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test_inventory.py
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/
test_inventory.py
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#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Test suite for the sc3ml reader inventory.
Modified after obspy.io.stationXML
> obspy.obspy.io.stationxml.core.py
:author:
Mathijs Koymans (koymans@knmi.nl), 11.2015 - [Jollyfant@GitHub]
:license:
GNU Lesser General Public License, Version 3
(https://www.gnu.org/copyleft/lesser.html)
"""
import io
import os
import re
import unittest
import warnings
import pytest
from obspy.core.inventory import read_inventory
from obspy.core.inventory.response import (CoefficientsTypeResponseStage,
FIRResponseStage)
from obspy.io.seiscomp.inventory import (
_count_complex, _parse_list_of_complex_string, SCHEMA_NAMESPACE_BASE)
class SC3MLTestCase(unittest.TestCase):
def setUp(self):
"""
Read example SeisComp XML format to Inventory
"""
self.data_dir = os.path.join(os.path.dirname(__file__), "data")
stationxml_path = os.path.join(self.data_dir, "EB_response_stationXML")
sc3ml_path = os.path.join(self.data_dir, "EB_response_sc3ml")
self.stationxml_inventory = read_inventory(stationxml_path,
format="STATIONXML")
self.sc3ml_inventory = read_inventory(sc3ml_path, format="SC3ML")
def test_sc3ml_versions(self):
"""
Test multiple schema versions
"""
for version in ['0.5', '0.99']:
filename = os.path.join(self.data_dir, 'version%s' % version)
with self.assertRaises(ValueError) as e:
with warnings.catch_warnings():
warnings.simplefilter("ignore")
read_inventory(filename)
self.assertEqual(e.exception.args[0],
"Schema version not supported.")
@pytest.mark.filterwarnings('ignore:.*rate of 0')
def test_channel_level(self):
"""
Test inventory without repsonse information up to
channel level
"""
inv = read_inventory(os.path.join(self.data_dir,
"channel_level.sc3ml"))
self.assertEqual(inv[0].code, "NL")
self.assertEqual(inv[0][0].code, "HGN")
for cha in inv[0][0].channels:
self.assertTrue(cha.code in ["BHE", "BHN", "BHZ"])
def test_compare_xml(self):
"""
Easiest way to compare is to write both Inventories back
to stationXML format and compare line by line
"""
sc3ml_bytes = io.BytesIO()
self.sc3ml_inventory.write(sc3ml_bytes, "STATIONXML")
sc3ml_bytes.seek(0, 0)
sc3ml_lines = sc3ml_bytes.read().decode().splitlines()
sc3ml_arr = [_i.strip() for _i in sc3ml_lines if _i.strip()]
stationxml_bytes = io.BytesIO()
self.stationxml_inventory.write(stationxml_bytes, "STATIONXML")
stationxml_bytes.seek(0, 0)
stationxml_lines = stationxml_bytes.read().decode().splitlines()
stationxml_arr = [_i.strip() for _i in stationxml_lines if _i.strip()]
# The following tags can be different between sc3ml/stationXML
# <Source>SeisComP3</Source> | <Source>sc3ml import</Source>
# <Sender>ODC</Sender> | <Sender>ObsPy Inventory</Sender>
# <Created>2015-11-23T11:52:37+00:00</Created>
# <Coefficients> | <Coefficients name="EBR.2002.091.H" ~
# We disregard these differences because they are unimportant
excluded_tags = ["Source", "Sender", "Created", "Name",
"Coefficients"]
# also ignore StorageFormat which doesnt exist anymore in
# StationXML 1.1 and is saved into extra / a foreign tag
pattern_format_line = (
r'<([^:]*):format xmlns:\1='
r'"http://geofon.gfz-potsdam.de/ns/seiscomp3-schema/[\.0-9]*">')
sc3ml_arr = [line for line in sc3ml_arr
if not re.search(pattern_format_line, line)]
