From 24a29bad41f5f4a12659b784e4c4ac1f3e80e669 Mon Sep 17 00:00:00 2001
From: "dependabot[bot]" <49699333+dependabot[bot]@users.noreply.github.com>
Date: Mon, 9 Mar 2026 13:14:48 +0000
Subject: [PATCH 01/10] build(deps): bump actions/checkout from 4 to 6

Bumps [actions/checkout](https://github.com/actions/checkout) from 4 to 6.
- [Release notes](https://github.com/actions/checkout/releases)
- [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md)
- [Commits](https://github.com/actions/checkout/compare/v4...v6)

---
updated-dependencies:
- dependency-name: actions/checkout
  dependency-version: '6'
  dependency-type: direct:production
  update-type: version-update:semver-major
...

Signed-off-by: dependabot[bot] <support@github.com>
---
 .github/workflows/ci.yml             | 10 +++++-----
 .github/workflows/python-publish.yml |  2 +-
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index dd60174..0dbcb0d 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -28,7 +28,7 @@ jobs:
     runs-on: ubuntu-latest
     if: github.event_name == 'push' || github.event.pull_request.head.ref != 'dev'
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
@@ -40,7 +40,7 @@ jobs:
     runs-on: ubuntu-latest
     if: github.event_name == 'push' || github.event.pull_request.head.ref != 'dev'
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
@@ -52,7 +52,7 @@ jobs:
     runs-on: ubuntu-latest
     if: github.event_name == 'push' || github.event.pull_request.head.ref != 'dev'
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
@@ -74,7 +74,7 @@ jobs:
       matrix:
         python-version: ${{ fromJSON(needs.prepare.outputs.python-versions) }}
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
@@ -98,7 +98,7 @@ jobs:
       matrix:
         python-version: ${{ fromJSON(needs.prepare.outputs.python-versions) }}
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
diff --git a/.github/workflows/python-publish.yml b/.github/workflows/python-publish.yml
index e016fd5..1af60e1 100644
--- a/.github/workflows/python-publish.yml
+++ b/.github/workflows/python-publish.yml
@@ -15,7 +15,7 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
 
       - name: Set up uv
         uses: astral-sh/setup-uv@v7

From 165784aaac0fc4d512a814fadf05f5a37467b638 Mon Sep 17 00:00:00 2001
From: Albert Yau <5298134+mwyau@users.noreply.github.com>
Date: Mon, 9 Mar 2026 09:15:57 -0400
Subject: [PATCH 02/10] chore: Update project homepage and bump to v0.3.2

---
 CITATION.cff   | 4 ++--
 pyproject.toml | 4 ++--
 uv.lock        | 2 +-
 3 files changed, 5 insertions(+), 5 deletions(-)

diff --git a/CITATION.cff b/CITATION.cff
index fbf00fe..3836997 100644
--- a/CITATION.cff
+++ b/CITATION.cff
@@ -19,8 +19,8 @@ keywords:
   - dask
   - mpi
 license: BSD-3-Clause
-version: 0.3.1
-date-released: '2026-03-08'
+version: 0.3.2
+date-released: '2026-03-09'
 preferred-citation:
   type: article
   authors:
diff --git a/pyproject.toml b/pyproject.toml
index ac161fb..292d164 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -4,7 +4,7 @@ build-backend = "hatchling.build"
 
 [project]
 name = "PyStormTracker"
-version = "0.3.1"
+version = "0.3.2"
 description = "A Parallel Object-Oriented Cyclone Tracker in Python"
 readme = "README.md"
 license = {text = "BSD-3-Clause"}
@@ -37,7 +37,7 @@ dependencies = [
 stormtracker = "pystormtracker.stormtracker:main"
 
 [project.urls]
-Homepage = "https://pystormtracker.readthedocs.io/"
+Homepage = "https://pypi.org/project/PyStormTracker/"
 Repository = "https://github.com/mwyau/PyStormTracker.git"
 Issues = "https://github.com/mwyau/PyStormTracker/issues"
 
diff --git a/uv.lock b/uv.lock
index 007f155..e4f8d6a 100644
--- a/uv.lock
+++ b/uv.lock
@@ -1220,7 +1220,7 @@ wheels = [
 
 [[package]]
 name = "pystormtracker"
-version = "0.3.1"
+version = "0.3.2"
 source = { editable = "." }
 dependencies = [
     { name = "dask" },

From bcdd1e6d5a1e70162b0e7e9c9de6ba309f73d00e Mon Sep 17 00:00:00 2001
From: Albert Yau <5298134+mwyau@users.noreply.github.com>
Date: Mon, 9 Mar 2026 09:28:17 -0400
Subject: [PATCH 03/10] ci: add concurrency and update pull request triggers

---
 .github/workflows/ci.yml | 5 +++++
 1 file changed, 5 insertions(+)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 0dbcb0d..81ad432 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -7,9 +7,14 @@ on:
       - dev
   pull_request:
     branches:
+      - main
       - dev
   workflow_dispatch:
 
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: true
+
 permissions:
   contents: read
 

From 475da52bb33aefc73b948e7e09010ac33561b65d Mon Sep 17 00:00:00 2001
From: Albert Yau <5298134+mwyau@users.noreply.github.com>
Date: Mon, 9 Mar 2026 18:11:25 -0400
Subject: [PATCH 04/10] ci: Change default branch back to main

