forked from lijiext/lammps
Merge pull request #2284 from akohlmey/fix-tester
Add unit test tool for fixes that do time integration, thermostatting, force manipulations and similar
This commit is contained in:
commit
1c2747739a
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@ -29,8 +29,8 @@ if(BUILD_DOC)
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OUTPUT requirements.txt
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DEPENDS docenv
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COMMAND ${CMAKE_COMMAND} -E copy ${LAMMPS_DOC_DIR}/utils/requirements.txt requirements.txt
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COMMAND ${DOCENV_BINARY_DIR}/pip install -r requirements.txt --upgrade
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COMMAND ${DOCENV_BINARY_DIR}/pip install --upgrade ${LAMMPS_DOC_DIR}/utils/converters
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COMMAND ${DOCENV_BINARY_DIR}/pip install --use-feature=2020-resolver -r requirements.txt --upgrade
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)
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# download mathjax distribution and unpack to folder "mathjax"
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@ -194,7 +194,7 @@ $(VENV):
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$(VIRTUALENV) -p $(PYTHON) $(VENV); \
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. $(VENV)/bin/activate; \
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pip install --upgrade pip; \
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pip install -r requirements.txt; \
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pip install --use-feature=2020-resolver -r requirements.txt; \
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deactivate;\
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)
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@ -159,8 +159,8 @@ A test run is then a a collection multiple individual test runs each
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with many comparisons to reference results based on template input
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files, individual command settings, relative error margins, and
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reference data stored in a YAML format file with ``.yaml``
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suffix. Currently the programs ``pair_style``, ``bond_style``, and
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``angle_style`` are implemented. They will compare forces, energies and
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suffix. Currently the programs ``test_pair_style``, ``test_bond_style``, and
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``test_angle_style`` are implemented. They will compare forces, energies and
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(global) stress for all atoms after a ``run 0`` calculation and after a
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few steps of MD with :doc:`fix nve <fix_nve>`, each in multiple variants
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with different settings and also for multiple accelerated styles. If a
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@ -172,7 +172,7 @@ Below is an example command and output:
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.. parsed-literal::
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[tests]$ pair_style mol-pair-lj_cut.yaml
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[tests]$ test_pair_style mol-pair-lj_cut.yaml
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[==========] Running 6 tests from 1 test suite.
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[----------] Global test environment set-up.
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[----------] 6 tests from PairStyle
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@ -259,13 +259,61 @@ and working.
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of mis-compiled code (or an undesired large loss of precision due
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to significant reordering of operations and thus less error cancellation).
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Unit tests for timestepping related fixes
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^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
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A substantial subset of :doc:`fix styles <fix>` are invoked regularly
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during MD timestepping and manipulate per-atom properties like
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positions, velocities, and forces. For those fix styles, testing can be
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done in a very similar fashion as for force fields and thus there is a
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test program `test_fix_timestep` that shares a lot of code, properties,
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and command line flags with the force field style testers described in
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the previous section.
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This tester will set up a small molecular system run with verlet run
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style for 4 MD steps, then write a binary restart and continue for
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another 4 MD steps. At this point coordinates and velocities are
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recorded and compared to reference data. Then the system is cleared,
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restarted and running the second 4 MD steps again and the data is
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compared to the same reference. That is followed by another restart
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after which per atom type masses are replaced with per-atom masses and
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the second 4 MD steps are repeated again and compared to the same
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reference. Also global scalar and vector data of the fix is recorded
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and compared. If the fix is a thermostat and thus the internal property
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``t_target`` can be extracted, then this is compared to the reference
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data. The tests are repeated with the respa run style.
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If the fix has a multi-threaded version in the USER-OMP package, then
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the entire set of tests is repeated for that version as well.
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For this to work, some additional conditions have to be met by the
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YAML format test inputs.
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- The fix to be tested (and only this fix), should be listed in the
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``prerequisites:`` section
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- The fix to be tested must be specified in the ``post_commands:``
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section with the fix-ID ``test``. This section may contain other
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commands and other fixes (e.g. an instance of fix nve for testing
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a thermostat or force manipulation fix)
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- For fixes that can tally contributions to the global virial, the
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line ``fix_modify test virial yes`` should be included in the
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``post_commands:`` section of the test input.
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- For thermostat fixes the target temperature should be ramped from
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an arbitrary value (e.g. 50K) to a pre-defined target temperature
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entered as ``${t_target}``.
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- For fixes that have thermostatting support included, but do not
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have it enabled in the input (e.g. fix rigid with default settings),
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the ``post_commands:`` section should contain the line
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``variable t_target delete`` to disable the target temperature ramp
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check to avoid false positives.
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Use custom linker for faster link times when ENABLE_TESTING is active
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^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
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When compiling LAMMPS with enabled tests, most test executables will
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need to be linked against the LAMMPS library. Since this can be a
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large with many C++ objects when many packages are enabled, link times
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can become very long on machines that use the GNU BFD linker (e.g.
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need to be linked against the LAMMPS library. Since this can be a very
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large library with many C++ objects when many packages are enabled, link
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times can become very long on machines that use the GNU BFD linker (e.g.
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Linux systems). Alternatives like the ``lld`` linker of the LLVM project
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or the ``gold`` linker available with GNU binutils can speed up this step
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substantially. CMake will by default test if any of the two can be
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@ -119,7 +119,11 @@ thermal degrees of freedom, and the bias is added back in.
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**Restart, fix_modify, output, run start/stop, minimize info:**
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No information about this fix is written to :doc:`binary restart files <restart>`.
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This fix writes the cumulative global energy change to
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:doc:`binary restart files <restart>`. See the
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:doc:`read_restart <read_restart>` command for info on how to
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re-specify a fix in an input script that reads a restart file,
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so that the fix continues in an uninterrupted fashion.
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The :doc:`fix_modify <fix_modify>` *temp* option is supported by this
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fix. You can use it to assign a temperature :doc:`compute <compute>`
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@ -127,6 +127,14 @@ thermal degrees of freedom, and the bias is added back in.
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**Restart, fix_modify, output, run start/stop, minimize info:**
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These fixes write the cumulative global energy change and the
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random number generator states to :doc:`binary restart files <restart>`.
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See the :doc:`read_restart <read_restart>` command for info on how to
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re-specify a fix in an input script that reads a restart file,
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so that the selected fix continues in an uninterrupted fashion. The
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random number generator state can only be restored when the number
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of processors remains unchanged from what is recorded in the restart file.
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No information about these fixes are written to :doc:`binary restart files <restart>`.
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The :doc:`fix_modify <fix_modify>` *temp* option is supported by these
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@ -60,7 +60,7 @@ For the *linear* style, the distance *R* is used to find the 2
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surrounding table values from which an energy or force is computed by
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linear interpolation.
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For the *spline* style, a cubic spline coefficients are computed and
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For the *spline* style, cubic spline coefficients are computed and
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stored for each of the *N* values in the table, one set of splines for
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energy, another for force. Note that these splines are different than
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the ones used to pre-compute the *N* values. Those splines were fit
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@ -545,10 +545,7 @@ void PairLJCutCoulLong::compute_outer(int eflag, int vflag)
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}
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} else forcecoul = 0.0;
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if (rsq <= cut_in_off_sq) {
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r6inv = r2inv*r2inv*r2inv;
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forcelj = r6inv * (lj1[itype][jtype]*r6inv - lj2[itype][jtype]);
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} else if (rsq <= cut_in_on_sq) {
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if (rsq < cut_ljsq[itype][jtype]) {
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r6inv = r2inv*r2inv*r2inv;
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forcelj = r6inv * (lj1[itype][jtype]*r6inv - lj2[itype][jtype]);
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}
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@ -382,8 +382,6 @@ void PairE3B::settings(int narg, char **arg)
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{
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if (narg != 1) error->all(FLERR,"Illegal pair_style command");
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typeO=force->inumeric(FLERR,arg[0]);
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if (typeO<1 || typeO>atom->ntypes)
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error->all(FLERR,"Invalid Otype: out of bounds");
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}
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/* ----------------------------------------------------------------------
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@ -477,6 +475,8 @@ void PairE3B::init_style()
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error->all(FLERR,"Pair style E3B requires atom IDs");
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if (force->newton_pair == 0)
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error->all(FLERR,"Pair style E3B requires newton pair on");
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if (typeO<1 || typeO>atom->ntypes)
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error->all(FLERR,"Invalid Otype: out of bounds");
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// need a half neighbor list
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neighbor->request(this,instance_me);
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@ -51,7 +51,13 @@ using namespace LAMMPS_NS;
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/* ---------------------------------------------------------------------- */
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PairEDIP::PairEDIP(LAMMPS *lmp) : Pair(lmp)
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PairEDIP::PairEDIP(LAMMPS *lmp) :
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Pair(lmp), preInvR_ij(NULL), preExp3B_ij(NULL), preExp3BDerived_ij(NULL),
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preExp2B_ij(NULL), preExp2BDerived_ij(NULL), prePow2B_ij(NULL),
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preForceCoord(NULL), cutoffFunction(NULL), cutoffFunctionDerived(NULL),
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pow2B(NULL), exp2B(NULL), exp3B(NULL), qFunctionGrid(NULL),
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expMinusBetaZeta_iZeta_iGrid(NULL), tauFunctionGrid(NULL),
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tauFunctionDerivedGrid(NULL)
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{
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single_enable = 0;
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restartinfo = 0;
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@ -503,6 +509,8 @@ void PairEDIP::allocateGrids(void)
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double maxArgumentExpMinusBetaZeta_iZeta_i;
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double const leftLimitToZero = -DBL_MIN * 1000.0;
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deallocateGrids();
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// tauFunctionGrid
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maxArgumentTauFunctionGrid = leadDimInteractionList;
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@ -561,6 +569,7 @@ void PairEDIP::allocatePreLoops(void)
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{
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int nthreads = comm->nthreads;
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deallocatePreLoops();
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memory->create(preInvR_ij,nthreads*leadDimInteractionList,"edip:preInvR_ij");
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memory->create(preExp3B_ij,nthreads*leadDimInteractionList,"edip:preExp3B_ij");
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memory->create(preExp3BDerived_ij,nthreads*leadDimInteractionList,
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@ -226,8 +226,8 @@ void PairLennardMDF::coeff(int narg, char **arg)
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cut_inner_one = force->numeric(FLERR,arg[4]);
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cut_one = force->numeric(FLERR,arg[5]);
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}
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if (cut_inner_global <= 0.0 || cut_inner_global > cut_global)
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error->all(FLERR,"Illegal pair_style command");
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if (cut_inner_one <= 0.0 || cut_inner_one > cut_one)
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error->all(FLERR,"Illegal pair_coeff command");
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int count = 0;
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for (int i = ilo; i <= ihi; i++) {
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@ -328,6 +328,8 @@ void PairLennardMDF::read_restart(FILE *fp)
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void PairLennardMDF::write_restart_settings(FILE *fp)
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{
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fwrite(&mix_flag,sizeof(int),1,fp);
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fwrite(&cut_global,sizeof(double),1,fp);
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fwrite(&cut_inner_global,sizeof(double),1,fp);
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}
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/* ----------------------------------------------------------------------
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@ -339,8 +341,12 @@ void PairLennardMDF::read_restart_settings(FILE *fp)
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int me = comm->me;
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if (me == 0) {
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utils::sfread(FLERR,&mix_flag,sizeof(int),1,fp,NULL,error);
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utils::sfread(FLERR,&cut_global,sizeof(double),1,fp,NULL,error);
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utils::sfread(FLERR,&cut_inner_global,sizeof(double),1,fp,NULL,error);
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}
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MPI_Bcast(&mix_flag,1,MPI_INT,0,world);
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MPI_Bcast(&cut_global,1,MPI_DOUBLE,0,world);
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MPI_Bcast(&cut_inner_global,1,MPI_DOUBLE,0,world);
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}
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/* ----------------------------------------------------------------------
