feat!: use setuptools-scm, capture version at package root

* use setuptools-scm for versioning instead of explicit declaration in version.py
* provide version in package root instead of version module

docs/source/conf.py

@@ -68,8 +68,7 @@
 # -- get version -------------------------------------------------------------
 from gene import __version__  # noqa: E402
 
-version = __version__
-release = version
+version = release = __version__
 
 
 # -- linkcode ----------------------------------------------------------------

pyproject.toml

@@ -63,11 +63,10 @@ gene_norm_dump = "gene.cli:dump_database"
 gene_norm_check_db = "gene.cli:check_db"
 
 [build-system]
-requires = ["setuptools>=61.0"]
+requires = ["setuptools>=64", "setuptools_scm>=8"]
 build-backend = "setuptools.build_meta"
 
-[tool.setuptools.dynamic]
-version = {attr = "gene.version.__version__"}
+[tool.setuptools_scm]
 
 [tool.setuptools.packages.find]
 where = ["src"]

src/gene/__init__.py

@@ -1,17 +1,24 @@
 """The VICC library for normalizing genes."""
 
+from importlib.metadata import PackageNotFoundError, version
 from os import environ
 from pathlib import Path
 
-from .version import __version__
-
 APP_ROOT = Path(__file__).resolve().parent
 
 SEQREPO_ROOT_DIR = Path(
     environ.get("SEQREPO_ROOT_DIR", "/usr/local/share/seqrepo/latest")
 )
 
 
+try:
+    __version__ = version("gene-normalizer")
+except PackageNotFoundError:
+    __version__ = "unknown"
+finally:
+    del version, PackageNotFoundError
+
+
 class DownloadException(Exception):  # noqa: N818
     """Exception for failures relating to source file downloads."""
 

src/gene/query.py

@@ -9,7 +9,7 @@
 from ga4gh.core import domain_models, entity_models, ga4gh_identify
 from ga4gh.vrs import models
 
-from gene import ITEM_TYPES, NAMESPACE_LOOKUP, PREFIX_LOOKUP
+from gene import ITEM_TYPES, NAMESPACE_LOOKUP, PREFIX_LOOKUP, __version__
 from gene.database import AbstractDatabase, DatabaseReadException
 from gene.schemas import (
     BaseGene,
@@ -29,7 +29,6 @@
     SourcePriority,
     UnmergedNormalizationService,
 )
-from gene.version import __version__
 
 _logger = logging.getLogger(__name__)
 

src/gene/schemas.py

@@ -14,7 +14,7 @@
     constr,
 )
 
-from gene.version import __version__
+from gene import __version__
 
 CURIE = constr(pattern=r"^\w[^:]*:.+$")