---
 .github/workflows/ci.yml             | 18 +++------
 .github/workflows/docker-publish.yml | 57 ++++++++++++++++------------
 2 files changed, 39 insertions(+), 36 deletions(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 81ad432..aabae9d 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -1,19 +1,18 @@
 name: CI
 
 on:
-  push:
-    branches:
-      - main
-      - dev
   pull_request:
+  push:
     branches:
       - main
-      - dev
+      - release/**
+    tags:
+      - v*
   workflow_dispatch:
 
 concurrency:
-  group: ${{ github.workflow }}-${{ github.ref }}
-  cancel-in-progress: true
+  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
+  cancel-in-progress: ${{ !startsWith(github.ref, 'refs/tags/') }}
 
 permissions:
   contents: read
@@ -21,8 +20,6 @@ permissions:
 jobs:
   prepare:
     runs-on: ubuntu-latest
-    # Skip PR CI if the head branch is 'dev' to avoid double runs (push trigger covers it)
-    if: github.event_name == 'push' || github.event.pull_request.head.ref != 'dev'
     outputs:
       python-versions: ${{ steps.versions.outputs.value }}
     steps:
@@ -31,7 +28,6 @@ jobs:
 
   ruff-lint:
     runs-on: ubuntu-latest
-    if: github.event_name == 'push' || github.event.pull_request.head.ref != 'dev'
     steps:
       - uses: actions/checkout@v6
       - name: Set up uv
@@ -43,7 +39,6 @@ jobs:
 
   ruff-format:
     runs-on: ubuntu-latest
-    if: github.event_name == 'push' || github.event.pull_request.head.ref != 'dev'
     steps:
       - uses: actions/checkout@v6
       - name: Set up uv
@@ -55,7 +50,6 @@ jobs:
 
   mypy-typecheck:
     runs-on: ubuntu-latest
-    if: github.event_name == 'push' || github.event.pull_request.head.ref != 'dev'
     steps:
       - uses: actions/checkout@v6
       - name: Set up uv
diff --git a/.github/workflows/docker-publish.yml b/.github/workflows/docker-publish.yml
index d15c29d..454c20d 100644
--- a/.github/workflows/docker-publish.yml
+++ b/.github/workflows/docker-publish.yml
@@ -1,21 +1,14 @@
 name: Docker Publish
 
 on:
-  workflow_run:
-    workflows: ["CI"]
-    branches: [dev]
-    types: [completed]
   release:
     types: [published]
   workflow_dispatch:
     inputs:
-      branch:
-        description: 'The branch to build from'
+      ref:
+        description: 'The branch, tag, or SHA to build from'
         required: true
-        type: choice
-        options:
-        - main
-        - dev
+        type: string
         default: 'main'
 
 env:
@@ -25,20 +18,18 @@ env:
 jobs:
   build-and-push:
     runs-on: ubuntu-latest
-    if: |
-      (github.event_name == 'workflow_run' && github.event.workflow_run.conclusion == 'success') ||
-      github.event_name == 'release' ||
-      github.event_name == 'workflow_dispatch'
     permissions:
       contents: read
       packages: write
+      id-token: write
+      attestations: write
     steps:
       - name: Checkout repository
         uses: actions/checkout@v6
         with:
-          # Checkout the branch on manual trigger, the commit on workflow_run, or the tag on release
-          ref: ${{ github.event.inputs.branch || github.event.workflow_run.head_sha }}
-          fetch-depth: 0 # Fetches all history for all tags. Needed for semver.
+          # Priority: Manual input -> current workflow ref
+          ref: ${{ github.event.inputs.ref || github.ref }}
+          fetch-depth: 0
 
       - name: Set up QEMU
         uses: docker/setup-qemu-action@v4
@@ -67,15 +58,19 @@ jobs:
             ${{ env.DOCKER_HUB_REPO }}
             ${{ env.GHCR_REPO }}
           tags: |
-            # Tag all builds with the short commit hash
-            type=sha,format=short
-            # 'dev' tag for CI runs on dev branch or manual builds of dev
-            type=raw,value=dev,enable=${{ (github.event_name == 'workflow_run' && github.event.workflow_run.head_branch == 'dev') || (github.event_name == 'workflow_dispatch' && github.event.inputs.branch == 'dev') }}
-            # 'latest' and semantic version tags for releases
-            type=raw,value=latest,enable=${{ github.event_name == 'release' }}
-            type=match,pattern=v(.*),group=1,enable=${{ github.event_name == 'release' }}
+            # 1. Always tag with short SHA (no prefix)
+            type=sha,prefix=,format=short
+            # 2. Tag with 'latest' for any release or manual build of main
+            type=raw,value=latest,enable=${{ github.event_name == 'release' || github.event.inputs.ref == 'main' || github.ref_name == 'main' }}
+            # 3. Semantic Versioning for tags (v0.3.2 -> 0.3.2, 0.3, 0)
+            type=semver,pattern={{version}},enable=${{ github.event_name == 'release' }}
+            type=semver,pattern={{major}}.{{minor}},enable=${{ github.event_name == 'release' }}
+            type=semver,pattern={{major}},enable=${{ github.event_name == 'release' }}
+            # 4. Tag with branch name for manual builds of non-main branches
+            type=ref,event=branch,enable=${{ github.event_name == 'workflow_dispatch' && github.event.inputs.ref != 'main' }}
 