# Compare the two stationXMLs line by line
# If one XML has an entry that the other one does not, this procedure
# breaks e.g. an extra <type> tag will misalign lines to be compared
# Often the stationXML has a double sensor <type>/<model> tag that
# sc3ml lacks
for sc3ml, stationxml in zip(sc3ml_arr, stationxml_arr):
if sc3ml != stationxml:
tag = str(stationxml).split(">")[0][1:]
assert tag in excluded_tags
def test_empty_depth(self):
"""
Assert depth, latitude, longitude, elevation set to 0.0 if left empty
"""
with warnings.catch_warnings(record=True) as w:
warnings.simplefilter("default")
read_inventory(os.path.join(self.data_dir,
"sc3ml_empty_depth_and_id.sc3ml"))
self.assertEqual(len(w), 4)
self.assertEqual(str(w[0].message), "Sensor is missing "
"longitude information, "
"using 0.0")
self.assertEqual(str(w[1].message), "Sensor is missing "
"latitude information, "
"using 0.0")
self.assertEqual(str(w[2].message), "Sensor is missing elevation "
"information, using 0.0")
self.assertEqual(str(w[3].message), "Channel is missing depth "
"information, using 0.0")
def test_compare_upper_level(self):
"""
Assert the top-level contents of the two dictionaries
Networks, channels, stations, locations
"""
stationxml_content = self.stationxml_inventory.get_contents()
sc3ml_content = self.sc3ml_inventory.get_contents()
for sc3ml, stationxml in zip(stationxml_content, sc3ml_content):
self.assertEqual(sc3ml, stationxml)
def test_compare_response(self):
"""
More assertions in the actual response info
"""
for sc3ml_net, stationxml_net in zip(self.sc3ml_inventory,
self.stationxml_inventory):
self.assertEqual(sc3ml_net.code, stationxml_net.code)
self.assertEqual(sc3ml_net.description,
stationxml_net.description)
self.assertEqual(sc3ml_net.start_date, stationxml_net.start_date)
self.assertEqual(sc3ml_net.end_date, stationxml_net.end_date)
self.assertEqual(sc3ml_net.restricted_status,
stationxml_net.restricted_status)
for sc3ml_sta, stationxml_sta in zip(sc3ml_net, stationxml_net):
self.assertEqual(sc3ml_sta.latitude,
stationxml_sta.latitude)
self.assertEqual(sc3ml_sta.longitude,
stationxml_sta.longitude)
self.assertEqual(sc3ml_sta.elevation,
stationxml_sta.elevation)
self.assertEqual(sc3ml_sta.creation_date,
stationxml_sta.creation_date)
self.assertEqual(sc3ml_sta.termination_date,
stationxml_sta.termination_date)
staxml_items = stationxml_sta.site.__dict__.items()
sc3ml_items = sc3ml_sta.site.__dict__.items()
for sc3ml_site, stationxml_site in zip(staxml_items,
sc3ml_items):
self.assertEqual(sc3ml_site, stationxml_site)
for sc3ml_cha, stationxml_cha in zip(sc3ml_sta,
stationxml_sta):
self.assertEqual(sc3ml_cha.code, stationxml_cha.code)
self.assertEqual(sc3ml_cha.latitude,
stationxml_cha.latitude)
self.assertEqual(sc3ml_cha.longitude,
stationxml_cha.longitude)
self.assertEqual(sc3ml_cha.elevation,
stationxml_cha.elevation)
self.assertEqual(sc3ml_cha.azimuth,
stationxml_cha.azimuth)
self.assertEqual(sc3ml_cha.dip,
stationxml_cha.dip)
# reading stationxml will ignore old StationXML 1.0 defined
# StorageFormat, Arclink Inventory XML and SC3ML get it
# stored in extra now
with pytest.warns(UserWarning, match='.*storage_format.*'):
self.assertEqual(sc3ml_cha.storage_format, None)
self.assertEqual(stationxml_cha.storage_format, None)
self.assertEqual(sc3ml_cha.extra['format']['value'],
'Steim2')
namespace = sc3ml_cha.extra['format'].get('namespace')
self.assertTrue(
namespace.startswith(SCHEMA_NAMESPACE_BASE))
cdisps = "clock_drift_in_seconds_per_sample"
self.assertEqual(getattr(sc3ml_cha, cdisps),
getattr(stationxml_cha, cdisps))
for sc3ml, stationxml in zip(stationxml_cha.data_logger.