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@ -53,6 +53,7 @@ PairLJExpandCoulLong::PairLJExpandCoulLong(LAMMPS *lmp) : Pair(lmp)
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writedata = 1;
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ftable = NULL;
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qdist = 0.0;
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cut_respa = NULL;
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}
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/* ---------------------------------------------------------------------- */
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@ -167,7 +168,7 @@ void PairLJExpandCoulLong::compute(int eflag, int vflag)
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rshift2inv = 1.0/rshiftsq;
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r6inv = rshift2inv*rshift2inv*rshift2inv;
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forcelj = r6inv * (lj1[itype][jtype]*r6inv - lj2[itype][jtype]);
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forcelj = factor_lj*forcelj/rshift/r;
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forcelj *= factor_lj/rshift/r;
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} else forcelj = 0.0;
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fpair = forcecoul*r2inv + forcelj;
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@ -276,7 +277,7 @@ void PairLJExpandCoulLong::compute_inner()
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rshift2inv = 1.0/rshiftsq;
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r6inv = rshift2inv*rshift2inv*rshift2inv;
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forcelj = r6inv * (lj1[itype][jtype]*r6inv - lj2[itype][jtype]);
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forcelj = factor_lj*forcelj/rshift/r;
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forcelj *= factor_lj/rshift/r;
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} else forcelj = 0.0;
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fpair = forcecoul*r2inv + forcelj;
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@ -371,7 +372,7 @@ void PairLJExpandCoulLong::compute_middle()
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rshift2inv = 1.0/rshiftsq;
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r6inv = rshift2inv*rshift2inv*rshift2inv;
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forcelj = r6inv * (lj1[itype][jtype]*r6inv - lj2[itype][jtype]);
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forcelj = factor_lj*forcelj/rshift/r;
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forcelj *= factor_lj/rshift/r;
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} else forcelj = 0.0;
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fpair = forcecoul*r2inv + forcelj;
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@ -506,7 +507,7 @@ void PairLJExpandCoulLong::compute_outer(int eflag, int vflag)
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rshift2inv = 1.0/rshiftsq;
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r6inv = rshift2inv*rshift2inv*rshift2inv;
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forcelj = r6inv * (lj1[itype][jtype]*r6inv - lj2[itype][jtype]);
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forcelj = factor_lj*forcelj/rshift/r;
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forcelj *= factor_lj/rshift/r;
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if (rsq < cut_in_on_sq) {
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rsw = (sqrt(rsq) - cut_in_off)/cut_in_diff;
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forcelj *= rsw*rsw*(3.0 - 2.0*rsw);
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@ -524,6 +525,7 @@ void PairLJExpandCoulLong::compute_outer(int eflag, int vflag)
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f[j][2] -= delz*fpair;
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}
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if (evflag) ecoul = evdwl = 0.0;
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if (eflag) {
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if (rsq < cut_coulsq) {
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if (!ncoultablebits || rsq <= tabinnersq) {
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@ -538,14 +540,18 @@ void PairLJExpandCoulLong::compute_outer(int eflag, int vflag)
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ecoul -= (1.0-factor_coul)*prefactor;
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}
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}
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} else ecoul = 0.0;
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}
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if (rsq < cut_ljsq[itype][jtype]) {
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r6inv = r2inv*r2inv*r2inv;
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r = sqrt(rsq);
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rshift = r - shift[itype][jtype];
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rshiftsq = rshift*rshift;
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rshift2inv = 1.0/rshiftsq;
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r6inv = rshift2inv*rshift2inv*rshift2inv;
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evdwl = r6inv*(lj3[itype][jtype]*r6inv-lj4[itype][jtype]) -
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offset[itype][jtype];
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evdwl *= factor_lj;
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} else evdwl = 0.0;
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}
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}
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if (vflag) {
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@ -564,15 +570,18 @@ void PairLJExpandCoulLong::compute_outer(int eflag, int vflag)
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}
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} else forcecoul = 0.0;
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if (rsq <= cut_in_off_sq) {
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r6inv = r2inv*r2inv*r2inv;
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if (rsq < cut_ljsq[itype][jtype]) {
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r = sqrt(rsq);
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rshift = r - shift[itype][jtype];
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rshiftsq = rshift*rshift;
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rshift2inv = 1.0/rshiftsq;
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r6inv = rshift2inv*rshift2inv*rshift2inv;
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forcelj = r6inv * (lj1[itype][jtype]*r6inv - lj2[itype][jtype]);
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} else if (rsq <= cut_in_on_sq) {
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r6inv = r2inv*r2inv*r2inv;
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forcelj = r6inv * (lj1[itype][jtype]*r6inv - lj2[itype][jtype]);
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}
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fpair = (forcecoul + factor_lj*forcelj) * r2inv;
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}
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forcelj *= factor_lj/rshift/r;
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} else forcelj = 0.0;
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fpair = forcecoul*r2inv + forcelj;
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} else fpair = 0.0;
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if (evflag) ev_tally(i,j,nlocal,newton_pair,
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evdwl,ecoul,fpair,delx,dely,delz);
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@ -946,11 +955,16 @@ double PairLJExpandCoulLong::single(int i, int j, int itype, int jtype,
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} else forcecoul = 0.0;
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if (rsq < cut_ljsq[itype][jtype]) {
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r6inv = r2inv*r2inv*r2inv;
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r = sqrt(rsq);
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double rshift = r - shift[itype][jtype];
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double rshiftsq = rshift*rshift;
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double rshift2inv = 1.0/rshiftsq;
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r6inv = rshift2inv*rshift2inv*rshift2inv;
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forcelj = r6inv * (lj1[itype][jtype]*r6inv - lj2[itype][jtype]);
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forcelj *= factor_lj/rshift/r;
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} else forcelj = 0.0;
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fforce = (forcecoul + factor_lj*forcelj) * r2inv;
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fforce = forcecoul*r2inv + forcelj;
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double eng = 0.0;
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if (rsq < cut_coulsq) {
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|
|
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@ -57,6 +57,7 @@ PairMEAMSpline::PairMEAMSpline(LAMMPS *lmp) : Pair(lmp)
|
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|
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nelements = 0;
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elements = NULL;
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map = NULL;
|
||||
|
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Uprime_values = NULL;
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nmax = 0;
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|
@ -65,6 +66,14 @@ PairMEAMSpline::PairMEAMSpline(LAMMPS *lmp) : Pair(lmp)
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|
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comm_forward = 1;
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comm_reverse = 0;
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|
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phis = NULL;
|
||||
Us = NULL;
|
||||
rhos = NULL;
|
||||
fs = NULL;
|
||||
gs = NULL;
|
||||
|
||||
zero_atom_energies = NULL;
|
||||
}
|
||||
|
||||
/* ---------------------------------------------------------------------- */
|
||||
|
@ -332,6 +341,8 @@ void PairMEAMSpline::allocate()
|
|||
allocated = 1;
|
||||
int n = nelements;
|
||||
|
||||
memory->destroy(setflag);
|
||||
memory->destroy(cutsq);
|
||||
memory->create(setflag,n+1,n+1,"pair:setflag");
|
||||
memory->create(cutsq,n+1,n+1,"pair:cutsq");
|
||||
|
||||
|
@ -339,14 +350,21 @@ void PairMEAMSpline::allocate()
|
|||
//Change the functional form
|
||||
//f_ij->f_i
|
||||
//g_i(cos\theta_ijk)->g_jk(cos\theta_ijk)
|
||||
delete[] phis;
|
||||
delete[] Us;
|
||||
delete[] rhos;
|
||||
delete[] fs;
|
||||
delete[] gs;
|
||||
phis = new SplineFunction[nmultichoose2];
|
||||
Us = new SplineFunction[n];
|
||||
rhos = new SplineFunction[n];
|
||||
fs = new SplineFunction[n];
|
||||
gs = new SplineFunction[nmultichoose2];
|
||||
|
||||
delete[] zero_atom_energies;
|
||||
zero_atom_energies = new double[n];
|
||||
|
||||
delete[] map;
|
||||
map = new int[n+1];
|
||||
for (int i=0; i <= n; ++i) map[i] = -1;
|
||||
}
|
||||
|
@ -470,6 +488,9 @@ void PairMEAMSpline::read_file(const char* filename)
|
|||
if (nelements < 1)
|
||||
error->one(FLERR, "Invalid number of atomic species on"
|
||||
" meam/spline line in potential file");
|
||||
if (elements)
|
||||
for (int i = 0; i < nelements; i++) delete [] elements[i];
|
||||
delete [] elements;
|
||||
elements = new char*[nelements];
|
||||
for (int i=0; i<nelements; ++i) {
|
||||
ptr = strtok(NULL," \t\n\r\f");
|
||||
|
|
|
@ -201,14 +201,6 @@ void PairMorseSmoothLinear::coeff(int narg, char **arg)
|
|||
alpha[i][j] = alpha_one;
|
||||
r0[i][j] = r0_one;
|
||||
cut[i][j] = cut_one;
|
||||
|
||||
morse1[i][j] = 2.0*d0[i][j]*alpha[i][j];
|
||||
|
||||
double alpha_dr = -alpha[i][j] * (cut[i][j] - r0[i][j]);
|
||||
|
||||
offset[i][j] = d0[i][j] * (exp(2.0*alpha_dr) - 2.0*exp(alpha_dr));
|
||||
der_at_cutoff[i][j] = -2.0*alpha[i][j]*d0[i][j] * (exp(2.0*alpha_dr) - exp(alpha_dr));
|
||||
|
||||
setflag[i][j] = 1;
|
||||
count++;
|
||||
}
|
||||
|
@ -227,6 +219,9 @@ double PairMorseSmoothLinear::init_one(int i, int j)
|
|||
if (setflag[i][j] == 0) error->all(FLERR,"All pair coeffs are not set");
|
||||
|
||||
morse1[i][j] = 2.0*d0[i][j]*alpha[i][j];
|
||||
double alpha_dr = -alpha[i][j] * (cut[i][j] - r0[i][j]);
|
||||
offset[i][j] = d0[i][j] * (exp(2.0*alpha_dr) - 2.0*exp(alpha_dr));
|
||||
der_at_cutoff[i][j] = -2.0*alpha[i][j]*d0[i][j] * (exp(2.0*alpha_dr) - exp(alpha_dr));
|
||||
|
||||
d0[j][i] = d0[i][j];
|
||||
alpha[j][i] = alpha[i][j];
|
||||
|
|
|
@ -35,8 +35,6 @@ PairMorseSmoothLinearOMP::PairMorseSmoothLinearOMP(LAMMPS *lmp) :
|
|||
respa_enable = 0;
|
||||
}
|
||||
|
||||
|
||||
|
||||
/* ---------------------------------------------------------------------- */
|
||||
|
||||
void PairMorseSmoothLinearOMP::compute(int eflag, int vflag)
|
||||
|
@ -76,8 +74,6 @@ void PairMorseSmoothLinearOMP::compute(int eflag, int vflag)
|
|||
} // end of omp parallel region
|
||||
}
|
||||
|
||||
|
||||
|
||||
template <int EVFLAG, int EFLAG, int NEWTON_PAIR>
|
||||
void PairMorseSmoothLinearOMP::eval(int iifrom, int iito, ThrData * const thr)
|
||||
{
|
||||
|
@ -129,7 +125,7 @@ void PairMorseSmoothLinearOMP::eval(int iifrom, int iito, ThrData * const thr)
|
|||
dexp = exp(-alpha[itype][jtype] * dr);
|
||||
|
||||
fpartial = morse1[itype][jtype] * (dexp*dexp - dexp) / r;
|
||||
fpair = factor_lj * ( fpartial - der_at_cutoff[itype][jtype] / r);
|
||||
fpair = factor_lj * ( fpartial + der_at_cutoff[itype][jtype] / r);
|
||||
|
||||
fxtmp += delx*fpair;
|
||||
fytmp += dely*fpair;
|
||||
|
@ -143,7 +139,7 @@ void PairMorseSmoothLinearOMP::eval(int iifrom, int iito, ThrData * const thr)
|
|||
if (EFLAG) {
|
||||
evdwl = d0[itype][jtype] * (dexp*dexp - 2.0*dexp) -
|
||||
offset[itype][jtype];
|
||||
evdwl += ( r - cut[itype][jtype] ) * der_at_cutoff[itype][jtype];
|
||||
evdwl -= ( r - cut[itype][jtype] ) * der_at_cutoff[itype][jtype];
|
||||
evdwl *= factor_lj;
|
||||
}
|
||||
|
||||
|
|
|
@ -297,8 +297,14 @@ void FixSetForce::post_force_respa(int vflag, int ilevel, int /*iloop*/)
|
|||
{
|
||||
// set force to desired value on requested level, 0.0 on other levels
|
||||
|
||||
if (ilevel == ilevel_respa) post_force(vflag);
|
||||
else {
|
||||
if (ilevel == 0) foriginal_saved[0] = foriginal_saved[1] = foriginal_saved[2] = 0.0;
|
||||
|
||||
if (ilevel == ilevel_respa) {
|
||||
post_force(vflag);
|
||||
foriginal[0] += foriginal_saved[0];
|
||||
foriginal[1] += foriginal_saved[1];
|
||||
foriginal[2] += foriginal_saved[2];
|
||||
} else {
|
||||
Region *region = NULL;
|
||||
if (iregion >= 0) {
|
||||
region = domain->regions[iregion];
|
||||
|
@ -313,6 +319,9 @@ void FixSetForce::post_force_respa(int vflag, int ilevel, int /*iloop*/)
|
|||
for (int i = 0; i < nlocal; i++)
|
||||
if (mask[i] & groupbit) {
|
||||
if (region && !region->match(x[i][0],x[i][1],x[i][2])) continue;
|
||||
foriginal_saved[0] += f[i][0];
|
||||
foriginal_saved[1] += f[i][1];
|
||||
foriginal_saved[2] += f[i][2];
|
||||
if (xstyle) f[i][0] = 0.0;
|
||||
if (ystyle) f[i][1] = 0.0;
|
||||
if (zstyle) f[i][2] = 0.0;
|
||||
|
|
|
@ -45,7 +45,7 @@ class FixSetForce : public Fix {
|
|||
char *xstr,*ystr,*zstr;
|
||||
char *idregion;
|
||||
int xvar,yvar,zvar,xstyle,ystyle,zstyle;
|
||||
double foriginal[3],foriginal_all[3];
|
||||
double foriginal[3],foriginal_all[3],foriginal_saved[3];
|
||||
int force_flag;
|
||||
int nlevels_respa,ilevel_respa;
|
||||
|
||||
|
|
|
@ -43,6 +43,7 @@ FixTempBerendsen::FixTempBerendsen(LAMMPS *lmp, int narg, char **arg) :
|
|||
|
||||
// Berendsen thermostat should be applied every step
|
||||
|
||||
restart_global = 1;
|
||||
dynamic_group_allow = 1;
|
||||
nevery = 1;
|
||||
scalar_flag = 1;
|
||||
|
@ -241,6 +242,34 @@ double FixTempBerendsen::compute_scalar()
|
|||
return energy;
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
pack entire state of Fix into one write
|
||||
------------------------------------------------------------------------- */
|
||||
|
||||
void FixTempBerendsen::write_restart(FILE *fp)
|
||||
{
|
||||
int n = 0;
|
||||
double list[1];
|
||||
list[n++] = energy;
|
||||
|
||||
if (comm->me == 0) {
|
||||
int size = n * sizeof(double);
|
||||
fwrite(&size,sizeof(int),1,fp);
|
||||
fwrite(list,sizeof(double),n,fp);
|
||||
}
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
use state info from restart file to restart the Fix
|
||||
------------------------------------------------------------------------- */
|
||||
|
||||
void FixTempBerendsen::restart(char *buf)
|
||||
{
|
||||
double *list = (double *) buf;
|
||||
|
||||
energy = list[0];
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
extract thermostat properties
|
||||
------------------------------------------------------------------------- */
|
||||
|
|
|
@ -34,6 +34,8 @@ class FixTempBerendsen : public Fix {
|
|||
int modify_param(int, char **);
|
||||
void reset_target(double);
|
||||
double compute_scalar();
|
||||
void write_restart(FILE *);
|
||||
void restart(char *buf);
|
||||
virtual void *extract(const char *, int &);
|
||||
|
||||
private:
|
||||
|
|
|
@ -49,6 +49,7 @@ FixTempCSLD::FixTempCSLD(LAMMPS *lmp, int narg, char **arg) :
|
|||
|
||||
// CSLD thermostat should be applied every step
|
||||
|
||||
restart_global = 1;
|
||||
nevery = 1;
|
||||
scalar_flag = 1;
|
||||
global_freq = nevery;
|
||||
|
@ -297,6 +298,46 @@ double FixTempCSLD::compute_scalar()
|
|||
return energy;
|
||||
}
|
||||
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
pack entire state of Fix into one write
|
||||
------------------------------------------------------------------------- */
|
||||
|
||||
void FixTempCSLD::write_restart(FILE *fp)
|
||||
{
|
||||
int nsize = (98+2+3)*comm->nprocs+2; // pRNG state per proc + nprocs + energy
|
||||
double *list;
|
||||
if (comm->me == 0) list = new double[nsize];
|
||||
list[0] = energy;
|
||||
list[1] = comm->nprocs;
|
||||
double state[103];
|
||||
random->get_state(state);
|
||||
MPI_Gather(state,103,MPI_DOUBLE,list+2,103*comm->nprocs,MPI_DOUBLE,0,world);
|
||||
|
||||
if (comm->me == 0) {
|
||||
int size = nsize * sizeof(double);
|
||||
fwrite(&size,sizeof(int),1,fp);
|
||||
fwrite(list,sizeof(double),nsize,fp);
|
||||
}
|
||||
if (comm->me == 0) delete[] list;
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
use state info from restart file to restart the Fix
|
||||
------------------------------------------------------------------------- */
|
||||
|
||||
void FixTempCSLD::restart(char *buf)
|
||||
{
|
||||
double *list = (double *) buf;
|
||||
|
||||
energy = list[0];
|
||||
int nprocs = (int) list[1];
|
||||
if (nprocs != comm->nprocs) {
|
||||
if (comm->me == 0)
|
||||
error->warning(FLERR,"Different number of procs. Cannot restore RNG state.");
|
||||
} else random->set_state(list+2+comm->me*103);
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
extract thermostat properties
|
||||
------------------------------------------------------------------------- */
|
||||
|
|
|
@ -34,6 +34,8 @@ class FixTempCSLD : public Fix {
|
|||
int modify_param(int, char **);
|
||||
void reset_target(double);
|
||||
virtual double compute_scalar();
|
||||
void write_restart(FILE *);
|
||||
void restart(char *buf);
|
||||
virtual void *extract(const char *, int &);
|
||||
|
||||
private:
|
||||
|
|
|
@ -126,6 +126,7 @@ FixTempCSVR::FixTempCSVR(LAMMPS *lmp, int narg, char **arg) :
|
|||
|
||||
// CSVR thermostat should be applied every step
|
||||
|
||||
restart_global = 1;
|
||||
nevery = 1;
|
||||
scalar_flag = 1;
|
||||
global_freq = nevery;
|
||||
|
@ -331,6 +332,45 @@ double FixTempCSVR::compute_scalar()
|
|||
return energy;
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
pack entire state of Fix into one write
|
||||
------------------------------------------------------------------------- */
|
||||
|
||||
void FixTempCSVR::write_restart(FILE *fp)
|
||||
{
|
||||
int nsize = (98+2+3)*comm->nprocs+2; // pRNG state per proc + nprocs + energy
|
||||
double *list;
|
||||
if (comm->me == 0) list = new double[nsize];
|
||||
list[0] = energy;
|
||||
list[1] = comm->nprocs;
|
||||
double state[103];
|
||||
random->get_state(state);
|
||||
MPI_Gather(state,103,MPI_DOUBLE,list+2,103*comm->nprocs,MPI_DOUBLE,0,world);
|
||||
|
||||
if (comm->me == 0) {
|
||||
int size = nsize * sizeof(double);
|
||||
fwrite(&size,sizeof(int),1,fp);
|
||||
fwrite(list,sizeof(double),nsize,fp);
|
||||
}
|
||||
if (comm->me == 0) delete[] list;
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
use state info from restart file to restart the Fix
|
||||
------------------------------------------------------------------------- */
|
||||
|
||||
void FixTempCSVR::restart(char *buf)
|
||||
{
|
||||
double *list = (double *) buf;
|
||||
|
||||
energy = list[0];
|
||||
int nprocs = (int) list[1];
|
||||
if (nprocs != comm->nprocs) {
|
||||
if (comm->me == 0)
|
||||
error->warning(FLERR,"Different number of procs. Cannot restore RNG state.");
|
||||
} else random->set_state(list+2+comm->me*103);
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
extract thermostat properties
|
||||
------------------------------------------------------------------------- */
|
||||
|
|
|
@ -34,6 +34,8 @@ class FixTempCSVR : public Fix {
|
|||
int modify_param(int, char **);
