Merge remote-tracking branch 'lammps-ro/master' into lammps-icms
e5f316ecf1f8
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Authored by Axel Kohlmeyer <akohlmey@gmail.com> on Aug 20 2015, 13:42.

Description

Merge remote-tracking branch 'lammps-ro/master' into lammps-icms

Conflicts:
doc/Manual.html
doc/Manual.txt
doc/Section_start.txt
doc/dump_h5md.html
doc/dump_h5md.txt
doc/package.txt
src/COMPRESS/dump_atom_gz.cpp
src/Makefile
src/USER-H5MD/README
src/pair.cpp

Details

Committed

Axel Kohlmeyer <akohlmey@gmail.com>

Aug 20 2015, 13:42

Pushed

junge

Oct 6 2016, 16:49

Parents

rLAMMPSe4e52616dd89: Adding optimizations to Kokkos EAM pair style
rLAMMPSe2f07a155cee: MEAM library does not play well with clang. force using gcc

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Event Timeline

Axel Kohlmeyer <akohlmey@gmail.com> committed rLAMMPSe5f316ecf1f8: Merge remote-tracking branch 'lammps-ro/master' into lammps-icms (authored by Axel Kohlmeyer <akohlmey@gmail.com>).Aug 20 2015, 13:42

Merged Changes

Commit	Author	Details	Committed
e4e52616dd89	stamoor	Adding optimizations to Kokkos EAM pair style	Aug 20 2015
494ee3b26c32	stamoor	Updating Kokkos library--adding new folder	Aug 20 2015
e2ac7b23523b	stamoor	Updating Kokkos library--first deleting old folder	Aug 20 2015
27b474293567	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13919 f3b2605a-c512-4ea7…	Aug 19 2015
8dae768dcf52	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13918 f3b2605a-c512-4ea7…	Aug 19 2015
fbaff8ec0f32	sjplimp	''	Aug 19 2015
e3cfdfd49183	sjplimp	''	Aug 19 2015
3e90c3eeabdb	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13913 f3b2605a-c512-4ea7…	Aug 19 2015
7e8fff980e4b	sjplimp	''	Aug 19 2015
06f25e66082f	sjplimp	''	Aug 19 2015
cd861535f0d9	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13910 f3b2605a-c512-4ea7…	Aug 19 2015
56d0caefcb66	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13909 f3b2605a-c512-4ea7…	Aug 19 2015
185e746ccb0d	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13908 f3b2605a-c512-4ea7…	Aug 19 2015
071ded95fcd2	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13907 f3b2605a-c512-4ea7…	Aug 19 2015
21f8abda248c	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13906 f3b2605a-c512-4ea7…	Aug 19 2015
c85a42ab6d62	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13905 f3b2605a-c512-4ea7…	Aug 19 2015
1c3e0dbfe9e7	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13904 f3b2605a-c512-4ea7…	Aug 19 2015
2f55b6da36a3	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13903 f3b2605a-c512-4ea7…	Aug 19 2015
16eed7a05366	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13902 f3b2605a-c512-4ea7…	Aug 19 2015
7be9bc38a26c	sjplimp	git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@13900 f3b2605a-c512-4ea7…	Aug 19 2015

