[MNT] drop python 3.8; support 3.13

.github/workflows/linting.yml

@@ -36,7 +36,7 @@ jobs:
         fail-fast: false
         matrix:
             os: ["ubuntu-latest"]
-            python-version: ["3.8"]
+            python-version: ["3.13"]
     name: Style check
     defaults:
       run:

.github/workflows/python-publish.yml

@@ -17,7 +17,7 @@ jobs:
     - name: Set up Python
       uses: actions/setup-python@v4
       with:
-        python-version: '3.8'
+        python-version: '3.13'
     - name: Install dependencies
       run: |
         python -m pip install --upgrade pip

.github/workflows/testing.yml

@@ -38,7 +38,7 @@ jobs:
       fail-fast: false
       matrix:
         os: ["ubuntu-latest", "macos-latest"]
-        python-version: ["3.8", "3.9", "3.10", "3.11", "3.12"]
+        python-version: ["3.9", "3.10", "3.11", "3.12", "3.13"]
 
     defaults:
       run:
@@ -71,7 +71,7 @@ jobs:
       fail-fast: false
       matrix:
         os: ["ubuntu-latest"]
-        python-version: ["3.8"]
+        python-version: ["3.9"]
     defaults:
       run:
         shell: bash
@@ -80,7 +80,7 @@ jobs:
       - name: "Set up python"
         uses: actions/setup-python@v4
         with:
-          python-version: 3.8
+          python-version: 3.9
       - name: "Install NiMARE"
         shell: bash {0}
         run: pip install -e .[minimum,tests,cbmr]
@@ -103,7 +103,7 @@ jobs:
       fail-fast: false
       matrix:
         os: ["ubuntu-latest"]
-        python-version: ["3.8"]
+        python-version: ["3.13"]
     defaults:
       run:
         shell: bash
@@ -135,7 +135,7 @@ jobs:
       fail-fast: false
       matrix:
         os: ["ubuntu-latest"]
-        python-version: ["3.8"]
+        python-version: ["3.13"]
     defaults:
       run:
         shell: bash
@@ -167,7 +167,7 @@ jobs:
       fail-fast: false
       matrix:
         os: ["ubuntu-latest"]
-        python-version: ["3.8"]
+        python-version: ["3.13"]
     defaults:
       run:
         shell: bash
@@ -199,7 +199,7 @@ jobs:
       fail-fast: false
       matrix:
         os: ["ubuntu-latest"]
-        python-version: ["3.8"]
+        python-version: ["3.13"]
     defaults:
       run:
         shell: bash

docs/installation.rst

@@ -15,12 +15,12 @@ If you want to use the most up-to-date version, you can install from the ``main`
 
     pip install git+https://github.com/neurostuff/NiMARE.git
 
-NiMARE requires Python ``>=3.8`` and a number of packages.
+NiMARE requires Python ``>=3.9`` and a number of packages.
 For a complete list, please see ``nimare/setup.cfg``.
 
 .. note::
-    We only support Python versions that are part of the Python release cycle (i.e., 3.8, 3.9, 
-    3.10, 3.11, and 3.12). For more information, see `Python Supported Versions`_.
+    We only support Python versions that are part of the Python release cycle (i.e., 3.9, 3.10, 
+    3.11, 3.12, and 3.13). For more information, see `Python Supported Versions`_.
 
 What Next?
 ----------

nimare/annotate/gclda.py

@@ -183,7 +183,7 @@ def __init__(
         if n_terms_in_corpus != n_terms:
             LGR.warning(
                 "Some terms in count_df do not appear in corpus. "
-                f"Retaining {n_terms_in_corpus/n_terms} terms."
+                f"Retaining {n_terms_in_corpus / n_terms} terms."
             )
 
         # Get updated vocabulary

nimare/reports/base.py

@@ -472,22 +472,22 @@ def __init__(
                 dataset,
                 sel_id,
                 meta_type,
-                self.fig_dir / f"preliminary_dset-{dset_i+1}_summary.html",
+                self.fig_dir / f"preliminary_dset-{dset_i + 1}_summary.html",
             )
 
             # Plot mask
             plot_mask(
                 dataset.masker.mask_img,
-                self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-mask.png",
+                self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-mask.png",
             )
 
             if meta_type == "CBMA":
                 # Plot coordinates for CBMA estimators
                 plot_coordinates(
                     dataset.coordinates,
-                    self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-static.png",
-                    self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-interactive.html",
-                    self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-legend.png",
+                    self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-static.png",
+                    self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-interactive.html",
+                    self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-legend.png",
                 )
             elif meta_type == "IBMA":
                 # Use "z_maps", for Fishers, and Stouffers; otherwise use "beta_maps".
@@ -505,32 +505,32 @@ def __init__(
                     _plot_relcov_map(
                         maps_arr,
                         self.results.estimator.masker,
-                        self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-relcov.png",
+                        self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-relcov.png",
                     )
                 else:
                     dof_map = self.results.get_map("dof")
                     _plot_dof_map(
                         dof_map,
-                        self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-dof.png",
+                        self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-dof.png",
                     )
 
                 _plot_true_voxels(
                     maps_arr,
                     ids_,
-                    self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-truevoxels.html",
+                    self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-truevoxels.html",
                 )
 
                 _plot_ridgeplot(
                     maps_arr,
                     ids_,
                     x_label,
-                    self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-ridgeplot.html",
+                    self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-ridgeplot.html",
                 )
 
                 _plot_sumstats(
                     maps_arr,
                     ids_,
-                    self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-summarystats.html",
+                    self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-summarystats.html",
                 )
 
                 # Compute similarity matrix
@@ -557,7 +557,7 @@ def __init__(
 
                 plot_heatmap(
                     similarity_table,
-                    self.fig_dir / f"preliminary_dset-{dset_i+1}_figure-similarity.html",
+                    self.fig_dir / f"preliminary_dset-{dset_i + 1}_figure-similarity.html",
                     symmetric=True,
                     cmap="RdBu_r",
                     zmin=-1,

setup.cfg

@@ -15,19 +15,18 @@ classifiers =
     Intended Audience :: Science/Research
     License :: OSI Approved :: MIT License
     Operating System :: OS Independent
-    Programming Language :: Python :: 3.8
     Programming Language :: Python :: 3.9
     Programming Language :: Python :: 3.10
     Programming Language :: Python :: 3.11
     Programming Language :: Python :: 3.12
+    Programming Language :: Python :: 3.13
     Topic :: Scientific/Engineering
 
 [options]
-python_requires = >= 3.8
+python_requires = >= 3.9
 install_requires =
     cognitiveatlas>=0.1.11  # nimare.annotate.cogat
     fuzzywuzzy  # nimare.annotate
-    importlib-resources; python_version < '3.9' # for importlib.resources.files in Python 3.8
     jinja2 # nimare.reports
     joblib>=1.3.0  # parallelization
     matplotlib>=3.6.0  # this is for nilearn, which doesn't include it in its reqs
@@ -71,7 +70,7 @@ doc =
     sphinxcontrib-mermaid
     docutils>=0.18.1,<0.21  # https://github.com/orgs/sphinx-doc/discussions/13020
 tests =
-    coverage
+    coverage>=7.7  # due to coverage API changing in 7.6->7.7 and numba not being compatible (https://github.com/numba/numba/issues/10239)
     coveralls
     flake8-black
     flake8-docstrings