       - name: Build and push Docker image
+        id: push
         uses: docker/build-push-action@v7
         with:
           context: .
@@ -86,3 +81,17 @@ jobs:
           labels: ${{ steps.meta.outputs.labels }}
           cache-from: type=gha
           cache-to: type=gha,mode=max
+
+      - name: Generate artifact attestation (Docker Hub)
+        uses: actions/attest-build-provenance@v2
+        with:
+          subject-name: ${{ env.DOCKER_HUB_REPO }}
+          subject-digest: ${{ steps.push.outputs.digest }}
+          push-to-registry: true
+
+      - name: Generate artifact attestation (GHCR)
+        uses: actions/attest-build-provenance@v2
+        with:
+          subject-name: ${{ env.GHCR_REPO }}
+          subject-digest: ${{ steps.push.outputs.digest }}
+          push-to-registry: true

From 99d4ef677a4bfa18bb94976fa680ffe369f2b3d9 Mon Sep 17 00:00:00 2001
From: Albert Yau <5298134+mwyau@users.noreply.github.com>
Date: Mon, 9 Mar 2026 20:38:46 -0400
Subject: [PATCH 05/10] ci: integrate SBOM, provenance, and artifact
 attestations into publish workflows

---
 .github/workflows/ci.yml             | 17 +++++++++++++
 .github/workflows/docker-publish.yml | 36 +++++++++++++++-------------
 .github/workflows/python-publish.yml | 17 ++++++++++++-
 3 files changed, 53 insertions(+), 17 deletions(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index aabae9d..2090913 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -30,6 +30,9 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v6
+        with:
+          ref: ${{ github.ref }}
+          fetch-depth: 0
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
@@ -41,6 +44,9 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v6
+        with:
+          ref: ${{ github.ref }}
+          fetch-depth: 0
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
@@ -52,6 +58,9 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v6
+        with:
+          ref: ${{ github.ref }}
+          fetch-depth: 0
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
@@ -70,10 +79,14 @@ jobs:
     needs: prepare
     runs-on: ubuntu-latest
     strategy:
+      fail-fast: false
       matrix:
         python-version: ${{ fromJSON(needs.prepare.outputs.python-versions) }}
     steps:
       - uses: actions/checkout@v6
+        with:
+          ref: ${{ github.ref }}
+          fetch-depth: 0
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
@@ -94,10 +107,14 @@ jobs:
     needs: prepare
     runs-on: ubuntu-latest
     strategy:
+      fail-fast: false
       matrix:
         python-version: ${{ fromJSON(needs.prepare.outputs.python-versions) }}
     steps:
       - uses: actions/checkout@v6
+        with:
+          ref: ${{ github.ref }}
+          fetch-depth: 0
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
         with:
diff --git a/.github/workflows/docker-publish.yml b/.github/workflows/docker-publish.yml
index 454c20d..f0f4649 100644
--- a/.github/workflows/docker-publish.yml
+++ b/.github/workflows/docker-publish.yml
@@ -1,15 +1,16 @@
 name: Docker Publish
 
 on:
+  push:
+    branches:
+      - main
   release:
     types: [published]
   workflow_dispatch:
-    inputs:
-      ref:
-        description: 'The branch, tag, or SHA to build from'
-        required: true
-        type: string
-        default: 'main'
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: false
 
 env:
   DOCKER_HUB_REPO: xddd/pystormtracker
@@ -27,8 +28,7 @@ jobs:
       - name: Checkout repository
         uses: actions/checkout@v6
         with:
-          # Priority: Manual input -> current workflow ref
-          ref: ${{ github.event.inputs.ref || github.ref }}
+          ref: ${{ github.ref }}
           fetch-depth: 0
 
       - name: Set up QEMU
@@ -58,16 +58,19 @@ jobs:
             ${{ env.DOCKER_HUB_REPO }}
             ${{ env.GHCR_REPO }}
           tags: |
-            # 1. Always tag with short SHA (no prefix)
-            type=sha,prefix=,format=short
-            # 2. Tag with 'latest' for any release or manual build of main
-            type=raw,value=latest,enable=${{ github.event_name == 'release' || github.event.inputs.ref == 'main' || github.ref_name == 'main' }}
-            # 3. Semantic Versioning for tags (v0.3.2 -> 0.3.2, 0.3, 0)
+            # Always tag with short SHA
+            type=sha,format=short
+            # Tag with 'latest' only for releases
+            type=raw,value=latest,enable=${{ github.event_name == 'release' }}
+            # Tag with 'dev' only for main branch
+            type=raw,value=dev,enable=${{ github.ref_name == 'main' }}
+            # Branch tag only for manual builds (non-main)
+            type=ref,event=branch,enable=${{ github.event_name == 'workflow_dispatch' && github.ref_name != 'main' }}
+            # Semver tags only for releases
             type=semver,pattern={{version}},enable=${{ github.event_name == 'release' }}
             type=semver,pattern={{major}}.{{minor}},enable=${{ github.event_name == 'release' }}
             type=semver,pattern={{major}},enable=${{ github.event_name == 'release' }}
-            # 4. Tag with branch name for manual builds of non-main branches
-            type=ref,event=branch,enable=${{ github.event_name == 'workflow_dispatch' && github.event.inputs.ref != 'main' }}
+
 
