Merge remote-tracking branch 'upstream/master' into python_refactoring
f8af7edf927b
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Authored by Richard Berger <richard.berger@temple.edu> on May 6 2017, 22:00.

Description

Merge remote-tracking branch 'upstream/master' into python_refactoring

Details

Committed

Richard Berger <richard.berger@temple.edu>

May 6 2017, 22:00

Pushed

junge

Oct 19 2017, 09:53

Parents

rLAMMPSa73402ad9311: update src/Purge.list with renamed reaxc src files
rLAMMPS2e1f8b4aefb7: make Python::init() method public and remove the now redundant Python::request…

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Richard Berger <richard.berger@temple.edu> committed rLAMMPSf8af7edf927b: Merge remote-tracking branch 'upstream/master' into python_refactoring (authored by Richard Berger <richard.berger@temple.edu>).May 6 2017, 22:00

Merged Changes

Commit	Author	Details	Committed
a73402ad9311	Steve Plimpton	update src/Purge.list with renamed reaxc src files	May 4 2017
d7dbff0f5441	Steve Plimpton	jive Kokkos/reaxc file names with new user-reaxc file names	May 4 2017
51c6d502687b	Steve Plimpton	patch 4May17	May 4 2017
6499cfcf52ae	sjplimp/GitHub	Merge pull request #458 from stanmoore1/kokkos_sync_bugfix	May 4 2017
f08e2069917d	sjplimp/GitHub	Merge pull request #457 from stanmoore1/kokkos_ubuf	May 4 2017
fbddfe2729a2	sjplimp/GitHub	Merge pull request #455 from stanmoore1/kokkos_update	May 4 2017
dcc5472cba99	sjplimp/GitHub	Merge pull request #452 from akohlmey/small-fixes-and-updates	May 4 2017
addd87c0f7a4	Steve Plimpton	new Section package and start doc pages and build scripts	May 4 2017
7f49ee8fd747	Axel Kohlmeyer	print warning about minimization energy with fix box/relax	May 3 2017
f5cf1f1314b0	sjplimp/GitHub	Merge pull request #464 from akohlmey/rename-cg-cmm-to-cgsdk	May 3 2017
b8cb80b219b8	Axel Kohlmeyer	rename files in GPU library from cg_cmm to lj_sdk	Apr 27 2017
cd435c0c58fe	Axel Kohlmeyer	change references from cg_cmm to lj_sdk and from cmm to sdk	Apr 27 2017
548c589f82d3	Axel Kohlmeyer	update the README for USER-CGSDK	Apr 27 2017
5c7a63198832	Axel Kohlmeyer	rename USER-CG-CMM folder to USER-CGSDK	Apr 27 2017
af748745162c	Axel Kohlmeyer	rename references to USER-CG-CMM to USER-CGSDK	Apr 27 2017
949d61e01eda	Axel Kohlmeyer	rename examples folder for USER-CGSDK package	Apr 27 2017
3e60f79f1d62	Axel Kohlmeyer	remove cg/cmm style name aliases	Apr 26 2017
8f9cb3590a32	Axel Kohlmeyer	correct units for some improper force constants in docs	Apr 26 2017
0565b1df5f02	Stan Moore	Fixing auto_sync logic bug in modify_kokkos	Apr 26 2017
d73d70fa1fdd	Stan Moore	Adding ubuf union to Kokkos atom_vec styles	Apr 26 2017
cc6104aeaf32	Stan Moore	Merge branch 'master' into kokkos_update	Apr 25 2017
8910ec6e594c	Stan Moore	Updating Kokkos lib to 2.03.00	Apr 25 2017
ddc1e4e86ea7	Axel Kohlmeyer	detect and refuse to run pair style srp together with fix rigid	Apr 25 2017
0ac22e034c2a	Axel Kohlmeyer	turn errors from manybody potentials for */tally computes into warnings	Apr 23 2017
197ce4580b29	Axel Kohlmeyer	avoid division by zero also for ewald/disp	Apr 21 2017
8f1451183198	Axel Kohlmeyer	avoid division by zero by initializing unset (=automatic) g_ewald parameters to…	Apr 21 2017
396e0b54234d	Axel Kohlmeyer	correct broken link in html bond doc overview	Apr 21 2017
4e411364ffa4	Axel Kohlmeyer	add support to pair_modify to selectively disable compute/tally callbacks in…	Apr 21 2017
f0681f7e1278	Axel Kohlmeyer	add support for USER-TALLY to pair styles hybrid and hybrid/overlay	Apr 20 2017
dfa9815246c3	Axel Kohlmeyer	update for fix gle docs from michele ceriotti	Apr 18 2017
25e8ed63a236	Axel Kohlmeyer	whitespace cleanup in VMD plugin headers	Apr 18 2017
8d390100e0c2	Axel Kohlmeyer	update .gitignore and Purge.list for recent changes	Apr 18 2017
dee353614420	Axel Kohlmeyer	update VMD molfile plugin headers and move them to lib/molfile (where they…	Apr 18 2017
73c210b665e6	Axel Kohlmeyer	Merge branch 'unstable' of https://github.com/ketankhare/lammps into small…	Apr 18 2017
4bad52f30c8e	Axel Kohlmeyer	fix typos	Apr 17 2017
481927ff16ed	Axel Kohlmeyer	correct 'thrid' instead of 'third'	Apr 17 2017
dec36e9bfe88	Axel Kohlmeyer	fix typos and remove trailing whitespace	Apr 17 2017
dd90c860ee62	Axel Kohlmeyer	refactor msi2lmp documentation to emphasize lack of active development	Apr 17 2017
2f32fb7f8bda	Steve Plimpton	patch 13Apr17	Apr 13 2017
3d3d1061d330	ketankhare/GitHub	README for updated header files from VMD 1.9.3	Apr 11 2017
b9177fd6dccf	ketankhare/GitHub	Updated to 1.108 from 1.103	Apr 11 2017
8051b12ffc8c	ketankhare/GitHub	Updated to 1.33 from 1.32	Apr 11 2017