|
||||
void reset_target(double);
|
||||
virtual double compute_scalar();
|
||||
void write_restart(FILE *);
|
||||
void restart(char *buf);
|
||||
virtual void *extract(const char *, int &);
|
||||
|
||||
private:
|
||||
|
|
|
@ -458,25 +458,25 @@ void PairTable::read_table(Table *tb, char *file, char *keyword)
|
|||
}
|
||||
|
||||
if (ferror)
|
||||
error->warning(FLERR,fmt::format("{} of {} force values in table are "
|
||||
error->warning(FLERR,fmt::format("{} of {} force values in table {} are "
|
||||
"inconsistent with -dE/dr.\n Should "
|
||||
"only be flagged at inflection points",
|
||||
ferror,tb->ninput));
|
||||
ferror,tb->ninput,keyword));
|
||||
|
||||
// warn if re-computed distance values differ from file values
|
||||
|
||||
if (rerror)
|
||||
error->warning(FLERR,fmt::format("{} of {} distance values in table with "
|
||||
"relative error\n over {} to "
|
||||
error->warning(FLERR,fmt::format("{} of {} distance values in table {} "
|
||||
"with relative error\n over {} to "
|
||||
"re-computed values",
|
||||
rerror,tb->ninput,EPSILONR));
|
||||
rerror,tb->ninput,EPSILONR,keyword));
|
||||
|
||||
// warn if data was read incompletely, e.g. columns were missing
|
||||
|
||||
if (cerror)
|
||||
error->warning(FLERR,fmt::format("{} of {} lines in table were "
|
||||
error->warning(FLERR,fmt::format("{} of {} lines in table {} were "
|
||||
"incomplete\n or could not be parsed "
|
||||
"completely",cerror,tb->ninput));
|
||||
"completely",cerror,tb->ninput,keyword));
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
|
|
|
@ -16,6 +16,7 @@
|
|||
|
||||
#include "random_mars.h"
|
||||
#include <cmath>
|
||||
#include <cstring>
|
||||
#include "error.h"
|
||||
#include "math_const.h"
|
||||
|
||||
|
@ -36,6 +37,7 @@ RanMars::RanMars(LAMMPS *lmp, int seed) : Pointers(lmp),
|
|||
|
||||
save = 0;
|
||||
u = new double[97+1];
|
||||
memset(u,0,98*sizeof(double));
|
||||
|
||||
ij = (seed-1)/30082;
|
||||
kl = (seed-1) - 30082*ij;
|
||||
|
@ -181,7 +183,7 @@ double RanMars::besselexp(double theta, double alpha, double cp)
|
|||
void RanMars::select_subset(bigint ntarget, int nmine, int *mark, int *next)
|
||||
{
|
||||
int mode,index,oldindex,newvalue,nflip,which,niter;
|
||||
int active[2],first[2],last[2];
|
||||
int active[2],first[2];
|
||||
int newactive[2],newfirst[2],newlast[2];
|
||||
bigint nmark,nflipall;
|
||||
bigint activeall[2],bsum[3],bsumall[3];
|
||||
|
@ -191,8 +193,6 @@ void RanMars::select_subset(bigint ntarget, int nmine, int *mark, int *next)
|
|||
active[1] = 0;
|
||||
first[0] = 0;
|
||||
first[1] = -1;
|
||||
last[0] = nmine-1;
|
||||
last[1] = -1;
|
||||
|
||||
bigint bnmine = nmine;
|
||||
bigint bnall;
|
||||
|
@ -266,8 +266,6 @@ void RanMars::select_subset(bigint ntarget, int nmine, int *mark, int *next)
|
|||
active[1] = newactive[1];
|
||||
first[0] = newfirst[0];
|
||||
first[1] = newfirst[1];
|
||||
last[0] = newlast[0];
|
||||
last[1] = newlast[1];
|
||||
}
|
||||
|
||||
// update nmark and activeall
|
||||
|
@ -291,3 +289,31 @@ void RanMars::select_subset(bigint ntarget, int nmine, int *mark, int *next)
|
|||
// niter,nmark,nactiveall,thresh,nflipall);
|
||||
}
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
store state in buffer
|
||||
------------------------------------------------------------------------- */
|
||||
|
||||
void RanMars::get_state(double *state)
|
||||
{
|
||||
for (int i=0; i < 98; ++i) state[i] = u[i];
|
||||
state[98] = i97;
|
||||
state[99] = j97;
|
||||
state[100]= c;
|
||||
state[101]= cd;
|
||||
state[102]= cm;
|
||||
}
|
||||
|
||||
/* ----------------------------------------------------------------------
|
||||
restore state from buffer
|
||||
------------------------------------------------------------------------- */
|
||||
|
||||
void RanMars::set_state(double *state)
|
||||
{
|
||||
for (int i=0; i < 98; ++i) u[i] = state[i];
|
||||
i97 = state[98];
|
||||
j97 = state[99];
|
||||
c = state[100];
|
||||
cd = state[101];
|
||||
cm = state[102];
|
||||
}
|
||||
|
|
|
@ -28,6 +28,8 @@ class RanMars : protected Pointers {
|
|||
double rayleigh(double sigma);
|
||||
double besselexp(double theta, double alpha, double cp);
|
||||
void select_subset(bigint, int, int *, int *);
|
||||
void get_state(double *);
|
||||
void set_state(double *);
|
||||
|
||||
private:
|
||||
int save;
|
||||
|
|
|
@ -67,7 +67,7 @@ void Velocity::command(int narg, char **arg)
|
|||
|
||||
// check if velocities of atoms in rigid bodies are updated
|
||||
|
||||
if (modify->check_rigid_group_overlap(groupbit))
|
||||
if (modify->check_rigid_group_overlap(groupbit) && (comm->me == 0))
|
||||
error->warning(FLERR,"Changing velocities of atoms in rigid bodies. "
|
||||
"This has no effect unless rigid bodies are rebuild");
|
||||
|
||||
|
@ -200,7 +200,7 @@ void Velocity::create(double t_desired, int seed)
|
|||
// initialize temperature computation(s)
|
||||
// warn if groups don't match
|
||||
|
||||
if (igroup != temperature->igroup && comm->me == 0)
|
||||
if ((igroup != temperature->igroup) && (comm->me == 0))
|
||||
error->warning(FLERR,"Mismatch between velocity and compute groups");
|
||||
temperature->init();
|
||||
temperature->setup();
|
||||
|
@ -596,7 +596,7 @@ void Velocity::scale(int /*narg*/, char **arg)
|
|||
// initialize temperature computation
|
||||
// warn if groups don't match
|
||||
|
||||
if (igroup != temperature->igroup && comm->me == 0)
|
||||
if ((igroup != temperature->igroup) && (comm->me == 0))
|
||||
error->warning(FLERR,"Mismatch between velocity and compute groups");
|
||||
temperature->init();
|
||||
temperature->setup();
|
||||
|
|
|
@ -1,9 +1,9 @@
|
|||
include(GTest)
|
||||
|
||||
add_subdirectory(force-styles)
|
||||
add_subdirectory(utils)
|
||||
add_subdirectory(formats)
|
||||
add_subdirectory(commands)
|
||||
add_subdirectory(force-styles)
|
||||
|
||||
find_package(ClangFormat 8.0)
|
||||
|
||||
|
|
|
@ -660,6 +660,8 @@ TEST_F(ResetIDsTest, TopologyData)
|
|||
|
||||
TEST_F(ResetIDsTest, DeathTests)
|
||||
{
|
||||
if (lmp->atom->natoms == 0) GTEST_SKIP();
|
||||
|
||||
TEST_FAILURE(".*ERROR: Illegal reset_mol_ids command.*", lmp->input->one("reset_mol_ids"););
|
||||
TEST_FAILURE(".*ERROR: Illegal reset_mol_ids command.*",
|
||||
lmp->input->one("reset_mol_ids all offset 1 1"););
|
||||
|
|
|
@ -114,3 +114,16 @@ foreach(TEST ${KSPACE_TESTS})
|
|||
add_test(NAME ${TNAME} COMMAND test_pair_style ${TEST} WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR})
|
||||
set_tests_properties(${TNAME} PROPERTIES ENVIRONMENT "LAMMPS_POTENTIALS=${LAMMPS_POTENTIALS_DIR};PYTHONPATH=${TEST_INPUT_FOLDER}:$ENV{PYTHONPATH}")
|
||||
endforeach()
|
||||
|
||||
# tester for timestepping fixes
|
||||
add_executable(test_fix_timestep test_fix_timestep.cpp)
|
||||
target_link_libraries(test_fix_timestep PRIVATE lammps style_tests)
|
||||
|
||||
# tests for timestep related fixes (time integration, thermostat, force manipulation, constraints/restraints)
|
||||
file(GLOB FIX_TIMESTEP_TESTS LIST_DIRECTORIES false ${TEST_INPUT_FOLDER}/fix-timestep-*.yaml)
|
||||
foreach(TEST ${FIX_TIMESTEP_TESTS})
|
||||
string(REGEX REPLACE "^.*fix-timestep-(.*)\.yaml" "FixTimestep:\\1" TNAME ${TEST})
|
||||
add_test(NAME ${TNAME} COMMAND test_fix_timestep ${TEST} WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR})
|
||||
set_tests_properties(${TNAME} PROPERTIES ENVIRONMENT "LAMMPS_POTENTIALS=${LAMMPS_POTENTIALS_DIR};PYTHONPATH=${TEST_INPUT_FOLDER}:$ENV{PYTHONPATH}")
|
||||
endforeach()
|
||||
|
||||
|
|
|
@ -55,6 +55,7 @@ kspace = {}
|
|||
pair = {}
|
||||
|
||||
style_pattern = re.compile("(.+)Style\((.+),(.+)\)")
|
||||
upper = re.compile("[A-Z]+")
|
||||
gpu = re.compile("(.+)/gpu$")
|
||||
intel = re.compile("(.+)/intel$")
|
||||
kokkos = re.compile("(.+)/kk$")
|
||||
|
@ -85,7 +86,7 @@ for header in headers:
|
|||
for m in matches:
|
||||
# skip over internal styles w/o explicit documentation
|
||||
style = m[1]
|
||||
if style.isupper():
|
||||
if upper.match(style):
|
||||
continue
|
||||
|
||||
# detect, process, and flag suffix styles:
|
||||
|
@ -131,6 +132,8 @@ for header in headers:
|
|||
register_style(kspace,style,info)
|
||||
elif m[0] == 'Pair':
|
||||
register_style(pair,style,info)
|
||||
elif m[0] == 'Fix':
|
||||
register_style(fix,style,info)
|
||||
|
||||
|
||||
|
||||
|
@ -179,6 +182,8 @@ counter += check_tests('improper',improper,'improper-*.yaml',
|
|||
'.*improper_style:\s*((\S+).*)?')
|
||||
counter += check_tests('kspace',kspace,'kspace-*.yaml',
|
||||
'.*kspace_style\s*((\S+).*)?')
|
||||
counter += check_tests('fix',fix,'fix-*.yaml',
|
||||
' fix\s+((\S+)\s*)?')
|
||||
|
||||
total = len(pair)+len(bond)+len(angle)+len(dihedral)+len(improper)+len(kspace)
|
||||
total = len(pair)+len(bond)+len(angle)+len(dihedral)+len(improper)+len(kspace)+len(fix)
|
||||
print(f"\nTotal tests missing: {counter} of {total}")
|
||||
|
|
|
@ -29,6 +29,7 @@ public:
|
|||
double dev() const;
|
||||
double max() const { return maxerr; }
|
||||
double idx() const { return maxidx; }
|
||||
bool has_data() const { return num > 0; }
|
||||
|
||||
private:
|
||||
double sum, sumsq, maxerr;
|
||||
|
|
|
@ -58,15 +58,21 @@ public:
|
|||
double run_coul;
|
||||
stress_t init_stress;
|
||||
stress_t run_stress;
|
||||
double global_scalar;
|
||||
std::vector<double> global_vector;
|
||||
std::vector<coord_t> init_forces;
|
||||
std::vector<coord_t> run_forces;
|
||||
std::vector<coord_t> run_pos;
|
||||
std::vector<coord_t> restart_pos;
|
||||
std::vector<coord_t> run_vel;
|
||||
std::vector<coord_t> restart_vel;
|
||||
|
||||
TestConfig() :
|
||||
lammps_version(""), date_generated(""), basename(""), epsilon(1.0e-14), input_file(""),
|
||||
pair_style("zero"), bond_style("zero"), angle_style("zero"), dihedral_style("zero"),
|
||||
improper_style("zero"), kspace_style("none"), natoms(0), init_energy(0), run_energy(0),
|
||||
init_vdwl(0), run_vdwl(0), init_coul(0), run_coul(0), init_stress({0, 0, 0, 0, 0, 0}),
|
||||
run_stress({0, 0, 0, 0, 0, 0})
|
||||
run_stress({0, 0, 0, 0, 0, 0}), global_scalar(0)
|
||||
{
|
||||
prerequisites.clear();
|
||||
pre_commands.clear();
|
||||
|
@ -79,6 +85,11 @@ public:
|
|||
extract.clear();
|
||||
init_forces.clear();
|
||||
run_forces.clear();
|
||||
run_pos.clear();
|
||||
restart_pos.clear();
|
||||
run_vel.clear();
|
||||
restart_vel.clear();
|
||||
global_vector.clear();
|
||||
}
|
||||
virtual ~TestConfig(){};
|
||||
|
||||
|
|
|
@ -40,6 +40,8 @@ TestConfigReader::TestConfigReader(TestConfig &config) : YamlReader(), config(co
|
|||
consumers["run_stress"] = &TestConfigReader::run_stress;
|
||||
consumers["init_forces"] = &TestConfigReader::init_forces;
|
||||
consumers["run_forces"] = &TestConfigReader::run_forces;
|
||||
consumers["run_pos"] = &TestConfigReader::run_pos;
|
||||
consumers["run_vel"] = &TestConfigReader::run_vel;
|
||||
|
||||
consumers["pair_style"] = &TestConfigReader::pair_style;
|
||||
consumers["pair_coeff"] = &TestConfigReader::pair_coeff;
|
||||
|
@ -48,6 +50,9 @@ TestConfigReader::TestConfigReader(TestConfig &config) : YamlReader(), config(co
|
|||
consumers["run_vdwl"] = &TestConfigReader::run_vdwl;
|
||||
consumers["run_coul"] = &TestConfigReader::run_coul;
|
||||
|
||||
consumers["global_scalar"] = &TestConfigReader::global_scalar;
|
||||
consumers["global_vector"] = &TestConfigReader::global_vector;
|
||||
|
||||
consumers["bond_style"] = &TestConfigReader::bond_style;
|
||||
consumers["bond_coeff"] = &TestConfigReader::bond_coeff;
|
||||
consumers["angle_style"] = &TestConfigReader::angle_style;
|
||||
|
@ -176,6 +181,36 @@ void TestConfigReader::run_forces(const yaml_event_t &event)
|
|||
}
|
||||
}
|
||||
|
||||
void TestConfigReader::run_pos(const yaml_event_t &event)
|
||||
{
|
||||
config.run_pos.clear();
|
||||
config.run_pos.resize(config.natoms + 1);
|
||||
std::stringstream data((char *)event.data.scalar.value);
|
||||
std::string line;
|
||||
|
||||
while (std::getline(data, line, '\n')) {
|
||||
int tag;
|
||||
coord_t xyz;
|
||||
sscanf(line.c_str(), "%d %lg %lg %lg", &tag, &xyz.x, &xyz.y, &xyz.z);
|
||||
config.run_pos[tag] = xyz;
|
||||
}
|
||||
}
|
||||
|
||||
void TestConfigReader::run_vel(const yaml_event_t &event)
|
||||
{
|
||||
config.run_vel.clear();
|
||||
config.run_vel.resize(config.natoms + 1);
|
||||
std::stringstream data((char *)event.data.scalar.value);
|
||||
std::string line;
|
||||
|
||||
while (std::getline(data, line, '\n')) {
|
||||
int tag;
|
||||
coord_t xyz;
|
||||
sscanf(line.c_str(), "%d %lg %lg %lg", &tag, &xyz.x, &xyz.y, &xyz.z);
|
||||
config.run_vel[tag] = xyz;
|
||||
}
|
||||
}
|
||||
|
||||
void TestConfigReader::pair_style(const yaml_event_t &event)
|
||||
{
|
||||
config.pair_style = (char *)event.data.scalar.value;
|
||||
|
@ -267,3 +302,21 @@ void TestConfigReader::run_energy(const yaml_event_t &event)
|
|||
{
|
||||
config.run_energy = atof((char *)event.data.scalar.value);
|
||||
}
|
||||
|
||||
void TestConfigReader::global_scalar(const yaml_event_t &event)
|
||||
{
|
||||
config.global_scalar = atof((char *)event.data.scalar.value);
|
||||
}
|
||||
|
||||
void TestConfigReader::global_vector(const yaml_event_t &event)
|
||||
{
|
||||
std::stringstream data((char *)event.data.scalar.value);
|
||||
config.global_vector.clear();
|
||||
double value;
|
||||
std::size_t num;
|
||||
data >> num;
|
||||
for (std::size_t i = 0; i < num; ++i) {
|
||||
data >> value;
|
||||
config.global_vector.push_back(value);
|
||||
}
|
||||
}
|
||||
|
|
|
@ -36,6 +36,8 @@ public:
|
|||
void run_stress(const yaml_event_t &event);
|
||||
void init_forces(const yaml_event_t &event);
|
||||
void run_forces(const yaml_event_t &event);
|
||||
void run_pos(const yaml_event_t &event);
|
||||
void run_vel(const yaml_event_t &event);
|
||||
void pair_style(const yaml_event_t &event);
|
||||
void pair_coeff(const yaml_event_t &event);
|
||||
void bond_style(const yaml_event_t &event);
|
||||
|
@ -49,6 +51,8 @@ public:
|
|||
void run_coul(const yaml_event_t &event);
|
||||
void init_energy(const yaml_event_t &event);
|
||||
void run_energy(const yaml_event_t &event);
|
||||
void global_scalar(const yaml_event_t &event);
|
||||
void global_vector(const yaml_event_t &event);
|
||||
};
|
||||
|
||||
#endif
|
||||
|
|
|
@ -29,12 +29,14 @@ TEST(ErrorStats, test)
|
|||
ASSERT_EQ(out.str(), "Average: 5.800e-01 StdDev: 7.305e-01 MaxErr: 2.000e+00 @ item: 3.0");
|
||||
|
||||
stats.reset();
|
||||
ASSERT_EQ(stats.has_data(), false);
|
||||
ASSERT_DOUBLE_EQ(stats.avg(), 0.0);
|
||||
ASSERT_DOUBLE_EQ(stats.dev(), 0.0);
|
||||
ASSERT_DOUBLE_EQ(stats.max(), 0.0);
|
||||
ASSERT_EQ(stats.idx(), -1);
|
||||
|
||||
stats.add(1.0);
|
||||
ASSERT_EQ(stats.has_data(), true);
|
||||
ASSERT_DOUBLE_EQ(stats.avg(), 1.0);
|
||||
ASSERT_DOUBLE_EQ(stats.dev(), 0.0);
|
||||
ASSERT_DOUBLE_EQ(stats.max(), 1.0);
|
||||
|
|
File diff suppressed because it is too large
Load Diff
|
@ -102,13 +102,16 @@ int main(int argc, char **argv)
|
|||
if (strcmp(argv[iarg], "-g") == 0) {
|
||||
if (iarg + 1 < argc) {
|
||||
generate_yaml_file(argv[iarg + 1], test_config);
|
||||
MPI_Finalize();
|
||||
return 0;
|
||||
} else {
|
||||
usage(std::cerr, argv[0]);
|
||||
MPI_Finalize();
|
||||
return 1;
|
||||
}
|
||||
} else if (strcmp(argv[iarg], "-u") == 0) {
|
||||
generate_yaml_file(argv[1], test_config);
|
||||
MPI_Finalize();
|
||||
return 0;
|
||||
} else if (strcmp(argv[iarg], "-d") == 0) {
|
||||
if (iarg + 1 < argc) {
|
||||
|
@ -116,6 +119,7 @@ int main(int argc, char **argv)
|
|||
iarg += 2;
|
||||
} else {
|
||||
usage(std::cerr, argv[0]);
|
||||
MPI_Finalize();
|
||||
return 1;
|
||||
}
|
||||
} else if (strcmp(argv[iarg], "-s") == 0) {
|
||||
|
@ -127,6 +131,7 @@ int main(int argc, char **argv)
|
|||
} else {
|
||||
std::cerr << "unknown option: " << argv[iarg] << "\n\n";
|
||||
usage(std::cerr, argv[0]);
|
||||
MPI_Finalize();
|
||||
return 1;
|
||||
}
|
||||
}
|
||||
|
|
|
@ -1107,8 +1107,7 @@ TEST(PairStyle, single)
|
|||
(test_config.pair_style.substr(0, 14) == "yukawa/colloid") ||
|
||||
(test_config.pair_style.substr(0, 3) == "eam") ||
|
||||
((test_config.pair_style.substr(0, 6) == "hybrid") &&
|
||||
(test_config.pair_style.find("eam") != std::string::npos))
|
||||
) {
|
||||
(test_config.pair_style.find("eam") != std::string::npos))) {
|
||||
if (!verbose) ::testing::internal::CaptureStdout();
|
||||
cleanup_lammps(lmp, test_config);
|
||||
if (!verbose) ::testing::internal::GetCapturedStdout();
|
||||
|
|
|
@ -1,7 +1,7 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Fri Aug 7 16:11:57 202
|
||||
epsilon: 1e-14
|
||||
epsilon: 2e-14
|
||||
prerequisites: ! |
|
||||
pair edip
|
||||
pre_commands: ! |
|
||||
|
|
|
@ -0,0 +1,77 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Tue Aug 11 20:56:35 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix addforce
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix move all nve
|
||||
fix test solute addforce 0.0 -0.1 0.1
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: 1.48901835738129
|
||||
global_vector: ! |-
|
||||
3 0.030822392996626036 0.026014193882019754 -0.017708991389909556
|
||||
run_pos: ! |2
|
||||
1 -2.7045575291334861e-01 2.4912098953869757e+00 -1.6695239815574214e-01
|
||||
2 3.1004076900710170e-01 2.9612149597462425e+00 -8.5464329005027972e-01
|
||||
3 -7.0398549308743119e-01 1.2305439518786667e+00 -6.2776812583732400e-01
|
||||
4 -1.5818160726875390e+00 1.4837199951274893e+00 -1.2538503621778578e+00
|
||||
5 -9.0719748669903200e-01 9.2650033697311973e-01 3.9956266031649879e-01
|
||||
6 2.4831714249110262e-01 2.8312325631591767e-01 -1.2314165454625041e+00
|
||||
7 3.4143527198959711e-01 -2.2651747674360529e-02 -2.5292238033565768e+00
|
||||
8 1.1743553514271237e+00 -4.8863828453992741e-01 -6.3782817835070349e-01
|
||||
9 1.3800522445502728e+00 -2.5276822789361231e-01 2.8356018210481976e-01
|
||||
10 2.0510765111429961e+00 -1.4604133270429198e+00 -9.8323043580441027e-01
|
||||
11 1.7878031588883598e+00 -1.9922071845945071e+00 -1.8890394822792633e+00
|
||||
12 3.0063007413447411e+00 -4.9014063242955885e-01 -1.6231827019640992e+00
|
||||
13 4.0515402229636264e+00 -8.9204090546353654e-01 -1.6399797487882732e+00
|
||||
14 2.6066963018347171e+00 -4.1791325385826189e-01 -2.6633797762015425e+00
|
||||
15 2.9695287113240152e+00 5.5420546275525007e-01 -1.2341814098635149e+00
|
||||
16 2.6747030089515893e+00 -2.4124189004358674e+00 -2.3428869709464669e-02
|
||||
17 2.2153577487661584e+00 -2.0898037210104183e+00 1.1963203850079958e+00
|
||||
18 2.1369701704121455e+00 3.0158507413641966e+00 -3.5179348337229994e+00
|
||||
19 1.5355837136088100e+00 2.6255292355377717e+00 -4.2353987779882338e+00
|
||||
20 2.7727573005679371e+00 3.6923910449611110e+00 -3.9330842459134390e+00
|
||||
21 4.9040128073204006e+00 -4.0752348172958719e+00 -3.6210314709889815e+00
|
||||
22 4.3582355554440877e+00 -4.2126119427287128e+00 -4.4612844196313990e+00
|
||||
23 5.7439382849307599e+00 -3.5821957939275113e+00 -3.8766361295935736e+00
|
||||
24 2.0689243582419619e+00 3.1513346907267743e+00 3.1550389754827148e+00
|
||||
25 1.3045351331489012e+00 3.2665125705839713e+00 2.5111855257429738e+00
|
||||
26 2.5809237402711087e+00 4.0117602605482601e+00 3.2212060529089812e+00
|
||||
27 -1.9611343130352876e+00 -4.3563411931356626e+00 2.1098293115521889e+00
|
||||
28 -2.7473562684513193e+00 -4.0200819932379153e+00 1.5830052163433885e+00
|
||||
29 -1.3126000191359226e+00 -3.5962518039482334e+00 2.2746342468737333e+00
|
||||
run_vel: ! |2
|
||||
1 8.1702613218438691e-03 1.6510191351429417e-02 4.7964973237771503e-03
|
||||
2 5.4511084170875343e-03 5.1590481528437813e-03 -1.4175058774793692e-03
|
||||
3 -8.2297881733875439e-03 -1.2933678261753652e-02 -4.0910944229037285e-03
|
||||
4 -3.7701876602396953e-03 -6.5929809185369939e-03 -1.0979051123824390e-03
|
||||
5 -1.1021655940056645e-02 -9.9111987493572112e-03 -2.8208515585563172e-03
|
||||
6 -3.9676769272842236e-02 4.6810118626188314e-02 3.7155184099431124e-02
|
||||
7 9.1033245554758080e-04 -1.0133704610200299e-02 -5.1562858164992204e-02
|
||||
8 7.9067086761695892e-03 -3.3567238353401636e-03 3.4563427326757518e-02
|
||||
9 1.5640463507800002e-03 3.7153745906232053e-03 1.5067137863525135e-02
|
||||
10 2.9201431684716742e-02 -2.9256524162078218e-02 -1.5011015513636336e-02
|
||||
11 -4.7836707031183607e-03 -3.7689744526784260e-03 -2.3257693833597559e-03
|
||||
12 2.2697215661243897e-03 -3.5503408953511771e-04 -3.0568221042131718e-03
|
||||
13 2.7530266001101656e-03 5.7964078805919205e-03 -7.7394765650209171e-04
|
||||
14 3.5245514557562165e-03 -5.8145427341994562e-03 -3.9275617105511392e-03
|
||||
15 -1.8548103902428440e-03 -5.8759259808655083e-03 6.3145508812191310e-03
|
||||
16 1.8681562217261326e-02 -1.3269471066222347e-02 -4.5631826406699355e-02
|
||||
17 -1.2896316924809444e-02 9.7475788915801498e-03 3.7301887298077194e-02
|
||||
18 -8.0065794732626385e-04 -8.6270472984577718e-04 -1.4483040728194251e-03
|
||||
19 1.2452390837669909e-03 -2.5061097114590261e-03 7.2998631002926129e-03
|
||||
20 3.5930060230919166e-03 3.6938860311325015e-03 3.2322732685912069e-03
|
||||
21 -1.4689220371368486e-03 -2.7352129777820513e-04 7.0581624254054305e-04
|
||||
22 -7.0694199254559926e-03 -4.2577148925067674e-03 2.8079117615819173e-04
|
||||
23 6.0446963117369709e-03 -1.4000131614987045e-03 2.5819754847190117e-03
|
||||
24 3.1926367840560363e-04 -9.9445664816168633e-04 1.4999996925784762e-04
|
||||
25 1.3789754450351514e-04 -4.4335894890997355e-03 -8.1808136802931375e-04
|
||||
26 2.0485904034793470e-03 2.7813358633281375e-03 4.3245727149043870e-03
|
||||
27 4.5604120382313504e-04 -1.0305523020532397e-03 2.1188058344304351e-04
|
||||
28 -6.2544520861381259e-03 1.4127711176493136e-03 -1.8429821884921316e-03
|
||||
29 6.4110631547740983e-04 3.1273432720868841e-03 3.7253671104628787e-03
|
||||
...
