rename USER-MESODPD and USER-SDPD to DPD-MESO and DPD-SMOOTH
This commit is contained in:
@ -141,11 +141,11 @@ option(CMAKE_VERBOSE_MAKEFILE "Generate verbose Makefiles" OFF)
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set(STANDARD_PACKAGES ASPHERE BODY CLASS2 COLLOID COMPRESS DIPOLE
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GRANULAR KSPACE LATTE MANYBODY MC MESSAGE MISC ML-IAP MOLECULE PERI POEMS
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PLUGIN QEQ REPLICA RIGID SHOCK SPIN ML-SNAP SRD KIM PYTHON MSCG MPIIO VORONOI
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USER-ADIOS USER-ATC USER-AWPMD USER-BOCS CG-DNA USER-MESODPD CG-SDK
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USER-ADIOS USER-ATC USER-AWPMD USER-BOCS CG-DNA DPD-MESO CG-SDK
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USER-COLVARS USER-DIELECTRIC USER-DIFFRACTION DPD-REACT USER-DRUDE USER-EFF USER-FEP
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USER-H5MD ML-HDNNP LATBOLTZ USER-MANIFOLD USER-MDI MEAM USER-MESONT USER-MGPT
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USER-MISC USER-MOFFF USER-MOLFILE USER-NETCDF USER-PHONON USER-PLUMED USER-PTM USER-QTB
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ML-RANN USER-REACTION REAXFF USER-SCAFACOS USER-SDPD MACHDYN USER-SMTBQ USER-SPH
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ML-RANN USER-REACTION REAXFF USER-SCAFACOS DPD-SMOOTH MACHDYN USER-SMTBQ USER-SPH
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USER-TALLY USER-UEF USER-VTK ML-QUIP USER-QMMM USER-YAFF ML-PACE USER-BROWNIAN)
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set(SUFFIX_PACKAGES CORESHELL GPU KOKKOS OPT USER-INTEL OPENMP)
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@ -496,7 +496,7 @@ endif()
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# packages which selectively include variants based on enabled styles
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# e.g. accelerator packages
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######################################################################
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foreach(PKG_WITH_INCL CORESHELL QEQ OPENMP USER-SDPD KOKKOS OPT USER-INTEL GPU)
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foreach(PKG_WITH_INCL CORESHELL QEQ OPENMP DPD-SMOOTH KOKKOS OPT USER-INTEL GPU)
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if(PKG_${PKG_WITH_INCL})
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include(Packages/${PKG_WITH_INCL})
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endif()
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@ -1,13 +1,13 @@
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# Fix rigid/meso requires RIGID to be installed
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set(USER-SDPD_SOURCES_DIR ${LAMMPS_SOURCE_DIR}/USER-SDPD)
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set(DPD-SMOOTH_SOURCES_DIR ${LAMMPS_SOURCE_DIR}/DPD-SMOOTH)
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get_property(hlist GLOBAL PROPERTY FIX)
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if(NOT PKG_RIGID)
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list(REMOVE_ITEM hlist ${USER-SDPD_SOURCES_DIR}/fix_rigid_meso.h)
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list(REMOVE_ITEM hlist ${DPD-SMOOTH_SOURCES_DIR}/fix_rigid_meso.h)
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get_target_property(LAMMPS_SOURCES lammps SOURCES)
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list(REMOVE_ITEM LAMMPS_SOURCES ${USER-SDPD_SOURCES_DIR}/fix_rigid_meso.cpp)
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list(REMOVE_ITEM LAMMPS_SOURCES ${DPD-SMOOTH_SOURCES_DIR}/fix_rigid_meso.cpp)
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set_property(TARGET lammps PROPERTY SOURCES ${LAMMPS_SOURCES})
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endif()
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set_property(GLOBAL PROPERTY FIX "${hlist}")
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target_include_directories(lammps PRIVATE ${USER-SDPD_SOURCES_DIR})
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target_include_directories(lammps PRIVATE ${DPD-SMOOTH_SOURCES_DIR})
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@ -7,10 +7,10 @@ set(ALL_PACKAGES ASPHERE BODY CLASS2 COLLOID COMPRESS CORESHELL DIPOLE GPU