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		Path
V		doc/{Manual.html ← Manual.html.html}
V		doc/{Manual.html.html → Manual.html}
M		doc/Manual.txt
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A		doc/doc2/dump_h5md.html
M		doc/doc2/genindex.html
M		doc/doc2/package.html
M		doc/doc2/pair_lj_cubic.html
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P		doc/dump_h5md.html Copied from doc/pair_zbl.html
M		doc/dump_h5md.txt
M		doc/genindex.html
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M		doc/searchindex.js
M		lib/README
A		lib/compress/README
A	(dir)	lib/h5md/
A		lib/h5md/LICENSE
A		lib/h5md/Makefile
A		lib/h5md/Makefile.lammps.empty
A		lib/h5md/README
A	(dir)	lib/h5md/include/
A		lib/h5md/include/ch5md.h
A	(dir)	lib/h5md/src/
A		lib/h5md/src/ch5md.c
M		lib/kokkos/Copyright.txt
M		lib/kokkos/LICENSE
M		lib/kokkos/Makefile.kokkos
M		lib/kokkos/Makefile.targets
M		lib/kokkos/README
M		lib/kokkos/algorithms/src/KokkosAlgorithms_dummy.cpp
M		lib/kokkos/algorithms/src/Kokkos_Random.hpp
M		lib/kokkos/algorithms/src/Kokkos_Sort.hpp
M		lib/kokkos/algorithms/unit_tests/Makefile
M		lib/kokkos/algorithms/unit_tests/TestCuda.cpp
M		lib/kokkos/algorithms/unit_tests/TestOpenMP.cpp
M		lib/kokkos/algorithms/unit_tests/TestRandom.hpp
M		lib/kokkos/algorithms/unit_tests/TestSerial.cpp
M		lib/kokkos/algorithms/unit_tests/TestSort.hpp
M		lib/kokkos/algorithms/unit_tests/TestThreads.cpp
M		lib/kokkos/algorithms/unit_tests/UnitTestMain.cpp
A		lib/kokkos/config/configure_compton_cpu.sh
A		lib/kokkos/config/configure_compton_mic.sh
A		lib/kokkos/config/configure_kokkos.sh
A		lib/kokkos/config/configure_kokkos_bgq.sh
A		lib/kokkos/config/configure_kokkos_dev.sh
A		lib/kokkos/config/configure_kokkos_nvidia.sh
A		lib/kokkos/config/configure_shannon.sh
A		lib/kokkos/config/configure_tpetra_kokkos_cuda_nvcc_wrapper.sh
A	(dir)	lib/kokkos/config/kokkos_dev/
A		lib/kokkos/config/kokkos_dev/config-core-all.sh
A		lib/kokkos/config/kokkos_dev/config-core-cuda-omp-hwloc.sh
A		lib/kokkos/config/kokkos_dev/config-core-cuda.sh
A		lib/kokkos/config/kokkos_dev/config-core-cxx11-omp.sh
A		lib/kokkos/config/kokkos_dev/config-core-dbg-none.sh
A		lib/kokkos/config/kokkos_dev/config-core-intel-cuda-omp.sh
A		lib/kokkos/config/kokkos_dev/config-core-intel-omp.sh
A		lib/kokkos/config/kokkos_dev/config-core-omp.sh
A		lib/kokkos/config/kokkos_dev/config-core-threads-hwloc.sh
A		lib/kokkos/config/snapshot.py
A		lib/kokkos/config/test_all_sandia
A	(dir)	lib/kokkos/config/testing_scripts/
A		lib/kokkos/config/testing_scripts/README
A		lib/kokkos/config/testing_scripts/jenkins_test_driver
M		lib/kokkos/containers/performance_tests/Makefile
P		lib/kokkos/containers/performance_tests/TestCuda.cpp Copied to multiple locations: lib/kokkos/example/feint/main.cpp lib/kokkos/example/grow_array/main.cpp lib/kokkos/example/sort_array/main.cpp lib/kokkos/example/tutorial/02_simple_reduce_lambda/simple_reduce_lambda.cpp
P		lib/kokkos/containers/performance_tests/TestGlobal2LocalIds.hpp Copied to lib/kokkos/example/global_2_local_ids/G2L.hpp
M		lib/kokkos/containers/performance_tests/TestMain.cpp
M		lib/kokkos/containers/performance_tests/TestOpenMP.cpp
M		lib/kokkos/containers/performance_tests/TestThreads.cpp
M		lib/kokkos/containers/performance_tests/TestUnorderedMapPerformance.hpp
M		lib/kokkos/containers/src/Kokkos_Bitset.hpp
M		lib/kokkos/containers/src/Kokkos_DualView.hpp
M		lib/kokkos/containers/src/Kokkos_Functional.hpp
M		lib/kokkos/containers/src/Kokkos_SegmentedView.hpp
M		lib/kokkos/containers/src/Kokkos_StaticCrsGraph.hpp
M		lib/kokkos/containers/src/Kokkos_UnorderedMap.hpp
