Initial commit: Matrix alignment prototype for HPC performance demonstration

- Add C implementation demonstrating memory alignment effects (matrix_alignment_prototype.c)
- Include cache-blocked matrix multiplication with AVX SIMD optimizations
- Add automated benchmarking framework (run_all_tests.sh, run_benchmark_sizes.sh)
- Add Python visualization scripts (generate_plots.py)
- Include Makefile for building with AVX support
- Add benchmark results and generated plots
- Add README with build and usage instructions
- Configure .gitignore for C/Python project files

run_all_tests.sh

@@ -0,0 +1,83 @@
+#!/bin/bash
+# Complete test suite for HPC Alignment Benchmark
+# Based on OpenBLAS Issue #3879 and Step.md setup instructions
+
+set -e  # Exit on error
+
+echo "=========================================="
+echo "HPC Alignment Benchmark - Complete Test Suite"
+echo "Based on OpenBLAS Issue #3879"
+echo "=========================================="
+echo ""
+
+# Check if we're in the right directory
+if [ ! -f "matrix_alignment_prototype.c" ]; then
+    echo "Error: matrix_alignment_prototype.c not found"
+    echo "Please run this script from the project directory"
+    exit 1
+fi
+
+# Step 1: Build the prototype
+echo "Step 1: Building prototype..."
+echo "----------------------------------------"
+make clean
+make
+if [ $? -ne 0 ]; then
+    echo "Error: Build failed"
+    exit 1
+fi
+echo "✓ Build successful"
+echo ""
+
+# Step 2: Run benchmarks for all sizes
+echo "Step 2: Running benchmarks for multiple sizes..."
+echo "----------------------------------------"
+./run_benchmark_sizes.sh
+if [ $? -ne 0 ]; then
+    echo "Error: Benchmark failed"
+    exit 1
+fi
+echo ""
+
+# Step 3: Display results
+echo "Step 3: Benchmark Results Summary"
+echo "----------------------------------------"
+if [ -f "benchmark_results.csv" ]; then
+    echo ""
+    echo "Results:"
+    column -t -s',' benchmark_results.csv
+    echo ""
+else
+    echo "Warning: benchmark_results.csv not found"
+fi
+
+# Step 4: Check for plots
+echo "Step 4: Generated Files"
+echo "----------------------------------------"
+if [ -f "alignment_benchmark_results.png" ]; then
+    echo "✓ Main plot: alignment_benchmark_results.png"
+fi
+if [ -f "alignment_benchmark_execution_time.png" ]; then
+    echo "✓ Execution time plot: alignment_benchmark_execution_time.png"
+fi
+if [ -f "alignment_benchmark_speedup.png" ]; then
+    echo "✓ Speedup plot: alignment_benchmark_speedup.png"
+fi
+if [ -f "alignment_benchmark_variability.png" ]; then
+    echo "✓ Variability plot: alignment_benchmark_variability.png"
+fi
+if [ -f "alignment_benchmark_gflops.png" ]; then
+    echo "✓ GFLOPS plot: alignment_benchmark_gflops.png"
+fi
+
+echo ""
+echo "=========================================="
+echo "Test suite complete!"
+echo "=========================================="
+echo ""
+echo "Next steps:"
+echo "1. Review benchmark_results.csv for detailed data"
+echo "2. Check generated PNG plots for visualizations"
+echo "3. Compare results with OpenBLAS Issue #3879 findings"
+echo ""
+