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.gitignore
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# /
/beagle-lib-1.0.pc
/configure
/Makefile.in
/config.log
/INSTALL
/COPYING
/Makefile
/.config
/config.status
/libtool
/autom4te.cache
/aclocal.m4
/hmsbeagle-1.0.pc
/doc
/.idea
/Beagle-lib.iml
/hmsbeagle-1.pc
# /examples/
/examples/Makefile.in
/examples/Makefile
/examples/extensivetest
# /examples/complextest/
/examples/complextest/Makefile.in
/examples/complextest/Makefile
/examples/complextest/complextest
/examples/complextest/.deps
# /examples/fourtaxon/
/examples/fourtaxon/check_lnL_using_paup.nex
/examples/fourtaxon/fourtaxon.o
/examples/fourtaxon/fourtaxon
/examples/fourtaxon/Makefile.in
/examples/fourtaxon/.deps
/examples/fourtaxon/Makefile
/examples/fourtaxon/fourtaxonrun.sh
# /examples/genomictest/
/examples/genomictest/Makefile.in
/examples/genomictest/.deps
/examples/genomictest/Makefile
/examples/genomictest/genomictest
/examples/genomictest/genomictest.sh
# /examples/matrixtest/
/examples/matrixtest/Makefile.in
/examples/matrixtest/matrixtest
/examples/matrixtest/.deps
/examples/matrixtest/Makefile
# /examples/oddstatetest/
/examples/oddstatetest/Makefile.in
/examples/oddstatetest/.deps
/examples/oddstatetest/Makefile
/examples/oddstatetest/oddstatetest
# /examples/tinytest/
/examples/tinytest/Makefile.in
/examples/tinytest/.deps
/examples/tinytest/Makefile
/examples/tinytest/tinytest
# /libhmsbeagle/
/libhmsbeagle/config.h.in
/libhmsbeagle/Makefile.in
/libhmsbeagle/.deps
/libhmsbeagle/stamp-h1
/libhmsbeagle/config.h
/libhmsbeagle/Makefile
# /libhmsbeagle/CPU/
/libhmsbeagle/CPU/Makefile.in
/libhmsbeagle/CPU/.deps
/libhmsbeagle/CPU/Makefile
# /libhmsbeagle/GPU/
/libhmsbeagle/GPU/Makefile.in
/libhmsbeagle/GPU/PeelingFunctions.linkinfo
/libhmsbeagle/GPU/.deps
/libhmsbeagle/GPU/TransitionFunctions.linkinfo
/libhmsbeagle/GPU/Makefile
/libhmsbeagle/GPU/BeagleCUDA_kernels.h
/libhmsbeagle/GPU/BeagleCUDA_kernels.ptx
# /libhmsbeagle/GPU/kernels/
/libhmsbeagle/GPU/kernels/BeagleCUDA_kernels_64.ptx
/libhmsbeagle/GPU/kernels/Makefile.in
/libhmsbeagle/GPU/kernels/BeagleCUDA_kernels_48.ptx
/libhmsbeagle/GPU/kernels/BeagleCUDA_kernels.h
/libhmsbeagle/GPU/kernels/BeagleCUDA_kernels.ptx
/libhmsbeagle/GPU/kernels/BeagleCUDA_kernels_4.ptx
/libhmsbeagle/GPU/kernels/BeagleCUDA_kernels_32.ptx
/libhmsbeagle/GPU/kernels/Makefile
/libhmsbeagle/GPU/kernels/BeagleCUDA_kernels_xcode.h
/libhmsbeagle/GPU/kernels/BeagleCUDA_kernels_xcode.ptx
# /libhmsbeagle/JNI/
/libhmsbeagle/JNI/Makefile.in
/libhmsbeagle/JNI/.deps
/libhmsbeagle/JNI/Makefile
# /libhmsbeagle/plugin/
/libhmsbeagle/plugin/Makefile.in
/libhmsbeagle/plugin/.deps
/libhmsbeagle/plugin/Makefile
# /m4/
/m4/libtool.m4
/m4/lt~obsolete.m4
/m4/ltsugar.m4
/m4/ltversion.m4
/m4/ltoptions.m4
# /project/beagle-xcode/
/project/beagle-xcode/build
# /project/beagle-xcode/beagle-xcode.xcodeproj/
/project/beagle-xcode/beagle-xcode.xcodeproj/*.pbxuser
/project/beagle-xcode/beagle-xcode.xcodeproj/*.perspectivev3
/project/beagle-xcode/beagle-xcode.xcodeproj/xcuserdata
/project/beagle-xcode/beagle-xcode.xcodeproj/project.xcworkspace
# other
.DS_Store
installed/
libhmsbeagle/.libs/
libhmsbeagle/CPU/.libs/
libhmsbeagle/CPU/libhmsbeagle-cpu-sse.la
libhmsbeagle/CPU/libhmsbeagle-cpu.la
libhmsbeagle/CPU/libhmsbeagle_cpu_la-BeagleCPUPlugin.lo
libhmsbeagle/CPU/libhmsbeagle_cpu_sse_la-BeagleCPUSSEPlugin.lo
libhmsbeagle/GPU/.libs/
libhmsbeagle/GPU/libhmsbeagle-cuda.la
libhmsbeagle/GPU/libhmsbeagle_cuda_la-CUDAPlugin.lo
libhmsbeagle/GPU/libhmsbeagle_cuda_la-GPUImplHelper.lo
libhmsbeagle/GPU/libhmsbeagle_cuda_la-GPUInterfaceCUDA.lo
libhmsbeagle/GPU/libhmsbeagle_cuda_la-KernelLauncher.lo
libhmsbeagle/GPU/libhmsbeagle_cuda_la-KernelResource.lo
libhmsbeagle/libhmsbeagle-jni.la
libhmsbeagle/libhmsbeagle.la
libhmsbeagle/libhmsbeagle_jni_la-beagle_BeagleJNIWrapper.lo
libhmsbeagle/libhmsbeagle_la-beagle.lo
libhmsbeagle/plugin/.libs/
libhmsbeagle/plugin/libplugin.la
libhmsbeagle/plugin/libplugin_la-Plugin.lo
libhmsbeagle/plugin/libplugin_la-UnixSharedLibrary.lo
project/.DS_Store
project/beagle-xcode/.DS_Store
project/beagle-xcode/BEAGLEv1.0.pkg
examples/complextest/.libs/
examples/complextest/complextest.o
examples/fourtaxon/.libs/
examples/genomictest/.libs/
examples/genomictest/genomictest.o
examples/genomictest/linalg.o
examples/matrixtest/.libs/
examples/matrixtest/matrixtest.o
examples/oddstatetest/.libs/
examples/oddstatetest/oddstatetest.o
examples/tinytest/.libs/
examples/tinytest/tinytest.o
libhmsbeagle/GPU/kernels/BeagleOpenCL_kernels.h
libhmsbeagle/GPU/kernels/BeagleOpenCL_kernels_xcode.h
libhmsbeagle/GPU/libhmsbeagle-opencl.la
libhmsbeagle/GPU/libhmsbeagle_opencl_la-GPUImplHelper.lo
libhmsbeagle/GPU/libhmsbeagle_opencl_la-GPUInterfaceOpenCL.lo
libhmsbeagle/GPU/libhmsbeagle_opencl_la-KernelLauncher.lo
libhmsbeagle/GPU/libhmsbeagle_opencl_la-KernelResource.lo
libhmsbeagle/GPU/libhmsbeagle_opencl_la-OpenCLPlugin.lo
libhmsbeagle/config.h.in~
project/beagle-xcode/BEAGLE-1.0.pkg