M		lib/kokkos/containers/src/Kokkos_Vector.hpp
M		lib/kokkos/containers/src/impl/Kokkos_Bitset_impl.hpp
M		lib/kokkos/containers/src/impl/Kokkos_Functional_impl.hpp
M		lib/kokkos/containers/src/impl/Kokkos_StaticCrsGraph_factory.hpp
M		lib/kokkos/containers/src/impl/Kokkos_UnorderedMap_impl.cpp
M		lib/kokkos/containers/src/impl/Kokkos_UnorderedMap_impl.hpp
M		lib/kokkos/containers/unit_tests/Makefile
M		lib/kokkos/containers/unit_tests/TestBitset.hpp
M		lib/kokkos/containers/unit_tests/TestComplex.hpp
M		lib/kokkos/containers/unit_tests/TestCuda.cpp
M		lib/kokkos/containers/unit_tests/TestDualView.hpp
M		lib/kokkos/containers/unit_tests/TestOpenMP.cpp
M		lib/kokkos/containers/unit_tests/TestSegmentedView.hpp
M		lib/kokkos/containers/unit_tests/TestSerial.cpp
M		lib/kokkos/containers/unit_tests/TestStaticCrsGraph.hpp
M		lib/kokkos/containers/unit_tests/TestThreads.cpp
M		lib/kokkos/containers/unit_tests/TestUnorderedMap.hpp
M		lib/kokkos/containers/unit_tests/TestVector.hpp
M		lib/kokkos/containers/unit_tests/UnitTestMain.cpp
M		lib/kokkos/core/perf_test/Makefile
M		lib/kokkos/core/perf_test/PerfTestBlasKernels.hpp
M		lib/kokkos/core/perf_test/PerfTestCuda.cpp
M		lib/kokkos/core/perf_test/PerfTestDriver.hpp
M		lib/kokkos/core/perf_test/PerfTestGramSchmidt.hpp
M		lib/kokkos/core/perf_test/PerfTestHexGrad.hpp
M		lib/kokkos/core/perf_test/PerfTestHost.cpp
M		lib/kokkos/core/perf_test/PerfTestMain.cpp
M		lib/kokkos/core/perf_test/test_atomic.cpp
M		lib/kokkos/core/src/Cuda/KokkosExp_Cuda_View.hpp
M		lib/kokkos/core/src/Cuda/Kokkos_CudaExec.hpp
M		lib/kokkos/core/src/Cuda/Kokkos_CudaSpace.cpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_Alloc.hpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_BasicAllocators.cpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_BasicAllocators.hpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_Error.hpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_Impl.cpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_Internal.hpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_Parallel.hpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_ReduceScan.hpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_Vectorization.hpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_View.hpp
P		lib/kokkos/core/src/Cuda/Kokkos_Cuda_abort.hpp Copied to lib/kokkos/example/multi_fem/ParallelMachine.hpp
M		lib/kokkos/core/src/KokkosExp_View.hpp
A		lib/kokkos/core/src/Kokkos_Array.hpp
M		lib/kokkos/core/src/Kokkos_Atomic.hpp
M		lib/kokkos/core/src/Kokkos_Core.hpp
M		lib/kokkos/core/src/Kokkos_Core_fwd.hpp
M		lib/kokkos/core/src/Kokkos_Cuda.hpp
M		lib/kokkos/core/src/Kokkos_CudaSpace.hpp
M		lib/kokkos/core/src/Kokkos_ExecPolicy.hpp
M		lib/kokkos/core/src/Kokkos_HostSpace.hpp
M		lib/kokkos/core/src/Kokkos_Layout.hpp
M		lib/kokkos/core/src/Kokkos_Macros.hpp
M		lib/kokkos/core/src/Kokkos_MemoryTraits.hpp
M		lib/kokkos/core/src/Kokkos_OpenMP.hpp
M		lib/kokkos/core/src/Kokkos_Pair.hpp
M		lib/kokkos/core/src/Kokkos_Parallel.hpp
M		lib/kokkos/core/src/Kokkos_Qthread.hpp
M		lib/kokkos/core/src/Kokkos_ScratchSpace.hpp
M		lib/kokkos/core/src/Kokkos_Serial.hpp
M		lib/kokkos/core/src/Kokkos_TaskPolicy.hpp
M		lib/kokkos/core/src/Kokkos_Threads.hpp
P		lib/kokkos/core/src/Kokkos_Vectorization.hpp Copied to lib/kokkos/example/fixture/TestFixture.cpp
M		lib/kokkos/core/src/Kokkos_View.hpp
M		lib/kokkos/core/src/Kokkos_hwloc.hpp
M		lib/kokkos/core/src/Makefile
M		lib/kokkos/core/src/OpenMP/Kokkos_OpenMP_Parallel.hpp
M		lib/kokkos/core/src/OpenMP/Kokkos_OpenMPexec.cpp
M		lib/kokkos/core/src/OpenMP/Kokkos_OpenMPexec.hpp
M		lib/kokkos/core/src/Qthread/Kokkos_QthreadExec.cpp
