ENH Deprecate settings interface

[drewejohnson]

I've been mulling something over for the past few months, and I think we can and should completely remove the settings interface. Instead, all of the functionality can be passed to the readers at construction.

Most of readers just pull from the rc global to create attributes during the construction.
Instead of

import serpentTools
serpentTools.settings.rc["depletion.materialVariables"] = ["ADENS", "MDENS"]
serpentTools.settings.rc["depletion.materials"] = ["fuel*"]
dep = serpentTools.read("my_dep.m")

one would instead use

import serpentTools
dep = serpentTools.read("my_dep.m", materials=["fuel*"], variables=["ADENS", "MDENS"])

The benefits are

1. Remove a lot of code and tests [temporary settings using rc as a context manager]
2. Cleaner API
3. Changes can be made in isolation, i.e. if we want to add new options to a specific reader, we don't have to update settings, the reader, and the settings documentation. We just update the reader

The rc object and the capabilities allowed are a powerful feature of serpentTools IMHO. So naturally we will want to preserve this control, but try and reduce the pain of this switch.

Impact

Anyone who uses the rc object will be impacted. I frequently use these settings to control what data is read from depletion and result files.

Roll out

Version 0.9.0

• Have rc.__setitem__ raise FutureWarnings indicating deprecation and swift removal
• Modify __init__ methods for various readers that rely on these settings. If values are not explicitly provided, e.g. are None, pull the defaults from rc

Version 0.9.1 or later

• Remove the entire serpentTools.settings interface
• Pull defaults internally, not from rc

[drewejohnson]

When the settings interface is removed and/or deprecated, the command line interface subcommand list should be adjusted and/or removed

serpent-tools/serpentTools/__main__.py

Lines 159 to 171 in d6b65c8

	def _listDefaults(args):
	"""List the default settings"""
	from serpentTools.settings import defaultSettings
	pattern = re.compile(args.pattern)
	for name in sorted(defaultSettings.keys()):
	if re.match(pattern, name):
	values = defaultSettings[name]
	print('{}: {}'.format(name, values[
	'default' if args.q else 'description']))
	if not args.q:
	print(' default: {}'.format(values['default']))
	if args.v and values.get('options', 'default') != 'default':
	print(' options: {}'.format(values['options']))