pyobo 0.12.0__py3-none-any.whl → 0.12.2__py3-none-any.whl

{pyobo-0.12.0.dist-info → pyobo-0.12.2.dist-info}/RECORD

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{pyobo-0.12.0.dist-info → pyobo-0.12.2.dist-info}/WHEEL

@@ -1,4 +1,4 @@
 Wheel-Version: 1.0
-Generator: uv 0.6.16
+Generator: uv 0.7.8
 Root-Is-Purelib: true
 Tag: py3-none-any

pyobo/identifier_utils/model.py

@@ -1,130 +0,0 @@
-"""Reusable configuration."""
-
-from typing import TypeVar
-
-import curies
-from pydantic import BaseModel, Field
-
-__all__ = ["Blacklist", "Rewrites", "Rules"]
-
-X = TypeVar("X", bound=curies.Reference)
-
-
-class Blacklist(BaseModel):
-    """A model for prefix and full blacklists."""
-
-    full: list[str]
-    resource_full: dict[str, list[str]]
-    prefix: list[str]
-    resource_prefix: dict[str, list[str]]
-    suffix: list[str]
-
-    def _sort(self) -> None:
-        self.full.sort()
-        self.prefix.sort()
-        self.suffix.sort()
-        for v in self.resource_full.values():
-            v.sort()
-        for v in self.resource_prefix.values():
-            v.sort()
-
-    def str_has_blacklisted_prefix(
-        self, str_or_curie_or_uri: str, *, ontology_prefix: str | None = None
-    ) -> bool:
-        """Check if the CURIE string has a blacklisted prefix."""
-        if ontology_prefix:
-            prefixes: list[str] = self.resource_prefix.get(ontology_prefix, [])
-            if prefixes and any(str_or_curie_or_uri.startswith(prefix) for prefix in prefixes):
-                return True
-        return any(str_or_curie_or_uri.startswith(prefix) for prefix in self.prefix)
-
-    def str_has_blacklisted_suffix(self, str_or_curie_or_uri: str) -> bool:
-        """Check if the CURIE string has a blacklisted suffix."""
-        return any(str_or_curie_or_uri.endswith(suffix) for suffix in self.suffix)
-
-    def str_is_blacklisted_full(
-        self, str_or_curie_or_uri: str, *, ontology_prefix: str | None = None
-    ) -> bool:
-        """Check if the full CURIE string is blacklisted."""
-        if ontology_prefix and str_or_curie_or_uri in self.resource_full.get(
-            ontology_prefix, set()
-        ):
-            return True
-        return str_or_curie_or_uri in self.full
-
-
-class Rewrites(BaseModel):
-    """A model for prefix and full rewrites."""
-
-    full: dict[str, str] = Field(..., description="Global remappings for an entire string")
-    resource_full: dict[str, dict[str, str]] = Field(
-        ..., description="Resource-keyed remappings for an entire string"
-    )
-    prefix: dict[str, str] = Field(..., description="Global remappings of just the prefix")
-    resource_prefix: dict[str, dict[str, str]] = Field(
-        ..., description="Resource-keyed remappings for just a prefix"
-    )
-
-    def remap_full(
-        self, str_or_curie_or_uri: str, cls: type[X], *, ontology_prefix: str | None = None
-    ) -> X | None:
-        """Remap the string if possible otherwise return it."""
-        if ontology_prefix:
-            resource_rewrites: dict[str, str] = self.resource_full.get(ontology_prefix, {})
-            if resource_rewrites and str_or_curie_or_uri in resource_rewrites:
-                return cls.from_curie(resource_rewrites[str_or_curie_or_uri])
-
-        if str_or_curie_or_uri in self.full:
-            return cls.from_curie(self.full[str_or_curie_or_uri])
-
-        return None
-
-    def remap_prefix(self, str_or_curie_or_uri: str, ontology_prefix: str | None = None) -> str:
-        """Remap a prefix."""
-        if ontology_prefix is not None:
-            for old_prefix, new_prefix in self.resource_prefix.get(ontology_prefix, {}).items():
-                if str_or_curie_or_uri.startswith(old_prefix):
-                    return new_prefix + str_or_curie_or_uri[len(old_prefix) :]
-        for old_prefix, new_prefix in self.prefix.items():
-            if str_or_curie_or_uri.startswith(old_prefix):
-                return new_prefix + str_or_curie_or_uri[len(old_prefix) :]
-        return str_or_curie_or_uri
-
-
-class Rules(BaseModel):
-    """A model for blacklists and rewrites."""
-
-    blacklists: Blacklist
-    rewrites: Rewrites
-
-    def str_has_blacklisted_prefix(
-        self, str_or_curie_or_uri: str, *, ontology_prefix: str | None = None
-    ) -> bool:
-        """Check if the CURIE string has a blacklisted prefix."""
-        return self.blacklists.str_has_blacklisted_prefix(
-            str_or_curie_or_uri, ontology_prefix=ontology_prefix
-        )
-
-    def str_has_blacklisted_suffix(self, str_or_curie_or_uri: str) -> bool:
-        """Check if the CURIE string has a blacklisted suffix."""
-        return self.blacklists.str_has_blacklisted_suffix(str_or_curie_or_uri)
-
-    def str_is_blacklisted_full(
-        self, str_or_curie_or_uri: str, *, ontology_prefix: str | None = None
-    ) -> bool:
-        """Check if the full CURIE string is blacklisted."""
-        return self.blacklists.str_is_blacklisted_full(
-            str_or_curie_or_uri, ontology_prefix=ontology_prefix
-        )
-
-    def remap_full(
-        self, str_or_curie_or_uri: str, cls: type[X], *, ontology_prefix: str | None = None
-    ) -> X | None:
-        """Remap the string if possible otherwise return it."""
-        return self.rewrites.remap_full(
-            str_or_curie_or_uri, cls=cls, ontology_prefix=ontology_prefix
-        )
-
-    def remap_prefix(self, str_or_curie_or_uri: str, ontology_prefix: str | None = None) -> str:
-        """Remap a prefix."""
-        return self.rewrites.remap_prefix(str_or_curie_or_uri, ontology_prefix=ontology_prefix)