GPU-accelerated TLS, optimized BLS, cuFINUFFT LS, and multi-GPU benchmarks

.editorconfig

@@ -0,0 +1,53 @@
+# EditorConfig is awesome: https://EditorConfig.org
+
+# top-most EditorConfig file
+root = true
+
+# Unix-style newlines with a newline ending every file
+[*]
+end_of_line = lf
+insert_final_newline = true
+charset = utf-8
+trim_trailing_whitespace = true
+
+# Python files
+[*.py]
+indent_style = space
+indent_size = 4
+max_line_length = 88
+
+# CUDA files
+[*.cu]
+indent_style = space
+indent_size = 4
+max_line_length = 100
+
+# Markdown files
+[*.md]
+trim_trailing_whitespace = false
+max_line_length = off
+
+# YAML files
+[*.{yml,yaml}]
+indent_style = space
+indent_size = 2
+
+# Configuration files
+[*.{json,toml,cfg}]
+indent_style = space
+indent_size = 2
+
+# Shell scripts
+[*.sh]
+indent_style = space
+indent_size = 2
+
+# Makefiles require tabs
+[Makefile]
+indent_style = tab
+
+# reStructuredText
+[*.rst]
+indent_style = space
+indent_size = 3
+max_line_length = off

.github/workflows/tests.yml

@@ -0,0 +1,72 @@
+name: Tests
+
+on:
+  push:
+    branches: [ master, main ]
+  pull_request:
+    branches: [ master, main ]
+
+jobs:
+  test:
+    runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        python-version: ["3.8", "3.9", "3.10", "3.11", "3.12"]
+
+    steps:
+    - uses: actions/checkout@v3
+
+    - name: Set up Python ${{ matrix.python-version }}
+      uses: actions/setup-python@v4
+      with:
+        python-version: ${{ matrix.python-version }}
+
+    - name: Install system dependencies
+      run: |
+        sudo apt-get update
+        sudo apt-get install -y build-essential
+
+    - name: Install Python dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install numpy>=1.17 scipy>=1.3
+        pip install pytest pytest-cov
+
+    - name: Install package
+      run: |
+        pip install -e .
+      continue-on-error: true  # PyCUDA may not install without CUDA
+
+    - name: Run basic import test
+      run: |
+        python -c "import numpy; import scipy; print('Dependencies OK')"
+
+    - name: Check code syntax
+      run: |
+        python -m py_compile cuvarbase/__init__.py
+        python -m py_compile cuvarbase/core.py
+        python -m py_compile cuvarbase/utils.py
+
+  lint:
+    runs-on: ubuntu-latest
+    steps:
+    - uses: actions/checkout@v3
+
+    - name: Set up Python
+      uses: actions/setup-python@v4
+      with:
+        python-version: "3.11"
+
+    - name: Install linting tools
+      run: |
+        python -m pip install --upgrade pip
+        pip install flake8
+
+    - name: Lint with flake8
+      run: |
+        # Stop the build if there are Python syntax errors or undefined names
+        flake8 cuvarbase --count --select=E9,F63,F7,F82 --show-source --statistics
+        # Exit-zero treats all errors as warnings
+        flake8 cuvarbase --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+      continue-on-error: true

.gitignore

@@ -82,3 +82,6 @@ work/
 *HAT*txt
 testing/*
 custom_test_ce.py
+
+# RunPod configuration (contains credentials)
+.runpod.env

.runpod.env.template

@@ -0,0 +1,22 @@
+# RunPod Configuration
+# Copy this file to .runpod.env and fill in your details
+# .runpod.env is gitignored for security
+
+# RunPod SSH Connection Details
+# Get these from your RunPod pod's "Connect" button
+RUNPOD_SSH_HOST=ssh.runpod.io
+RUNPOD_SSH_PORT=12345
+RUNPOD_SSH_USER=root
+
+# Optional: Path to SSH key (if using key-based auth)
+# RUNPOD_SSH_KEY=~/.ssh/runpod_rsa
+
+# Remote paths
+RUNPOD_REMOTE_DIR=/workspace/cuvarbase
+
+# RunPod API Key (required for scripts/runpod-create.sh and scripts/gpu-test.sh)
+# Get from https://www.runpod.io/console/user/settings
+RUNPOD_API_KEY=
+
+# Pod ID (auto-populated by runpod-create.sh)
+# RUNPOD_POD_ID=

CHANGELOG.rst

@@ -1,5 +1,24 @@
 What's new in cuvarbase
 ***********************
+* **0.4.0**
+    * **BREAKING CHANGE:** Dropped Python 2.7 support - now requires Python 3.7+
+    * Removed ``future`` package dependency and all Python 2 compatibility code
+    * Modernized codebase: removed ``__future__`` imports and ``builtins`` compatibility layer
+    * Updated minimum dependency versions: numpy>=1.17, scipy>=1.3
+    * Added modern Python packaging with ``pyproject.toml``
+    * Added Docker support for easier installation with CUDA 11.8
+    * Added GitHub Actions CI/CD for automated testing across Python 3.7-3.11
+    * Updated classifiers to reflect Python 3.7-3.11 support
+    * Cleaner, more maintainable codebase (89 lines of compatibility code removed)
+    * Includes all features from 0.2.6:
+        * Added Sparse BLS implementation for efficient transit detection with small datasets
+        * New ``sparse_bls_cpu`` function that avoids binning and grid searching
+        * New ``eebls_transit`` wrapper that automatically selects between sparse (CPU) and standard (GPU) BLS
+        * Based on algorithm from Panahi & Zucker 2021 (https://arxiv.org/abs/2103.06193)
+        * More efficient for datasets with < 500 observations
+        * NUFFT LRT implementation for transit detection
+        * Refactored codebase organization with base/, memory/, and periodograms/ modules
+
 * **0.2.5**
     * swap out pycuda.autoinit for pycuda.autoprimaryctx to handle "cuFuncSetBlockShape" error