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SRD VORONOI
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USER-ADIOS USER-ATC USER-AWPMD USER-BROWNIAN USER-BOCS CG-DNA CG-SDK
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USER-COLVARS USER-DIFFRACTION DPD-REACT USER-DRUDE USER-EFF USER-FEP USER-H5MD
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ML-HDNNP USER-INTEL LATBOLTZ USER-MANIFOLD USER-MDI MEAM USER-MESODPD
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ML-HDNNP USER-INTEL LATBOLTZ USER-MANIFOLD USER-MDI MEAM DPD-MESO
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USER-MESONT USER-MGPT USER-MISC USER-MOFFF USER-MOLFILE USER-NETCDF OPENMP
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ML-PACE USER-PHONON USER-PLUMED USER-PTM USER-QMMM USER-QTB ML-QUIP ML-RANN
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USER-REACTION REAXFF USER-SCAFACOS USER-SDPD MACHDYN USER-SMTBQ USER-SPH
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USER-REACTION REAXFF USER-SCAFACOS DPD-SMOOTH MACHDYN USER-SMTBQ USER-SPH
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USER-TALLY USER-UEF USER-VTK USER-YAFF USER-DIELECTRIC)
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foreach(PKG ${ALL_PACKAGES})
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@ -9,10 +9,10 @@ set(ALL_PACKAGES ASPHERE BODY CLASS2 COLLOID COMPRESS CORESHELL DIPOLE GPU
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SRD VORONOI
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USER-ADIOS USER-ATC USER-AWPMD USER-BROWNIAN USER-BOCS CG-DNA CG-SDK
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USER-COLVARS USER-DIFFRACTION DPD-REACT USER-DRUDE USER-EFF USER-FEP USER-H5MD
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ML-HDNNP USER-INTEL LATBOLTZ USER-MANIFOLD USER-MDI MEAM USER-MESODPD
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ML-HDNNP USER-INTEL LATBOLTZ USER-MANIFOLD USER-MDI MEAM DPD-MESO
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USER-MESONT USER-MGPT USER-MISC USER-MOFFF USER-MOLFILE USER-NETCDF OPENMP
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ML-PACE USER-PHONON USER-PLUMED USER-PTM USER-QMMM USER-QTB ML-QUIP ML-RANN
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USER-REACTION REAXFF USER-SCAFACOS USER-SDPD MACHDYN USER-SMTBQ USER-SPH
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USER-REACTION REAXFF USER-SCAFACOS DPD-SMOOTH MACHDYN USER-SMTBQ USER-SPH
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USER-TALLY USER-UEF USER-VTK USER-YAFF USER-DIELECTRIC)
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foreach(PKG ${ALL_PACKAGES})
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@ -3,10 +3,10 @@ set(WIN_PACKAGES ASPHERE BODY CLASS2 COLLOID COMPRESS CORESHELL DIPOLE GPU
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PERI POEMS QEQ REPLICA RIGID SHOCK ML-SNAP SPIN SRD VORONOI
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USER-ATC USER-AWPMD USER-BOCS USER-BROWNIAN CG-DNA CG-SDK
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USER-COLVARS USER-DIFFRACTION DPD-REACT USER-DRUDE USER-EFF USER-FEP
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ML-HDNNP USER-INTEL USER-MANIFOLD USER-MDI MEAM USER-MESODPD
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ML-HDNNP USER-INTEL USER-MANIFOLD USER-MDI MEAM DPD-MESO
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USER-MESONT USER-MISC USER-MGPT USER-MOFFF USER-MOLFILE OPENMP
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USER-PHONON USER-PTM USER-QTB USER-REACTION REAXFF
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USER-SDPD MACHDYN USER-SMTBQ USER-SPH USER-TALLY USER-UEF
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DPD-SMOOTH MACHDYN USER-SMTBQ USER-SPH USER-TALLY USER-UEF
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USER-YAFF USER-DIELECTRIC)
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foreach(PKG ${WIN_PACKAGES})
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@ -7,8 +7,8 @@ set(ALL_PACKAGES ASPHERE BODY CLASS2 COLLOID COMPRESS CORESHELL DIPOLE
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PLUGIN POEMS PYTHON QEQ REPLICA RIGID SHOCK ML-SNAP SPIN SRD VORONOI
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USER-BROWNIAN USER-BOCS CG-DNA CG-SDK USER-COLVARS