Changes (549)
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		Path
M		doc/src/Manual.txt
M		doc/src/Section_commands.txt
M		doc/src/Section_errors.txt
M		doc/src/Section_intro.txt
M		doc/src/Section_packages.txt
M		doc/src/Section_start.txt
M		doc/src/Section_tools.txt
M		doc/src/angle_sdk.txt
M		doc/src/bonds.txt
M		doc/src/compute_sna_atom.txt
M		doc/src/dump.txt
D		doc/src/dump_custom_vtk.txt
M		doc/src/dump_h5md.txt
D		doc/src/dump_nc.txt
A		doc/src/dump_netcdf.txt
A		doc/src/dump_vtk.txt
M		doc/src/fix_cmap.txt
M		doc/src/fix_gcmc.txt
M		doc/src/fix_gle.txt
M		doc/src/fix_qeq.txt
M		doc/src/fix_qeq_reax.txt
M		doc/src/fix_reax_bonds.txt
M		doc/src/fix_reaxc_species.txt
M		doc/src/improper_cossq.txt
M		doc/src/improper_ring.txt
M		doc/src/lammps.book
M		doc/src/pair_hybrid.txt
M		doc/src/pair_modify.txt
M		doc/src/pair_reax.txt
V		doc/src/{pair_reax_c.txt → pair_reaxc.txt}
V		doc/src/{pair_reaxc.txt ← pair_reax_c.txt}
M		doc/src/pair_sdk.txt
M		doc/src/pair_srp.txt
M		doc/src/pairs.txt
M		doc/src/python.txt
D		examples/USER/cg-cmm
V		examples/USER/{cg-cmm → cgsdk}/README
V	(dir)	examples/USER/{cg-cmm/peg-verlet/ → cgsdk/peg-verlet}
V		examples/USER/{cg-cmm → cgsdk}/peg-verlet/data.pegc12e8.gz
V		examples/USER/{cg-cmm → cgsdk}/peg-verlet/in.pegc12e8
V		examples/USER/{cg-cmm → cgsdk}/peg-verlet/in.pegc12e8-angle
V		examples/USER/{cg-cmm → cgsdk}/peg-verlet/log.pegc12e8
V		examples/USER/{cg-cmm → cgsdk}/peg-verlet/log.pegc12e8-angle
V	(dir)	examples/USER/{cg-cmm/sds-monolayer/ → cgsdk/sds-monolayer}
V		examples/USER/{cg-cmm → cgsdk}/sds-monolayer/data.sds.gz
V		examples/USER/{cg-cmm → cgsdk}/sds-monolayer/in.sds-hybrid
V		examples/USER/{cg-cmm → cgsdk}/sds-monolayer/in.sds-regular
V		examples/USER/{cg-cmm → cgsdk}/sds-monolayer/log.sds-hybrid
V		examples/USER/{cg-cmm → cgsdk}/sds-monolayer/log.sds-regular
A	(dir)	examples/USER/cgsdk/
V		examples/USER/{cgsdk ← cg-cmm}/README
V	(dir)	examples/USER/{cgsdk/peg-verlet/ ← cg-cmm/peg-verlet}
V		examples/USER/{cgsdk ← cg-cmm}/peg-verlet/data.pegc12e8.gz
V		examples/USER/{cgsdk ← cg-cmm}/peg-verlet/in.pegc12e8
V		examples/USER/{cgsdk ← cg-cmm}/peg-verlet/in.pegc12e8-angle
V		examples/USER/{cgsdk ← cg-cmm}/peg-verlet/log.pegc12e8
V		examples/USER/{cgsdk ← cg-cmm}/peg-verlet/log.pegc12e8-angle
V	(dir)	examples/USER/{cgsdk/sds-monolayer/ ← cg-cmm/sds-monolayer}
V		examples/USER/{cgsdk ← cg-cmm}/sds-monolayer/data.sds.gz
V		examples/USER/{cgsdk ← cg-cmm}/sds-monolayer/in.sds-hybrid
V		examples/USER/{cgsdk ← cg-cmm}/sds-monolayer/in.sds-regular
V		examples/USER/{cgsdk ← cg-cmm}/sds-monolayer/log.sds-hybrid
V		examples/USER/{cgsdk ← cg-cmm}/sds-monolayer/log.sds-regular
V	(dir)	examples/USER/{flow_gauss/ → misc/flow_gauss}
V		examples/USER/{ → misc}/flow_gauss/README
V		examples/USER/{ → misc}/flow_gauss/in.GD
V	(dir)	examples/USER/{misc/flow_gauss/ ← flow_gauss}
V		examples/USER/{misc ← }/flow_gauss/README
V		examples/USER/{misc ← }/flow_gauss/in.GD
A		examples/cmap/log.11Apr17.cmap.g++.1
A		examples/cmap/log.11Apr17.cmap.g++.4
A		examples/mscg/log.31Mar17.g++.1
A		lib/Install.py
M		lib/README
A		lib/atc/Install.py
M		lib/atc/README
A		lib/awpmd/Install.py
M		lib/awpmd/README
A		lib/colvars/Install.py
M		lib/colvars/README
A		lib/gpu/Install.py
M		lib/gpu/Nvidia.makefile
M		lib/gpu/Opencl.makefile
M		lib/gpu/README
V		lib/gpu/{lal_cg_cmm.cpp → lal_lj_sdk.cpp}
V		lib/gpu/{lal_cg_cmm.cu → lal_lj_sdk.cu}
V		lib/gpu/{lal_cg_cmm.h → lal_lj_sdk.h}
V		lib/gpu/{lal_cg_cmm_ext.cpp → lal_lj_sdk_ext.cpp}
V		lib/gpu/{lal_cg_cmm_long.cpp → lal_lj_sdk_long.cpp}
V		lib/gpu/{lal_cg_cmm_long.cu → lal_lj_sdk_long.cu}
V		lib/gpu/{lal_cg_cmm_long.h → lal_lj_sdk_long.h}
V		lib/gpu/{lal_cg_cmm_long_ext.cpp → lal_lj_sdk_long_ext.cpp}
V		lib/gpu/{lal_lj_sdk.cpp ← lal_cg_cmm.cpp}
V		lib/gpu/{lal_lj_sdk.cu ← lal_cg_cmm.cu}
V		lib/gpu/{lal_lj_sdk.h ← lal_cg_cmm.h}
V		lib/gpu/{lal_lj_sdk_ext.cpp ← lal_cg_cmm_ext.cpp}
