BEAGLE v4.0.1

Bug fixes:

• patch ARM64 on linux

BEAGLE v4.0.0

Add support for:

• M1 ARM64
• pre-order gradient calculations

BEAGLE v3.1.2

Bug fixes:

• Further fixes to pthread linking problems for Linux compilation under GCC;
• Fixed issue with odd state counts and CPU SSE;
• Fixed issue with non nucleotide state counts on AMD GPUs;
• Adjustments to CPU auto-threading heuristics.

BEAGLE v3.1.1

Bug Fixes:

• Fixed pthread linking issue on Linux which prevented some programs from loading CPU plugin.
• Fixed issue with multi-partition mode and unrooted trees on CPU implementation (multi-partition on CPU typically only used for debugging)

BEAGLE v3.1.0

New Features:

• Automatic resource selection via beagleGetBenchmarkedResourceList.
• Control of CPU threading with beagleSetCPUThreadCount.

Performance and bug Fixes:

• CPU implementation now defaults to non-threaded implementation to replicate behaviour of previous versions.
• Improved CPU auto-threading to use fewer threads for better performance in some scenarios.
• Improved performance for CUDA implementation when rescaling (improved synchonization of streams).

BEAGLE v3.0.2

Bug fixes:

• Fixed macOS installer to place BEAGLE JNI library in correct location
• Removed OpenCL implementation from macOS build and installer, as OpenCL is being deprecated by Apple

BEAGLE v3.0.1

Bug Fixes:

• Fixed issue with GPU implementation (undersized array allocation).

BEAGLE v3.0.0

New Features:

• Improved performance for partitioned data sets.
• Improved performance for large trees with short alignments.
• Improved performance for default CPU implementation, via use of threading.

Bug Fixes:

• Several minor fixes.

BEAGLE v3.0.0-pre20180425

Update README.md

fixed broken API documentation link