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USER-DIFFRACTION DPD-REACT USER-DRUDE USER-EFF USER-FEP MEAM
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USER-MESODPD USER-MISC USER-MOFFF OPENMP USER-PHONON USER-REACTION
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REAXFF USER-SDPD USER-SPH MACHDYN USER-UEF USER-YAFF USER-DIELECTRIC)
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DPD-MESO USER-MISC USER-MOFFF OPENMP USER-PHONON USER-REACTION
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REAXFF DPD-SMOOTH USER-SPH MACHDYN USER-UEF USER-YAFF USER-DIELECTRIC)
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foreach(PKG ${ALL_PACKAGES})
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set(PKG_${PKG} ON CACHE BOOL "" FORCE)
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@ -86,7 +86,7 @@ page gives those details.
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* :ref:`USER-MANIFOLD <PKG-USER-MANIFOLD>`
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* :ref:`USER-MDI <PKG-USER-MDI>`
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* :ref:`MEAM <PKG-MEAM>`
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* :ref:`USER-MESODPD <PKG-USER-MESODPD>`
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* :ref:`DPD-MESO <PKG-DPD-MESO>`
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* :ref:`USER-MESONT <PKG-USER-MESONT>`
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* :ref:`USER-MGPT <PKG-USER-MGPT>`
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* :ref:`USER-MISC <PKG-USER-MISC>`
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@ -105,7 +105,7 @@ page gives those details.
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* :ref:`USER-REACTION <PKG-USER-REACTION>`
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* :ref:`REAXFF <PKG-REAXFF>`
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* :ref:`USER-SCAFACOS <PKG-USER-SCAFACOS>`
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* :ref:`USER-SDPD <PKG-USER-SDPD>`
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* :ref:`DPD-SMOOTH <PKG-DPD-SMOOTH>`
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* :ref:`MACHDYN <PKG-MACHDYN>`
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* :ref:`USER-SMTBQ <PKG-USER-SMTBQ>`
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* :ref:`USER-SPH <PKG-USER-SPH>`
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@ -1828,9 +1828,9 @@ Sandia.
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----------
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.. _PKG-USER-MESODPD:
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.. _PKG-DPD-MESO:
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USER-MESODPD package
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DPD-MESO package
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--------------------
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**Contents:**
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@ -1847,8 +1847,8 @@ algorithm.
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**Supporting info:**
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* src/USER-MESODPD: filenames -> commands
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* src/USER-MESODPD/README
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* src/DPD-MESO: filenames -> commands
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* src/DPD-MESO/README
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* :doc:`atom_style edpd <atom_style>`
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* :doc:`pair_style edpd <pair_mesodpd>`
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* :doc:`pair_style mdpd <pair_mesodpd>`
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@ -2418,9 +2418,9 @@ This package has :ref:`specific installation instructions <user-scafacos>` on th
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----------
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.. _PKG-USER-SDPD:
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.. _PKG-DPD-SMOOTH:
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USER-SDPD package
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DPD-SMOOTH package
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-----------------
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**Contents:**
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@ -2437,8 +2437,8 @@ Sciences, Iran).