V		lib/gpu/{lal_lj_sdk_long.cpp ← lal_cg_cmm_long.cpp}
V		lib/gpu/{lal_lj_sdk_long.cu ← lal_cg_cmm_long.cu}
V		lib/gpu/{lal_lj_sdk_long.h ← lal_cg_cmm_long.h}
V		lib/gpu/{lal_lj_sdk_long_ext.cpp ← lal_cg_cmm_long_ext.cpp}
A		lib/h5md/Install.py
V		lib/h5md/{Makefile → Makefile.h5cc}
V		lib/h5md/{Makefile.h5cc ← Makefile}
M		lib/h5md/README
M		lib/kokkos/CHANGELOG.md
M		lib/kokkos/CMakeLists.txt
M		lib/kokkos/Makefile.kokkos
M		lib/kokkos/Makefile.targets
M		lib/kokkos/README
M		lib/kokkos/algorithms/cmake/Dependencies.cmake
M		lib/kokkos/algorithms/src/Kokkos_Random.hpp
M		lib/kokkos/algorithms/src/Kokkos_Sort.hpp
M		lib/kokkos/algorithms/unit_tests/TestSort.hpp
M		lib/kokkos/bin/nvcc_wrapper
V		lib/kokkos/cmake/{deps/QTHREAD.cmake → tpls/FindTPLQTHREADS.cmake}
V		lib/kokkos/cmake/{deps/QTHREADS.cmake ← tpls/FindTPLQTHREAD.cmake}
V		lib/kokkos/cmake/{tpls/FindTPLQTHREAD.cmake → deps/QTHREADS.cmake}
V		lib/kokkos/cmake/{tpls/FindTPLQTHREADS.cmake ← deps/QTHREAD.cmake}
M		lib/kokkos/config/kokkos_dev/config-core-all.sh
M		lib/kokkos/config/master_history.txt
M		lib/kokkos/config/test_all_sandia
M		lib/kokkos/containers/src/Kokkos_DynamicView.hpp
M		lib/kokkos/containers/src/Kokkos_UnorderedMap.hpp
M		lib/kokkos/containers/unit_tests/CMakeLists.txt
M		lib/kokkos/containers/unit_tests/TestDynamicView.hpp
M		lib/kokkos/core/cmake/Dependencies.cmake
M		lib/kokkos/core/cmake/KokkosCore_config.h.in
M		lib/kokkos/core/perf_test/Makefile
M		lib/kokkos/core/perf_test/PerfTestCuda.cpp
M		lib/kokkos/core/perf_test/PerfTestDriver.hpp
P		lib/kokkos/core/perf_test/PerfTestHost.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_ViewAPI_b.cpp
A		lib/kokkos/core/perf_test/PerfTestMDRange.hpp
M		lib/kokkos/core/src/CMakeLists.txt
A		lib/kokkos/core/src/Cuda/KokkosExp_Cuda_IterateTile.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_Impl.cpp
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_Task.cpp
M		lib/kokkos/core/src/Cuda/Kokkos_Cuda_Task.hpp
M		lib/kokkos/core/src/KokkosExp_MDRangePolicy.hpp
M		lib/kokkos/core/src/Kokkos_Array.hpp
M		lib/kokkos/core/src/Kokkos_Concepts.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_HBWSpace.hpp
M		lib/kokkos/core/src/Kokkos_HostSpace.hpp
M		lib/kokkos/core/src/Kokkos_Macros.hpp
M		lib/kokkos/core/src/Kokkos_MemoryPool.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_Parallel_Reduce.hpp
V		lib/kokkos/core/src/{Kokkos_Qthread.hpp → Kokkos_Qthreads.hpp}
V		lib/kokkos/core/src/{Kokkos_Qthreads.hpp ← Kokkos_Qthread.hpp}
M		lib/kokkos/core/src/Kokkos_Serial.hpp
M		lib/kokkos/core/src/Kokkos_TaskScheduler.hpp
M		lib/kokkos/core/src/Kokkos_Threads.hpp
M		lib/kokkos/core/src/Makefile
M		lib/kokkos/core/src/OpenMP/Kokkos_OpenMP_Parallel.hpp
P		lib/kokkos/core/src/OpenMP/Kokkos_OpenMP_Task.cpp Copied to lib/kokkos/core/src/Qthreads/Kokkos_Qthreads_Task.cpp
P		lib/kokkos/core/src/OpenMP/Kokkos_OpenMP_Task.hpp Copied from lib/kokkos/core/unit_test/TestDefaultDeviceType_b.cpp
M		lib/kokkos/core/src/OpenMP/Kokkos_OpenMPexec.cpp
M		lib/kokkos/core/src/OpenMP/Kokkos_OpenMPexec.hpp
D		lib/kokkos/core/src/Qthread
D		lib/kokkos/core/src/Qthread/Kokkos_QthreadExec.cpp
D		lib/kokkos/core/src/Qthread/Kokkos_QthreadExec.hpp
V		lib/kokkos/core/src/{Qthread/Kokkos_Qthread_Parallel.hpp → Qthreads/Kokkos_Qthreads_Parallel.hpp}
V		lib/kokkos/core/src/{Qthread/Kokkos_Qthread_TaskPolicy.cpp → Qthreads/Kokkos_Qthreads_TaskPolicy.cpp.old}
V		lib/kokkos/core/src/{Qthread/Kokkos_Qthread_TaskPolicy.hpp → Qthreads/Kokkos_Qthreads_TaskPolicy.hpp.old}
V		lib/kokkos/core/src/{Qthread → Qthreads}/README
A	(dir)	lib/kokkos/core/src/Qthreads/
A		lib/kokkos/core/src/Qthreads/Kokkos_QthreadsExec.cpp
A		lib/kokkos/core/src/Qthreads/Kokkos_QthreadsExec.hpp
V		lib/kokkos/core/src/{Qthreads/Kokkos_Qthreads_Parallel.hpp ← Qthread/Kokkos_Qthread_Parallel.hpp}
P		lib/kokkos/core/src/Qthreads/Kokkos_Qthreads_Task.cpp Copied from lib/kokkos/core/src/OpenMP/Kokkos_OpenMP_Task.cpp