M		lib/kokkos/core/src/Qthread/Kokkos_QthreadExec.hpp
M		lib/kokkos/core/src/Qthread/Kokkos_Qthread_Parallel.hpp
M		lib/kokkos/core/src/Qthread/Kokkos_Qthread_TaskPolicy.cpp
M		lib/kokkos/core/src/Qthread/Kokkos_Qthread_TaskPolicy.hpp
M		lib/kokkos/core/src/Qthread/README
M		lib/kokkos/core/src/Threads/Kokkos_ThreadsExec.cpp
M		lib/kokkos/core/src/Threads/Kokkos_ThreadsExec.hpp
M		lib/kokkos/core/src/Threads/Kokkos_ThreadsExec_base.cpp
M		lib/kokkos/core/src/Threads/Kokkos_ThreadsTeam.hpp
M		lib/kokkos/core/src/Threads/Kokkos_Threads_Parallel.hpp
M		lib/kokkos/core/src/Threads/Kokkos_Threads_TaskPolicy.cpp
M		lib/kokkos/core/src/Threads/Kokkos_Threads_TaskPolicy.hpp
M		lib/kokkos/core/src/impl/KokkosExp_SharedAlloc.cpp
M		lib/kokkos/core/src/impl/KokkosExp_SharedAlloc.hpp
M		lib/kokkos/core/src/impl/KokkosExp_ViewAllocProp.hpp
A		lib/kokkos/core/src/impl/KokkosExp_ViewArray.hpp
M		lib/kokkos/core/src/impl/KokkosExp_ViewMapping.hpp
A		lib/kokkos/core/src/impl/KokkosExp_ViewTile.hpp
M		lib/kokkos/core/src/impl/Kokkos_AllocationTracker.cpp
M		lib/kokkos/core/src/impl/Kokkos_AllocationTracker.hpp
M		lib/kokkos/core/src/impl/Kokkos_AnalyzeShape.hpp
M		lib/kokkos/core/src/impl/Kokkos_Atomic_Assembly_X86.hpp
M		lib/kokkos/core/src/impl/Kokkos_Atomic_Compare_Exchange_Strong.hpp
M		lib/kokkos/core/src/impl/Kokkos_Atomic_Exchange.hpp
M		lib/kokkos/core/src/impl/Kokkos_Atomic_Fetch_Add.hpp
M		lib/kokkos/core/src/impl/Kokkos_Atomic_Fetch_And.hpp
P		lib/kokkos/core/src/impl/Kokkos_Atomic_Fetch_Or.hpp Copied to lib/kokkos/example/multi_fem/ParallelComm.hpp
M		lib/kokkos/core/src/impl/Kokkos_Atomic_Fetch_Sub.hpp
M		lib/kokkos/core/src/impl/Kokkos_Atomic_Generic.hpp
M		lib/kokkos/core/src/impl/Kokkos_Atomic_View.hpp
M		lib/kokkos/core/src/impl/Kokkos_Atomic_Windows.hpp
M		lib/kokkos/core/src/impl/Kokkos_BasicAllocators.cpp
M		lib/kokkos/core/src/impl/Kokkos_BasicAllocators.hpp
M		lib/kokkos/core/src/impl/Kokkos_Core.cpp
M		lib/kokkos/core/src/impl/Kokkos_Error.cpp
P		lib/kokkos/core/src/impl/Kokkos_Error.hpp Copied to multiple locations: lib/kokkos/example/common/WrapMPI.hpp lib/kokkos/example/multi_fem/FEMesh.hpp lib/kokkos/example/query_device/query_device.cpp
M		lib/kokkos/core/src/impl/Kokkos_FunctorAdapter.hpp
M		lib/kokkos/core/src/impl/Kokkos_HostSpace.cpp
M		lib/kokkos/core/src/impl/Kokkos_Memory_Fence.hpp
M		lib/kokkos/core/src/impl/Kokkos_PhysicalLayout.hpp
M		lib/kokkos/core/src/impl/Kokkos_Profiling_DeviceInfo.hpp
M		lib/kokkos/core/src/impl/Kokkos_Profiling_Interface.cpp
M		lib/kokkos/core/src/impl/Kokkos_Profiling_Interface.hpp
M		lib/kokkos/core/src/impl/Kokkos_Serial.cpp
M		lib/kokkos/core/src/impl/Kokkos_Serial_TaskPolicy.cpp
M		lib/kokkos/core/src/impl/Kokkos_Serial_TaskPolicy.hpp
M		lib/kokkos/core/src/impl/Kokkos_Shape.cpp
M		lib/kokkos/core/src/impl/Kokkos_Shape.hpp
M		lib/kokkos/core/src/impl/Kokkos_Singleton.hpp
P		lib/kokkos/core/src/impl/Kokkos_StaticAssert.hpp Copied to lib/kokkos/example/md_skeleton/system.h
M		lib/kokkos/core/src/impl/Kokkos_Tags.hpp
M		lib/kokkos/core/src/impl/Kokkos_Timer.hpp
M		lib/kokkos/core/src/impl/Kokkos_Traits.hpp
M		lib/kokkos/core/src/impl/Kokkos_ViewDefault.hpp
M		lib/kokkos/core/src/impl/Kokkos_ViewOffset.hpp
M		lib/kokkos/core/src/impl/Kokkos_ViewSupport.hpp
M		lib/kokkos/core/src/impl/Kokkos_ViewTileLeft.hpp
M		lib/kokkos/core/src/impl/Kokkos_Volatile_Load.hpp
M		lib/kokkos/core/src/impl/Kokkos_hwloc.cpp
P		lib/kokkos/core/src/impl/Kokkos_spinwait.cpp Copied to lib/kokkos/example/fenl/fenl.cpp