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**Supporting info:**
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* src/USER-SDPD: filenames -> commands
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* src/USER-SDPD/README
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* src/DPD-SMOOTH: filenames -> commands
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* src/DPD-SMOOTH/README
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* :doc:`pair_style sdpd/taitwater/isothermal <pair_sdpd_taitwater_isothermal>`
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* :doc:`fix meso/move <fix_meso_move>`
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* :doc:`fix rigid/meso <fix_rigid_meso>`
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@ -73,7 +73,7 @@ package:
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+------------------------------------------------+-----------------------------------------------------------------+-------------------------------------------------------------------------------+------------------------------------------------------+---------+
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| :ref:`MEAM <PKG-MEAM>` | modified EAM potential (C++) | :doc:`pair_style meam <pair_meam>` | meam | no |
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+------------------------------------------------+-----------------------------------------------------------------+-------------------------------------------------------------------------------+------------------------------------------------------+---------+
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| :ref:`USER-MESODPD <PKG-USER-MESODPD>` | mesoscale DPD models | :doc:`pair_style edpd <pair_mesodpd>` | USER/mesodpd | no |
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| :ref:`DPD-MESO <PKG-DPD-MESO>` | mesoscale DPD models | :doc:`pair_style edpd <pair_mesodpd>` | USER/mesodpd | no |
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+------------------------------------------------+-----------------------------------------------------------------+-------------------------------------------------------------------------------+------------------------------------------------------+---------+
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| :ref:`USER-MESONT <PKG-USER-MESONT>` | mesoscopic tubular potential model for nanotubes | pair style :doc:`mesont/tpm <pair_mesont_tpm>`, :doc:`mesocnt <pair_mesocnt>` | USER/mesont | int |
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+------------------------------------------------+-----------------------------------------------------------------+-------------------------------------------------------------------------------+------------------------------------------------------+---------+
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@ -111,7 +111,7 @@ package:
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+------------------------------------------------+-----------------------------------------------------------------+-------------------------------------------------------------------------------+------------------------------------------------------+---------+
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| :ref:`USER-SCAFACOS <PKG-USER-SCAFACOS>` | wrapper on ScaFaCoS solver | :doc:`kspace_style scafacos <kspace_style>` | USER/scafacos | ext |
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+------------------------------------------------+-----------------------------------------------------------------+-------------------------------------------------------------------------------+------------------------------------------------------+---------+
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| :ref:`USER-SDPD <PKG-USER-SDPD>` | smoothed dissipative particle dynamics | :doc:`pair_style sdpd/taitwater/isothermal <pair_sdpd_taitwater_isothermal>` | USER/sdpd | no |
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| :ref:`DPD-SMOOTH <PKG-DPD-SMOOTH>` | smoothed dissipative particle dynamics | :doc:`pair_style sdpd/taitwater/isothermal <pair_sdpd_taitwater_isothermal>` | USER/sdpd | no |
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+------------------------------------------------+-----------------------------------------------------------------+-------------------------------------------------------------------------------+------------------------------------------------------+---------+
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| :ref:`MACHDYN <PKG-MACHDYN>` | smoothed Mach dynamics | `SMD User Guide <PDF/SMD_LAMMPS_userguide.pdf>`_ | USER/smd | ext |
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+------------------------------------------------+-----------------------------------------------------------------+-------------------------------------------------------------------------------+------------------------------------------------------+---------+
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@ -357,7 +357,7 @@ The *electron* style is part of the USER-EFF package for :doc:`electronic force
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The *dpd* style is part of the DPD-REACT package for dissipative
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particle dynamics (DPD).
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The *edpd*\ , *mdpd*\ , and *tdpd* styles are part of the USER-MESODPD package
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The *edpd*\ , *mdpd*\ , and *tdpd* styles are part of the DPD-MESO package
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for energy-conserving dissipative particle dynamics (eDPD), many-body
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dissipative particle dynamics (mDPD), and transport dissipative particle
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dynamics (tDPD), respectively.