A		lib/kokkos/core/src/Qthreads/Kokkos_Qthreads_Task.hpp
V		lib/kokkos/core/src/{Qthreads/Kokkos_Qthreads_TaskPolicy.cpp.old ← Qthread/Kokkos_Qthread_TaskPolicy.cpp}
V		lib/kokkos/core/src/{Qthreads/Kokkos_Qthreads_TaskPolicy.hpp.old ← Qthread/Kokkos_Qthread_TaskPolicy.hpp}
A		lib/kokkos/core/src/Qthreads/Kokkos_Qthreads_TaskQueue.hpp
A		lib/kokkos/core/src/Qthreads/Kokkos_Qthreads_TaskQueue_impl.hpp
V		lib/kokkos/core/src/{Qthreads ← 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_ThreadsTeam.hpp
A		lib/kokkos/core/src/impl/KokkosExp_Host_IterateTile.hpp
M		lib/kokkos/core/src/impl/Kokkos_BitOps.hpp
M		lib/kokkos/core/src/impl/Kokkos_Core.cpp
A		lib/kokkos/core/src/impl/Kokkos_FunctorAnalysis.hpp
M		lib/kokkos/core/src/impl/Kokkos_HBWSpace.cpp
M		lib/kokkos/core/src/impl/Kokkos_HostSpace.cpp
A		lib/kokkos/core/src/impl/Kokkos_HostThreadTeam.cpp
A		lib/kokkos/core/src/impl/Kokkos_HostThreadTeam.hpp
M		lib/kokkos/core/src/impl/Kokkos_Memory_Fence.hpp
M		lib/kokkos/core/src/impl/Kokkos_OldMacros.hpp
M		lib/kokkos/core/src/impl/Kokkos_Profiling_Interface.cpp
M		lib/kokkos/core/src/impl/Kokkos_Profiling_Interface.hpp
A		lib/kokkos/core/src/impl/Kokkos_Reducer.hpp
M		lib/kokkos/core/src/impl/Kokkos_Serial.cpp
M		lib/kokkos/core/src/impl/Kokkos_Serial_Task.cpp
P		lib/kokkos/core/src/impl/Kokkos_Serial_Task.hpp Copied from lib/kokkos/core/unit_test/serial/TestSerial.hpp
D		lib/kokkos/core/src/impl/Kokkos_Synchronic.hpp
D		lib/kokkos/core/src/impl/Kokkos_Synchronic_Config.hpp
D		lib/kokkos/core/src/impl/Kokkos_Synchronic_n3998.hpp
M		lib/kokkos/core/src/impl/Kokkos_TaskQueue.hpp
M		lib/kokkos/core/src/impl/Kokkos_TaskQueue_impl.hpp
M		lib/kokkos/core/src/impl/Kokkos_Utilities.hpp
M		lib/kokkos/core/src/impl/Kokkos_spinwait.cpp
M		lib/kokkos/core/src/impl/Kokkos_spinwait.hpp
M		lib/kokkos/core/unit_test/CMakeLists.txt
M		lib/kokkos/core/unit_test/Makefile
M		lib/kokkos/core/unit_test/TestAggregate.hpp
M		lib/kokkos/core/unit_test/TestAtomic.hpp
M		lib/kokkos/core/unit_test/TestAtomicOperations.hpp
M		lib/kokkos/core/unit_test/TestAtomicViews.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/TestDefaultDeviceType.cpp
M		lib/kokkos/core/unit_test/TestDefaultDeviceTypeInit.hpp
M		lib/kokkos/core/unit_test/TestDefaultDeviceType_a.cpp
P		lib/kokkos/core/unit_test/TestDefaultDeviceType_b.cpp Copied to lib/kokkos/core/src/OpenMP/Kokkos_OpenMP_Task.hpp
M		lib/kokkos/core/unit_test/TestDefaultDeviceType_c.cpp
M		lib/kokkos/core/unit_test/TestDefaultDeviceType_d.cpp
M		lib/kokkos/core/unit_test/TestHWLOC.cpp
M		lib/kokkos/core/unit_test/TestMDRange.hpp
M		lib/kokkos/core/unit_test/TestMemoryPool.hpp
M		lib/kokkos/core/unit_test/TestPolicyConstruction.hpp
D		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/TestSharedAlloc.hpp
D		lib/kokkos/core/unit_test/TestSynchronic.cpp
D		lib/kokkos/core/unit_test/TestSynchronic.hpp
M		lib/kokkos/core/unit_test/TestTaskScheduler.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/TestTile.hpp
M		lib/kokkos/core/unit_test/TestUtilities.hpp
M		lib/kokkos/core/unit_test/TestViewAPI.hpp
M		lib/kokkos/core/unit_test/TestViewMapping.hpp
M		lib/kokkos/core/unit_test/TestViewOfClass.hpp
M		lib/kokkos/core/unit_test/TestViewSpaceAssign.hpp
M		lib/kokkos/core/unit_test/TestViewSubview.hpp
M		lib/kokkos/core/unit_test/UnitTestMain.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda.hpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_Atomics.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_Other.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_Reductions_a.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_Reductions_b.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_Spaces.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_a.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_b.cpp
