gseapy: Add version 1.3.1

.github/workflows/build-gseapy.yml

@@ -0,0 +1,116 @@
+# SPDX-FileCopyrightText: 2026 The RISE Project
+# SPDX-License-Identifier: MIT
+---
+# Based on upstream's own wheel and test workflows:
+#   https://github.com/zqfang/GSEApy/blob/v1.3.1/.github/workflows/wheels.yml
+#   https://github.com/zqfang/GSEApy/blob/v1.3.1/.github/workflows/test.yml
+name: Build gseapy wheels (riscv64)
+
+on:
+  workflow_dispatch:
+    inputs:
+      version:
+        description: 'Version glob to (re)build; empty builds every version of docs/packages/gseapy.yaml not released yet'
+        required: false
+        default: ''
+  pull_request:
+    branches: [main]
+    paths:
+      - '.github/workflows/build-gseapy.yml'
+      - 'docs/packages/gseapy.yaml'
+  push:
+    branches: [main]
+    paths:
+      - '.github/workflows/build-gseapy.yml'
+      - 'docs/packages/gseapy.yaml'
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.head_ref || github.run_id }}
+  cancel-in-progress: true
+
+permissions:
+  contents: read  # to fetch code (actions/checkout)
+
+env:
+  MANYLINUX_RISCV64_IMAGE: quay.io/pypa/manylinux_2_39_riscv64
+
+jobs:
+  setup:
+    uses: $/.github/workflows/_setup.yml
+    with:
+      package: gseapy
+      version: ${{ inputs.version }}
+
+  build_wheels:
+    needs: [setup]
+    if: needs.setup.outputs.versions != '[]'
+    name: Build gseapy ${{ matrix.version }} ${{ matrix.python }}-manylinux_riscv64
+    runs-on: ubuntu-24.04-riscv
+    timeout-minutes: 120
+    strategy:
+      fail-fast: false
+      matrix:
+        version: ${{ fromJSON(needs.setup.outputs.versions) }}
+        python: ["cp312", "cp313", "cp314", "cp314t"]
+        include:
+          # pandas, a hard runtime dependency, has no cp314t riscv64 wheel on pypi.riseproject.dev.
+          - python: "cp314t"
+            test_skip: "*"
+
+    env:
+      GSEAPY_VERSION: ${{ matrix.version }}
+
+    steps:
+      - name: Checkout gseapy v${{ env.GSEAPY_VERSION }}
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1  # v7.0.1
+        with:
+          repository: zqfang/GSEApy
+          ref: v${{ env.GSEAPY_VERSION }}
+          persist-credentials: false
+
+      - name: Build wheels
+        uses: pypa/cibuildwheel@1828c10ab37f080699c7b81cea34097c684a7074  # v4.2.0
+        with:
+          output-dir: wheelhouse/
+          only: ${{ matrix.python }}-manylinux_riscv64
+        env:
+          CIBW_MANYLINUX_RISCV64_IMAGE: ${{ env.MANYLINUX_RISCV64_IMAGE }}
+          CIBW_BEFORE_ALL_LINUX: >-
+            yum install libatomic -y &&
+            curl --proto '=https' --tlsv1.2 -sSf https://sh.rustup.rs | sh -s -- -y
+          CIBW_ENVIRONMENT_LINUX: >-
+            PATH="$PATH:$HOME/.cargo/bin"
+            PIP_EXTRA_INDEX_URL=https://pypi.riseproject.dev/simple/
+            PIP_ONLY_BINARY=numpy,scipy,pandas,matplotlib,contourpy,kiwisolver,pillow,fonttools,lxml,pyyaml
+          CIBW_BEFORE_BUILD: >-
+            python -m pip install -U pip setuptools wheel build setuptools-rust
+          CIBW_TEST_EXTRAS: test
+          CIBW_TEST_SOURCES: tests pyproject.toml
+          CIBW_TEST_COMMAND: pytest tests
+          CIBW_TEST_SKIP: ${{ matrix.test_skip }}
+
+      - name: Check the Rust extension is in the wheel
+        run: python3 -m zipfile -l wheelhouse/*.whl | grep -E 'gseapy/gse\..*\.so'
+
+      - uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a  # v7.0.1
+        with:
+          name: gseapy-${{ env.GSEAPY_VERSION }}-${{ matrix.python }}-manylinux_riscv64
+          path: wheelhouse/*.whl
+          if-no-files-found: error
+
+  publish:
+    name: Publish gseapy ${{ matrix.version }}
+    needs: [setup, build_wheels]
+    if: needs.setup.outputs.versions != '[]'
+    strategy:
+      fail-fast: false
+      matrix:
+        version: ${{ fromJSON(needs.setup.outputs.versions) }}
+    permissions:
+      contents: write
+      pull-requests: write
+    uses: $/.github/workflows/_publish-wheel.yml
+    secrets:
+      app-private-key: ${{ secrets.RISEPROJECT_APP_PRIVATE_KEY }}
+    with:
+      artifact-pattern: gseapy-${{ matrix.version }}-*-manylinux_riscv64

docs/packages/gseapy.yaml

@@ -0,0 +1,5 @@
+package-name: gseapy
+source-code: https://github.com/zqfang/GSEApy
+license: BSD-3-Clause
+versions:
+- version: 1.3.1