       - name: Build and push Docker image
         id: push
@@ -75,7 +78,8 @@ jobs:
         with:
           context: .
           push: true
-          provenance: false
+          provenance: true
+          sbom: true
           platforms: linux/amd64,linux/arm64
           tags: ${{ steps.meta.outputs.tags }}
           labels: ${{ steps.meta.outputs.labels }}
diff --git a/.github/workflows/python-publish.yml b/.github/workflows/python-publish.yml
index 1af60e1..edb7a0d 100644
--- a/.github/workflows/python-publish.yml
+++ b/.github/workflows/python-publish.yml
@@ -7,15 +7,25 @@ on:
   release:
     types: [published]
 
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: false
+
 permissions:
   contents: read
 
 jobs:
   release-build:
     runs-on: ubuntu-latest
+    permissions:
+      contents: read
+      id-token: write
+      attestations: write
 
     steps:
       - uses: actions/checkout@v6
+        with:
+          fetch-depth: 0
 
       - name: Set up uv
         uses: astral-sh/setup-uv@v7
@@ -23,7 +33,12 @@ jobs:
           enable-cache: true
 
       - name: Build release distributions
-        run: uv build
+        run: uv build --wheel --sdist
+
+      - name: Generate artifact attestation
+        uses: actions/attest-build-provenance@v4
+        with:
+          subject-path: "dist/*"
 
       - name: Upload distributions
         uses: actions/upload-artifact@v7

From 28fdb862b865002edf89fcf1b8494e776d555901 Mon Sep 17 00:00:00 2001
From: Albert Yau <5298134+mwyau@users.noreply.github.com>
Date: Mon, 9 Mar 2026 22:13:58 -0400
Subject: [PATCH 06/10] ci: update test matrix with arm64 and min-deps
 resolution

---
 .github/workflows/ci.yml | 54 +++++++++++++++++++++-------------------
 1 file changed, 29 insertions(+), 25 deletions(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 2090913..ebbf31d 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -11,21 +11,13 @@ on:
   workflow_dispatch:
 
 concurrency:
-  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
-  cancel-in-progress: ${{ !startsWith(github.ref, 'refs/tags/') }}
+  group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref_name }}
+  cancel-in-progress: ${{ github.ref_type != 'tag' }}
 
 permissions:
   contents: read
 
 jobs:
-  prepare:
-    runs-on: ubuntu-latest
-    outputs:
-      python-versions: ${{ steps.versions.outputs.value }}
-    steps:
-      - id: versions
-        run: echo 'value=["3.11", "3.12", "3.13", "3.14"]' >> $GITHUB_OUTPUT
-
   ruff-lint:
     runs-on: ubuntu-latest
     steps:
@@ -68,20 +60,33 @@ jobs:
       - name: Install system dependencies
         run: |
           sudo apt-get update
-          sudo apt-get install -y libeccodes-dev
+          sudo apt-get install -y libopenmpi-dev libeccodes-dev
       - name: Install dependencies
-        run: uv sync --group dev
+        run: uv sync --frozen --group dev
       - name: Type check with Mypy
         run: uv run mypy src/ tests/
 
   unit-tests:
-    name: unit-tests (Python ${{ matrix.python-version }})
-    needs: prepare
-    runs-on: ubuntu-latest
+    name: unit-tests (${{ matrix.arch }}, Python ${{ matrix.python-version }}${{ matrix.min-deps && ', min-deps' || '' }})
+    runs-on: ${{ matrix.os }}
     strategy:
       fail-fast: false
       matrix:
-        python-version: ${{ fromJSON(needs.prepare.outputs.python-versions) }}
+        include:
+          - arch: amd64
+            os: ubuntu-latest
+            python-version: "3.11"
+          - arch: amd64
+            os: ubuntu-latest
+            python-version: "3.11"
+            resolution: lowest-direct
+            min-deps: true
+          - arch: amd64
+            os: ubuntu-latest
+            python-version: "3.14"
+          - arch: arm64
+            os: ubuntu-24.04-arm64
+            python-version: "3.14"
     steps:
       - uses: actions/checkout@v6
         with:
@@ -97,19 +102,18 @@ jobs:
           sudo apt-get update
           sudo apt-get install -y libeccodes-dev
       - name: Install dependencies
-        run: uv sync --group dev
+        if: ${{ !matrix.min-deps }}
+        run: uv sync --frozen --group dev
+      - name: Install dependencies (min-deps)
+        if: ${{ matrix.min-deps }}
+        run: uv sync --group dev --resolution lowest-direct
       - name: Run Unit Tests
         run: |
           uv run pytest -vv
 
   integration-tests:
-    name: integration-tests (Python ${{ matrix.python-version }})
-    needs: prepare
+    name: integration-tests (Python 3.14/amd64)
     runs-on: ubuntu-latest
-    strategy:
-      fail-fast: false
-      matrix:
-        python-version: ${{ fromJSON(needs.prepare.outputs.python-versions) }}
     steps:
       - uses: actions/checkout@v6
         with:
@@ -119,13 +123,13 @@ jobs:
         uses: astral-sh/setup-uv@v7
         with:
           enable-cache: true
-          python-version: ${{ matrix.python-version }}
+          python-version: "3.14"
       - name: Install system dependencies
         run: |
           sudo apt-get update
           sudo apt-get install -y openmpi-bin libopenmpi-dev libeccodes-dev
       - name: Install dependencies
-        run: uv sync --group dev
+        run: uv sync --frozen --group dev
       - name: Run Integration Tests
         run: |
           uv run pytest -vv tests/test_integration.py --run-integration