P		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c01.cpp Copied to multiple locations: lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c01.cpp lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c04.cpp lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c10.cpp lib/kokkos/core/unit_test/qthreads/TestQthreads_ViewAPI_a.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c02.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c03.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c04.cpp
P		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c05.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c08.cpp
P		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c06.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c09.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c07.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c08.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c09.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c10.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c11.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c12.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c_all.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_Team.cpp
P		lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_a.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_b.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_b.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_c.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_d.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_e.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_f.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_g.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_h.cpp
M		lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_s.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP.hpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_Atomics.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_Other.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_Reductions.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_a.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_b.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c01.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c02.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c03.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c04.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c05.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c06.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c07.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c08.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c09.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c10.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c11.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c12.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_SubView_c_all.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_Team.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_ViewAPI_a.cpp
M		lib/kokkos/core/unit_test/openmp/TestOpenMP_ViewAPI_b.cpp
A	(dir)	lib/kokkos/core/unit_test/qthreads/
P		lib/kokkos/core/unit_test/qthreads/TestQthreads.hpp Copied from lib/kokkos/core/unit_test/threads/TestThreads.hpp
A		lib/kokkos/core/unit_test/qthreads/TestQthreads_Atomics.cpp
A		lib/kokkos/core/unit_test/qthreads/TestQthreads_Other.cpp
A		lib/kokkos/core/unit_test/qthreads/TestQthreads_Reductions.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_a.cpp Copied from lib/kokkos/core/unit_test/threads/TestThreads_SubView_a.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_b.cpp Copied from lib/kokkos/core/unit_test/cuda/TestCuda_ViewAPI_a.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c01.cpp Copied from lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c01.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c02.cpp Copied from lib/kokkos/core/unit_test/threads/TestThreads_SubView_c02.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c03.cpp Copied from lib/kokkos/core/unit_test/threads/TestThreads_SubView_c03.