remove unhelpful `slot_usage`s

[turbomam]

remove slot_usage assertions if they

• are empty
• reiterate the global settings for a slot

Haven't chose an implementation yet

• SchemaView
  • might emit the schema with some style differences
• Various partially-implemented LinkML fixers
• yq (Go version form Mike Farah)
• manual

cc @mslarae13

[turbomam]

I wrote some minimal schema fixer code

import unittest
import os
from linkml_runtime.dumpers import yaml_dumper

from linkml.utils.schema_fixer import SchemaFixer

from linkml_runtime import SchemaView

ROOT = os.path.join(os.path.dirname(__file__), '..')
SCHEMA_DIR = os.path.join(ROOT, "src", "mixs", "schema")
SCHEMA_FILE = "mixs.yaml"
SCHEMA_PATH = os.path.join(SCHEMA_DIR, SCHEMA_FILE)

schema_view = SchemaView(SCHEMA_PATH)

schema_def = schema_view.schema

fixer = SchemaFixer()
fixer.remove_redundant_slot_usage(schema_def)

yaml_dumper.dump(schema_def, "mixs_no_redundant_slot_usage.yaml")

[turbomam]

And then did find & replace in PyCharm to undo the more verbose forms that the schema fixer introduced:

• delete all assertions with these keys:
  • name
  • text
  • from_schema
• reduced these to their most compact form:
  • prefixes
  • annotations
  • settings