spec 0000 Python & deps

Author: jGaboardi

ci/310-oldest.yaml

@@ -21,7 +21,7 @@ dependencies:
   - pytest-cov
   - pytest-mpl
   - pytest-xdist
-    # optional
+  # optional
   - geodatasets
   - joblib
   - networkx
@@ -34,4 +34,4 @@ dependencies:
   - pandana
   - pip
   - pip:
-      - pulp
+    - pulp

ci/311-latest.yaml

@@ -0,0 +1,37 @@
+name: py311_libpysal-oldest
+channels:
+  - conda-forge
+dependencies:
+  - python=3.11
+  - beautifulsoup4=4.13
+  - geopandas=0.14.0
+  - jinja2
+  - numpy=1.26.0
+  - packaging=23.2
+  - pandas=2.1.0
+  - requests=2.32
+  - scikit-learn=1.4.0
+  - scipy=1.12.0
+  - shapely=2.0
+  # testing
+  - codecov
+  - matplotlib=3.8
+  - pytest
+  - pytest-cov
+  - pytest-mpl
+  - pytest-xdist
+  # optional
+  - geodatasets=2023.12.0
+  - joblib=1.4.0
+  - networkx=3.2
+  - numba=0.58
+  - pyarrow=11.0
+  - sqlalchemy=2.0
+  - zstd
+  - xarray=2023.6
+  - pandana
+  - h3-py<4
+  - pip
+  - pip:
+    - pulp
+    - platformdirs==3.11.0

ci/311-oldest.yaml

@@ -32,14 +32,6 @@ dependencies:
   - zstd
   - pandana
   - xarray
-  # for docs build action (this env only)
-  - myst-parser
-  - nbsphinx
-  - numpydoc
-  - pandoc
-  - sphinx
-  - sphinxcontrib-bibtex
-  - sphinx_bootstrap_theme
   - pip
   - pip:
-      - pulp
+    - pulp

ci/312-dev.yaml

@@ -0,0 +1,43 @@
+name: test
+channels:
+  - conda-forge
+dependencies:
+  - python=3.13
+  - beautifulsoup4
+  - jinja2
+  - platformdirs
+  - requests
+  # testing
+  - codecov
+  - matplotlib
+  - h3-py
+  - pytest
+  - pytest-cov
+  - pytest-mpl
+  - pytest-xdist
+  # optional
+  - fiona
+  - geodatasets
+  - joblib
+  - networkx
+  - numba
+  - packaging
+  - pyarrow
+  - pyproj
+  - sqlalchemy
+  - zstd
+  - pandana
+  - pip
+  - pip:
+    # dev versions of packages
+    - --pre \
+      --index-url https://pypi.anaconda.org/scientific-python-nightly-wheels/simple \
+      --extra-index-url https://pypi.org/simple
+    - pandas
+    - pulp
+    - scikit-learn
+    - scipy
+    - shapely
+    - xarray
+    - git+https://github.com/geopandas/geopandas.git@main
+    - git+https://github.com/pysal/tobler.git@main

ci/312-latest.yaml

@@ -2,7 +2,7 @@ name: test
 channels:
   - conda-forge
 dependencies:
-  - python=3.10
+  - python=3.13
   - beautifulsoup4
   - geopandas
   - jinja2
@@ -29,9 +29,17 @@ dependencies:
   - pyarrow
   - scikit-learn
   - sqlalchemy
-  - xarray
   - zstd
-  - pandana
+  #- pandana # not compatible with Python 3.13 as of 2025-06
+  - xarray
+  # for docs build action (this env only)
+  - myst-parser
+  - nbsphinx
+  - numpydoc
+  - pandoc
+  - sphinx
+  - sphinxcontrib-bibtex
+  - sphinx_bootstrap_theme
   - pip
   - pip:
-      - pulp
+    - pulp

ci/313-dev.yaml

@@ -2,10 +2,10 @@ name: test
 channels:
   - conda-forge
 dependencies:
-  - python=3.12
+  - python=3.13
   - beautifulsoup4
   - fiona
-  - geopandas-base>=0.12.0  # base to avoid pulling sklearn
+  - geopandas-base>=0.14.0  # base to avoid pulling sklearn
   - jinja2
   - pandas
   - platformdirs

ci/310-latest.yaml ci/313-latest.yamlci/310-latest.yaml renamed to ci/313-latest.yaml

@@ -11,7 +11,6 @@
 
 import numpy as np
 import scipy.spatial as spat
-from packaging.version import Version
 from scipy import sparse
 
 from ..common import HAS_JIT, jit, requires
@@ -26,8 +25,6 @@
 try:
     import shapely
 
-    assert Version(shapely.__version__) >= Version("2")
-
     HAS_SHAPELY = True
 except (ModuleNotFoundError, AssertionError):
     HAS_SHAPELY = False
@@ -653,18 +650,14 @@ def _filter_holes(geoms, points):  # noqa: ARG001
     """
     Filter hole polygons using a computational geometry solution
     """
-    import geopandas
 
     if (geoms.interiors.apply(len) > 0).any():
         from shapely.geometry import Polygon
 
         # Extract the "shell", or outer ring of the polygon.
         shells = geoms.exterior.apply(Polygon)
         # Compute which original geometries are within each shell, self-inclusive
-        if Version(geopandas.__version__) >= Version("0.13"):
-            inside, outside = shells.sindex.query(geoms, predicate="within")
-        else:
-            inside, outside = shells.sindex.query_bulk(geoms, predicate="within")
+        inside, outside = shells.sindex.query(geoms, predicate="within")
 
         # Now, create the sparse matrix relating the inner geom (rows)
         # to the outer shell (cols) and take the sum.

ci/312-min.yaml ci/313-min.yamlci/312-min.yaml renamed to ci/313-min.yaml

@@ -2,14 +2,11 @@
 
 import geopandas
 import numpy as np
-from packaging.version import Version
 from shapely import geometry
 
 from ...examples import get_path
 from ..alpha_shapes import alpha_shape, alpha_shape_auto
 
-GPD_013 = Version(geopandas.__version__) >= Version("0.13")
-
 this_directory = os.path.dirname(__file__)
 
 
@@ -105,19 +102,12 @@ def test_holes(self):
         holes = geopandas.GeoSeries(geoms.interiors.explode()).reset_index(drop=True)
         assert len(holes) == 30
         # No holes are within the shape (shape has holes already)
-        if GPD_013:
-            result = geoms.sindex.query(holes.centroid, predicate="within")
-        else:
-            result = geoms.sindex.query_bulk(holes.centroid, predicate="within")
+        result = geoms.sindex.query(holes.centroid, predicate="within")
 
         assert result.shape == (2, 0)
         # All holes are within the exterior
         shell = geopandas.GeoSeries(geoms.exterior.apply(geometry.Polygon))
-        if GPD_013:
-            within, outside = shell.sindex.query(holes.centroid, predicate="within")
-        else:
-            within, outside = shell.sindex.query_bulk(
-                holes.centroid, predicate="within"
-            )
+        within, outside = shell.sindex.query(holes.centroid, predicate="within")
+
         assert (outside == 0).all()
         np.testing.assert_array_equal(within, np.arange(30))