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c04.cpp Copied from lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c01.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c05.cpp Copied from lib/kokkos/core/unit_test/threads/TestThreads_SubView_c05.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c06.cpp Copied from lib/kokkos/core/unit_test/threads/TestThreads_SubView_c06.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c07.cpp Copied from lib/kokkos/core/unit_test/threads/TestThreads_SubView_c10.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c08.cpp Copied from lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c05.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c09.cpp Copied from lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c06.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c10.cpp Copied from lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c01.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c11.cpp Copied from lib/kokkos/core/unit_test/threads/TestThreads_SubView_c11.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c12.cpp Copied from lib/kokkos/core/unit_test/threads/TestThreads_SubView_c12.cpp
A		lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c_all.cpp
A		lib/kokkos/core/unit_test/qthreads/TestQthreads_Team.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_ViewAPI_a.cpp Copied from lib/kokkos/core/unit_test/cuda/TestCuda_SubView_c01.cpp
P		lib/kokkos/core/unit_test/qthreads/TestQthreads_ViewAPI_b.cpp Copied from lib/kokkos/core/perf_test/PerfTestHost.cpp
P		lib/kokkos/core/unit_test/serial/TestSerial.hpp Copied to lib/kokkos/core/src/impl/Kokkos_Serial_Task.hpp
M		lib/kokkos/core/unit_test/serial/TestSerial_Atomics.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_Other.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_Reductions.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_a.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_b.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c01.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c02.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c03.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c04.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c05.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c06.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c07.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c08.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c09.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c10.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c11.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c12.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_SubView_c_all.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_Team.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_ViewAPI_a.cpp
M		lib/kokkos/core/unit_test/serial/TestSerial_ViewAPI_b.cpp
P		lib/kokkos/core/unit_test/threads/TestThreads.hpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads.hpp
M		lib/kokkos/core/unit_test/threads/TestThreads_Atomics.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_Other.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_Reductions.cpp
P		lib/kokkos/core/unit_test/threads/TestThreads_SubView_a.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_a.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_SubView_b.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c01.cpp
P		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c02.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c02.cpp
P		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c03.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c03.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c04.cpp
P		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c05.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c05.cpp