P		lib/kokkos/core/src/impl/Kokkos_spinwait.hpp Copied to multiple locations: lib/kokkos/example/feint/feint_cuda.cpp lib/kokkos/example/feint/feint_fwd.hpp lib/kokkos/example/feint/feint_openmp.cpp lib/kokkos/example/feint/feint_threads.cpp lib/kokkos/example/fenl/fenl.hpp
M		lib/kokkos/core/unit_test/Makefile
M		lib/kokkos/core/unit_test/TestAggregate.hpp
M		lib/kokkos/core/unit_test/TestAggregateReduction.hpp
M		lib/kokkos/core/unit_test/TestAllocationTracker.cpp
M		lib/kokkos/core/unit_test/TestAtomic.hpp
M		lib/kokkos/core/unit_test/TestCXX11.hpp
M		lib/kokkos/core/unit_test/TestCXX11Deduction.hpp
M		lib/kokkos/core/unit_test/TestCompilerMacros.hpp
M		lib/kokkos/core/unit_test/TestCuda.cpp
M		lib/kokkos/core/unit_test/TestDefaultDeviceType.cpp
M		lib/kokkos/core/unit_test/TestDefaultDeviceTypeInit.cpp
M		lib/kokkos/core/unit_test/TestHWLOC.cpp
M		lib/kokkos/core/unit_test/TestMemorySpaceTracking.hpp
M		lib/kokkos/core/unit_test/TestOpenMP.cpp
M		lib/kokkos/core/unit_test/TestQthread.cpp
M		lib/kokkos/core/unit_test/TestRange.hpp
M		lib/kokkos/core/unit_test/TestReduce.hpp
M		lib/kokkos/core/unit_test/TestScan.hpp
M		lib/kokkos/core/unit_test/TestSerial.cpp
M		lib/kokkos/core/unit_test/TestSharedAlloc.hpp
M		lib/kokkos/core/unit_test/TestTaskPolicy.hpp
M		lib/kokkos/core/unit_test/TestTeam.hpp
M		lib/kokkos/core/unit_test/TestTeamVector.hpp
M		lib/kokkos/core/unit_test/TestTemplateMetaFunctions.hpp
M		lib/kokkos/core/unit_test/TestThreads.cpp
M		lib/kokkos/core/unit_test/TestTile.hpp
M		lib/kokkos/core/unit_test/TestViewAPI.hpp
M		lib/kokkos/core/unit_test/TestViewImpl.hpp
M		lib/kokkos/core/unit_test/TestViewMapping.hpp
P		lib/kokkos/core/unit_test/TestViewOfClass.hpp Copied to multiple locations: lib/kokkos/example/tutorial/02_simple_reduce/simple_reduce.cpp lib/kokkos/example/tutorial/04_simple_memoryspaces/simple_memoryspaces.cpp
M		lib/kokkos/core/unit_test/TestViewSubview.hpp
M		lib/kokkos/core/unit_test/UnitTestMain.cpp
D		lib/kokkos/doc
D		lib/kokkos/doc/Doxyfile
D		lib/kokkos/doc/Kokkos_PG.pdf
D		lib/kokkos/doc/README
D		lib/kokkos/doc/build_docs
D		lib/kokkos/doc/index.doc
A	(dir)	lib/kokkos/example/
A		lib/kokkos/example/README
A	(dir)	lib/kokkos/example/common/
A		lib/kokkos/example/common/VectorImport.hpp
P		lib/kokkos/example/common/WrapMPI.hpp Copied from lib/kokkos/core/src/impl/Kokkos_Error.hpp
A	(dir)	lib/kokkos/example/feint/
A		lib/kokkos/example/feint/ElemFunctor.hpp
A		lib/kokkos/example/feint/Makefile
A		lib/kokkos/example/feint/feint.hpp
P		lib/kokkos/example/feint/feint_cuda.cpp Copied from lib/kokkos/core/src/impl/Kokkos_spinwait.hpp
P		lib/kokkos/example/feint/feint_fwd.hpp Copied from lib/kokkos/core/src/impl/Kokkos_spinwait.hpp
P		lib/kokkos/example/feint/feint_openmp.cpp Copied from lib/kokkos/core/src/impl/Kokkos_spinwait.hpp
P		lib/kokkos/example/feint/feint_threads.cpp Copied from lib/kokkos/core/src/impl/Kokkos_spinwait.hpp
P		lib/kokkos/example/feint/main.cpp Copied from lib/kokkos/containers/performance_tests/TestCuda.cpp
A	(dir)	lib/kokkos/example/fenl/
A		lib/kokkos/example/fenl/CGSolve.hpp
A		lib/kokkos/example/fenl/Makefile
P		lib/kokkos/example/fenl/fenl.cpp Copied from lib/kokkos/core/src/impl/Kokkos_spinwait.cpp
P		lib/kokkos/example/fenl/fenl.hpp Copied from lib/kokkos/core/src/impl/Kokkos_spinwait.hpp
A		lib/kokkos/example/fenl/fenl_functors.hpp
A		lib/kokkos/example/fenl/fenl_impl.hpp
A		lib/kokkos/example/fenl/main.cpp
A	(dir)	lib/kokkos/example/fixture/
A		lib/kokkos/example/fixture/BoxElemFixture.hpp
A		lib/kokkos/example/fixture/BoxElemPart.cpp
A		lib/kokkos/example/fixture/BoxElemPart.hpp
A		lib/kokkos/example/fixture/HexElement.hpp
A		lib/kokkos/example/fixture/Main.cpp
A		lib/kokkos/example/fixture/Makefile
