From 499d027f39aad80b63fa97fb8daa09044fd32941 Mon Sep 17 00:00:00 2001
From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com>
Date: Thu, 20 Nov 2025 08:32:37 +0000
Subject: [PATCH 1/3] Initial plan


From cf038a836f57949ed8ec6bf1d32f05c5335fae44 Mon Sep 17 00:00:00 2001
From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com>
Date: Thu, 20 Nov 2025 08:41:35 +0000
Subject: [PATCH 2/3] Add GitHub Actions CI workflow

Co-authored-by: kozo2 <12192+kozo2@users.noreply.github.com>
---
 .github/workflows/ci.yml | 53 ++++++++++++++++++++++++++++++++++++++++
 .gitignore               | 11 +++++++++
 README.md                |  2 +-
 3 files changed, 65 insertions(+), 1 deletion(-)
 create mode 100644 .github/workflows/ci.yml

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
new file mode 100644
index 0000000..6f825d9
--- /dev/null
+++ b/.github/workflows/ci.yml
@@ -0,0 +1,53 @@
+name: CI
+
+on:
+  push:
+    branches: [ master ]
+  pull_request:
+    branches: [ master ]
+
+jobs:
+  build-and-test:
+    name: ${{ matrix.os }} - ${{ matrix.compiler }}
+    runs-on: ${{ matrix.os }}
+    
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            compiler: gcc
+            cxx: g++
+          - os: ubuntu-latest
+            compiler: clang
+            cxx: clang++
+          - os: macos-latest
+            compiler: clang
+            cxx: clang++
+    
+    steps:
+    - name: Checkout code
+      uses: actions/checkout@v4
+    
+    - name: Install dependencies (Ubuntu)
+      if: runner.os == 'Linux'
+      run: |
+        sudo apt-get update
+        sudo apt-get install -y cmake libboost-dev libgsl-dev
+    
+    - name: Install dependencies (macOS)
+      if: runner.os == 'macOS'
+      run: |
+        brew install cmake gsl boost
+    
+    - name: Configure
+      env:
+        CC: ${{ matrix.compiler }}
+        CXX: ${{ matrix.cxx }}
+      run: cmake .
+    
+    - name: Build
+      run: make -j$(nproc 2>/dev/null || sysctl -n hw.ncpu)
+    
+    - name: Test
+      run: ctest --output-on-failure
diff --git a/.gitignore b/.gitignore
index 8d336d7..f47bc55 100644
--- a/.gitignore
+++ b/.gitignore
@@ -4,3 +4,14 @@ bin/*
 .DS_Store
 *~
 *.swp
+# Generated CMake files and build artifacts
+CMakeCache.txt
+CMakeFiles/
+cmake_install.cmake
+Makefile
+CTestTestfile.cmake
+*.a
+greens_functions/
+tablegen/make_cjy_table
+tablegen/make_sjy_table
+tests/GreensFunction*_test
diff --git a/README.md b/README.md
index 9bca1a2..1e30a24 100644
--- a/README.md
+++ b/README.md
@@ -1,5 +1,5 @@
 # greens functions
 
-[![Build Status](https://travis-ci.org/ecell/greens_functions.svg?branch=master)](https://travis-ci.org/ecell/greens_functions)
+[![CI](https://github.com/ecell/greens_functions/workflows/CI/badge.svg)](https://github.com/ecell/greens_functions/actions)
 
 for eGFRD simulation.

From 84703e7b9452b990f87b8c90e2058878c6e37153 Mon Sep 17 00:00:00 2001
From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com>
Date: Thu, 20 Nov 2025 08:43:34 +0000
Subject: [PATCH 3/3] Add permissions block to workflow for security

Co-authored-by: kozo2 <12192+kozo2@users.noreply.github.com>
---
 .github/workflows/ci.yml | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 6f825d9..fa68ac4 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -11,6 +11,9 @@ jobs:
     name: ${{ matrix.os }} - ${{ matrix.compiler }}
     runs-on: ${{ matrix.os }}
     
+    permissions:
+      contents: read
+    
     strategy:
       fail-fast: false
       matrix: