Implement URI mapping service (#773)

Closes #686

This adds the URI mapping service implemented in
biopragmatics/curies#41. It will allow for SPARQL
queries to be written that call the Bioregistry as a service for
generating URI mappings (e.g., between OBO PURLs, Identifiers.org URIs,
and first-party URIs whose URI prefixes are stored in the Bioregistry).

Here's a simplified example that doesn't require any triple store, and
can be directly executed with RDFLib:

```sparql
SELECT DISTINCT ?s ?o WHERE {
    VALUES ?s {
        <http://purl.obolibrary.org/obo/CHEBI_24867>
        <http://purl.obolibrary.org/obo/CHEBI_24868>
    }

    SERVICE <https://bioregistry.io/sparql> {
        ?s owl:sameAs ?o
    }
}
```

returns the following (some not shown, you should get the idea):

| subject                                |  object |

|---------------------------------------|-------------------------------------------------
|
| http://purl.obolibrary.org/obo/CHEBI_24867 |
http://purl.obolibrary.org/obo/CHEBI_24867 |
| http://purl.obolibrary.org/obo/CHEBI_24867 |
http://identifiers.org/chebi/24867 |
| http://purl.obolibrary.org/obo/CHEBI_24867 |
https://www.ebi.ac.uk/chebi/searchId.do?chebiId=24867 |
| ... | ... |

This is built on top of the
[`curies.Converter.expand_pair_all`](https://curies.readthedocs.io/en/latest/api/curies.Converter.html#curies.Converter.expand_pair_all),
which itself is populated by all of the URI format strings available in
the Bioregistry. To see examples of the possible ChEBI URIs, see
https://bioregistry.io/registry/chebi.

setup.cfg

@@ -51,7 +51,7 @@ install_requires =
  click
  more_click>=0.1.2
  pydantic
- curies
+ curies>=0.5.0
 
 zip_safe = false
 include_package_data = True

src/bioregistry/app/impl.py

@@ -5,6 +5,7 @@
 from textwrap import dedent
 from typing import TYPE_CHECKING, Any, Mapping, Optional, Union
 
+from curies.mapping_service import get_flask_mapping_blueprint
 from flasgger import Swagger
 from flask import Flask
 from flask_bootstrap import Bootstrap4
@@ -169,6 +170,9 @@ def get_app(
  app.register_blueprint(api_blueprint)
  app.register_blueprint(ui_blueprint)
 
+ sparql_blueprint = get_flask_mapping_blueprint(app.manager.converter)
+ app.register_blueprint(sparql_blueprint)
+
  # Make manager available in all jinja templates
  app.jinja_env.globals.update(manager=app.manager, curie_to_str=curie_to_str)
  return app

src/bioregistry/resolve.py

@@ -982,7 +982,6 @@ def get_converter(**kwargs) -> curies.Converter:
  return manager.get_converter(**kwargs)
 
 
-@lru_cache(1)
 def get_default_converter() -> curies.Converter:
  """Get a converter from this manager."""
- return manager.get_converter()
+ return manager.converter

src/bioregistry/resource_manager.py

@@ -159,6 +159,15 @@ def __init__(
  self.provided_by = dict(provided_by)
  self.has_parts = dict(has_parts)
 
+ self._converter = None
+
+ @property
+ def converter(self) -> curies.Converter:
+ """Get the default converter."""
+ if self._converter is None:
+ self._converter = curies.Converter(records=self.get_curies_records())
+ return self._converter
+
  def write_registry(self):
  """Write the registry."""
  write_registry(self.registry)