P		lib/kokkos/example/fixture/TestFixture.cpp Copied from lib/kokkos/core/src/Kokkos_Vectorization.hpp
A		lib/kokkos/example/fixture/TestFixture.hpp
A	(dir)	lib/kokkos/example/global_2_local_ids/
P		lib/kokkos/example/global_2_local_ids/G2L.hpp Copied from lib/kokkos/containers/performance_tests/TestGlobal2LocalIds.hpp
A		lib/kokkos/example/global_2_local_ids/G2L_Main.cpp
A	(dir)	lib/kokkos/example/grow_array/
A		lib/kokkos/example/grow_array/grow_array.hpp
P		lib/kokkos/example/grow_array/main.cpp Copied from lib/kokkos/containers/performance_tests/TestCuda.cpp
A	(dir)	lib/kokkos/example/md_skeleton/
A		lib/kokkos/example/md_skeleton/README
A		lib/kokkos/example/md_skeleton/force.cpp
A		lib/kokkos/example/md_skeleton/main.cpp
A		lib/kokkos/example/md_skeleton/neighbor.cpp
A		lib/kokkos/example/md_skeleton/setup.cpp
P		lib/kokkos/example/md_skeleton/system.h Copied from lib/kokkos/core/src/impl/Kokkos_StaticAssert.hpp
A		lib/kokkos/example/md_skeleton/types.h
A	(dir)	lib/kokkos/example/multi_fem/
A		lib/kokkos/example/multi_fem/BoxMeshFixture.hpp
A		lib/kokkos/example/multi_fem/BoxMeshPartition.cpp
A		lib/kokkos/example/multi_fem/BoxMeshPartition.hpp
A		lib/kokkos/example/multi_fem/Explicit.hpp
A		lib/kokkos/example/multi_fem/ExplicitFunctors.hpp
P		lib/kokkos/example/multi_fem/FEMesh.hpp Copied from lib/kokkos/core/src/impl/Kokkos_Error.hpp
A		lib/kokkos/example/multi_fem/HexElement.hpp
A		lib/kokkos/example/multi_fem/HexExplicitFunctions.hpp
A		lib/kokkos/example/multi_fem/Implicit.hpp
A		lib/kokkos/example/multi_fem/ImplicitFunctors.hpp
A		lib/kokkos/example/multi_fem/LinAlgBLAS.hpp
A		lib/kokkos/example/multi_fem/Nonlinear.hpp
A		lib/kokkos/example/multi_fem/NonlinearElement_Cuda.hpp
A		lib/kokkos/example/multi_fem/NonlinearFunctors.hpp
P		lib/kokkos/example/multi_fem/ParallelComm.hpp Copied from lib/kokkos/core/src/impl/Kokkos_Atomic_Fetch_Or.hpp
A		lib/kokkos/example/multi_fem/ParallelDataMap.hpp
A		lib/kokkos/example/multi_fem/ParallelMachine.cpp
P		lib/kokkos/example/multi_fem/ParallelMachine.hpp Copied from lib/kokkos/core/src/Cuda/Kokkos_Cuda_abort.hpp
A		lib/kokkos/example/multi_fem/SparseLinearSystem.hpp
A		lib/kokkos/example/multi_fem/SparseLinearSystemFill.hpp
A		lib/kokkos/example/multi_fem/SparseLinearSystem_Cuda.hpp
A		lib/kokkos/example/multi_fem/TestBoxMeshFixture.hpp
A		lib/kokkos/example/multi_fem/TestBoxMeshPartition.cpp
A		lib/kokkos/example/multi_fem/TestCuda.cpp
A		lib/kokkos/example/multi_fem/TestHost.cpp
A		lib/kokkos/example/multi_fem/TestHybridFEM.cpp
A	(dir)	lib/kokkos/example/query_device/
P		lib/kokkos/example/query_device/query_device.cpp Copied from lib/kokkos/core/src/impl/Kokkos_Error.hpp
A	(dir)	lib/kokkos/example/sort_array/
P		lib/kokkos/example/sort_array/main.cpp Copied from lib/kokkos/containers/performance_tests/TestCuda.cpp
A		lib/kokkos/example/sort_array/sort_array.hpp
A	(dir)	lib/kokkos/example/tutorial/
A	(dir)	lib/kokkos/example/tutorial/01_hello_world/
A		lib/kokkos/example/tutorial/01_hello_world/Makefile
A		lib/kokkos/example/tutorial/01_hello_world/hello_world.cpp
A	(dir)	lib/kokkos/example/tutorial/01_hello_world_lambda/
A		lib/kokkos/example/tutorial/01_hello_world_lambda/Makefile
A		lib/kokkos/example/tutorial/01_hello_world_lambda/hello_world_lambda.cpp
A	(dir)	lib/kokkos/example/tutorial/02_simple_reduce/
A		lib/kokkos/example/tutorial/02_simple_reduce/Makefile
P		lib/kokkos/example/tutorial/02_simple_reduce/simple_reduce.cpp Copied from lib/kokkos/core/unit_test/TestViewOfClass.hpp
A	(dir)	lib/kokkos/example/tutorial/02_simple_reduce_lambda/
A		lib/kokkos/example/tutorial/02_simple_reduce_lambda/Makefile
