Implement normalizing flow

.github/workflows/ci.yml

@@ -34,7 +34,7 @@ jobs:
             3.10
             3.11
             3.12
-      # Leave out 3.13 on aarch due to an issue in pyo3/rust-numpy 0.23.4
+            3.13
       - name: Build wheels
         uses: PyO3/maturin-action@v1
         if: ${{ matrix.platform.target == 'aarch64' }}
@@ -50,8 +50,7 @@ jobs:
         if: ${{ matrix.platform.target == 'x86_64' }}
         with:
           target: ${{ matrix.platform.target }}
-          # No py3.13 yet...
-          args: --release --out dist --interpreter 3.10 3.11 3.12 --zig
+          args: --release --out dist --interpreter 3.10 3.11 3.12 3.13 --zig
           sccache: ${{ !startsWith(github.ref, 'refs/tags/') }}
           manylinux: auto
           before-script-linux: |
@@ -73,7 +72,7 @@ jobs:
           pytest
       - name: pytest
         if: ${{ !startsWith(matrix.platform.target, 'x86') && matrix.platform.target != 'ppc64' }}
-        uses: uraimo/run-on-arch-action@v3
+        uses: uraimo/run-on-arch-action@v2
         with:
           arch: ${{ matrix.platform.target }}
           distro: ubuntu22.04
@@ -88,7 +87,7 @@ jobs:
             source $HOME/.local/bin/env
             uv pip install --system -U pip pytest
             uv pip install --system 'nutpie[all]' --find-links dist --force-reinstall
-            pytest
+            pytest -m "not slow"
 
   # pyarrow doesn't currently seem to work on musllinux
   #musllinux:
@@ -141,7 +140,7 @@ jobs:
   #          pytest
   #    - name: pytest
   #      if: ${{ !startsWith(matrix.platform.target, 'x86') }}
-  #      uses: uraimo/run-on-arch-action@v3
+  #      uses: uraimo/run-on-arch-action@v2
   #      with:
   #        arch: ${{ matrix.platform.target }}
   #        distro: alpine_latest
@@ -175,7 +174,7 @@ jobs:
             3.10
             3.11
             3.12
-          # 3.13 leave out 3.13 due to a segfault
+            3.13
           architecture: ${{ matrix.platform.target }}
       - name: Install uv
         uses: astral-sh/setup-uv@v5
@@ -230,6 +229,7 @@ jobs:
             3.10
             3.11
             3.12
+            3.13
       - name: Install uv
         uses: astral-sh/setup-uv@v5
       - uses: maxim-lobanov/setup-xcode@v1

.gitignore

@@ -8,7 +8,20 @@ tvm_libs/*
 notebooks/*.stan
 notebooks/*.csv
 notebooks/*.hpp
+notebooks/radon*
 perf.data*
 wheels
 .vscode/
 *~
+.zed
+.cargo
+*traces*
+.pyrightconfig.json
+*.zarr
+book
+docs/_site
+.quarto
+example-iree
+posteriordb
+.quarto
+docs/.quarto

.pre-commit-config.yaml

@@ -7,13 +7,14 @@ repos:
     hooks:
       - id: debug-statements
       - id: check-merge-conflict
-      -   id: check-toml
-      -   id: check-yaml
-      -   id: debug-statements
-      -   id: end-of-file-fixer
-      -   id: no-commit-to-branch
-          args: [--branch, main]
-      -   id: trailing-whitespace
+      - id: check-toml
+      - id: check-yaml
+      - id: debug-statements
+      - id: end-of-file-fixer
+        exclude: "docs/_freeze"
+      - id: no-commit-to-branch
+        args: [--branch, main]
+      - id: trailing-whitespace
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
     rev: v0.9.9

CHANGELOG.md

@@ -2,6 +2,39 @@
 
 All notable changes to this project will be documented in this file.
 
+## [0.14.0] - 2025-03-05
+
+### Bug Fixes
+
+- Set 'make_initial_point_fn' in 'from_pyfunc' to None by default (#175) (Tomás Capretto)
+
+
+### Documentation
+
+- Add nutpie website source (Adrian Seyboldt)
+
+- Include frozen cell output in docs (Adrian Seyboldt)
+
+
+### Features
+
+- Add normalizing flow adaptation (Adrian Seyboldt)
+
+
+### Miscellaneous Tasks
+
+- Bump actions/attest-build-provenance from 1 to 2 (dependabot[bot])
+
+- Bump softprops/action-gh-release from 1 to 2 (dependabot[bot])
+
+- Bump uraimo/run-on-arch-action from 2 to 3 (dependabot[bot])
+
+
+### Ci
+
+- Run python 3.13 in ci (Adrian Seyboldt)
+
+
 ## [0.13.4] - 2025-02-18
 
 ### Bug Fixes
@@ -13,6 +46,8 @@ All notable changes to this project will be documented in this file.
 
 - Make sure all python versions are available in the builds (Adrian Seyboldt)
 
+- Skip python 3.13 for now (Adrian Seyboldt)
+
 
 ## [0.13.3] - 2025-02-12
 
@@ -48,8 +83,6 @@ All notable changes to this project will be documented in this file.
 
 - Update pre-commit versions (Adrian Seyboldt)
 
-- Update version and changelog (Adrian Seyboldt)
-
 
 ### Styling
 
@@ -202,6 +235,8 @@ All notable changes to this project will be documented in this file.
 
 ### Ci
 
+- Fix uploads of releases (Adrian Seyboldt)
+
 - Fix architectures in CI (Adrian Seyboldt)
 
 
@@ -249,11 +284,6 @@ All notable changes to this project will be documented in this file.
 - Set the number of parallel chains dynamically (Adrian Seyboldt)
 
 
-### Ci
-
-- Fix uploads of releases (Adrian Seyboldt)
-
-
 ## [0.9.2] - 2024-02-19
 
 ### Bug Fixes