|
|
@ -0,0 +1,82 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Tue Aug 11 20:56:35 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix addforce
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix init all store/state 0 x y z
|
||||
variable xforce delete
|
||||
variable xforce atom f_init[1]
|
||||
variable zforce delete
|
||||
variable zforce equal 0.1*step/10.0
|
||||
fix move all nve
|
||||
fix test solute addforce v_xforce 0.0 v_zforce
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: -66.6128081721324
|
||||
global_vector: ! |-
|
||||
3 0.030822805860552194 0.026012717110660333 -0.017710664092739137
|
||||
run_pos: ! |2
|
||||
1 -2.7047214228789879e-01 2.4912159473897288e+00 -1.6695741351125751e-01
|
||||
2 3.1010217675350321e-01 2.9612343643897283e+00 -8.5465678502037923e-01
|
||||
3 -7.0403575539675045e-01 1.2305513713119018e+00 -6.2777371590783770e-01
|
||||
4 -1.5821400298238728e+00 1.4837402879631465e+00 -1.2538644175974110e+00
|
||||
5 -9.0738248321725767e-01 9.2652118661051119e-01 3.9954717998547740e-01
|
||||
6 2.4833938838692704e-01 2.8312848343353764e-01 -1.2314198266861847e+00
|
||||
7 3.4145305574459789e-01 -2.2646551615904693e-02 -2.5292277033981856e+00
|
||||
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|
||||
9 1.3803393322923716e+00 -2.5274719088138620e-01 2.8354262280984910e-01
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
22 4.3582355554441445e+00 -4.2126119427283166e+00 -4.4612844196308510e+00
|
||||
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|
||||
24 2.0689243582437542e+00 3.1513346907275186e+00 3.1550389754841301e+00
|
||||
25 1.3045351331496602e+00 3.2665125705847990e+00 2.5111855257446942e+00
|
||||
26 2.5809237402712069e+00 4.0117602605483258e+00 3.2212060529090598e+00
|
||||
27 -1.9611343130422572e+00 -4.3563411931406684e+00 2.1098293115555511e+00
|
||||
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|
||||
29 -1.3126000191366660e+00 -3.5962518039487934e+00 2.2746342468743648e+00
|
||||
run_vel: ! |2
|
||||
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|
||||
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|
||||
3 -8.2819560524694975e-03 -1.2925874484803790e-02 -4.0962172584282129e-03
|
||||
4 -4.0886380039043026e-03 -6.5733036630979845e-03 -1.1077208107759873e-03
|
||||
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|
||||
6 -3.9653324695987140e-02 4.6814090441761887e-02 3.7154219827738325e-02
|
||||
7 9.2811228899244145e-04 -1.0128521447666933e-02 -5.1566014310509153e-02
|
||||
8 7.9768414397017682e-03 -3.3521215541620886e-03 3.4557180732453542e-02
|
||||
9 1.8506084396989573e-03 3.7365307043657862e-03 1.5049937691527137e-02
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
17 -1.2778996290317002e-02 9.7520044246185329e-03 3.7296098445722708e-02
|
||||
18 -8.0065793587999099e-04 -8.6270472146121331e-04 -1.4483040775306573e-03
|
||||
19 1.2452390841875935e-03 -2.5061097103150493e-03 7.2998630994791933e-03
|
||||
20 3.5930060235755922e-03 3.6938860311851785e-03 3.2322732685174278e-03
|
||||
21 -1.4689220453590402e-03 -2.7352127317486851e-04 7.0581626525379880e-04
|
||||
22 -7.0694199252635138e-03 -4.2577148916858000e-03 2.8079117743316296e-04
|
||||
23 6.0446963107027478e-03 -1.4000131600045436e-03 2.5819754862959378e-03
|
||||
24 3.1926368204184148e-04 -9.9445664667548433e-04 1.4999997209784617e-04
|
||||
25 1.3789754604908935e-04 -4.4335894874218615e-03 -8.1808136451897351e-04
|
||||
26 2.0485904036966728e-03 2.7813358634892773e-03 4.3245727150655168e-03
|
||||
27 4.5604118959923195e-04 -1.0305523122762120e-03 2.1188059030274769e-04
|
||||
28 -6.2544520866959210e-03 1.4127711173635808e-03 -1.8429821883176730e-03
|
||||
29 6.4110631389697711e-04 3.1273432708352981e-03 3.7253671117315453e-03
|
||||
...
|
|
@ -0,0 +1,76 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Tue Aug 11 20:59:48 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix aveforce
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix move all nve
|
||||
fix test solute aveforce 0.0 -0.1 0.1
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_vector: ! |-
|
||||
3 0.030693239277496787 0.026836713504508225 -0.017872771454378267
|
||||
run_pos: ! |2
|
||||
1 -2.7837937276378577e-01 2.4738323337395633e+00 -1.7244628118937513e-01
|
||||
2 3.0739712238693778e-01 2.9607606438663985e+00 -8.4971558628080046e-01
|
||||
3 -6.9690101126084858e-01 1.2472621905952943e+00 -6.2300348438124675e-01
|
||||
4 -1.5790176115308630e+00 1.4890051885382072e+00 -1.2569330199852327e+00
|
||||
5 -8.9737740636582297e-01 9.3716922702553496e-01 4.0243602458027911e-01
|
||||
6 2.9350792503004042e-01 2.2973704675580464e-01 -1.2827110266930783e+00
|
||||
7 3.3997804713002810e-01 -1.0668179410931006e-02 -2.4648504997159280e+00
|
||||
8 1.1649000306414594e+00 -4.8538782401639990e-01 -6.7628963324595071e-01
|
||||
9 1.3802414668448064e+00 -2.5900562603021171e-01 2.7102062739419147e-01
|
||||
10 2.0194286609797985e+00 -1.4274129376624451e+00 -9.6779510337284758e-01
|
||||
11 1.7922388743932793e+00 -1.9901831169119615e+00 -1.8898772827854291e+00
|
||||
12 3.0051950803427370e+00 -4.9053937459745156e-01 -1.6214531896525444e+00
|
||||
13 4.0528786674689306e+00 -8.9433183344016831e-01 -1.6399905570763349e+00
|
||||
14 2.6030389141568233e+00 -4.1604937323184987e-01 -2.6632873866075890e+00
|
||||
15 2.9669715603426763e+00 5.5696161645207065e-01 -1.2373368321417231e+00
|
||||
16 2.6515621187465719e+00 -2.3967182309150830e+00 3.5904361799912736e-02
|
||||
17 2.2323104172823971e+00 -2.1015643262334032e+00 1.1508699165079972e+00
|
||||
18 2.1369701683126636e+00 3.0158507352292498e+00 -3.5179348302759084e+00
|
||||
19 1.5355837134891335e+00 2.6255292349555996e+00 -4.2353987775907820e+00
|
||||
20 2.7727573004960764e+00 3.6923910448057331e+00 -3.9330842458523567e+00
|
||||
21 4.9040128097611282e+00 -4.0752348192998742e+00 -3.6210314741040888e+00
|
||||
22 4.3582355555035486e+00 -4.2126119428105140e+00 -4.4612844198387114e+00
|
||||
23 5.7439382850855170e+00 -3.5821957939653362e+00 -3.8766361297558971e+00
|
||||
24 2.0689243589260014e+00 3.1513346914908205e+00 3.1550389767665203e+00
|
||||
25 1.3045351340666116e+00 3.2665125708708889e+00 2.5111855275754800e+00
|
||||
26 2.5809237403634482e+00 4.0117602606068141e+00 3.2212060530163864e+00
|
||||
27 -1.9611343134182779e+00 -4.3563411935660996e+00 2.1098293111593480e+00
|
||||
28 -2.7473562684449138e+00 -4.0200819932443128e+00 1.5830052163349162e+00
|
||||
29 -1.3126000190352287e+00 -3.5962518039727378e+00 2.2746342468394127e+00
|
||||
run_vel: ! |2
|
||||
1 7.7878588734526198e-04 5.8382345680427130e-04 -2.1588360870901697e-04
|
||||
2 2.7133298635754447e-03 4.6080941432587817e-03 3.6012143490662431e-03
|
||||
3 -1.2735533433080959e-03 1.6040104178824128e-03 -3.2928787663304100e-04
|
||||
4 -9.2790908405729388e-04 -1.2743370998098266e-03 -4.0998381156616033e-03
|
||||
5 -1.1797079389975749e-03 7.3369545190079568e-04 8.9682557646519266e-05
|
||||
6 -3.0901428918666851e-04 1.2686815717087763e-03 8.0263701588449308e-04
|
||||
7 -1.1028454231743601e-04 -7.7279598321444340e-04 -7.6700101339104750e-04
|
||||
8 3.9071065119356116e-04 -8.2032217860919109e-04 1.5725797910453806e-04
|
||||
9 1.2479299632287711e-03 -2.6813940130008974e-03 1.1324196703928796e-03
|
||||
10 4.5021559737281377e-04 4.8844497171634344e-04 -2.2646836122846916e-04
|
||||
11 -3.6939982362589797e-04 -1.5494557630536987e-03 -2.8969796085021034e-03
|
||||
12 1.0852092126307005e-03 -6.5651598379105566e-04 -1.2902212798795269e-03
|
||||
13 4.0758327867858645e-03 3.4838016716369673e-03 -7.6258549719693985e-04
|
||||
14 -1.3799533732466697e-04 -4.0861534316170862e-03 -3.9126867377128425e-03
|
||||
15 -4.3297938711093853e-03 -3.2008147343211384e-03 3.2244512840176650e-03
|
||||
16 -9.6589991406029584e-05 -5.0702273154864109e-04 1.5014598698974305e-03
|
||||
17 6.5701621273287663e-04 3.6121026772938211e-04 8.4012943587149819e-04
|
||||
18 -8.0066194144632968e-04 -8.6271665406919022e-04 -1.4482973852517659e-03
|
||||
19 1.2452388413347042e-03 -2.5061108560376941e-03 7.2998638677115694e-03
|
||||
20 3.5930058301559932e-03 3.6938856643002412e-03 3.2322734436995241e-03
|
||||
21 -1.4689171694767468e-03 -2.7352531122827996e-04 7.0581004752321775e-04
|
||||
22 -7.0694198156340390e-03 -4.2577150557873162e-03 2.8079073381937999e-04
|
||||
23 6.0446966473114254e-03 -1.4000132185293601e-03 2.5819751444891522e-03
|
||||
24 3.1926504097853274e-04 -9.9445515850083571e-04 1.5000252605154639e-04
|
||||
25 1.3789938296094050e-04 -4.4335889216404701e-03 -8.1807768663880035e-04
|
||||
26 2.0485906001141111e-03 2.7813359981121301e-03 4.3245729315533402e-03
|
||||
27 4.5604045866279167e-04 -1.0305531425500631e-03 2.1187980949232823e-04
|
||||
28 -6.2544520799773665e-03 1.4127711082282343e-03 -1.8429822100198981e-03
|
||||
29 6.4110649930657559e-04 3.1273432105699108e-03 3.7253670414334056e-03
|
||||
...
|
|
@ -0,0 +1,81 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Tue Aug 11 20:59:48 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix aveforce
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix init all store/state 0 x y z
|
||||
variable xforce delete
|
||||
# variable xforce atom f_init[1]
|
||||
variable zforce delete
|
||||
variable zforce equal 0.1*step/10.0
|
||||
fix move all nve
|
||||
fix test solute aveforce 0.0 0.0 v_zforce
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_vector: ! |-
|
||||
3 0.030693295891580874 0.026836837377516076 -0.017872935896505737
|
||||
run_pos: ! |2
|
||||
1 -2.7837937276374769e-01 2.4738383080233710e+00 -1.7245068722373783e-01
|
||||
2 3.0739712238707101e-01 2.9607815224227170e+00 -8.4973098421627558e-01
|
||||
3 -6.9690101126080417e-01 1.2472691577163619e+00 -6.2300862263309786e-01
|
||||
4 -1.5790176115307302e+00 1.4890260670945250e+00 -1.2569484179207073e+00
|
||||
5 -8.9737740636568974e-01 9.3719010558185345e-01 4.0242062664480416e-01
|
||||
6 2.9350792503008483e-01 2.2974401387687254e-01 -1.2827161649449292e+00
|
||||
7 3.3997804713006152e-01 -1.0662949214735505e-02 -2.4648543569856689e+00
|
||||
8 1.1649000306414976e+00 -4.8538184973259202e-01 -6.7629403928031329e-01
|
||||
9 1.3802414668449392e+00 -2.5898474747389350e-01 2.7100522945871652e-01
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
28 -2.7473562684449337e+00 -4.0200819932443297e+00 1.5830052163349233e+00
|
||||
29 -1.3126000190352873e+00 -3.5962518039727915e+00 2.2746342468394607e+00
|
||||
run_vel: ! |2
|
||||
1 7.7878588741877761e-04 5.8979774068710158e-04 -2.1946817916036033e-04
|
||||
2 2.7133298638323611e-03 4.6289726998393786e-03 3.5886872146927650e-03
|
||||
3 -1.2735533432223637e-03 1.6109775390378514e-03 -3.3346814946816518e-04
|
||||
4 -9.2790908380037786e-04 -1.2534585432292294e-03 -4.1123652500350801e-03
|
||||
5 -1.1797079387406584e-03 7.5457400848139206e-04 7.7155423273043028e-05
|
||||
6 -3.0901428910093626e-04 1.2756486928642149e-03 7.9845674304936847e-04
|
||||
7 -1.1028454225307708e-04 -7.6756578695323120e-04 -7.7013913125426926e-04
|
||||
8 3.9071065126707630e-04 -8.1434789472636080e-04 1.5367340865319470e-04
|
||||
9 1.2479299634856876e-03 -2.6605154564203013e-03 1.1198925360194041e-03
|
||||
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|
||||
11 -3.6939982336898174e-04 -1.5285772064731016e-03 -2.9095067428755814e-03
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
26 2.0485906001419412e-03 2.7813359981542908e-03 4.3245729315573517e-03
|
||||
27 4.5604045784400024e-04 -1.0305531431206094e-03 2.1187980985975486e-04
|
||||
28 -6.2544520800211943e-03 1.4127711081968837e-03 -1.8429822100071731e-03
|
||||
29 6.4110649918605221e-04 3.1273432104571073e-03 3.7253670415284034e-03
|
||||
...
