Update low-level tests and Makefile for uv

Author: jeromekelleher

python/Makefile

@@ -1,17 +1,11 @@
-PYTHON := $(shell command -v python 2> /dev/null)
-ifndef PYTHON
-$(error "python is not available via the `python` executable. If you have python only via `python3` you may need to `apt install python-is-python3`")
-endif
-
 all: ext3
 
 allchecks: _tskitmodule.c
 	CFLAGS="-std=c99 --coverage -Wall -Wextra -Werror -Wno-unused-parameter -Wno-cast-function-type" \
-	python setup.py build_ext --inplace
+	uv run python setup.py build_ext --inplace
 
 ext3: _tskitmodule.c
-	
-	python setup.py build_ext --inplace
+	uv run python setup.py build_ext --inplace
 
 ctags:
 	ctags lib/*.c lib/*.h tskit/*.py

python/tests/test_python_c.py

@@ -5073,7 +5073,7 @@ class TestModuleFunctions:
 
     def test_kastore_version(self):
         version = _tskit.get_kastore_version()
-        assert version == (2, 1, 1)
+        assert version == (2, 1, 2)
 
     def test_tskit_version(self):
         version = _tskit.get_tskit_version()
@@ -5365,15 +5365,6 @@ def test_cpy_bad_node_bin_map(self):
         with pytest.raises(TypeError, match="cast array data"):
             self.pair_coalescence_quantiles(ts, node_bin_map=np.zeros(num_nodes))
 
-    def test_cpy_bad_quantiles(self):
-        ts = self.example_ts()
-        quantiles = np.zeros(0)
-        with pytest.raises(ValueError, match="at least one quantile"):
-            self.pair_coalescence_quantiles(ts, quantiles=quantiles)
-        quantiles = np.zeros((3, 3))
-        with pytest.raises(ValueError, match="object too deep"):
-            self.pair_coalescence_quantiles(ts, quantiles=quantiles)
-
     def test_cpy_bad_inputs(self):
         ts = self.example_ts()
         with pytest.raises(TypeError, match="at most 6 keyword"):
@@ -5387,6 +5378,15 @@ def test_cpy_bad_inputs(self):
                 foo="bar",
             )
 
+    def test_cpy_bad_quantiles(self):
+        ts = self.example_ts()
+        quantiles = np.zeros(0)
+        with pytest.raises(ValueError, match="at least one quantile"):
+            self.pair_coalescence_quantiles(ts, quantiles=quantiles)
+        quantiles = np.zeros((3, 3))
+        with pytest.raises(ValueError, match="object too deep"):
+            self.pair_coalescence_quantiles(ts, quantiles=quantiles)
+
 
 class TestPairCoalescenceRatesErrors:
     def example_ts(self, sample_size=10):