P		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c06.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c06.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c07.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c08.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c09.cpp
P		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c10.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c07.cpp
P		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c11.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c11.cpp
P		lib/kokkos/core/unit_test/threads/TestThreads_SubView_c12.cpp Copied to lib/kokkos/core/unit_test/qthreads/TestQthreads_SubView_c12.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_Team.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_ViewAPI_a.cpp
M		lib/kokkos/core/unit_test/threads/TestThreads_ViewAPI_b.cpp
M		lib/kokkos/doc/design_notes_space_instances.md
M		lib/kokkos/example/md_skeleton/types.h
M		lib/kokkos/example/tutorial/01_hello_world_lambda/hello_world_lambda.cpp
M		lib/kokkos/example/tutorial/02_simple_reduce_lambda/simple_reduce_lambda.cpp
M		lib/kokkos/example/tutorial/03_simple_view_lambda/simple_view_lambda.cpp
M		lib/kokkos/example/tutorial/Hierarchical_Parallelism/01_thread_teams_lambda/thread_teams_lambda.cpp
M		lib/kokkos/generate_makefile.bash
A		lib/linalg/Install.py
M		lib/linalg/README
A		lib/meam/Install.py
M		lib/meam/README
M		lib/molfile/Makefile.lammps
M		lib/molfile/README
V		{lib/molfile ← src/USER-MOLFILE}/molfile_plugin.h
V		{lib/molfile ← src/USER-MOLFILE}/vmdplugin.h
A		lib/mscg/Install.py
M		lib/mscg/Makefile.lammps
M		lib/mscg/README
M		lib/netcdf/README
A		lib/poems/Install.py
M		lib/poems/README
A		lib/qmmm/Install.py
M		lib/qmmm/README
A		lib/reax/Install.py
M		lib/reax/README
A		lib/smd/Install.py
M		lib/smd/README
M		lib/voronoi/Install.py
M		lib/voronoi/README
M		lib/vtk/Makefile.lammps
M		lib/vtk/README
M		src/.gitignore
M		src/Depend.sh
M		src/GPU/pair_lj_sdk_coul_long_gpu.cpp
M		src/GPU/pair_lj_sdk_coul_long_gpu.h
M		src/GPU/pair_lj_sdk_gpu.cpp
M		src/GPU/pair_lj_sdk_gpu.h
M		src/KOKKOS/Install.sh
M		src/KOKKOS/atom_vec_angle_kokkos.cpp
M		src/KOKKOS/atom_vec_atomic_kokkos.cpp
M		src/KOKKOS/atom_vec_bond_kokkos.cpp
M		src/KOKKOS/atom_vec_charge_kokkos.cpp
M		src/KOKKOS/atom_vec_full_kokkos.cpp
M		src/KOKKOS/atom_vec_kokkos.h
M		src/KOKKOS/atom_vec_molecular_kokkos.cpp
M		src/KOKKOS/fix_qeq_reax_kokkos.cpp
M		src/KOKKOS/fix_reaxc_bonds_kokkos.cpp
M		src/KOKKOS/fix_reaxc_species_kokkos.cpp
M		src/KOKKOS/modify_kokkos.cpp
V		src/KOKKOS/{pair_reax_c_kokkos.cpp → pair_reaxc_kokkos.cpp}
V		src/KOKKOS/{pair_reax_c_kokkos.h → pair_reaxc_kokkos.h}
V		src/KOKKOS/{pair_reaxc_kokkos.cpp ← pair_reax_c_kokkos.cpp}
V		src/KOKKOS/{pair_reaxc_kokkos.h ← pair_reax_c_kokkos.h}
M		src/KOKKOS/verlet_kokkos.cpp
M		src/KOKKOS/verlet_kokkos.h
M		src/KSPACE/ewald_disp.cpp
M		src/KSPACE/pair_lj_charmmfsw_coul_long.cpp
M		src/KSPACE/pppm_disp.cpp
M		src/MC/fix_gcmc.cpp
M		src/MC/fix_gcmc.h
M		src/MOLECULE/pair_lj_charmmfsw_coul_charmmfsh.cpp
M		src/Makefile
M		src/Purge.list
M		src/QEQ/fix_qeq_point.cpp
M		src/RIGID/fix_shake.cpp
M		src/SNAP/compute_sna_atom.cpp
M		src/SNAP/compute_sna_atom.h
M		src/SNAP/compute_snad_atom.cpp
M		src/SNAP/compute_snad_atom.h
M		src/SNAP/compute_snav_atom.cpp
M		src/SNAP/compute_snav_atom.h
M		src/SNAP/pair_snap.cpp
D		src/USER-CG-CMM
V		src/{USER-CG-CMM → USER-CGSDK}/Install.sh
V		src/{USER-CG-CMM → USER-CGSDK}/README
V		src/{USER-CG-CMM → USER-CGSDK}/angle_sdk.cpp
V		src/{USER-CG-CMM → USER-CGSDK}/angle_sdk.h
V		src/{USER-CG-CMM → USER-CGSDK}/lj_sdk_common.h
V		src/{USER-CG-CMM → USER-CGSDK}/pair_lj_sdk.cpp
V		src/{USER-CG-CMM → USER-CGSDK}/pair_lj_sdk.h
V		src/{USER-CG-CMM → USER-CGSDK}/pair_lj_sdk_coul_long.cpp
V		src/{USER-CG-CMM → USER-CGSDK}/pair_lj_sdk_coul_long.h
V		src/{USER-CG-CMM → USER-CGSDK}/pair_lj_sdk_coul_msm.cpp
V		src/{USER-CG-CMM → USER-CGSDK}/pair_lj_sdk_coul_msm.h
A	(dir)	src/USER-CGSDK/