P		lib/kokkos/example/tutorial/02_simple_reduce_lambda/simple_reduce_lambda.cpp Copied from lib/kokkos/containers/performance_tests/TestCuda.cpp
A	(dir)	lib/kokkos/example/tutorial/03_simple_view/
A		lib/kokkos/example/tutorial/03_simple_view/Makefile
A		lib/kokkos/example/tutorial/03_simple_view/simple_view.cpp
A	(dir)	lib/kokkos/example/tutorial/03_simple_view_lambda/
A		lib/kokkos/example/tutorial/03_simple_view_lambda/Makefile
A		lib/kokkos/example/tutorial/03_simple_view_lambda/simple_view_lambda.cpp
A	(dir)	lib/kokkos/example/tutorial/04_simple_memoryspaces/
A		lib/kokkos/example/tutorial/04_simple_memoryspaces/Makefile
P		lib/kokkos/example/tutorial/04_simple_memoryspaces/simple_memoryspaces.cpp Copied from lib/kokkos/core/unit_test/TestViewOfClass.hpp
A	(dir)	lib/kokkos/example/tutorial/05_simple_atomics/
A		lib/kokkos/example/tutorial/05_simple_atomics/Makefile
A		lib/kokkos/example/tutorial/05_simple_atomics/simple_atomics.cpp
A	(dir)	lib/kokkos/example/tutorial/Advanced_Views/
A	(dir)	lib/kokkos/example/tutorial/Advanced_Views/01_data_layouts/
A		lib/kokkos/example/tutorial/Advanced_Views/01_data_layouts/Makefile
A		lib/kokkos/example/tutorial/Advanced_Views/01_data_layouts/data_layouts.cpp
A	(dir)	lib/kokkos/example/tutorial/Advanced_Views/02_memory_traits/
A		lib/kokkos/example/tutorial/Advanced_Views/02_memory_traits/Makefile
A		lib/kokkos/example/tutorial/Advanced_Views/02_memory_traits/memory_traits.cpp
A	(dir)	lib/kokkos/example/tutorial/Advanced_Views/03_subviews/
A		lib/kokkos/example/tutorial/Advanced_Views/03_subviews/Makefile
A		lib/kokkos/example/tutorial/Advanced_Views/03_subviews/subviews.cpp
A	(dir)	lib/kokkos/example/tutorial/Advanced_Views/04_dualviews/
A		lib/kokkos/example/tutorial/Advanced_Views/04_dualviews/Makefile
A		lib/kokkos/example/tutorial/Advanced_Views/04_dualviews/dual_view.cpp
A	(dir)	lib/kokkos/example/tutorial/Advanced_Views/05_NVIDIA_UVM/
A		lib/kokkos/example/tutorial/Advanced_Views/05_NVIDIA_UVM/Makefile
A		lib/kokkos/example/tutorial/Advanced_Views/05_NVIDIA_UVM/uvm_example.cpp
A	(dir)	lib/kokkos/example/tutorial/Advanced_Views/06_AtomicViews/
A		lib/kokkos/example/tutorial/Advanced_Views/06_AtomicViews/Makefile
A	(dir)	lib/kokkos/example/tutorial/Advanced_Views/07_Overlapping_DeepCopy/
A		lib/kokkos/example/tutorial/Advanced_Views/07_Overlapping_DeepCopy/Makefile
A		lib/kokkos/example/tutorial/Advanced_Views/07_Overlapping_DeepCopy/overlapping_deepcopy.cpp
A		lib/kokkos/example/tutorial/Advanced_Views/Makefile
A	(dir)	lib/kokkos/example/tutorial/Algorithms/
A	(dir)	lib/kokkos/example/tutorial/Algorithms/01_random_numbers/
A		lib/kokkos/example/tutorial/Algorithms/01_random_numbers/Makefile
A		lib/kokkos/example/tutorial/Algorithms/01_random_numbers/random_numbers.cpp
A		lib/kokkos/example/tutorial/Algorithms/Makefile
A	(dir)	lib/kokkos/example/tutorial/Hierarchical_Parallelism/
A	(dir)	lib/kokkos/example/tutorial/Hierarchical_Parallelism/01_thread_teams/
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/01_thread_teams/Makefile
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/01_thread_teams/thread_teams.cpp
A	(dir)	lib/kokkos/example/tutorial/Hierarchical_Parallelism/01_thread_teams_lambda/
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/01_thread_teams_lambda/Makefile
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/01_thread_teams_lambda/thread_teams_lambda.cpp
A	(dir)	lib/kokkos/example/tutorial/Hierarchical_Parallelism/02_nested_parallel_for/
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/02_nested_parallel_for/Makefile
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/02_nested_parallel_for/nested_parallel_for.cpp