From 0a8916e963d826ac32dfc2d86daf15b80be7466a Mon Sep 17 00:00:00 2001
From: Albert Yau <5298134+mwyau@users.noreply.github.com>
Date: Mon, 9 Mar 2026 23:03:33 -0400
Subject: [PATCH 07/10] ci: fix arm64 runner label and pin ubuntu-24.04

---
 .github/workflows/ci.yml | 21 ++++++++++-----------
 1 file changed, 10 insertions(+), 11 deletions(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index ebbf31d..9376811 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -19,7 +19,7 @@ permissions:
 
 jobs:
   ruff-lint:
-    runs-on: ubuntu-latest
+    runs-on: ubuntu-24.04
     steps:
       - uses: actions/checkout@v6
         with:
@@ -33,7 +33,7 @@ jobs:
         run: uv run ruff check .
 
   ruff-format:
-    runs-on: ubuntu-latest
+    runs-on: ubuntu-24.04
     steps:
       - uses: actions/checkout@v6
         with:
@@ -47,7 +47,7 @@ jobs:
         run: uv run ruff format --check .
 
   mypy-typecheck:
-    runs-on: ubuntu-latest
+    runs-on: ubuntu-24.04
     steps:
       - uses: actions/checkout@v6
         with:
@@ -67,25 +67,24 @@ jobs:
         run: uv run mypy src/ tests/
 
   unit-tests:
-    name: unit-tests (${{ matrix.arch }}, Python ${{ matrix.python-version }}${{ matrix.min-deps && ', min-deps' || '' }})
+    name: unit-tests (Python ${{ matrix.python-version }}/${{ matrix.arch }}${{ matrix.min-deps && ', min-deps' || '' }})
     runs-on: ${{ matrix.os }}
     strategy:
       fail-fast: false
       matrix:
         include:
           - arch: amd64
-            os: ubuntu-latest
+            os: ubuntu-24.04
             python-version: "3.11"
           - arch: amd64
-            os: ubuntu-latest
+            os: ubuntu-24.04
             python-version: "3.11"
-            resolution: lowest-direct
             min-deps: true
           - arch: amd64
-            os: ubuntu-latest
+            os: ubuntu-24.04
             python-version: "3.14"
           - arch: arm64
-            os: ubuntu-24.04-arm64
+            os: ubuntu-24.04-arm
             python-version: "3.14"
     steps:
       - uses: actions/checkout@v6
@@ -100,7 +99,7 @@ jobs:
       - name: Install system dependencies
         run: |
           sudo apt-get update
-          sudo apt-get install -y libeccodes-dev
+          sudo apt-get install -y libopenmpi-dev libeccodes-dev
       - name: Install dependencies
         if: ${{ !matrix.min-deps }}
         run: uv sync --frozen --group dev
@@ -113,7 +112,7 @@ jobs:
 
   integration-tests:
     name: integration-tests (Python 3.14/amd64)
-    runs-on: ubuntu-latest
+    runs-on: ubuntu-24.04
     steps:
       - uses: actions/checkout@v6
         with:

From 9454677cff98b713f3446e9ac1e15f1a9eaa97bd Mon Sep 17 00:00:00 2001
From: Albert Yau <5298134+mwyau@users.noreply.github.com>
Date: Mon, 9 Mar 2026 23:03:38 -0400
Subject: [PATCH 08/10] build: update and sort dependencies for python 3.11
 compatibility

---
 pyproject.toml |  39 ++++---
 uv.lock        | 308 ++++++++++++++++++++++++++++++-------------------
 2 files changed, 210 insertions(+), 137 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index 292d164..6526146 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -24,13 +24,13 @@ classifiers = [
     "Topic :: Scientific/Engineering :: Atmospheric Science",
 ]
 dependencies = [
-    "numpy>=1.23.0",
-    "scipy>=1.9.0",
-    "xarray>=2024.9.0",
+    "dask>=2024.1.0",
+    "distributed>=2024.1.0",
     "h5netcdf>=1.0.0",
-    "h5py>=3.0.0",
-    "dask>=2024.0.0",
-    "distributed>=2024.0.0",
+    "h5py>=3.8.0",
+    "numpy>=1.24.0",
+    "scipy>=1.9.2",
+    "xarray>=2024.9.0",
 ]
 
 [project.scripts]
@@ -43,15 +43,18 @@ Issues = "https://github.com/mwyau/PyStormTracker/issues"
 
