n_stars'] = Datum(
250,
label='N stars',
description='Number of stars included in RMS estimate')
self.measurement_set = MeasurementSet([self.meas_photrms])
# Metrics for Job 2
self.metric_test_2 = Metric('test2.SourceCount', 'Source Count', '')
self.blob_test_2 = Blob('test2_blob',
sn=Datum(50 * u.dimensionless_unscaled,
label='S/N'))
self.metric_set_2 = MetricSet([self.metric_test_2])
# Specifications for Job 2
self.spec_test_2 = ThresholdSpecification(
'test2.SourceCount.design', 100 * u.dimensionless_unscaled, '>=')
self.spec_set_2 = SpecificationSet([self.spec_test_2])
# Measurements for Job 2
self.meas_test_2_SourceCount = Measurement(
self.metric_test_2, 200 * u.dimensionless_unscaled)
self.meas_test_2_SourceCount.link_blob(self.blob_test_2)
self.measurement_set_2 = MeasurementSet([self.meas_test_2_SourceCount])
def main():
"""Main entrypoint for the ``lint_metrics.py`` script.
"""
args = build_argparser().parse_args()
print('Linting {}.'.format(args.package_dir))
metric_repo = MetricSet.load_metrics_package(args.package_dir)
print('Passed: metrics/')
print('\tParsed {0:d} metric sets.'.format(len(metric_repo)))
spec_set = SpecificationSet.load_metrics_package(args.package_dir)
print('Passed: specs/')
print('\tParsed {0:d} specifications.'.format(len(spec_set)))
print("\nAll tests passed.")
def test_update(self):
"""Test MetricSet.update."""
m1 = Metric('validate_drp.test',
'test',
'',
reference_url='example.com',
reference_doc='Doc',
reference_page=1)
new_metric_set = MetricSet([m1])
self.metric_set.update(new_metric_set)
self.assertIn('validate_drp.test', self.metric_set)
self.assertIn('testing.PA1', self.metric_set)
self.assertIn('testing.PF1', self.metric_set)
self.assertIn('testing.PA2', self.metric_set)
self.assertIn('testing.AM1', self.metric_set)
def test_iadd(self):
"""Test __iadd__ to merging metric sets."""
m1 = Metric('validate_drp.test',
'test',
'',
reference_url='example.com',
reference_doc='Doc',
reference_page=1)
new_metric_set = MetricSet([m1])
self.metric_set += new_metric_set
self.assertIn('validate_drp.test', self.metric_set)
self.assertIn('testing.PA1', self.metric_set)
self.assertIn('testing.PF1', self.metric_set)
self.assertIn('testing.PA2', self.metric_set)
self.assertIn('testing.AM1', self.metric_set)
def load_json_output(filepath, metrics_package='verify_metrics'):
"""Read JSON from a file into a job object.
Currently just does a trivial de-serialization with no checking
to make sure that one results with a valid validate.base.job object.
Parameters
----------
filepath : `str`
Source file name for JSON output.
Returns
-------
job : A `validate.base.job` object.
"""
with open(filepath, 'r') as infile:
json_data = json.load(infile)
job = Job.deserialize(**json_data)
metrics = MetricSet.load_metrics_package(metrics_package)
job.metrics.update(metrics)
specs = SpecificationSet.load_metrics_package(metrics_package)
job.specs.update(specs)
return job
def test_serialization(self):
json_doc = self.metric_set.json
new_metric_set = MetricSet.deserialize(json_doc)
self.assertEqual(self.metric_set, new_metric_set)
def setUp(self):
self.metrics_yaml_dirname = os.path.join(os.path.dirname(__file__),
'data')
self.metric_set = MetricSet.load_metrics_package(
self.metrics_yaml_dirname)
def setUp(self):
self.metric_set = MetricSet.load_metrics_package('verify_metrics')
def test_nonexistent_package(self):
"""Test handling of non-existing metrics packages/directories."""
with self.assertRaises(OSError):
MetricSet.load_metrics_package('nonexistent_metrics')
def setUp(self):
self.m1 = Metric('pkgA.m1', 'In pkgA', '', tags=['testing'])
self.m2 = Metric('pkgA.m2', 'In pkgA', '', tags=['other'])
self.m3 = Metric('pkgB.m3', 'In pkgB', '', tags=['testing'])
self.metric_set = MetricSet([self.m1, self.m2, self.m3])