A	(dir)	lib/kokkos/example/tutorial/Hierarchical_Parallelism/03_vectorization/
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/03_vectorization/Makefile
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/03_vectorization/vectorization.cpp
A	(dir)	lib/kokkos/example/tutorial/Hierarchical_Parallelism/04_team_scan/
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/04_team_scan/Makefile
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/04_team_scan/team_scan.cpp
A		lib/kokkos/example/tutorial/Hierarchical_Parallelism/Makefile
A		lib/kokkos/example/tutorial/Makefile
A		lib/kokkos/example/tutorial/README
M		lib/kokkos/generate_makefile.bash
M		src/COMPRESS/dump_atom_gz.cpp
M		src/KOKKOS/pair_eam_kokkos.cpp
M		src/KOKKOS/pair_eam_kokkos.h
M		src/Makefile
M		src/USER-H5MD/README
M		src/pair.cpp
M		src/version.h
M		tools/moltemplate/common/gaff.lt
A		tools/moltemplate/examples/all_atom_examples/force_field_explicit/nanotube+water/README_realistic_junctions.txt
M		tools/moltemplate/examples/all_atom_examples/force_field_explicit/nanotube+water/moltemplate_files/graphene_walls.lt
M		tools/moltemplate/examples/coarse_grained_examples/membrane+protein/README_WARNING.TXT
M		tools/moltemplate/examples/coarse_grained_examples/membrane+protein/moltemplate_files/1beadProtSci2010.lt
M		tools/moltemplate/examples/coarse_grained_examples/membrane+protein/moltemplate_files/1beadProtSci2010_variations.lt
P		tools/moltemplate/examples/coarse_grained_examples/membrane+protein/moltemplate_files/system.lt Copied to tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/moltemplate_files/system.lt
M		tools/moltemplate/examples/coarse_grained_examples/membrane+protein/run.in.npt
M		tools/moltemplate/examples/coarse_grained_examples/membrane+protein/run.in.nvt
M		tools/moltemplate/examples/coarse_grained_examples/membrane_BranniganPRE2005/moltemplate_files/CGLipidBr2005Orig.lt
M		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/README_WARNING.TXT
M		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/README_setup.sh
M		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/moltemplate_files/1beadProtSci2010.lt
M		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/moltemplate_files/1beadProtSci2010_variations.lt
M		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/moltemplate_files/CGLipidBr2005.lt
M		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/moltemplate_files/README.sh
P		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/moltemplate_files/system.lt Copied from tools/moltemplate/examples/coarse_grained_examples/membrane+protein/moltemplate_files/system.lt
D		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/packmol_files/DLPC.xyz
D		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/packmol_files/DPPC.xyz
M		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/packmol_files/README.sh
D		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/packmol_files/protein.xyz
M		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/packmol_files/step2_innerlayer.inp
M		tools/moltemplate/examples/coarse_grained_examples/vesicle_Brannigan2005+Bellesia2010/packmol_files/step3_outerlayer.inp
M		tools/moltemplate/examples/misc_examples/pyramids_vs_gravity/README.TXT
M		tools/moltemplate/examples/misc_examples/pyramids_vs_gravity/run.in
M		tools/moltemplate/moltemplate_manual.pdf
M		tools/moltemplate/src/dump2data.py
M		tools/moltemplate/src/ltemplify.py
M		tools/moltemplate/src/moltemplate.sh
D		tools/moltemplate/src/nbody_by_type_backup.py
M		tools/moltemplate/src/raw2data.py
M		tools/moltemplate/src/ttree.py