 [project.optional-dependencies]
 mpi = [
-    "mpi4py>=4.0.0",
+    "mpi4py>=4.1.0",
 ]
 grib = [
-    "cfgrib>=0.9.15",
+    "cfgrib>=0.9.15.1",
+]
+netcdf4 = [
+    "netCDF4>=1.6.1",
 ]
 docs = [
-    "sphinx>=7.2.0",
-    "sphinx-rtd-theme>=2.0.0",
-    "myst-parser>=2.0.0",
+    "sphinx>=9.0.4",
+    "sphinx-rtd-theme>=3.1.0",
+    "myst-parser>=5.0.0",
 ]
 
 [tool.hatch.build.targets.wheel]
@@ -59,13 +62,13 @@ packages = ["src/pystormtracker"]
 
 [dependency-groups]
 dev = [
-    "ruff>=0.9.0",
-    "mypy>=1.15.0",
-    "pytest>=8.1.1",
-    "pytest-cov>=5.0.0",
-    "pre-commit>=4.0.0",
-    "pooch>=1.8.0",
-    "pystormtracker[mpi,grib,docs]",
+    "mypy>=1.19.1",
+    "pooch>=1.9.0",
+    "pre-commit>=4.5.1",
+    "pystormtracker[mpi,grib,netcdf4,docs]",
+    "pytest-cov>=7.0.0",
+    "pytest>=9.0.2",
+    "ruff>=0.15.5",
 ]
 
 [tool.ruff]
diff --git a/uv.lock b/uv.lock
index e4f8d6a..0b62a14 100644
--- a/uv.lock
+++ b/uv.lock
@@ -3,20 +3,16 @@ revision = 3
 requires-python = ">=3.11"
 resolution-markers = [
     "python_full_version >= '3.14' and platform_machine == 'ARM64' and sys_platform == 'win32'",
+    "python_full_version >= '3.12' and python_full_version < '3.14' and platform_machine == 'ARM64' and sys_platform == 'win32'",
     "python_full_version >= '3.14' and platform_machine != 'ARM64' and sys_platform == 'win32'",
     "python_full_version >= '3.14' and sys_platform == 'emscripten'",
     "python_full_version >= '3.14' and sys_platform != 'emscripten' and sys_platform != 'win32'",
-    "python_full_version == '3.13.*' and platform_machine == 'ARM64' and sys_platform == 'win32'",
-    "python_full_version == '3.12.*' and platform_machine == 'ARM64' and sys_platform == 'win32'",
-    "python_full_version == '3.13.*' and platform_machine != 'ARM64' and sys_platform == 'win32'",
-    "python_full_version == '3.12.*' and platform_machine != 'ARM64' and sys_platform == 'win32'",
+    "python_full_version >= '3.12' and python_full_version < '3.14' and platform_machine != 'ARM64' and sys_platform == 'win32'",
+    "python_full_version >= '3.12' and python_full_version < '3.14' and sys_platform == 'emscripten'",
+    "python_full_version >= '3.12' and python_full_version < '3.14' and sys_platform != 'emscripten' and sys_platform != 'win32'",
     "python_full_version < '3.12' and platform_machine == 'ARM64' and sys_platform == 'win32'",
     "python_full_version < '3.12' and platform_machine != 'ARM64' and sys_platform == 'win32'",
-    "python_full_version == '3.13.*' and sys_platform == 'emscripten'",
-    "python_full_version == '3.12.*' and sys_platform == 'emscripten'",
     "python_full_version < '3.12' and sys_platform == 'emscripten'",
-    "python_full_version == '3.13.*' and sys_platform != 'emscripten' and sys_platform != 'win32'",
-    "python_full_version == '3.12.*' and sys_platform != 'emscripten' and sys_platform != 'win32'",
     "python_full_version < '3.12' and sys_platform != 'emscripten' and sys_platform != 'win32'",
 ]
 
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 ]
 
+[[package]]
+name = "cftime"
+version = "1.6.5"
+source = { registry = "https://pypi.org/simple" }
+dependencies = [
+    { name = "numpy" },
+]
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+wheels = [
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+    { url = "https://files.pythonhosted.org/packages/1f/d5/d86ad95fc1fd89947c34b495ff6487b6d361cf77500217423b4ebcb1f0c2/cftime-1.6.5-cp311-cp311-macosx_11_0_arm64.whl", hash = "sha256:ab9e80d4de815cac2e2d88a2335231254980e545d0196eb34ee8f7ed612645f1", size = 492946, upload-time = "2025-10-13T18:56:01.262Z" },
+    { url = "https://files.pythonhosted.org/packages/4f/93/d7e8dd76b03a9d5be41a3b3185feffc7ea5359228bdffe7aa43ac772a75b/cftime-1.6.5-cp311-cp311-manylinux2014_aarch64.manylinux_2_17_aarch64.whl", hash = "sha256:ad24a563784e4795cb3d04bd985895b5db49ace2cbb71fcf1321fd80141f9a52", size = 1689856, upload-time = "2025-10-13T19:39:12.873Z" },
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@@ -1245,13 +1315,16 @@ grib = [
 mpi = [
     { name = "mpi4py" },
 ]
+netcdf4 = [
+    { name = "netcdf4" },
+]
 