|
|
@ -0,0 +1,76 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 07:12:15 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix nph
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix test solute nph aniso 1.0 1.0 100.0 ptemp ${t_target} fixedpoint 0.0 0.0 0.0 couple xy
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: 157.324342558061
|
||||
global_vector: ! |-
|
||||
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|
||||
run_pos: ! |2
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
29 -1.3613559351366451e+00 -3.7380527823491150e+00 2.4606149196874831e+00
|
||||
run_vel: ! |2
|
||||
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|
||||
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|
||||
3 -6.5747711080207339e-03 -9.4370588251179374e-03 -2.2745325502991423e-03
|
||||
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|
||||
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|
||||
6 -3.1528934756543614e-02 3.7022817627879213e-02 2.3911067453951655e-02
|
||||
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|
||||
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|
||||
9 -4.9925369016013505e-04 1.4791155501508453e-03 5.5387020254672173e-03
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
23 2.4209481134686401e-04 -4.5457709985051130e-03 2.7663581642115042e-03
|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,76 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 07:12:15 202
|
||||
epsilon: 2e-12
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix npt
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix test solute npt temp 50.0 ${t_target} 1.0 aniso 1.0 1.0 100.0 drag 0.01 flip no
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: 343.095604765377
|
||||
global_vector: ! |-
|
||||
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|
||||
run_pos: ! |2
|
||||
1 -3.8261786782382412e-01 2.6468375260657648e+00 -1.1358866558857095e-01
|
||||
2 2.3224967663088947e-01 3.1501493306692314e+00 -8.8938943152906980e-01
|
||||
3 -8.3366821530992929e-01 1.3264564928719427e+00 -6.2955763294346134e-01
|
||||
4 -1.7674423343775008e+00 1.5903125087550638e+00 -1.3418236316520025e+00
|
||||
5 -1.0489074332732624e+00 1.0002052144490552e+00 5.3384648773294430e-01
|
||||
6 1.9734054221674935e-01 2.8196998144870555e-01 -1.3563766651121183e+00
|
||||
7 2.7036903761914299e-01 -4.1567476799251324e-03 -2.7533565699026079e+00
|
||||
8 1.1502376941366608e+00 -5.0399607836818472e-01 -6.6654239812129035e-01
|
||||
9 1.3718420832651086e+00 -2.5832522657100565e-01 3.9009271154782077e-01
|
||||
10 2.0700300827708897e+00 -1.5216420281788050e+00 -1.0290437306551272e+00
|
||||
11 1.8098806512866314e+00 -2.0999528745943206e+00 -2.0635742488483979e+00
|
||||
12 3.0991569266597043e+00 -5.0827058508447021e-01 -1.7640639194482484e+00
|
||||
13 4.2066420146963246e+00 -9.3856424824123064e-01 -1.7840739805923906e+00
|
||||
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|
||||
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|
||||
16 2.7346344468565036e+00 -2.5388669048484944e+00 9.1894737650898506e-02
|
||||
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|
||||
18 2.1794689204201152e+00 3.2158613383317078e+00 -3.9193829765158155e+00
|
||||
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|
||||
20 2.8437834873955286e+00 3.9225541871873801e+00 -4.3994885211210937e+00
|
||||
21 5.1185508411243816e+00 -4.3147059611177010e+00 -4.0393800923294645e+00
|
||||
22 4.5476101464339607e+00 -4.4530540913972452e+00 -4.9991212202659039e+00
|
||||
23 6.0009735431459301e+00 -3.7851395291272194e+00 -4.3357152175955482e+00
|
||||
24 2.1050697553615834e+00 3.3582327972429447e+00 3.6706882025446852e+00
|
||||
25 1.2889831450571050e+00 3.4895976759629157e+00 2.9356014190165141e+00
|
||||
26 2.6490744553004415e+00 4.2715134208112495e+00 3.7365778579561546e+00
|
||||
27 -2.1738202136583933e+00 -4.6125265700961151e+00 2.4814920287454054e+00
|
||||
28 -3.0012899885135189e+00 -4.2569536621455875e+00 1.8816161875271611e+00
|
||||
29 -1.4830692409518882e+00 -3.8095196882276410e+00 2.6611315389212198e+00
|
||||
run_vel: ! |2
|
||||
1 3.3240330987135813e-03 4.3348472804384443e-03 -7.7000850356568598e-04
|
||||
2 -1.7788564989713377e-03 -1.3033340996862442e-03 3.3101416084626834e-03
|
||||
3 -2.0736106571327740e-03 -2.9833723016999126e-03 3.0677418793886486e-06
|
||||
4 7.7912294662807273e-04 -3.0921958393268071e-03 2.8549261268555064e-03
|
||||
5 -4.1587002273456653e-03 -3.6518175878378690e-03 -5.8605014494220939e-03
|
||||
6 -1.0673219518891219e-02 1.2095185080065048e-02 3.5954871446313933e-03
|
||||
7 -1.3016092142144198e-04 -1.5438536332060906e-03 -8.6626684342265125e-03
|
||||
8 2.0883538800072188e-03 -3.1837196665129652e-04 1.1801128542985692e-02
|
||||
9 -1.6065275717747234e-03 1.4851083434963298e-04 -2.5301349369061935e-03
|
||||
10 9.3031302344406246e-03 -8.6622025962185441e-03 -5.3718824903226719e-03
|
||||
11 -1.2019843168147525e-03 4.3918657625861092e-04 3.4618217803594302e-03
|
||||
12 1.7788144047621368e-04 -2.6878343649230967e-04 -1.5175167351688945e-03
|
||||
13 -1.8807030955883249e-03 2.7155375226017805e-03 9.8699039446766083e-05
|
||||
14 2.9038215261273626e-03 -1.7898438773840987e-03 3.8737544018497979e-03
|
||||
15 1.8059365653976903e-04 -4.3808636795798338e-03 7.4140416456126444e-04
|
||||
16 2.6156852337186408e-03 -1.2844226093444698e-03 -7.6689169374931799e-03
|
||||
17 -2.0276918149482290e-03 1.6195218336326309e-03 5.6072249357656126e-03
|
||||
18 -6.0936815808025862e-04 -9.3774557532468582e-04 -3.3558072507805731e-04
|
||||
19 -6.9919768291957119e-04 -3.6060777270430031e-03 4.2833405289822791e-03
|
||||
20 4.7777805013736515e-03 5.1003745845520452e-03 1.8002873923729241e-03
|
||||
21 -9.5568188553430398e-04 1.6594630943762931e-04 -1.8199788009966615e-04
|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
23 2.4209481134686401e-04 -4.5457709985051130e-03 2.7663581642115042e-03
|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,76 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 07:12:15 202
|
||||
epsilon: 5e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix npt
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix test solute npt temp 50.0 ${t_target} 1.0 iso 1.0 1.0 100.0 dilate solute
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: 394.052580100464
|
||||
global_vector: ! |-
|
||||
28 1.4984570204083703 5.727668251607705 30.006785365785095 0.755949606916964 1.5716837282414435 27.238363703562367 0.0887726458699618 0.04948138278794819 0.29647653888194264 0.027838608034509143 -1.2684933237431522e-05 0.39157825633023396 0.07798523077702334 0.0010654320610989716 25.013048177187418 1.1382060724972116 5.962968492435009 4.7695567904527465 0.24543888024081967 73.71826005814913 0.015019759138686235 164.21033059328448 0.058916016445900686 0.005532106840485039 -2.520758431847661e-06 114.264532425479 4.532095302918083 0.000845913261377488
|
||||
run_pos: ! |2
|
||||
1 -4.3742958268488863e-01 2.7290056618400449e+00 -1.3224678617732799e-01
|
||||
2 1.9597325096802809e-01 3.2478554682502239e+00 -8.7784983453020882e-01
|
||||
3 -9.0055445066945161e-01 1.3720443735149779e+00 -6.2790521499619167e-01
|
||||
4 -1.8618082723760274e+00 1.6425859645839189e+00 -1.3123637393385525e+00
|
||||
5 -1.1222490295586907e+00 1.0354194073199032e+00 4.9054165070391242e-01
|
||||
6 1.6122701010775931e-01 2.9524853587990840e-01 -1.3210758103362590e+00
|
||||
7 2.3528889757906057e-01 9.1838373111130522e-04 -2.6715530930497318e+00
|
||||
8 1.1409063387023277e+00 -5.1378072806790342e-01 -6.6432618849456482e-01
|
||||
9 1.3692157124421644e+00 -2.5986234125532803e-01 3.5327265979809219e-01
|
||||
10 2.0857438747825938e+00 -1.5585215733968054e+00 -1.0112652339689152e+00
|
||||
11 1.8196840501105118e+00 -2.1558284101161114e+00 -2.0059834257353772e+00
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
19 1.5349125211132961e+00 2.6315969880333707e+00 -4.2472859440220647e+00
|
||||
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|
||||
21 4.9064454390208301e+00 -4.0751205255383196e+00 -3.6215576073601046e+00
|
||||
22 4.3687453488627543e+00 -4.2054270536772504e+00 -4.4651491269372565e+00
|
||||
23 5.7374928154769504e+00 -3.5763355905184966e+00 -3.8820297194230728e+00
|
||||
24 2.0684115301174013e+00 3.1518221747664397e+00 3.1554242678474576e+00
|
||||
25 1.2998381073113014e+00 3.2755513587518097e+00 2.5092990173114837e+00
|
||||
26 2.5807438597688113e+00 4.0120175892854135e+00 3.2133398379059099e+00
|
||||
27 -1.9613581876744359e+00 -4.3556300596085160e+00 2.1101467673534788e+00
|
||||
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|
||||
29 -1.3108232656499081e+00 -3.5992986322410760e+00 2.2680459788743503e+00
|
||||
run_vel: ! |2
|
||||
1 2.7344298948821458e-03 3.1581468104380935e-03 -7.1843120411167717e-04
|
||||
2 -1.7078379474947108e-03 -1.6409070859861360e-03 2.6128987225916729e-03
|
||||
3 -1.4420164647255642e-03 -1.7442912543734887e-03 -7.0745062575908337e-05
|
||||
4 1.3055902518738962e-03 -3.2440606689853393e-03 2.3536117576802057e-03
|
||||
5 -3.7768785005134814e-03 -3.4050691962219590e-03 -4.3060378047272488e-03
|
||||
6 -9.6303105059201439e-03 1.1636424089177611e-02 8.0882426998230839e-03
|
||||
7 -9.1197836178494661e-06 -2.0548971114176177e-03 -1.1561711720116066e-02
|
||||
8 2.3717342384511060e-03 -1.1724667732074462e-03 9.9981918637160709e-03
|
||||
9 -1.0596786897297246e-03 6.2180807146028599e-04 -1.9949136612792850e-04
|
||||
10 7.6866979670994649e-03 -6.4210563260423160e-03 -4.6594157108994479e-03
|
||||
11 -1.2201636757560200e-03 4.4492192830042360e-04 2.4485003896230857e-03
|
||||
12 2.6440970729963017e-04 -2.5426715254078699e-04 -9.8591736348869791e-04
|
||||
13 -2.9186187764568771e-03 2.9250796003296472e-03 -1.0409641755324341e-04
|
||||
14 2.7357332424176799e-03 -1.8075638409764203e-03 2.3417976176845772e-03
|
||||
15 2.7042452512660167e-04 -4.9830656916804491e-03 8.0004168431170792e-04
|
||||
16 3.2285718415043510e-03 -1.6540417724780236e-03 -1.0034443516953472e-02
|
||||
17 -2.5912230280785136e-03 1.9472241032175749e-03 7.5710821795849197e-03
|
||||
18 -6.0936815808025862e-04 -9.3774557532468582e-04 -3.3558072507805731e-04
|
||||
19 -6.9919768291957119e-04 -3.6060777270430031e-03 4.2833405289822791e-03
|
||||
20 4.7777805013736515e-03 5.1003745845520452e-03 1.8002873923729241e-03
|
||||
21 -9.5568188553430398e-04 1.6594630943762931e-04 -1.8199788009966615e-04
|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
23 2.4209481134686401e-04 -4.5457709985051130e-03 2.7663581642115042e-03
|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,77 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 07:12:15 202
|
||||
epsilon: 5e-12
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix npt
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
change_box all triclinic
|
||||
fix test solute npt temp 50.0 ${t_target} 1.0 tri 1.0 1.0 100.0 nreset 2
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: 354.174797856098
|
||||
global_vector: ! |-
|
||||
48 1.3901404465408471 5.463126417846173 27.522868094744837 0.6808509272696268 1.432899560678195 24.73621155835892 0.059175794171946315 0.058864829843401814 0.12700748296200176 0.02134537927441898 -0.006866713927713234 -0.03517153788806217 0.03214843910942283 0.03135716661218002 0.05847613666451851 0.010015733944968137 -0.004026286211139594 -0.020364872327366976 0.32458573874717506 0.03420953094338522 0.00010301961702814269 0.40071682483624077 0.09021935542363528 0.0016272628807846479 23.20496983817849 1.0856361420490914 5.469362788109317 3.86897924261614 0.20400675418492722 60.79661790199697 0.004555933286932949 0.004555933286932949 0.004555933286932949 0.0 0.0 0.0 23.105498800354294 21.982100664555755 76.44567329133054 2.242648057096569 0.36241390540377744 9.27169098501188 0.06450189547628359 0.006798140909455242 2.0472127318975922e-05 119.66012864844495 6.065599766319885 0.0019732846899264155
|
||||
run_pos: ! |2
|
||||
1 -8.2271095985417642e-01 2.8289040859356991e+00 -1.1444756137720979e-01
|
||||
2 -2.2035635832079414e-01 3.3160751622563218e+00 -8.8905665482321261e-01
|
||||
3 -1.2238603220542110e+00 1.4989718911440786e+00 -6.2960577288309949e-01
|
||||
4 -2.1611221536569811e+00 1.7480881759848010e+00 -1.3403837766858420e+00
|
||||
5 -1.4356691651007525e+00 1.1969702774741524e+00 5.3174391336542293e-01
|
||||
6 -1.5108221335914251e-01 4.4052153861184706e-01 -1.3548809313045158e+00
|
||||
7 -5.9343459000764653e-02 1.2678140836872487e-01 -2.7489180271273321e+00
|
||||
8 8.2373588231584893e-01 -3.3113650682317708e-01 -6.6671329415243719e-01
|
||||
9 1.0285358664778927e+00 -6.3178215420583328e-02 3.8810870422627808e-01
|
||||
10 1.7789213377484181e+00 -1.3532218104220428e+00 -1.0278171354490055e+00
|
||||
11 1.5477736014686165e+00 -1.9530744276614485e+00 -2.0605735545184318e+00
|
||||
12 2.7783142187942573e+00 -3.5681522115235254e-01 -1.7618063829238526e+00
|
||||
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|
||||
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|
||||
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|
||||
16 2.4717220178567558e+00 -2.3468671157596894e+00 9.1129832810088018e-02
|
||||
17 1.9885567143510166e+00 -1.9964324174322527e+00 1.4061647002816908e+00
|
||||
18 1.7437183504864624e+00 3.3191498740328864e+00 -3.9127655905861678e+00
|
||||
19 1.1235512691983933e+00 2.8925305004060426e+00 -4.7429923420674971e+00
|
||||
20 2.3860672377151531e+00 4.0152665693893148e+00 -4.3919177720148843e+00
|
||||
21 4.9453770477508119e+00 -4.2062128928889155e+00 -4.0325244237288675e+00
|
||||
22 4.3864597623851278e+00 -4.3641236143384550e+00 -4.9903597585314996e+00
|
||||
23 5.8105852095737784e+00 -3.6832694508636497e+00 -4.3282711054755429e+00
|
||||
24 1.6113221591166269e+00 3.6172003657621623e+00 3.6622337059457593e+00
|
||||
25 7.9642706990481837e-01 3.7333401645409854e+00 2.9286066111857547e+00
|
||||
26 2.1223957638352413e+00 4.5309037460235295e+00 3.7279925218535261e+00
|
||||
27 -2.3762434607634804e+00 -4.3698568738308285e+00 2.4753989625747312e+00
|
||||
28 -3.2113212683802930e+00 -4.0269614699099696e+00 1.8767143168008165e+00
|
||||
29 -1.7154699038294128e+00 -3.5639796658377056e+00 2.6546817559911258e+00
|
||||
run_vel: ! |2
|
||||
1 3.4379305599169844e-03 4.4303982887116036e-03 -6.5575090200992549e-04
|
||||
2 -1.1857500286034856e-03 -6.4830194142741920e-04 2.8991421024851778e-03
|
||||
3 -2.1154260546112497e-03 -3.3682136360151430e-03 -1.9294633718208677e-04
|
||||
4 7.6092841426322790e-04 -3.2320184833153956e-03 2.7687800582063332e-03
|
||||
5 -4.2732628342744957e-03 -4.1024661501998941e-03 -5.6627078010461117e-03
|
||||
6 -1.0456549709936754e-02 1.1983105787743460e-02 3.6784105742361638e-03
|
||||
7 -2.6132479696988121e-04 -1.3704375278698535e-03 -8.5781100824109287e-03
|
||||
8 2.8751673617313503e-03 -1.2411443046752859e-03 1.1404387868407946e-02
|
||||
9 -1.4768312187112003e-03 -7.1556281131933587e-05 -2.5861880084100675e-03
|
||||
10 7.9726344243349050e-03 -7.6603150802256759e-03 -4.9260913574675621e-03
|
||||
11 -1.3701886309654468e-03 5.8427841384912200e-04 3.5680693565126702e-03
|
||||
12 3.8071638085887614e-04 -1.2274982267917827e-04 -1.6378029597235305e-03
|
||||
13 -2.1573898217946193e-03 3.1719111017936398e-03 2.9806487190873061e-04
|
||||
14 2.7537600422888457e-03 -1.6565936767524096e-03 3.7884151775862789e-03
|
||||
15 5.5156122958171854e-04 -4.6689017429546913e-03 5.9598028358420622e-04
|
||||
16 2.2455587308391760e-03 -9.7951134916580778e-04 -7.0867451131982279e-03
|
||||
17 -1.7750442749204370e-03 1.3834451904214627e-03 5.2407088936868079e-03
|
||||
18 -6.0936815808025862e-04 -9.3774557532468582e-04 -3.3558072507805731e-04
|
||||
19 -6.9919768291957119e-04 -3.6060777270430031e-03 4.2833405289822791e-03
|
||||
20 4.7777805013736515e-03 5.1003745845520452e-03 1.8002873923729241e-03
|
||||
21 -9.5568188553430398e-04 1.6594630943762931e-04 -1.8199788009966615e-04
|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
23 2.4209481134686401e-04 -4.5457709985051130e-03 2.7663581642115042e-03
|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,73 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 07:12:15 202
|
||||
epsilon: 1e-14
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix nve
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix test solute nve
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_pos: ! |2
|
||||
1 -2.7045559764772636e-01 2.4912159908661540e+00 -1.6695851750890131e-01
|
||||
2 3.1004029572800829e-01 2.9612354631162883e+00 -8.5466363035055182e-01
|
||||
3 -7.0398551409567367e-01 1.2305509955796761e+00 -6.2777526927691529e-01