V		src/{USER-CGSDK ← USER-CG-CMM}/Install.sh
V		src/{USER-CGSDK ← USER-CG-CMM}/README
V		src/{USER-CGSDK ← USER-CG-CMM}/angle_sdk.cpp
V		src/{USER-CGSDK ← USER-CG-CMM}/angle_sdk.h
V		src/{USER-CGSDK ← USER-CG-CMM}/lj_sdk_common.h
V		src/{USER-CGSDK ← USER-CG-CMM}/pair_lj_sdk.cpp
V		src/{USER-CGSDK ← USER-CG-CMM}/pair_lj_sdk.h
V		src/{USER-CGSDK ← USER-CG-CMM}/pair_lj_sdk_coul_long.cpp
V		src/{USER-CGSDK ← USER-CG-CMM}/pair_lj_sdk_coul_long.h
V		src/{USER-CGSDK ← USER-CG-CMM}/pair_lj_sdk_coul_msm.cpp
V		src/{USER-CGSDK ← USER-CG-CMM}/pair_lj_sdk_coul_msm.h
M		src/USER-MISC/fix_srp.cpp
M		src/USER-MISC/improper_ring.cpp
M		src/USER-MOLFILE/README
V		{src/USER-MOLFILE → lib/molfile}/molfile_plugin.h
V		{src/USER-MOLFILE → lib/molfile}/vmdplugin.h
D		src/USER-NC-DUMP
V		src/{USER-NC-DUMP → USER-NETCDF}/Install.sh
V		src/{USER-NC-DUMP → USER-NETCDF}/README
V		src/{USER-NC-DUMP/dump_nc.cpp → USER-NETCDF/dump_netcdf.cpp}
V		src/{USER-NC-DUMP/dump_nc.h → USER-NETCDF/dump_netcdf.h}
V		src/{USER-NC-DUMP/dump_nc_mpiio.cpp → USER-NETCDF/dump_netcdf_mpiio.cpp}
V		src/{USER-NC-DUMP/dump_nc_mpiio.h → USER-NETCDF/dump_netcdf_mpiio.h}
A	(dir)	src/USER-NETCDF/
V		src/{USER-NETCDF ← USER-NC-DUMP}/Install.sh
V		src/{USER-NETCDF ← USER-NC-DUMP}/README
V		src/{USER-NETCDF/dump_netcdf.cpp ← USER-NC-DUMP/dump_nc.cpp}
V		src/{USER-NETCDF/dump_netcdf.h ← USER-NC-DUMP/dump_nc.h}
V		src/{USER-NETCDF/dump_netcdf_mpiio.cpp ← USER-NC-DUMP/dump_nc_mpiio.cpp}
V		src/{USER-NETCDF/dump_netcdf_mpiio.h ← USER-NC-DUMP/dump_nc_mpiio.h}
M		src/USER-OMP/angle_sdk_omp.h
M		src/USER-OMP/improper_ring_omp.cpp
M		src/USER-OMP/pair_lj_sdk_coul_long_omp.h
M		src/USER-OMP/pair_lj_sdk_coul_msm_omp.h
M		src/USER-OMP/pair_lj_sdk_omp.h
M		src/USER-REAXC/compute_spec_atom.cpp
M		src/USER-REAXC/fix_qeq_reax.cpp
V		src/USER-REAXC/{fix_reax_c.cpp → fix_reaxc.cpp}
V		src/USER-REAXC/{fix_reax_c.h → fix_reaxc.h}
V		src/USER-REAXC/{fix_reaxc.cpp ← fix_reax_c.cpp}
V		src/USER-REAXC/{fix_reaxc.h ← fix_reax_c.h}
M		src/USER-REAXC/fix_reaxc_bonds.cpp
M		src/USER-REAXC/fix_reaxc_species.cpp
M		src/USER-REAXC/fix_reaxc_species.h
V		src/USER-REAXC/{pair_reax_c.cpp → pair_reaxc.cpp}
V		src/USER-REAXC/{pair_reax_c.h → pair_reaxc.h}
V		src/USER-REAXC/{pair_reaxc.cpp ← pair_reax_c.cpp}
V		src/USER-REAXC/{pair_reaxc.h ← pair_reax_c.h}
M		src/USER-REAXC/reaxc_allocate.cpp
M		src/USER-REAXC/reaxc_bond_orders.cpp
M		src/USER-REAXC/reaxc_bonds.cpp
M		src/USER-REAXC/reaxc_control.cpp
M		src/USER-REAXC/reaxc_defs.h
M		src/USER-REAXC/reaxc_ffield.cpp
M		src/USER-REAXC/reaxc_forces.cpp
M		src/USER-REAXC/reaxc_hydrogen_bonds.cpp
M		src/USER-REAXC/reaxc_init_md.cpp
M		src/USER-REAXC/reaxc_io_tools.cpp
M		src/USER-REAXC/reaxc_list.cpp
M		src/USER-REAXC/reaxc_lookup.cpp
M		src/USER-REAXC/reaxc_multi_body.cpp
M		src/USER-REAXC/reaxc_nonbonded.cpp
M		src/USER-REAXC/reaxc_reset_tools.cpp
M		src/USER-REAXC/reaxc_system_props.cpp
M		src/USER-REAXC/reaxc_tool_box.cpp
M		src/USER-REAXC/reaxc_torsion_angles.cpp
M		src/USER-REAXC/reaxc_traj.cpp
M		src/USER-REAXC/reaxc_types.h
M		src/USER-REAXC/reaxc_valence_angles.cpp
M		src/USER-REAXC/reaxc_vector.cpp
M		src/USER-TALLY/compute_force_tally.cpp
M		src/USER-TALLY/compute_heat_flux_tally.cpp
M		src/USER-TALLY/compute_pe_mol_tally.cpp
M		src/USER-TALLY/compute_pe_tally.cpp
M		src/USER-TALLY/compute_stress_tally.cpp
M		src/USER-VTK/README
V		src/USER-VTK/{dump_custom_vtk.cpp → dump_vtk.cpp}
V		src/USER-VTK/{dump_custom_vtk.h → dump_vtk.h}
V		src/USER-VTK/{dump_vtk.cpp ← dump_custom_vtk.cpp}
V		src/USER-VTK/{dump_vtk.h ← dump_custom_vtk.h}
M		src/compute_dipole_chunk.cpp
M		src/domain.cpp
M		src/domain.h
M		src/min.cpp
M		src/min.h
M		src/neighbor.cpp
M		src/pair.h
M		src/pair_hybrid.cpp
M		src/pair_hybrid.h
M		src/version.h
M		tools/msi2lmp/README
M		tools/msi2lmp/src/GetParameters.c
M		tools/msi2lmp/src/InitializeItems.c
M		tools/msi2lmp/src/WriteDataFile.c
M		tools/msi2lmp/src/msi2lmp.c
M		tools/msi2lmp/src/msi2lmp.h