 [package.dev-dependencies]
 dev = [
     { name = "mypy" },
     { name = "pooch" },
     { name = "pre-commit" },
-    { name = "pystormtracker", extra = ["docs", "grib", "mpi"] },
+    { name = "pystormtracker", extra = ["docs", "grib", "mpi", "netcdf4"] },
     { name = "pytest" },
     { name = "pytest-cov" },
     { name = "ruff" },
@@ -1259,30 +1332,31 @@ dev = [
 
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-    { name = "dask", specifier = ">=2024.0.0" },
-    { name = "distributed", specifier = ">=2024.0.0" },
+    { name = "cfgrib", marker = "extra == 'grib'", specifier = ">=0.9.15.1" },
+    { name = "dask", specifier = ">=2024.1.0" },
+    { name = "distributed", specifier = ">=2024.1.0" },
     { name = "h5netcdf", specifier = ">=1.0.0" },
-    { name = "h5py", specifier = ">=3.0.0" },
-    { name = "mpi4py", marker = "extra == 'mpi'", specifier = ">=4.0.0" },
-    { name = "myst-parser", marker = "extra == 'docs'", specifier = ">=2.0.0" },
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-    { name = "scipy", specifier = ">=1.9.0" },
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-    { name = "sphinx-rtd-theme", marker = "extra == 'docs'", specifier = ">=2.0.0" },
+    { name = "h5py", specifier = ">=3.8.0" },
+    { name = "mpi4py", marker = "extra == 'mpi'", specifier = ">=4.1.0" },
+    { name = "myst-parser", marker = "extra == 'docs'", specifier = ">=5.0.0" },
+    { name = "netcdf4", marker = "extra == 'netcdf4'", specifier = ">=1.6.1" },
+    { name = "numpy", specifier = ">=1.24.0" },
+    { name = "scipy", specifier = ">=1.9.2" },
+    { name = "sphinx", marker = "extra == 'docs'", specifier = ">=9.0.4" },
+    { name = "sphinx-rtd-theme", marker = "extra == 'docs'", specifier = ">=3.1.0" },
     { name = "xarray", specifier = ">=2024.9.0" },
 ]
-provides-extras = ["mpi", "grib", "docs"]
+provides-extras = ["mpi", "grib", "netcdf4", "docs"]
 
 [package.metadata.requires-dev]
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-    { name = "pooch", specifier = ">=1.8.0" },
-    { name = "pre-commit", specifier = ">=4.0.0" },
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-    { name = "pytest-cov", specifier = ">=5.0.0" },
-    { name = "ruff", specifier = ">=0.9.0" },
+    { name = "mypy", specifier = ">=1.19.1" },
+    { name = "pooch", specifier = ">=1.9.0" },
+    { name = "pre-commit", specifier = ">=4.5.1" },
+    { name = "pystormtracker", extras = ["mpi", "grib", "netcdf4", "docs"] },
+    { name = "pytest", specifier = ">=9.0.2" },
+    { name = "pytest-cov", specifier = ">=7.0.0" },
+    { name = "ruff", specifier = ">=0.15.5" },
 ]
 
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 source = { registry = "https://pypi.org/simple" }
 resolution-markers = [
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+    "python_full_version >= '3.12' and python_full_version < '3.14' and platform_machine == 'ARM64' and sys_platform == 'win32'",
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-    "python_full_version == '3.12.*' and platform_machine == 'ARM64' and sys_platform == 'win32'",
-    "python_full_version == '3.13.*' and platform_machine != 'ARM64' and sys_platform == 'win32'",
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-    "python_full_version == '3.13.*' and sys_platform != 'emscripten' and sys_platform != 'win32'",
-    "python_full_version == '3.12.*' and sys_platform != 'emscripten' and sys_platform != 'win32'",
+    "python_full_version >= '3.12' and python_full_version < '3.14' and platform_machine != 'ARM64' and sys_platform == 'win32'",
+    "python_full_version >= '3.12' and python_full_version < '3.14' and sys_platform == 'emscripten'",
+    "python_full_version >= '3.12' and python_full_version < '3.14' and sys_platform != 'emscripten' and sys_platform != 'win32'",
 ]
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 dependencies = [
     { name = "distlib" },
@@ -1828,9 +1898,9 @@ dependencies = [
     { name = "platformdirs" },
     { name = "python-discovery" },
 ]
-sdist = { url = "https://files.pythonhosted.org/packages/2f/c9/18d4b36606d6091844daa3bd93cf7dc78e6f5da21d9f21d06c221104b684/virtualenv-21.1.0.tar.gz", hash = "sha256:1990a0188c8f16b6b9cf65c9183049007375b26aad415514d377ccacf1e4fb44", size = 5840471, upload-time = "2026-02-27T08:49:29.702Z" }
+sdist = { url = "https://files.pythonhosted.org/packages/aa/92/58199fe10049f9703c2666e809c4f686c54ef0a68b0f6afccf518c0b1eb9/virtualenv-21.2.0.tar.gz", hash = "sha256:1720dc3a62ef5b443092e3f499228599045d7fea4c79199770499df8becf9098", size = 5840618, upload-time = "2026-03-09T17:24:38.013Z" }
 wheels = [
-    { url = "https://files.pythonhosted.org/packages/78/55/896b06bf93a49bec0f4ae2a6f1ed12bd05c8860744ac3a70eda041064e4d/virtualenv-21.1.0-py3-none-any.whl", hash = "sha256:164f5e14c5587d170cf98e60378eb91ea35bf037be313811905d3a24ea33cc07", size = 5825072, upload-time = "2026-02-27T08:49:27.516Z" },
+    { url = "https://files.pythonhosted.org/packages/c6/59/7d02447a55b2e55755011a647479041bc92a82e143f96a8195cb33bd0a1c/virtualenv-21.2.0-py3-none-any.whl", hash = "sha256:1bd755b504931164a5a496d217c014d098426cddc79363ad66ac78125f9d908f", size = 5825084, upload-time = "2026-03-09T17:24:35.378Z" },
 ]
 
