https://github.com/RadioAstronomySoftwareGroup/pyuvdata
Tip revision: 573d5c7129e32692fb9e03342eb2561dcaa81384 authored by Matthew Kolopanis on 21 October 2021, 16:17:15 UTC
Let miriad be more flexible with complex types; typo fix
Let miriad be more flexible with complex types; typo fix
Tip revision: 573d5c7
uvbase.py
# -*- mode: python; coding: utf-8 -*-
# Copyright (c) 2018 Radio Astronomy Software Group
# Licensed under the 2-clause BSD License
"""
Base class for objects with UVParameter attributes.
Subclassed by UVData and Telescope.
"""
import copy
import warnings
import numpy as np
from astropy.units import Quantity
from . import parameter as uvp
from .utils import _get_iterable
from . import __version__
__all__ = ["UVBase"]
def _warning(msg, *a, **kwargs):
"""Improve the printing of user warnings."""
return str(msg) + "\n"
class UVBase(object):
"""
Base class for objects with UVParameter attributes.
This class is intended to be subclassed and its init method should be
called in the subclass init after all associated UVParameter attributes are
defined. The init method of this base class creates properties
(named using UVParameter.name) from all the UVParameter attributes on the subclass.
AngleParameter and LocationParameter attributes also have extra convenience
properties defined:
AngleParameter:
UVParameter.name+'_degrees'
LocationParameter:
UVParameter.name+'_lat_lon_alt'
UVParameter.name+'_lat_lon_alt_degrees'
"""
def _setup_parameters(self):
"""Set up parameter objects to be able to be referenced by their names."""
# set any UVParameter attributes to be properties
for p in self:
this_param = getattr(self, p)
attr_name = this_param.name
setattr(
self.__class__,
attr_name,
property(self.prop_fget(p), self.prop_fset(p)),
)
if isinstance(this_param, uvp.AngleParameter):
setattr(
self.__class__,
attr_name + "_degrees",
property(self.degree_prop_fget(p), self.degree_prop_fset(p)),
)
elif isinstance(this_param, uvp.LocationParameter):
setattr(
self.__class__,
attr_name + "_lat_lon_alt",
property(
self.lat_lon_alt_prop_fget(p), self.lat_lon_alt_prop_fset(p)
),
)
setattr(
self.__class__,
attr_name + "_lat_lon_alt_degrees",
property(
self.lat_lon_alt_degrees_prop_fget(p),
self.lat_lon_alt_degrees_prop_fset(p),
),
)
return
def __init__(self):
"""Create properties from UVParameter attributes."""
warnings.formatwarning = _warning
self._setup_parameters()
# String to add to history of any files written with this version of pyuvdata
self.pyuvdata_version_str = (
f" Read/written with pyuvdata version: {__version__ }."
)
def __setstate__(self, state):
"""Set the state of the object from given input state."""
self.__dict__ = state
self._setup_parameters()
def prop_fget(self, param_name):
"""Getter method for UVParameter properties."""
# Create function to return
def fget(self):
this_param = getattr(self, param_name)
return this_param.value
return fget
def prop_fset(self, param_name):
"""Setter method for UVParameter properties."""
# Create function to return
def fset(self, value):
this_param = getattr(self, param_name)
this_param.value = value
setattr(self, param_name, this_param)
return fset
def degree_prop_fget(self, param_name):
"""Degree getter method for AngleParameter properties."""
# Create function to return
def fget(self):
this_param = getattr(self, param_name)
return this_param.degrees()
return fget
def degree_prop_fset(self, param_name):
"""Degree setter method for AngleParameter properties."""
# Create function to return
def fset(self, value):
this_param = getattr(self, param_name)
this_param.set_degrees(value)
setattr(self, param_name, this_param)
return fset
def lat_lon_alt_prop_fget(self, param_name):
"""Lat/lon/alt getter method for LocationParameter properties."""