|
||||
4 -1.5818159336524433e+00 1.4837407818931854e+00 -1.2538710836034257e+00
|
||||
5 -9.0719763673143938e-01 9.2652103885754256e-01 3.9954210488744507e-01
|
||||
6 2.4831720509137747e-01 2.8313021474851946e-01 -1.2314233328432578e+00
|
||||
7 3.4143527679197477e-01 -2.2646550369995716e-02 -2.5292291416062129e+00
|
||||
8 1.1743552228749641e+00 -4.8863228576130058e-01 -6.3783432890943681e-01
|
||||
9 1.3800524229486879e+00 -2.5274721030864977e-01 2.8353985887494298e-01
|
||||
10 2.0510765219972789e+00 -1.4604063739897442e+00 -9.8323745066910395e-01
|
||||
11 1.7878031944038735e+00 -1.9921863272595286e+00 -1.8890602447323932e+00
|
||||
12 3.0063007040474412e+00 -4.9013350497870395e-01 -1.6231898104999232e+00
|
||||
13 4.0515402959329752e+00 -8.9202011603544384e-01 -1.6400005529743578e+00
|
||||
14 2.6066963345551839e+00 -4.1789253964855821e-01 -2.6634003608660097e+00
|
||||
15 2.9695287185765005e+00 5.5422613164855661e-01 -1.2342022021736101e+00
|
||||
16 2.6747029694779090e+00 -2.4124119054031508e+00 -2.3435746001955464e-02
|
||||
17 2.2153577785226939e+00 -2.0897985186816044e+00 1.1963150794967707e+00
|
||||
18 2.1384791188033843e+00 3.0177261773770208e+00 -3.5160827596876225e+00
|
||||
19 1.5349125211132961e+00 2.6315969880333707e+00 -4.2472859440220647e+00
|
||||
20 2.7641167828863153e+00 3.6833419064000221e+00 -3.9380850623312638e+00
|
||||
21 4.9064454390208301e+00 -4.0751205255383196e+00 -3.6215576073601046e+00
|
||||
22 4.3687453488627543e+00 -4.2054270536772504e+00 -4.4651491269372565e+00
|
||||
23 5.7374928154769504e+00 -3.5763355905184966e+00 -3.8820297194230728e+00
|
||||
24 2.0684115301174013e+00 3.1518221747664397e+00 3.1554242678474576e+00
|
||||
25 1.2998381073113014e+00 3.2755513587518097e+00 2.5092990173114837e+00
|
||||
26 2.5807438597688113e+00 4.0120175892854135e+00 3.2133398379059099e+00
|
||||
27 -1.9613581876744359e+00 -4.3556300596085160e+00 2.1101467673534788e+00
|
||||
28 -2.7406520384725965e+00 -4.0207251278130975e+00 1.5828689861678511e+00
|
||||
29 -1.3108232656499081e+00 -3.5992986322410760e+00 2.2680459788743503e+00
|
||||
run_vel: ! |2
|
||||
1 8.1705745750215355e-03 1.6516406624177568e-02 4.7902269490513868e-03
|
||||
2 5.4501493264497653e-03 5.1791699524041815e-03 -1.4372931188098787e-03
|
||||
3 -8.2298293869533436e-03 -1.2926551603583580e-02 -4.0984178763235155e-03
|
||||
4 -3.7699042632974781e-03 -6.5722892095585973e-03 -1.1184640307556036e-03
|
||||
5 -1.1021961013432620e-02 -9.8906780949598663e-03 -2.8410737767347810e-03
|
||||
6 -3.9676663388061570e-02 4.6817061143308802e-02 3.7148492456495326e-02
|
||||
7 9.1034010711748495e-04 -1.0128523385947431e-02 -5.1568251957150528e-02
|
||||
8 7.9064711492041421e-03 -3.3507255912560113e-03 3.4557098774889522e-02
|
||||
9 1.5644176103896980e-03 3.7365546026078196e-03 1.5047408831488810e-02
|
||||
10 2.9201446724707314e-02 -2.9249578666046938e-02 -1.5018077196173912e-02
|
||||
11 -4.7835962161678980e-03 -3.7481384556453390e-03 -2.3464103658842415e-03
|
||||
12 2.2696453478564904e-03 -3.4774151000032896e-04 -3.0640766808544008e-03
|
||||
13 2.7531740679274997e-03 5.8171062119749114e-03 -7.9467451203005246e-04
|
||||
14 3.5246182394862565e-03 -5.7939995493321060e-03 -3.9478430939281998e-03
|
||||
15 -1.8547943547235282e-03 -5.8554729996935272e-03 6.2938485237843443e-03
|
||||
16 1.8681499891767241e-02 -1.3262466107722061e-02 -4.5638651214503466e-02
|
||||
17 -1.2896270000483427e-02 9.7527665388161232e-03 3.7296535433762990e-02
|
||||
18 -6.0936815808025862e-04 -9.3774557532468582e-04 -3.3558072507805731e-04
|
||||
19 -6.9919768291957119e-04 -3.6060777270430031e-03 4.2833405289822791e-03
|
||||
20 4.7777805013736515e-03 5.1003745845520452e-03 1.8002873923729241e-03
|
||||
21 -9.5568188553430398e-04 1.6594630943762931e-04 -1.8199788009966615e-04
|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
23 2.4209481134686401e-04 -4.5457709985051130e-03 2.7663581642115042e-03
|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,76 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 07:12:15 202
|
||||
epsilon: 5e-14
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix nvt
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix test solute nvt temp 50.0 ${t_target} 1.0 mtk no tchain 1
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: 161.082193606418
|
||||
global_vector: ! |-
|
||||
4 6.3653490700601365 4.587389017747112 60.7164687353389 100.36572487107922
|
||||
run_pos: ! |2
|
||||
1 -2.7696909697757566e-01 2.4783666916735787e+00 -1.7050542371974803e-01
|
||||
2 3.0475247358534557e-01 2.9550852133930978e+00 -8.5567914575251569e-01
|
||||
3 -6.9739816438327773e-01 1.2400856795511155e+00 -6.2409863799710530e-01
|
||||
4 -1.5786703850642763e+00 1.4890498729340644e+00 -1.2508581595004804e+00
|
||||
5 -8.9877759710952576e-01 9.3309797898528990e-01 4.0148904545172498e-01
|
||||
6 2.7994521821983220e-01 2.4474061566700642e-01 -1.2668688023898995e+00
|
||||
7 3.4059860024034672e-01 -1.3530530648175014e-02 -2.4844099316976083e+00
|
||||
8 1.1674170384630289e+00 -4.8540349079508893e-01 -6.6471919231675081e-01
|
||||
9 1.3785602765851699e+00 -2.5381883183281273e-01 2.7313723672550161e-01
|
||||
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|
||||
11 1.7913946552248519e+00 -1.9888180233714230e+00 -1.8859590750369315e+00
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
16 2.6589894088512205e+00 -2.4010363080271988e+00 1.5175729949308553e-02
|
||||
17 2.2261096224365753e+00 -2.0982906145850206e+00 1.1642076197266931e+00
|
||||
18 2.1384791188033843e+00 3.0177261773770208e+00 -3.5160827596876225e+00
|
||||
19 1.5349125211132961e+00 2.6315969880333707e+00 -4.2472859440220647e+00
|
||||
20 2.7641167828863153e+00 3.6833419064000221e+00 -3.9380850623312638e+00
|
||||
21 4.9064454390208301e+00 -4.0751205255383196e+00 -3.6215576073601046e+00
|
||||
22 4.3687453488627543e+00 -4.2054270536772504e+00 -4.4651491269372565e+00
|
||||
23 5.7374928154769504e+00 -3.5763355905184966e+00 -3.8820297194230728e+00
|
||||
24 2.0684115301174013e+00 3.1518221747664397e+00 3.1554242678474576e+00
|
||||
25 1.2998381073113014e+00 3.2755513587518097e+00 2.5092990173114837e+00
|
||||
26 2.5807438597688113e+00 4.0120175892854135e+00 3.2133398379059099e+00
|
||||
27 -1.9613581876744359e+00 -4.3556300596085160e+00 2.1101467673534788e+00
|
||||
28 -2.7406520384725965e+00 -4.0207251278130975e+00 1.5828689861678511e+00
|
||||
29 -1.3108232656499081e+00 -3.5992986322410760e+00 2.2680459788743503e+00
|
||||
run_vel: ! |2
|
||||
1 7.8424070606032009e-04 1.6957423585177817e-03 5.3293987045553042e-04
|
||||
2 2.8408938974665233e-04 6.3401186822596671e-05 -5.0702412121826309e-04
|
||||
3 -7.1943682951293387e-04 -1.5812016081414803e-03 -4.2848459956300902e-04
|
||||
4 -2.9398452847843030e-04 -5.5105638181201155e-04 3.0356108858991924e-04
|
||||
5 -1.0153174695903785e-03 -1.0991397270447010e-03 -2.9745984673366986e-04
|
||||
6 -4.2616664324255076e-03 4.9166230021219599e-03 3.9281549764140266e-03
|
||||
7 1.2690465637066298e-04 -1.0201658940305772e-03 -5.4345368878308906e-03
|
||||
8 8.3338080594941018e-04 -2.8041016920393470e-04 3.6768915167210169e-03
|
||||
9 1.2557498735649483e-05 6.4724399795980240e-04 1.3767564856324000e-03
|
||||
10 3.0640515606253464e-03 -3.1769374504099761e-03 -1.5482422096535847e-03
|
||||
11 -4.5803506169263681e-04 -2.2647716135831678e-04 6.0288357252089534e-05
|
||||
12 1.2114752302890638e-04 3.5392382149094706e-05 -1.8260516713062942e-04
|
||||
13 -1.2777289076283452e-04 2.4386857088712753e-04 -2.2245290738142125e-06
|
||||
14 3.7600485089664203e-04 -1.9387476208267205e-04 -1.5847965685025904e-05
|
||||
15 2.5123165119885843e-04 -2.8708143347183168e-04 3.3015492480754400e-04
|
||||
16 2.0107337298668473e-03 -1.3643226191731759e-03 -5.0826514203549545e-03
|
||||
17 -1.4578784011733559e-03 1.0116087441418126e-03 3.9228519733530611e-03
|
||||
18 -6.0936815808025862e-04 -9.3774557532468582e-04 -3.3558072507805731e-04
|
||||
19 -6.9919768291957119e-04 -3.6060777270430031e-03 4.2833405289822791e-03
|
||||
20 4.7777805013736515e-03 5.1003745845520452e-03 1.8002873923729241e-03
|
||||
21 -9.5568188553430398e-04 1.6594630943762931e-04 -1.8199788009966615e-04
|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
23 2.4209481134686401e-04 -4.5457709985051130e-03 2.7663581642115042e-03
|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,74 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 16:44:09 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix press/berendsen
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix all solute nve
|
||||
fix test solute press/berendsen iso 5000.0 5000.0 10000.0
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_pos: ! |2
|
||||
1 -3.6091419640167377e-01 2.6210042442829291e+00 -1.4984543782111359e-01
|
||||
2 2.4583442254128229e-01 3.1176398944387440e+00 -8.6300444750170513e-01
|
||||
3 -8.1170826716459299e-01 1.3101828007635898e+00 -6.2713226307370373e-01
|
||||
4 -1.7336960306857696e+00 1.5686697778612544e+00 -1.2852651188809725e+00
|
||||
5 -1.0267873549947240e+00 9.8546732001318738e-01 4.4606118426580821e-01
|
||||
6 2.0034867210734220e-01 2.9097282985659234e-01 -1.2794959682827871e+00
|
||||
7 2.8299304139111126e-01 -9.8971366280871109e-03 -2.6079072079700492e+00
|
||||
8 1.1567019406452035e+00 -5.0320777137791950e-01 -6.5066789277800829e-01
|
||||
9 1.3732138945027508e+00 -2.5804705857834254e-01 3.1851554818701366e-01
|
||||
10 2.0708419798525339e+00 -1.5132911463394798e+00 -9.9967437361937339e-01
|
||||
11 1.8049815045625648e+00 -2.0813005716784030e+00 -1.9515807899323248e+00
|
||||
12 3.0834039834618219e+00 -5.0557862158481992e-01 -1.6756212406218332e+00
|
||||
13 4.1783682097723682e+00 -9.2652704672170039e-01 -1.6934491042591890e+00
|
||||
14 2.6655292547319247e+00 -4.2915649775420750e-01 -2.7647457742559025e+00
|
||||
15 3.0458718015659878e+00 5.8869699617545557e-01 -1.2691368849082085e+00
|
||||
16 2.7270813732203978e+00 -2.5185818891185647e+00 2.4266264399741999e-02
|
||||
17 2.2587656442341126e+00 -2.1904173482747842e+00 1.2714909120545990e+00
|
||||
18 2.1722236548934637e+00 3.1811222422167020e+00 -3.6651558864447722e+00
|
||||
19 1.5379398556770809e+00 2.7753418525421392e+00 -4.4335720571436505e+00
|
||||
20 2.8297017791404011e+00 3.8806130275561390e+00 -4.1086350730387107e+00
|
||||
21 5.0810595653127395e+00 -4.2726993761468854e+00 -3.7759986457351467e+00
|
||||
22 4.5159944054286365e+00 -4.4096375699551125e+00 -4.6625229101194083e+00
|
||||
23 5.9544012798554879e+00 -3.7485298730844976e+00 -4.0497269160892424e+00
|
||||
24 2.0985901295728704e+00 3.3220427620224413e+00 3.3458828955531530e+00
|
||||
25 1.2909018438727013e+00 3.4520688721361132e+00 2.6668745139627088e+00
|
||||
26 2.6369964922780786e+00 4.2260159402561364e+00 3.4067459518439538e+00
|
||||
27 -2.1362659018083896e+00 -4.5674848292640569e+00 2.2474082834952522e+00
|
||||
28 -2.9552202082294778e+00 -4.2155356436588987e+00 1.6932958531971636e+00
|
||||
29 -1.4526234281463211e+00 -3.7726615685777620e+00 2.4133434299397827e+00
|
||||
run_vel: ! |2
|
||||
1 6.8612579444768231e-03 9.3588988693932805e-03 -2.4583492777823684e-04
|
||||
2 -5.0360784274195033e-04 2.9726176692813336e-04 5.5601612371459462e-03
|
||||
3 -4.7155832907463452e-03 -5.2759387113087341e-03 -1.2616380301006356e-03
|
||||
4 9.0720438238635814e-04 -7.5770223054582126e-03 2.0478412627257941e-03
|
||||
5 -9.5789948666970045e-03 -7.8707074219574475e-03 -7.9287843977473432e-03
|
||||
6 -2.5864536864176637e-02 3.1782714744452420e-02 2.5357940964759636e-02
|
||||
7 1.7503976604491542e-04 -6.5115623482965013e-03 -3.3939736089235235e-02
|
||||
8 6.1789956534982508e-03 -3.2385611493897320e-03 2.5198707320088474e-02
|
||||
9 -1.0477317219362496e-03 8.0710832498008555e-04 3.3332742003808645e-03
|
||||
10 2.0007827220591145e-02 -1.7400965483689801e-02 -1.1413325470549929e-02
|
||||
11 -3.3990745583665129e-03 -7.3619037098941514e-04 2.4449145139565686e-03
|
||||
12 1.3760114048527200e-03 -8.1425901890779418e-04 -2.9046493957496202e-03
|
||||
13 -2.5828376034205732e-03 7.7834697286519742e-03 -6.8243437049079190e-04
|
||||
14 5.4336022535973862e-03 -6.1421574327034621e-03 1.3592225966609420e-03
|
||||
15 -1.7549740615613416e-03 -1.1133323565619430e-02 4.2071260576439420e-03
|
||||
16 1.0367443974825941e-02 -6.4589866626159186e-03 -2.8766731056347843e-02
|
||||
17 -7.5963042220266912e-03 6.0593621716489411e-03 2.3127705683585555e-02
|
||||
18 -6.0936815808025862e-04 -9.3774557532468582e-04 -3.3558072507805731e-04
|
||||
19 -6.9919768291957119e-04 -3.6060777270430031e-03 4.2833405289822791e-03
|
||||
20 4.7777805013736515e-03 5.1003745845520452e-03 1.8002873923729241e-03
|
||||
21 -9.5568188553430398e-04 1.6594630943762931e-04 -1.8199788009966615e-04
|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
23 2.4209481134686401e-04 -4.5457709985051130e-03 2.7663581642115042e-03
|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,77 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 16:30:21 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix rattle
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix move all nve
|
||||
fix test solvent rattle 1.0e-5 20 4 b 5 a 1
|
||||
fix_modify test virial yes
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_stress: ! |-
|
||||
-6.7489444076122581e+01 -3.6466857275816793e+01 -4.1453650662488030e+01 -3.0881715538687999e+01 -2.8271646386126275e+01 1.8512924155867125e-01
|
||||
run_pos: ! |2
|
||||
1 -2.7045559935221097e-01 2.4912159904412490e+00 -1.6695851634760922e-01
|
||||
2 3.1004029578877490e-01 2.9612354630874571e+00 -8.5466363025011627e-01
|
||||
3 -7.0398551512563201e-01 1.2305509950678348e+00 -6.2777526850896104e-01
|
||||
4 -1.5818159336526965e+00 1.4837407818978032e+00 -1.2538710835933191e+00
|
||||
5 -9.0719763671886688e-01 9.2652103888784798e-01 3.9954210492830977e-01
|
||||
6 2.4831720377219527e-01 2.8313021315702186e-01 -1.2314233326160173e+00
|
||||
7 3.4143527702622734e-01 -2.2646549532188382e-02 -2.5292291427264142e+00
|
||||
8 1.1743552220275317e+00 -4.8863228684188359e-01 -6.3783432829693443e-01
|
||||
9 1.3800524229360562e+00 -2.5274721027441394e-01 2.8353985886396749e-01
|
||||
10 2.0510765212518995e+00 -1.4604063737408786e+00 -9.8323745028431875e-01
|
||||
11 1.7878031941850188e+00 -1.9921863270751916e+00 -1.8890602447198563e+00
|
||||
12 3.0063007040149974e+00 -4.9013350636226771e-01 -1.6231898103008302e+00
|
||||
13 4.0515402958586257e+00 -8.9202011560301075e-01 -1.6400005529400123e+00
|
||||
14 2.6066963345427290e+00 -4.1789253956770167e-01 -2.6634003609341543e+00
|
||||
15 2.9695287185432337e+00 5.5422613169503154e-01 -1.2342022022205887e+00
|
||||
16 2.6747029683763714e+00 -2.4124119045309693e+00 -2.3435744689915886e-02
|
||||
17 2.2153577782070029e+00 -2.0897985186673269e+00 1.1963150798970605e+00
|
||||
18 2.1373900776464936e+00 3.0170538457970628e+00 -3.5215797395725530e+00
|
||||
19 1.5430025676651555e+00 2.6303296449949269e+00 -4.2266668834718990e+00
|
||||
20 2.7636622208420851e+00 3.6827879501178424e+00 -3.9272659545237363e+00
|
||||
21 4.9052192222681876e+00 -4.0732760101811269e+00 -3.6279255237131718e+00
|
||||
22 4.3519818207040561e+00 -4.2184829355532472e+00 -4.4481958001084010e+00
|
||||
23 5.7453761098416072e+00 -3.5841442260372478e+00 -3.8622042082027339e+00
|
||||
24 2.0680414913289775e+00 3.1533722552525343e+00 3.1535500327643740e+00
|
||||
25 1.3065720083112300e+00 3.2620808683235558e+00 2.5145299517967921e+00
|
||||
26 2.5824112033661786e+00 4.0080581544027423e+00 3.2238053751629132e+00
|
||||
27 -1.9611343130357310e+00 -4.3563411931359832e+00 2.1098293115523683e+00
|
||||
28 -2.7473562684513424e+00 -4.0200819932379339e+00 1.5830052163433954e+00
|
||||
29 -1.3126000191366676e+00 -3.5962518039489830e+00 2.2746342468733833e+00
|
||||
run_vel: ! |2
|
||||
1 8.1705729507146642e-03 1.6516406093744641e-02 4.7902279090199888e-03
|
||||
2 5.4501493276694407e-03 5.1791698760542655e-03 -1.4372929651720373e-03
|
||||
3 -8.2298303446991499e-03 -1.2926552110646281e-02 -4.0984171815350119e-03
|
||||
4 -3.7699042793691621e-03 -6.5722892086671888e-03 -1.1184640147877227e-03
|
||||
5 -1.1021961023179821e-02 -9.8906780808723574e-03 -2.8410737186752391e-03
|
||||
6 -3.9676664596302022e-02 4.6817059618450917e-02 3.7148492579484563e-02
|
||||
7 9.1034031301509934e-04 -1.0128522664904629e-02 -5.1568252954671358e-02
|
||||
8 7.9064703413713518e-03 -3.3507265483952130e-03 3.4557099321061970e-02
|
||||
9 1.5644176069499445e-03 3.7365546445246702e-03 1.5047408832397751e-02
|
||||
10 2.9201446099433200e-02 -2.9249578511256979e-02 -1.5018076911020584e-02
|
||||