 [[package]]

From 78d5dccb31786089a82acad7c1846c7b1e5dccea Mon Sep 17 00:00:00 2001
From: Albert Yau <5298134+mwyau@users.noreply.github.com>
Date: Mon, 9 Mar 2026 23:05:57 -0400
Subject: [PATCH 09/10] ci: run integration tests on both amd64 and arm64

---
 .github/workflows/ci.yml | 16 +++++++++++++---
 1 file changed, 13 insertions(+), 3 deletions(-)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 9376811..efee4f8 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -111,8 +111,18 @@ jobs:
           uv run pytest -vv
 
   integration-tests:
-    name: integration-tests (Python 3.14/amd64)
-    runs-on: ubuntu-24.04
+    name: integration-tests (Python ${{ matrix.python-version }}/${{ matrix.arch }})
+    runs-on: ${{ matrix.os }}
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - arch: amd64
+            os: ubuntu-24.04
+            python-version: "3.14"
+          - arch: arm64
+            os: ubuntu-24.04-arm
+            python-version: "3.14"
     steps:
       - uses: actions/checkout@v6
         with:
@@ -122,7 +132,7 @@ jobs:
         uses: astral-sh/setup-uv@v7
         with:
           enable-cache: true
-          python-version: "3.14"
+          python-version: ${{ matrix.python-version }}
       - name: Install system dependencies
         run: |
           sudo apt-get update

From 639f66803a59ae51e6798defc8f338fee1430248 Mon Sep 17 00:00:00 2001
From: Albert Yau <5298134+mwyau@users.noreply.github.com>
Date: Mon, 9 Mar 2026 23:14:16 -0400
Subject: [PATCH 10/10] build: finalize optimized dockerfile with layer caching

---
 Dockerfile | 60 +++++++++++++++++++++++++++++++++++++++++-------------
 1 file changed, 46 insertions(+), 14 deletions(-)

diff --git a/Dockerfile b/Dockerfile
index 491f9b7..f0c09c1 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -1,27 +1,59 @@
-# Use Python 3.14 slim as the base image
-FROM python:3.14-slim
+# --- Build Stage ---
+FROM python:3.14-slim AS builder
+
+# Prevent uv from creating a virtualenv that might be hard to move
+ENV UV_COMPILE_BYTECODE=1 \
+    UV_LINK_MODE=copy \
+    UV_PYTHON_DOWNLOADS=0
 
-# Install system dependencies for MPI and building packages
+WORKDIR /app
+
+# Install build dependencies
 RUN apt-get update && apt-get install -y --no-install-recommends \
-    build-essential \
-    libopenmpi-dev \
-    openmpi-bin \
+    libeccodes-dev \
+    gcc \
+    libc6-dev \
     && rm -rf /var/lib/apt/lists/*
 
-# Set working directory
+# Install uv
+COPY --from=ghcr.io/astral-sh/uv:latest /uv /uvx /bin/
+
+# 1. Copy only dependency files for better layer caching.
+# This ensures that we only re-download dependencies if these files change.
+COPY pyproject.toml uv.lock ./
+
+# 2. Install third-party dependencies first (including grib extra).
+# --no-install-workspace allows us to install dependencies without the project source yet.
+RUN uv sync --frozen --no-dev --no-install-workspace --extra grib
+
+# 3. Copy only necessary source files for the final installation step.
+COPY src/ ./src/
+COPY README.md ./
+
+# 4. Final installation of the project package itself.
+# This step is very fast because the heavy dependencies are already cached.
+RUN uv sync --frozen --no-dev --extra grib
+
+
+# --- Runtime Stage ---
+FROM python:3.14-slim
+
 WORKDIR /app
 
+# Install ONLY the runtime shared libraries
+RUN apt-get update && apt-get install -y --no-install-recommends \
+    libeccodes0 \
+    && rm -rf /var/lib/apt/lists/*
+
 # Create data directory for mounting
 RUN mkdir /data && chmod 777 /data
 
-# Install uv
-COPY --from=ghcr.io/astral-sh/uv:latest /uv /uvx /bin/
-
-# Copy the project files
-COPY . .
+# Copy the environment from the builder
+COPY --from=builder /app/.venv /app/.venv
 
-# Install the package and its dependencies using uv
-RUN uv pip install --system --no-cache .
+# Ensure the virtualenv is used by default
+ENV PATH="/app/.venv/bin:$PATH" \
+    PYTHONUNBUFFERED=1
 
 # Add a non-root user for security
 RUN useradd -m pst