# Create function to return
def fget(self):
this_param = getattr(self, param_name)
return this_param.lat_lon_alt()
return fget
def lat_lon_alt_prop_fset(self, param_name):
"""Lat/lon/alt setter method for LocationParameter properties."""
# Create function to return
def fset(self, value):
this_param = getattr(self, param_name)
this_param.set_lat_lon_alt(value)
setattr(self, param_name, this_param)
return fset
def lat_lon_alt_degrees_prop_fget(self, param_name):
"""Lat/lon/alt degree getter method for LocationParameter properties."""
# Create function to return
def fget(self):
this_param = getattr(self, param_name)
return this_param.lat_lon_alt_degrees()
return fget
def lat_lon_alt_degrees_prop_fset(self, param_name):
"""Lat/lon/alt degree setter method for LocationParameter properties."""
# Create function to return
def fset(self, value):
this_param = getattr(self, param_name)
this_param.set_lat_lon_alt_degrees(value)
setattr(self, param_name, this_param)
return fset
def __iter__(self, uvparams_only=True):
"""Iterate over all UVParameter attributes."""
attribute_list = [
a
for a in dir(self)
if not a.startswith("__") and not callable(getattr(self, a))
]
param_list = []
for a in attribute_list:
attr = getattr(self, a)
if uvparams_only:
if isinstance(attr, uvp.UVParameter):
param_list.append(a)
else:
param_list.append(a)
for a in param_list:
yield a
def required(self):
"""Iterate over all required UVParameter attributes."""
attribute_list = [
a
for a in dir(self)
if not a.startswith("__") and not callable(getattr(self, a))
]
required_list = []
for a in attribute_list:
attr = getattr(self, a)
if isinstance(attr, uvp.UVParameter):
if attr.required:
required_list.append(a)
for a in required_list:
yield a
def extra(self):
"""Iterate over all non-required UVParameter attributes."""
attribute_list = [
a
for a in dir(self)
if not a.startswith("__") and not callable(getattr(self, a))
]
extra_list = []
for a in attribute_list:
attr = getattr(self, a)
if isinstance(attr, uvp.UVParameter):
if not attr.required:
extra_list.append(a)
for a in extra_list:
yield a
def __eq__(self, other, check_extra=True, allowed_failures=None):
"""
Test if classes match and parameters are equal.
Parameters
----------
other : class
Other class instance to check
check_extra : bool
Option to specify whether to include all parameters, or just the
required ones. Default is True.
allowed_failures : iterable of str, optional
List or tuple of parameter names that are allowed to fail while
still passing an overall equality check. These should only include
optional parameters.
Returns
-------
bool
Whether the two instances are equivalent.
"""
if isinstance(other, self.__class__):
# only check that required parameters are identical
self_required = []
other_required = []
for param in self.required():
self_required.append(param)
for param in other.required():
other_required.append(param)
if set(self_required) != set(other_required):
print(
"Sets of required parameters do not match. "
f"Left is {self_required},"
f" right is {other_required}."
)
return False
if check_extra:
self_extra = []
other_extra = []
for param in self.extra():
self_extra.append(param)
for param in other.extra():
other_extra.append(param)
if set(self_extra) != set(other_extra):
print(
"Sets of extra parameters do not match. "
f"Left is {self_extra},"
f" right is {other_extra}."
)
return False
p_check = self_required + self_extra
else:
p_check = self_required
if allowed_failures is not None:
if isinstance(allowed_failures, str):
# convert a single string into a length-1 list
allowed_failures = [allowed_failures]
if isinstance(allowed_failures, tuple):
# convert a tuple into a list
allowed_failures = list(allowed_failures)
for i, param in enumerate(allowed_failures):
if not param.startswith("_"):
param = "_" + param
allowed_failures[i] = param
if param not in self_required:
if param in p_check:
p_check.remove(param)
p_equal = True
for param in p_check:
self_param = getattr(self, param)
other_param = getattr(other, param)
if self_param != other_param:
print(
f"parameter {param} does not match. Left is "
f"{self_param.value}, right is {other_param.value}."
