Remove pkg_resources usage (#2505)

Close #2491 

Similar to dib-lab/screed#100 but also dealing
with `entry_points` (and the differences in stdlib for
[`importlib.metadata`](https://pypi.org/project/backports.entry-points-selectable/)...)

doc/conf.py

@@ -65,8 +65,8 @@
 # The version info for the project you're documenting, acts as replacement for
 # |version| and |release|, also used in various other places throughout the
 # built documents.
-from pkg_resources import get_distribution
-release = get_distribution('sourmash').version
+from importlib.metadata import version
+release = version('sourmash')
 version = '.'.join(release.split('.')[:2])
 
 # The language for content autogenerated by Sphinx. Refer to documentation

pyproject.toml

@@ -78,7 +78,7 @@ dependencies = [
   "deprecation>=2.0.6",
   "cachetools>=4,<6",
   "bitstring>=3.1.9,<5",
-  "importlib_metadata;python_version<'3.10'"
+  "importlib_metadata>=3.6;python_version<'3.10'"
 ]
 
 requires-python = ">=3.8"
@@ -144,7 +144,7 @@ features = ["maturin"]
 locked = true
 
 [tool.isort]
-known_third_party = ["deprecation", "hypothesis", "mmh3", "numpy", "pkg_resources", "pytest", "screed", "setuptools", "sourmash_tst_utils"]
+known_third_party = ["deprecation", "hypothesis", "mmh3", "numpy", "pytest", "screed", "sourmash_tst_utils"]
 multi_line_output = 3 
 include_trailing_comma = true
 force_grid_wrap = 0

src/sourmash/__init__.py

@@ -16,6 +16,7 @@ class MinHash - hash sketch class
 BSD 3-Clause license.
 """
 from deprecation import deprecated
+from importlib.metadata import version
 
 __all__ = ['MinHash', 'SourmashSignature',
            'load_one_signature',
@@ -33,19 +34,7 @@ class MinHash - hash sketch class
 
 ffi.init_once(lib.sourmash_init, "init")
 
-from pkg_resources import get_distribution, DistributionNotFound
-
-try:
-    VERSION = get_distribution(__name__).version
-except DistributionNotFound:  # pragma: no cover
-    try:
-        from .version import version as VERSION  # noqa
-    except ImportError:  # pragma: no cover
-        raise ImportError(
-            "Failed to find (autogenerated) version.py. "
-            "This might be because you are installing from GitHub's tarballs, "
-            "use the PyPI ones."
-        )
+VERSION = version(__name__)
 
 from .minhash import MinHash, get_minhash_default_seed, get_minhash_max_hash
 

tests/sourmash_tst_utils.py

@@ -6,13 +6,21 @@
 import subprocess
 import collections
 import pprint
-
-import pkg_resources
-from pkg_resources import Requirement, resource_filename, ResolutionError
 import traceback
 from io import open  # pylint: disable=redefined-builtin
 from io import StringIO
 
+from importlib import resources
+from importlib.metadata import entry_points
+
+# Remove when we drop support for 3.8
+if sys.version_info < (3, 9):
+    import importlib_resources as resources
+
+# Remove when we drop support for 3.9
+if sys.version_info < (3, 10):
+    from importlib_metadata import entry_points
+
 
 SIG_FILES = [os.path.join('demo', f) for f in (
   "SRR2060939_1.sig", "SRR2060939_2.sig", "SRR2241509_1.sig",
@@ -44,9 +52,10 @@ def _runscript(scriptname):
     namespace['sys'] = globals()['sys']
 
     try:
-        pkg_resources.load_entry_point("sourmash", 'console_scripts', scriptname)()
+        (script,) = entry_points(name=scriptname, group="console_scripts")
+        script.load()()
         return 0
-    except pkg_resources.ResolutionError:
+    except ValueError:
         pass
 
     path = scriptpath()
@@ -129,14 +138,8 @@ def runscript(scriptname, args, **kwargs):
 
 
 def get_test_data(filename):
-    filepath = None
-    try:
-        filepath = resource_filename(
-            Requirement.parse("sourmash"), "sourmash/sourmash/test-data/"\
-                + filename)
-    except ResolutionError:
-        pass
-    if not filepath or not os.path.isfile(filepath):
+    filepath = resources.files("sourmash") / "tests" / "test-data" / filename
+    if not filepath.exists() or not os.path.isfile(filepath):
         filepath = os.path.join(os.path.dirname(__file__), 'test-data',
                                 filename)
     return filepath

tox.ini

@@ -99,7 +99,7 @@ commands =
 
 [testenv:docs]
 description = invoke sphinx-build to build the HTML docs
-basepython = python3.8
+basepython = python3.10
 extras = doc
 whitelist_externals = pandoc
 passenv = HOME