11 -4.7835964007472438e-03 -3.7481383012996799e-03 -2.3464103653896319e-03
|
||||
12 2.2696453008391368e-03 -3.4774279616439630e-04 -3.0640765817961158e-03
|
||||
13 2.7531739986205606e-03 5.8171065863360273e-03 -7.9467449090663456e-04
|
||||
14 3.5246182341718787e-03 -5.7939994947008291e-03 -3.9478431580931327e-03
|
||||
15 -1.8547943904014324e-03 -5.8554729842982909e-03 6.2938484741557809e-03
|
||||
16 1.8681498891538882e-02 -1.3262465322856017e-02 -4.5638650127800932e-02
|
||||
17 -1.2896270312366209e-02 9.7527665732632350e-03 3.7296535866542128e-02
|
||||
18 3.6201701458125901e-04 -3.1019809770901913e-04 8.1201763681395124e-04
|
||||
19 8.5112360015621527e-04 -1.4603353796945311e-03 1.0305254865262262e-03
|
||||
20 -6.5417978223454955e-04 4.4256253979791337e-04 4.7856455882856112e-04
|
||||
21 -1.3982465853051491e-03 -3.2420187158416122e-04 1.1419970014906219e-03
|
||||
22 -1.5884120818688635e-03 -1.5258102513021705e-03 1.4829681808138718e-03
|
||||
23 2.8156640545678882e-04 -3.9296161403347832e-03 -3.6141019321529006e-04
|
||||
24 8.5788311101024021e-04 -9.4446252118115083e-04 5.5288135210022535e-04
|
||||
25 1.6004033600709000e-03 -2.2093786373070566e-03 -5.4710565574674660e-04
|
||||
26 -1.5640453234916207e-03 3.5755082486241615e-04 2.4453236849039262e-03
|
||||
27 4.5604120291777391e-04 -1.0305523027099432e-03 2.1188058380935704e-04
|
||||
28 -6.2544520861865490e-03 1.4127711176129324e-03 -1.8429821884795277e-03
|
||||
29 6.4110631474916110e-04 3.1273432713407900e-03 3.7253671102111473e-03
|
||||
...
|
|
@ -0,0 +1,77 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 16:30:21 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix rattle
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix move all nve
|
||||
fix test solute rattle 1.0e-5 20 4 m 4.00794
|
||||
fix_modify test virial yes
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_stress: ! |2-
|
||||
3.9891557115890999e+00 3.7983351717152480e+00 7.6152694943743228e+01 5.7163462651523300e-01 3.0839737670745507e+01 3.0066936263232019e+01
|
||||
run_pos: ! |2
|
||||
1 -2.6863205200662160e-01 2.4924200251053037e+00 -1.6940797171640173e-01
|
||||
2 3.0314855494325726e-01 2.9555142432096928e+00 -8.4661597718762538e-01
|
||||
3 -7.0471630526135653e-01 1.2320076232474173e+00 -6.3059972306932599e-01
|
||||
4 -1.5777965340711875e+00 1.4826179820456016e+00 -1.2510232575394136e+00
|
||||
5 -9.0838614372574067e-01 9.2479324973625643e-01 4.0580653202950134e-01
|
||||
6 2.4793967906065856e-01 2.8343287430301523e-01 -1.2316652319085841e+00
|
||||
7 3.4143850947000237e-01 -2.2651528366236746e-02 -2.5292473574049552e+00
|
||||
8 1.1730749609547400e+00 -4.9001540353149170e-01 -6.4332649946665266e-01
|
||||
9 1.3845859932368008e+00 -2.4786933347311196e-01 3.0357812296279735e-01
|
||||
10 2.0524841105948015e+00 -1.4583699771496379e+00 -9.7983952239393757e-01
|
||||
11 1.7850840352923341e+00 -1.9987544346588606e+00 -1.8998839983899072e+00
|
||||
12 3.0095045212033247e+00 -4.8782153578035059e-01 -1.6261252340942491e+00
|
||||
13 4.0351185088311556e+00 -8.8522351740509708e-01 -1.6398224375630548e+00
|
||||
14 2.6123239686628956e+00 -4.1890190267120403e-01 -2.6495985815028571e+00
|
||||
15 2.9701534707934725e+00 5.4105345536479910e-01 -1.2389976744608262e+00
|
||||
16 2.6747027555918970e+00 -2.4124113563394012e+00 -2.3415671532678806e-02
|
||||
17 2.2153595673079209e+00 -2.0898013762372751e+00 1.1963177401330007e+00
|
||||
18 2.1369701694435119e+00 3.0158507393675174e+00 -3.5179348311269880e+00
|
||||
19 1.5355837135166919e+00 2.6255292354443638e+00 -4.2353987776659867e+00
|
||||
20 2.7727573004750279e+00 3.6923910448253729e+00 -3.9330842457663850e+00
|
||||
21 4.9040128074584084e+00 -4.0752348173558683e+00 -3.6210314712921452e+00
|
||||
22 4.3582355554470675e+00 -4.2126119427230533e+00 -4.4612844196479138e+00
|
||||
23 5.7439382849367417e+00 -3.5821957939146403e+00 -3.8766361296113812e+00
|
||||
24 2.0689243589978767e+00 3.1513346914192564e+00 3.1550389757754025e+00
|
||||
25 1.3045351338498816e+00 3.2665125711118623e+00 2.5111855260643079e+00
|
||||
26 2.5809237403158591e+00 4.0117602606099725e+00 3.2212060529034496e+00
|
||||
27 -1.9611343131186747e+00 -4.3563411932863181e+00 2.1098293116020814e+00
|
||||
28 -2.7473562684591109e+00 -4.0200819932508631e+00 1.5830052163456609e+00
|
||||
29 -1.3126000191565619e+00 -3.5962518039874860e+00 2.2746342468906682e+00
|
||||
run_vel: ! |2
|
||||
1 7.7370763703885981e-03 1.5916623177089917e-02 5.0460584330822480e-03
|
||||
2 6.5186940562006425e-03 6.0087223948100997e-03 -2.7579528931744326e-03
|
||||
3 -7.3639039999207805e-03 -1.2783111443358818e-02 -3.3210723356919430e-03
|
||||
4 -5.8962208660568623e-03 -5.9658659155316252e-03 -2.6327244609218236e-03
|
||||
5 -1.0929657512764205e-02 -9.6585946726249240e-03 -3.0956201839590124e-03
|
||||
6 -4.0123707366837992e-02 4.7187394112882822e-02 3.6871538264127757e-02
|
||||
7 9.1133487010599461e-04 -1.0132608633652495e-02 -5.1595915280728183e-02
|
||||
8 7.0088514431851422e-03 -4.2477252839068919e-03 3.0986345119599783e-02
|
||||
9 4.6374036922998555e-03 7.0470301756850907e-03 2.8627719728916035e-02
|
||||
10 3.0611231933355295e-02 -2.7617219870000733e-02 -1.2129568539940891e-02
|
||||
11 -7.2060626580151164e-03 -9.4599495517301499e-03 -1.1803018293165211e-02
|
||||
12 1.5103726570079637e-03 -8.6499790408050452e-04 -2.9343732292293413e-03
|
||||
13 4.0387984545004179e-03 5.5920103447542734e-03 -9.5141435774168603e-04
|
||||
14 3.7449566583612186e-03 -5.7205267373051458e-03 -4.1285172459609044e-03
|
||||
15 -1.6192412735192771e-03 -4.5860921043834090e-03 6.6371157403290462e-03
|
||||
16 1.8683716258419525e-02 -1.3263096088946387e-02 -4.5607321000772597e-02
|
||||
17 -1.2893753425925242e-02 9.7485795481257100e-03 3.7300775385778646e-02
|
||||
18 -8.0065894051881104e-04 -8.6270684963651997e-04 -1.4483015146944853e-03
|
||||
19 1.2452389852680510e-03 -2.5061098313021958e-03 7.2998634573395622e-03
|
||||
20 3.5930058838403115e-03 3.6938858373569165e-03 3.2322734729320975e-03
|
||||
21 -1.4689219027528956e-03 -2.7352134530947029e-04 7.0581593448005339e-04
|
||||
22 -7.0694199260273143e-03 -4.2577148857392598e-03 2.8079115157198279e-04
|
||||
23 6.0446963222438397e-03 -1.4000131442962716e-03 2.5819754631691500e-03
|
||||
24 3.1926442964369685e-04 -9.9445591935644600e-04 1.5000033448111914e-04
|
||||
25 1.3789825021844792e-04 -4.4335889596263511e-03 -8.1808100227326449e-04
|
||||
26 2.0485904735292599e-03 2.7813359659683385e-03 4.3245727170611618e-03
|
||||
27 4.5604110580961207e-04 -1.0305524671180935e-03 2.1188063421234097e-04
|
||||
28 -6.2544520944132998e-03 1.4127711036803850e-03 -1.8429821866102578e-03
|
||||
29 6.4110628696208052e-04 3.1273432221612541e-03 3.7253671295737062e-03
|
||||
...
|
|
@ -0,0 +1,78 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 16:30:21 202
|
||||
epsilon: 2.5e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix rigid
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
variable t_target delete
|
||||
fix test all rigid group 2 solute solvent
|
||||
fix_modify test virial yes
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_stress: ! |-
|
||||
-1.4245356937318927e+03 -1.4496493315649675e+03 -3.6144360984224963e+03 8.4840626828643849e+02 2.0318336761611764e+02 -6.0622397707969685e+02
|
||||
global_scalar: 15.7115214231781
|
||||
run_pos: ! |2
|
||||
1 -2.7899546863891622e-01 2.4731857340328216e+00 -1.7290667740241872e-01
|
||||
2 3.0296221610264007e-01 2.9517129916957545e+00 -8.5798904387772823e-01
|
||||
3 -6.9368802364134852e-01 1.2445115421754183e+00 -6.2281111198650230e-01
|
||||
4 -1.5764879647103172e+00 1.4919714415841274e+00 -1.2492069414674600e+00
|
||||
5 -8.9434512967430013e-01 9.3651699743510730e-01 4.0191726558261431e-01
|
||||
6 2.9454439634451690e-01 2.2724545792544065e-01 -1.2845195053960263e+00
|
||||
7 3.4049112903270062e-01 -9.4655678322440595e-03 -2.4634480020857059e+00
|
||||
8 1.1644354555804877e+00 -4.8367776650961369e-01 -6.7663643940735896e-01
|
||||
9 1.3781717822696469e+00 -2.5332509530010827e-01 2.6864954436590061e-01
|
||||
10 2.0186368606041905e+00 -1.4285861423625792e+00 -9.6712491252780297e-01
|
||||
11 1.7929137227577470e+00 -1.9875455388407410e+00 -1.8836565352266557e+00
|
||||
12 3.0032775230399604e+00 -4.8983022415173838e-01 -1.6190248017343647e+00
|
||||
13 4.0448964162125947e+00 -9.0213155122390720e-01 -1.6385398399479572e+00
|
||||
14 2.6035151245015831e+00 -4.0874995493218902e-01 -2.6555999074786611e+00
|
||||
15 2.9761196776172314e+00 5.6287237454108840e-01 -1.2442626196083382e+00
|
||||
16 2.6517373021566191e+00 -2.3957035508393720e+00 3.3389262100689376e-02
|
||||
17 2.2311114924744988e+00 -2.1018393228798540e+00 1.1496088522377521e+00
|
||||
18 2.1390642573201788e+00 3.0164773560693772e+00 -3.5143984803853874e+00
|
||||
19 1.5353246655146275e+00 2.6305911186316124e+00 -4.2455871034737074e+00
|
||||
20 2.7649421538938386e+00 3.6818603528430827e+00 -3.9364115785985558e+00
|
||||
21 4.9043112657298868e+00 -4.0774268210397873e+00 -3.6200836396129810e+00
|
||||
22 4.3665322424283302e+00 -4.2075138112953594e+00 -4.4636587264885854e+00
|
||||
23 5.7355405581985170e+00 -3.5789558641908905e+00 -3.8805763324089964e+00
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
run_vel: ! |2
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,78 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 16:30:21 202
|
||||
epsilon: 2.5e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix rigid
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
variable t_target delete
|
||||
fix test solvent rigid molecule
|
||||
fix_modify test virial yes
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_stress: ! |-
|
||||
-4.9200116134790363e+01 -2.6907707565987732e+01 -6.0080860422282560e+00 -2.5620423972101747e+01 -1.3450224059984075e+01 -1.4947288487004844e+00
|
||||
global_scalar: 18.3405601674144
|
||||
run_pos: ! |2
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
run_vel: ! |2
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,78 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 16:30:21 202
|
||||
epsilon: 2.5e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix rigid
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
variable t_target delete
|
||||
fix test solute rigid single
|
||||
fix_modify test virial yes
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_stress: ! |-
|
||||
-1.3754817466835852e+03 -1.4228425246165939e+03 -3.6087196201913630e+03 8.7407043149698166e+02 2.1665316519768876e+02 -6.0480791462031175e+02
|
||||
global_scalar: 4.53142303857031
|
||||
run_pos: ! |2
|
||||
1 -2.7899546859693181e-01 2.4731857340428789e+00 -1.7290667720876129e-01
|
||||
2 3.0296221616793595e-01 2.9517129917211555e+00 -8.5798904365355089e-01
|
||||
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|
||||
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|
||||
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|
||||
6 2.9454439635065854e-01 2.2724545796943085e-01 -1.2845195052894232e+00
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
25 1.2998381073113014e+00 3.2755513587518097e+00 2.5092990173114837e+00
|
||||
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|
||||
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|
||||
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|
||||
29 -1.3108232656499081e+00 -3.5992986322410760e+00 2.2680459788743503e+00
|
||||
run_vel: ! |2
|
||||
1 4.7093296226165759e-04 2.6351124312057328e-04 -4.4905063547614815e-04
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
9 2.1299357198253027e-04 1.6917133003966806e-04 -6.3528006071200595e-05
|
||||
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|
||||
11 -3.2194218121523160e-05 -2.2025090185602363e-04 2.0300208519292848e-04
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
16 -9.0959360838833471e-06 3.7773746063198897e-06 2.4035204669042528e-04
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
21 -9.5568188553430398e-04 1.6594630943762931e-04 -1.8199788009966615e-04
|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
23 2.4209481134686401e-04 -4.5457709985051130e-03 2.7663581642115042e-03
|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,76 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 07:12:16 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix setforce
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix move all nve
|
||||
fix test solute setforce 0.0 NULL 0.1
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_vector: ! |-
|
||||
3 0.031196595768662405 0.027176378299685666 -0.018248127488959653
|
||||
run_pos: ! |2
|
||||
1 -2.7837948059450057e-01 2.4915057595127261e+00 -1.7244621851040967e-01
|
||||
2 3.0739674554684748e-01 2.9612812082059410e+00 -8.4971536723424157e-01
|
||||
3 -6.9690113701142686e-01 1.2299989573015675e+00 -6.2300341128596803e-01
|
||||
4 -1.5790179883709534e+00 1.4836808443213463e+00 -1.2569328009386738e+00
|
||||
5 -8.9737778320591355e-01 9.2644076771112371e-01 4.0243624362683811e-01
|
||||
6 2.9350779927946186e-01 2.9015340694208497e-01 -1.2827109535977994e+00
|
||||
7 3.3997795272945847e-01 -2.6300572624749590e-02 -2.4648504448435284e+00
|
||||
8 1.1648999228107455e+00 -4.8865966236488045e-01 -6.7628957056698502e-01
|
||||
9 1.3802410900047160e+00 -2.5301023044453536e-01 2.7102084644075047e-01
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
17 2.2323103228818271e+00 -2.0866200178232570e+00 1.1508699713803967e+00
|
||||
18 2.1369701651509190e+00 3.0158507318424936e+00 -3.5179348274555937e+00
|
||||
19 1.5355837133081183e+00 2.6255292347922397e+00 -4.2353987772399497e+00
|
||||
20 2.7727573004039123e+00 3.6923910447382959e+00 -3.9330842457623234e+00
|
||||
21 4.9040128090518982e+00 -4.0752348190254066e+00 -3.6210314733741300e+00
|
||||
22 4.3582355554811203e+00 -4.2126119427992510e+00 -4.4612844197913537e+00
|
||||
23 5.7439382850543934e+00 -3.5821957939727862e+00 -3.8766361297296963e+00
|
||||
24 2.0689243587550665e+00 3.1513346917712659e+00 3.1550389764758857e+00
|
||||
25 1.3045351337111810e+00 3.2665125710954817e+00 2.5111855269473398e+00
|
||||
26 2.5809237403311265e+00 4.0117602606155351e+00 3.2212060529773248e+00
|
||||
27 -1.9611343135760269e+00 -4.3563411936812422e+00 2.1098293111769051e+00
|
||||
28 -2.7473562684448014e+00 -4.0200819932539504e+00 1.5830052163387485e+00
|
||||
29 -1.3126000190074181e+00 -3.5962518039956493e+00 2.2746342468316909e+00
|
||||
run_vel: ! |2
|
||||
1 7.7867804888392077e-04 1.7047228530841809e-02 -2.1582089259505630e-04
|
||||
2 2.7129529964126462e-03 5.2784482698423644e-03 3.6014335254494771e-03
|
||||
3 -1.2736791029204805e-03 -1.3974541598892314e-02 -3.2921473803217605e-04
|
||||
4 -9.2828595122009308e-04 -6.6991688238371011e-03 -4.0996189392783757e-03
|
||||
5 -1.1800848061603740e-03 -1.0047153968619136e-02 8.9901734029750995e-05
|
||||
6 -3.0914004879905335e-04 5.9226312312574469e-02 8.0271015448535863e-04
|
||||
7 -1.1037894966874103e-04 -1.6457202942861592e-02 -7.6694610847002475e-04
|
||||
8 3.9060281273221989e-04 -3.3092081140500625e-03 1.5732069521849873e-04
|
||||
9 1.2475530960659720e-03 3.1932872333445845e-03 1.1326388467761117e-03
|
||||
10 4.5008983776042893e-04 -3.2706161456987362e-02 -2.2639522262760407e-04
|
||||
11 -3.6977669078869707e-04 -3.8208979405711181e-03 -2.8967604321188693e-03
|
||||
12 1.0850834530183159e-03 -5.9865405325318095e-04 -1.2901481412786638e-03
|
||||
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|
||||
14 -1.3837220448746613e-04 -5.8513645592199954e-03 -3.9124675613296149e-03
|
||||
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|
||||
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|
||||
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|
||||
18 -8.0066836980328829e-04 -8.6272352268198973e-04 -1.4482916287850436e-03
|
||||
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|
||||
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|
||||
21 -1.4689186150745120e-03 -2.7352475069894054e-04 7.0581153530664112e-04
|
||||
22 -7.0694198605565570e-03 -4.2577150334417316e-03 2.8079083578864353e-04
|
||||
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|
||||
24 3.1926469085296537e-04 -9.9445460268275231e-04 1.5000192558511910e-04
|
||||
25 1.3789867280959912e-04 -4.4335884662300897e-03 -8.1807894939305860e-04
|
||||
26 2.0485905358907184e-03 2.7813360186345780e-03 4.3245728521738580e-03
|
||||
27 4.5604013457189150e-04 -1.0305533784689190e-03 2.1187984562018490e-04
|
||||
28 -6.2544520812349144e-03 1.4127710889363602e-03 -1.8429822031806322e-03
|
||||
29 6.4110655335636812e-04 3.1273431604200374e-03 3.7253670254479500e-03
|
||||
...