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@ -44,7 +44,7 @@ The per-atom vector values will be in temperature :doc:`units <units>`.
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Restrictions
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""""""""""""
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This compute is part of the USER-MESODPD package. It is only enabled if
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This compute is part of the DPD-MESO package. It is only enabled if
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LAMMPS was built with that package. See the :doc:`Build package <Build_package>` doc page for more info.
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Related commands
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@ -46,7 +46,7 @@ per unit mass.
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Restrictions
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""""""""""""
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This compute is part of the USER-MESODPD package. It is only enabled if
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This compute is part of the DPD-MESO package. It is only enabled if
|
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LAMMPS was built with that package. See the :doc:`Build package <Build_package>` doc page for more info.
|
||||
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||||
Related commands
|
||||
|
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@ -77,7 +77,7 @@ the :doc:`run <run>` command. This fix is not invoked during :doc:`energy minim
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Restrictions
|
||||
""""""""""""
|
||||
|
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This fix is part of the USER-MESODPD package. It is only enabled if
|
||||
This fix is part of the DPD-MESO package. It is only enabled if
|
||||
LAMMPS was built with that package. See the :doc:`Build package <Build_package>` doc page for more info.
|
||||
|
||||
Fix *edpd/source* must be used with the :doc:`pair_style edpd <pair_mesodpd>` command. Fix *tdpd/source* must be used with the
|
||||
|
||||
@ -238,7 +238,7 @@ This fix is not invoked during :doc:`energy minimization <minimize>`.
|
||||
Restrictions
|
||||
""""""""""""
|
||||
|
||||
This fix is part of the USER-SDPD package. It is only enabled if
|
||||
This fix is part of the DPD-SMOOTH package. It is only enabled if
|
||||
LAMMPS was built with that package. See the :doc:`Build package
|
||||
<Build_package>` doc page for more info.
|
||||
|
||||
|
||||
@ -90,7 +90,7 @@ the :doc:`run <run>` command. This fix is not invoked during :doc:`energy minim
|
||||
Restrictions
|
||||
""""""""""""
|
||||
|
||||
This fix is part of the USER-MESODPD package. It is only enabled if
|
||||
This fix is part of the DPD-MESO package. It is only enabled if
|
||||
LAMMPS was built with that package. See the :doc:`Build package <Build_package>` doc page for more info.
|
||||
|
||||
Related commands
|
||||
|
||||
@ -344,7 +344,7 @@ This fix is not invoked during :doc:`energy minimization <minimize>`.
|
||||
Restrictions
|
||||
""""""""""""
|
||||
|
||||
This fix is part of the USER-SDPD package and also depends on the RIGID
|
||||
This fix is part of the DPD-SMOOTH package and also depends on the RIGID
|
||||
package. It is only enabled if LAMMPS was built with both packages. See
|
||||
the :doc:`Build package <Build_package>` doc page for more info.
|
||||
|
||||
|
||||
@ -299,7 +299,7 @@ Restrictions
|
||||
""""""""""""
|
||||
|
||||
The pair styles *edpd*\ , *mdpd*\ , *mdpd/rhosum* and *tdpd* are part of
|
||||
the USER-MESODPD package. It is only enabled if LAMMPS was built with
|
||||
the DPD-MESO package. It is only enabled if LAMMPS was built with
|
||||
that package. See the :doc:`Build package <Build_package>` doc page for
|
||||
more info.
|
||||
|
||||
|
||||
@ -97,7 +97,7 @@ This style can only be used via the *pair* keyword of the :doc:`run_style respa
|
||||
Restrictions
|
||||
""""""""""""
|
||||
|
||||
This pair style is part of the USER-SDPD package. It is only enabled
|
||||
This pair style is part of the DPD-SMOOTH package. It is only enabled
|
||||
if LAMMPS was built with that package. See the :doc:`Build package <Build_package>` doc page for more info.