)
p_equal = False
if allowed_failures is not None:
for param in allowed_failures:
self_param = getattr(self, param)
other_param = getattr(other, param)
if self_param != other_param:
print(
f"parameter {param} does not match, but is not required "
f"to for equality. Left is {self_param.value}, "
f"right is {other_param.value}."
)
return p_equal
else:
print("Classes do not match")
return False
def __ne__(self, other):
"""Not equal."""
return not self.__eq__(other)
def check(
self, check_extra=True, run_check_acceptability=True, ignore_requirements=False
):
"""
Check that required parameters exist and have the correct shapes.
Optionally, check that the values are acceptable.
Parameters
----------
check_extra : bool
If true, check shapes and values on all parameters,
otherwise only check required parameters.
run_check_acceptability : bool
Option to check if values in parameters are acceptable.
ignore_requirements : bool
Do not error if a required parameter isn't set.
This allows the user to run the shape/acceptability checks
on parameters in a partially-defined UVData object.
"""
if check_extra:
p_check = list(self.required()) + list(self.extra())
else:
p_check = list(self.required())
for p in p_check:
param = getattr(self, p)
# Check required parameter exists
if param.value is None:
if ignore_requirements:
continue
if param.required is True:
raise ValueError(f"Required UVParameter {p} has not been set.")
else:
# Check parameter shape
eshape = param.expected_shape(self)
# default value of eshape is ()
if eshape == "str" or (eshape == () and param.expected_type == "str"):
# Check that it's a string
if not isinstance(param.value, str):
raise ValueError(
f"UVParameter {p} expected to be string, but is not."
)
else:
# Check the shape of the parameter value. Note that np.shape
# returns an empty tuple for single numbers.
# eshape should do the same.
if not np.shape(param.value) == eshape:
raise ValueError(
"UVParameter {param} is not expected shape. "
"Parameter shape is {pshape}, expected shape is "
"{eshape}.".format(
param=p, pshape=np.shape(param.value), eshape=eshape
)
)
# Quantity objects complicate things slightly
# Do a separate check with warnings until a quantity based
# parameter value is created
if isinstance(param.value, Quantity):
# check if user put expected type as a type of quantity
# not a more generic type of number.
if any(
issubclass(param_type, Quantity)
for param_type in _get_iterable(param.expected_type)
):
# Verify the param is an instance
# of the specific Quantity type
if not isinstance(param.value, param.expected_type):
raise ValueError(
f"UVParameter {p} is a Quantity object "
"but not the appropriate type. "
f"Is {type(param.value)} but "
f"expected {param.expected_type}."
)
else:
# matches expected type
continue # pragma: no cover
else:
# Expected type is not a Quantity subclass
# Assuming it is a data type like float, int, etc
# continuing with check below
warnings.warn(
f"Parameter {p} is a Quantity object, "
"but the expected type is a precision identifier: "
f"{param.expected_type}. "
"Testing the precision of the value, but this "
"check will fail in a future version."
)
check_vals = [param.value.item(0).value]
elif eshape == ():
# Single element
check_vals = [param.value]
else:
if isinstance(param.value, (list, tuple)):
# List & tuples needs to be handled differently than array
# list values may be different types, so they all
# need to be checked
check_vals = list(param.value)
else:
# numpy array
check_vals = [param.value.item(0)]
for val in check_vals:
if not isinstance(val, param.expected_type):
raise ValueError(
f"UVParameter {p} is not the appropriate"
f" type. Is: {type(val)}. "
f"Should be: {param.expected_type}."
)
if run_check_acceptability:
accept, message = param.check_acceptability()
if not accept:
raise ValueError(
f"UVParameter {p} has unacceptable values. {message}"
)
return True
def copy(self):
"""Make and return a copy of the object."""
return copy.deepcopy(self)