chore: Change linkml dependency to a branch at a fork temporarily

We need the approved changes at @candleindark's fork.
This change in dependency should only last until
linkml/linkml#2363 is included
in a new LinkML version.

pyproject.toml

@@ -27,7 +27,7 @@ classifiers = [
   "Programming Language :: Python :: Implementation :: CPython",
 ]
 dependencies = [
-  "linkml~=1.8",
+  "linkml @ git+https://github.com/candleindark/linkml.git@bundle-error",
   "pydantic~=2.7",
   "typer",
 ]
@@ -43,6 +43,9 @@ pydantic2linkml = "pydantic2linkml.cli:app"
 [tool.hatch.version]
 path = "src/pydantic2linkml/__about__.py"
 
+[tool.hatch.metadata]
+allow-direct-references = true
+
 [tool.hatch.envs.default]
 python = "3.9"