|
||||
|
||||
Related commands
|
||||
|
||||
@ -470,13 +470,13 @@ value >= 0.0, the internal temperature is set to that value. If it is
|
||||
temperature is set to that value.
|
||||
|
||||
Keywords *edpd/temp* and *edpd/cv* set the temperature and volumetric
|
||||
heat capacity of an eDPD particle as defined by the USER-MESODPD package.
|
||||
heat capacity of an eDPD particle as defined by the DPD-MESO package.
|
||||
Currently, only :doc:`atom_style edpd <atom_style>` defines particles
|
||||
with these attributes. The values for the temperature and heat
|
||||
capacity must be positive.
|
||||
|
||||
Keyword *cc* sets the chemical concentration of a tDPD particle for a
|
||||
specified species as defined by the USER-MESODPD package. Currently, only
|
||||
specified species as defined by the DPD-MESO package. Currently, only
|
||||
:doc:`atom_style tdpd <atom_style>` defines particles with this
|
||||
attribute. An integer for "index" selects a chemical species (1 to
|
||||
Nspecies) where Nspecies is set by the atom_style command. The value
|
||||
|
||||
@ -113,7 +113,7 @@ fi
|
||||
if (test $1 = "RIGID") then
|
||||
depend KOKKOS
|
||||
depend OPENMP
|
||||
depend USER-SDPD
|
||||
depend DPD-SMOOTH
|
||||
fi
|
||||
|
||||
if (test $1 = "ML-SNAP") then
|
||||
|
||||
@ -54,11 +54,11 @@ PACKAGE = asphere body class2 colloid compress coreshell dipole gpu \
|
||||
PACKUSER = user-adios user-atc user-awpmd user-brownian user-bocs cg-dna \
|
||||
cg-sdk user-colvars user-dielectric user-diffraction dpd-react user-drude \
|
||||
user-eff user-fep user-h5md ml-hdnnp user-intel latboltz user-manifold \
|
||||
user-mdi meam user-mesodpd user-mesont user-mgpt user-misc \
|
||||
user-mdi meam dpd-meso user-mesont user-mgpt user-misc \
|
||||
user-mofff user-molfile user-netcdf openmp user-phonon \
|
||||
ml-pace user-plumed user-ptm user-qmmm user-qtb ml-quip \
|
||||
ml-rann user-reaction reaxff user-scafacos machdyn user-smtbq \
|
||||
user-sdpd user-sph user-tally user-uef user-vtk user-yaff
|
||||
dpd-smooth user-sph user-tally user-uef user-vtk user-yaff
|
||||
|
||||
PACKLIB = compress gpu kim kokkos latte message mpiio mscg poems python voronoi \
|
||||
user-adios user-atc user-awpmd user-colvars user-h5md ml-hdnnp latboltz user-mdi \
|
||||
|
||||
@ -137,11 +137,11 @@ TEST_F(LAMMPS_plain, TestStyles)
|
||||
found = lmp->match_style("atom", "dpd");
|
||||
EXPECT_STREQ(found, "DPD-REACT");
|
||||
found = lmp->match_style("atom", "edpd");
|
||||
EXPECT_STREQ(found, "USER-MESODPD");
|
||||
EXPECT_STREQ(found, "DPD-MESO");
|
||||
found = lmp->match_style("atom", "mdpd");
|
||||
EXPECT_STREQ(found, "USER-MESODPD");
|
||||
EXPECT_STREQ(found, "DPD-MESO");
|
||||
found = lmp->match_style("atom", "tdpd");
|
||||
EXPECT_STREQ(found, "USER-MESODPD");
|
||||
EXPECT_STREQ(found, "DPD-MESO");
|
||||
found = lmp->match_style("atom", "spin");
|
||||
EXPECT_STREQ(found, "SPIN");
|
||||
found = lmp->match_style("atom", "smd");
|
||||
|
||||
Reference in New Issue
Block a user