__dict__.items(),
sc3ml_cha.data_logger.
__dict__.items()):
self.assertEqual(sc3ml, stationxml)
for sc3ml, stationxml in zip(stationxml_cha.sensor.
__dict__.items(),
sc3ml_cha.sensor.
__dict__.items()):
self.assertEqual(sc3ml, stationxml)
self.assertEqual(sc3ml_cha.sample_rate,
stationxml_cha.sample_rate)
sc3ml_ins = sc3ml_cha.response.instrument_sensitivity
stationxml_ins = sc3ml_cha.response.instrument_sensitivity
self.assertEqual(sc3ml_ins.value,
stationxml_ins.value)
self.assertEqual(sc3ml_ins.frequency,
stationxml_ins.frequency)
self.assertEqual(sc3ml_ins.input_units,
stationxml_ins.input_units)
self.assertEqual(len(sc3ml_cha.response.response_stages),
len(stationxml_cha.
response.response_stages))
for sc3ml, stationxml in zip(sc3ml_cha.response.
response_stages,
stationxml_cha.response.
response_stages):
self.assertEqual(sc3ml.stage_gain,
stationxml.stage_gain)
self.assertEqual(sc3ml.stage_sequence_number,
stationxml.
stage_sequence_number)
# We skip checking this stage, because the input
# sample rates may not match
# StationXML gives a sample rate of 10e-310 (0) for
# some channels while this should be the sample rate
# after stage 1 (never 0)
if isinstance(sc3ml, CoefficientsTypeResponseStage):
continue
if isinstance(sc3ml, FIRResponseStage):
self.assertEqual(sc3ml.__dict__,
stationxml.__dict__)
""" Check poles / zeros """
sc3ml_paz = sc3ml_cha.response.get_paz()
stationxml_paz = stationxml_cha.response.get_paz()
self.assertEqual(sc3ml_paz.normalization_frequency,
stationxml_paz.normalization_frequency)
self.assertEqual(sc3ml_paz.normalization_factor,
stationxml_paz.normalization_factor)
self.assertEqual(sc3ml_paz.pz_transfer_function_type,
stationxml_paz.pz_transfer_function_type)
for sc3ml, stationxml in zip(sc3ml_paz.poles,
stationxml_paz.poles):
self.assertEqual(sc3ml, stationxml)
for sc3ml, stationxml in zip(sc3ml_paz.zeros,
stationxml_paz.zeros):
self.assertEqual(sc3ml, stationxml)
def test_parse_complex_list(self):
"""
Tests parsing list of complex numbers from seiscomp3 xml.
"""
complex_string = (" ( -0.037 , 0.037 ) (-0.037,-0.037)"
"(-6909, 9208)( -6909 ,-9208) ")
self.assertEqual(_count_complex(complex_string), 4)
parsed = _parse_list_of_complex_string(complex_string)
self.assertEqual(parsed, [('-0.037', '0.037'), ('-0.037', '-0.037'),
('-6909', '9208'), ('-6909', '-9208')])
# test some bad string
complex_string = " ( -0.037 , 0.037 ) (-0.037,-0.037"
with self.assertRaises(ValueError):
_count_complex(complex_string)
with self.assertRaises(ValueError):
_parse_list_of_complex_string(complex_string)
def test_stage_empty_poles_and_zeros(self):
"""
Tests for a case where the poles and zeros are empty see #2633
"""
sc3ml_mbar_path = os.path.join(
self.data_dir, "zero_poles_and_zeros.sc3ml")
sc3ml_inv = read_inventory(sc3ml_mbar_path)
response = sc3ml_inv[0][0][0].response
zeros = response.response_stages[1].zeros
poles = response.response_stages[1].poles
self.assertEqual(zeros, [])
self.assertEqual(poles, [])