[MNT] Update pyproject.toml (#142)

* [MNT] Update pyproject.toml

Update `pyproject.toml` to Addressing #141, updating `pyproject.toml` so that `examples` and `resources` folders will not appear in the top-level of `site-packages`.

* Update tests.yml

Fix ruff

* Update colors.py

* Update colors.py

* Update stats.py

.github/workflows/tests.yml

@@ -24,7 +24,7 @@ jobs:
             python -m pip install --upgrade pip
             python -m pip install ruff
       - name: Run style checks
-        run: ruff .
+        run: ruff check .
 
   run_tests:
     needs: check_style
@@ -67,4 +67,4 @@ jobs:
         uses: actions/upload-artifact@v3
         with:
           name: pytest-results-${{ matrix.os }}-${{ matrix.python-version }}
-          path: junit/test-results.xml
+          path: junit/test-results.xml

netneurotools/colors.py

@@ -1,6 +1,7 @@
 # -*- coding: utf-8 -*-
 """Useful colormaps."""
 
+import matplotlib
 from matplotlib.colors import LinearSegmentedColormap, ListedColormap
 
 __all__ = ['parula', 'justine', 'dinosaur']
@@ -94,10 +95,8 @@ def available_cmaps():
 
 def _register_cmaps():
     """Register all colormaps in module so they are accessible via matplotlib."""
-    from matplotlib.cm import register_cmap
-
     for cmap in __all__:
-        register_cmap(cmap, globals()[cmap])
+        matplotlib.colormaps.register(globals()[cmap], name=cmap)
 
 
 _register_cmaps()

netneurotools/stats.py

@@ -312,7 +312,7 @@ def permtest_rel(a, b, axis=0, n_perm=1000, seed=0):
     abs_true = np.abs(true_diff)
 
     # idx array
-    reidx = np.meshgrid(*[range(f) for f in ab.shape], indexing='ij')
+    reidx = list(np.meshgrid(*[range(f) for f in ab.shape], indexing='ij'))
 
     permutations = np.ones(true_diff.shape)
     for _ in range(n_perm):

pyproject.toml

@@ -61,8 +61,11 @@ test = [
 requires = ["setuptools", "versioneer[toml]"]
 build-backend = "setuptools.build_meta"
 
-[tool.setuptools.packages]
-find = {}
+[tool.setuptools.packages.find]
+include = [
+  "netneurotools",
+  "netneurotools.*"
+]
 
 [tool.setuptools.dynamic]
 version = {attr = "netneurotools.__version__"}
@@ -109,4 +112,4 @@ omit = [
 
 [tool.codespell]
 skip = '.git,*.pdf,*.svg,versioneer.py'
-# ignore-words-list = ''
+# ignore-words-list = ''