|
|
@ -0,0 +1,77 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 15:15:21 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix setforce
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
region half block 0 EDGE EDGE EDGE EDGE EDGE
|
||||
fix move all nve
|
||||
fix test solute setforce 0.0 0.0 0.0 region half
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_vector: ! |-
|
||||
3 30.2599905309868 33.68278530642225 -29.246531241430393
|
||||
run_pos: ! |2
|
||||
1 -2.7049035247384523e-01 2.4911810898708389e+00 -1.6691641634960069e-01
|
||||
2 3.0739674554684748e-01 2.9607811923110940e+00 -8.4973624579030649e-01
|
||||
3 -7.0353916519192539e-01 1.2301035175216133e+00 -6.2811850060979157e-01
|
||||
4 -1.5818280599335734e+00 1.4837673105082276e+00 -1.2538397846300477e+00
|
||||
5 -9.0717031790556124e-01 9.2648976564062635e-01 3.9953566633035209e-01
|
||||
6 2.9350779927946186e-01 2.2974390371946465e-01 -1.2827179207187822e+00
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
26 2.5809237402965892e+00 4.0117602605909184e+00 3.2212060529312576e+00
|
||||
27 -1.9611343134166486e+00 -4.3563411935496905e+00 2.1098293111410187e+00
|
||||
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|
||||
29 -1.3126000190355391e+00 -3.5962518039701115e+00 2.2746342468355896e+00
|
||||
run_vel: ! |2
|
||||
1 8.0968238327908306e-03 1.6439353504426914e-02 4.8774271710863440e-03
|
||||
2 2.7129529964126462e-03 4.6286427111164284e-03 3.5805549693846352e-03
|
||||
3 -7.3249068559002473e-03 -1.3819430195421816e-02 -4.7723976289498213e-03
|
||||
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|
||||
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|
||||
6 -3.0914004879905335e-04 1.2755385764678133e-03 7.9574303350202582e-04
|
||||
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|
||||
8 3.9060281273221989e-04 -8.1444231918053418e-04 1.5134641148324972e-04
|
||||
9 1.2475530960659720e-03 -2.6608454451432528e-03 1.1117602907112732e-03
|
||||
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|
||||
11 -3.6977669078869707e-04 -1.5289071951960539e-03 -2.9176389881837113e-03
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
18 -8.0066124075139065e-04 -8.6271573462520822e-04 -1.4482975502198103e-03
|
||||
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|
||||
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|
||||
21 -1.4689171694079451e-03 -2.7352531109399892e-04 7.0581004713133645e-04
|
||||
22 -7.0694198156406830e-03 -4.2577150557698900e-03 2.8079073380301450e-04
|
||||
23 6.0446966473130361e-03 -1.4000132185117897e-03 2.5819751444708279e-03
|
||||
24 3.1926444029166840e-04 -9.9445445081424041e-04 1.5000138266644348e-04
|
||||
25 1.3789768148904548e-04 -4.4335891153916762e-03 -8.1808099807448656e-04
|
||||
26 2.0485904659168050e-03 2.7813359700824256e-03 4.3245727588882886e-03
|
||||
27 4.5604046194129701e-04 -1.0305531094668544e-03 2.1187977265303768e-04
|
||||
28 -6.2544520782408771e-03 1.4127711142458772e-03 -1.8429822149784341e-03
|
||||
29 6.4110649875996400e-04 3.1273432160629365e-03 3.7253670337420121e-03
|
||||
...
|
|
@ -0,0 +1,81 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 07:31:40 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix setforce
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix init all store/state 0 x y z
|
||||
variable xforce delete
|
||||
variable xforce atom f_init[1]
|
||||
variable zforce delete
|
||||
variable zforce equal 0.1*step/10.0
|
||||
fix move all nve
|
||||
fix test solute setforce v_xforce NULL v_zforce
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_vector: ! |-
|
||||
3 0.031197043446070438 0.027174896355546707 -0.0182497728803952
|
||||
run_pos: ! |2
|
||||
1 -2.7839620481540395e-01 2.4915057673839494e+00 -1.7245062454466442e-01
|
||||
2 3.0745979269788315e-01 2.9612799003321073e+00 -8.4973076516933943e-01
|
||||
3 -6.9694951347924872e-01 1.2299993897604549e+00 -6.2300854953769325e-01
|
||||
4 -1.5793472769015238e+00 1.4836803404053602e+00 -1.2569481988737716e+00
|
||||
5 -8.9756464996015772e-01 9.2644083748828165e-01 4.0242084569174030e-01
|
||||
6 2.9352829139925574e-01 2.9015145323915886e-01 -1.2827160918495246e+00
|
||||
7 3.3999574578926306e-01 -2.6300640916517719e-02 -2.4648543021131757e+00
|
||||
8 1.1649694705659248e+00 -4.8866051448760073e-01 -6.7629397660123991e-01
|
||||
9 1.3805287434723772e+00 -2.5300998557235649e-01 2.7100544850565261e-01
|
||||
10 2.0195691685418340e+00 -1.4622448609143475e+00 -9.6780016852929396e-01
|
||||
11 1.7926128454807839e+00 -1.9922215118728828e+00 -1.8898924616739676e+00
|
||||
12 3.0054041789622765e+00 -4.9025864489097593e-01 -1.6214582548089909e+00
|
||||
13 4.0537227713022892e+00 -8.9202793537180580e-01 -1.6400057359648736e+00
|
||||
14 2.6035820719573719e+00 -4.1791903022039290e-01 -2.6633025654961284e+00
|
||||
15 2.9675924523988120e+00 5.5426053668143505e-01 -1.2373520110302618e+00
|
||||
16 2.6517467440046008e+00 -2.4164567727480781e+00 3.5899296643466388e-02
|
||||
17 2.2324270083733913e+00 -2.0866208488166604e+00 1.1508661141107490e+00
|
||||
18 2.1369701651563577e+00 3.0158507318463847e+00 -3.5179348274587312e+00
|
||||
19 1.5355837133083070e+00 2.6255292347928294e+00 -4.2353987772404720e+00
|
||||
20 2.7727573004041375e+00 3.6923910447383275e+00 -3.9330842457623802e+00
|
||||
21 4.9040128090474138e+00 -4.0752348190131000e+00 -3.6210314733626974e+00
|
||||
22 4.3582355554811585e+00 -4.2126119427988371e+00 -4.4612844197907773e+00
|
||||
23 5.7439382850538623e+00 -3.5821957939720512e+00 -3.8766361297289245e+00
|
||||
24 2.0689243587569925e+00 3.1513346917721052e+00 3.1550389764777305e+00
|
||||
25 1.3045351337120681e+00 3.2665125710962655e+00 2.5111855269493146e+00
|
||||
26 2.5809237403312411e+00 4.0117602606156098e+00 3.2212060529774256e+00
|
||||
27 -1.9611343135827304e+00 -4.3563411936860819e+00 2.1098293111801389e+00
|
||||
28 -2.7473562684450474e+00 -4.0200819932540828e+00 1.5830052163388388e+00
|
||||
29 -1.3126000190081526e+00 -3.5962518039961902e+00 2.2746342468323033e+00
|
||||
run_vel: ! |2
|
||||
1 7.6195382798044376e-04 1.7047294266563661e-02 -2.1940546283620574e-04
|
||||
2 2.7760001474483962e-03 5.2757744130340666e-03 3.5889063918105712e-03
|
||||
3 -1.3220555707422056e-03 -1.3973728740579328e-02 -3.3339501062217507e-04
|
||||
4 -1.2575744817904762e-03 -6.7002024022163554e-03 -4.1121460729172752e-03
|
||||
5 -1.3669515604046946e-03 -1.0047013360250249e-02 7.7374600390847764e-05
|
||||
6 -2.8864792900532157e-04 5.9222680386688660e-02 7.9852988189535858e-04
|
||||
7 -9.2585889864279630e-05 -1.6457340485619719e-02 -7.7008422614923192e-04
|
||||
8 4.6015056791200718e-04 -3.3109316498999594e-03 1.5373612497734929e-04
|
||||
9 1.5352065637273457e-03 3.1937624988604553e-03 1.1201117131372088e-03
|
||||
10 5.9072315037472388e-04 -3.2700043246480542e-02 -2.3057549521760353e-04
|
||||
11 4.5712368059701517e-06 -3.8214916428847890e-03 -2.9092875657577752e-03
|
||||
12 1.2943078231358680e-03 -6.0079494716434921e-04 -1.2943284138686624e-03
|
||||
13 4.9199365930735345e-03 5.8023312918586692e-03 -7.7489345445261120e-04
|
||||
14 4.0516243615214899e-04 -5.8486182036653431e-03 -3.9249946949685144e-03
|
||||
15 -3.7089018420464036e-03 -5.7868019097368261e-03 3.2121433267619931e-03
|
||||
16 8.8035257588441089e-05 -2.0334633672149962e-02 1.4973527359082950e-03
|
||||
17 7.7360729694572576e-04 1.5346061058559362e-02 8.3704622311331378e-04
|
||||
18 -8.0066835867995026e-04 -8.6272351468143541e-04 -1.4482916352603645e-03
|
||||
19 1.2452384527498459e-03 -2.5061112043225221e-03 7.2998645858971855e-03
|
||||
20 3.5930056010593471e-03 3.6938854791676847e-03 3.2322736692798068e-03
|
||||
21 -1.4689186242560829e-03 -2.7352472551473247e-04 7.0581155868180371e-04
|
||||
22 -7.0694198604028301e-03 -4.2577150325890274e-03 2.8079083711864800e-04
|
||||
23 6.0446965730643750e-03 -1.4000132386422566e-03 2.5819752050698025e-03
|
||||
24 3.1926469474555008e-04 -9.9445460100738717e-04 1.5000192930508560e-04
|
||||
25 1.3789867459853888e-04 -4.4335884646610046e-03 -8.1807894538992332e-04
|
||||
26 2.0485905361409002e-03 2.7813360188135763e-03 4.3245728523802927e-03
|
||||
27 4.5604012089853278e-04 -1.0305533883296402e-03 2.1187985225197545e-04
|
||||
28 -6.2544520817733613e-03 1.4127710886673889e-03 -1.8429822030169415e-03
|
||||
29 6.4110655177640171e-04 3.1273431592077948e-03 3.7253670266864263e-03
|
||||
...
|
|
@ -0,0 +1,77 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 16:30:22 202
|
||||
epsilon: 2e-12
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix shake
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix move all nve
|
||||
fix test solvent shake 1.0e-5 20 4 b 5 a 1
|
||||
fix_modify test virial yes
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_stress: ! |-
|
||||
-6.7489461181454146e+01 -3.6466852749734755e+01 -4.1453635345326461e+01 -3.0881721833345594e+01 -2.8271651455044346e+01 1.8512237607314627e-01
|
||||
run_pos: ! |2
|
||||
1 -2.7045559935221097e-01 2.4912159904412490e+00 -1.6695851634760922e-01
|
||||
2 3.1004029578877490e-01 2.9612354630874571e+00 -8.5466363025011627e-01
|
||||
3 -7.0398551512563190e-01 1.2305509950678348e+00 -6.2777526850896104e-01
|
||||
4 -1.5818159336526965e+00 1.4837407818978032e+00 -1.2538710835933191e+00
|
||||
5 -9.0719763671886688e-01 9.2652103888784798e-01 3.9954210492830977e-01
|
||||
6 2.4831720377219527e-01 2.8313021315702191e-01 -1.2314233326160173e+00
|
||||
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|
||||
8 1.1743552220275317e+00 -4.8863228684188353e-01 -6.3783432829693443e-01
|
||||
9 1.3800524229360562e+00 -2.5274721027441394e-01 2.8353985886396749e-01
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
17 2.2153577782070029e+00 -2.0897985186673269e+00 1.1963150798970605e+00
|
||||
18 2.1373900776598025e+00 3.0170538458090777e+00 -3.5215797395691513e+00
|
||||
19 1.5430025676356878e+00 2.6303296449526830e+00 -4.2266668834026815e+00
|
||||
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|
||||
21 4.9052192222610893e+00 -4.0732760101838785e+00 -3.6279255237118848e+00
|
||||
22 4.3519818207211687e+00 -4.2184829355408970e+00 -4.4481958001387492e+00
|
||||
23 5.7453761098528204e+00 -3.5841442260386134e+00 -3.8622042081775270e+00
|
||||
24 2.0680414913305336e+00 3.1533722552494279e+00 3.1535500327659949e+00
|
||||
25 1.3065720083048245e+00 3.2620808683257665e+00 2.5145299517926252e+00
|
||||
26 2.5824112033663726e+00 4.0080581544129315e+00 3.2238053751606111e+00
|
||||
27 -1.9611343130357310e+00 -4.3563411931359832e+00 2.1098293115523683e+00
|
||||
28 -2.7473562684513424e+00 -4.0200819932379339e+00 1.5830052163433954e+00
|
||||
29 -1.3126000191366676e+00 -3.5962518039489830e+00 2.2746342468733833e+00
|
||||
run_vel: ! |2
|
||||
1 8.1705729507146694e-03 1.6516406093744648e-02 4.7902279090199758e-03
|
||||
2 5.4501493276694424e-03 5.1791698760542673e-03 -1.4372929651720338e-03
|
||||
3 -8.2298303446991464e-03 -1.2926552110646276e-02 -4.0984171815350275e-03
|
||||
4 -3.7699042793691569e-03 -6.5722892086671888e-03 -1.1184640147877201e-03
|
||||
5 -1.1021961023179821e-02 -9.8906780808723557e-03 -2.8410737186752395e-03
|
||||
6 -3.9676664596302008e-02 4.6817059618450937e-02 3.7148492579484528e-02
|
||||
7 9.1034031301506118e-04 -1.0128522664904683e-02 -5.1568252954671344e-02
|
||||
8 7.9064703413713640e-03 -3.3507265483952125e-03 3.4557099321061942e-02
|
||||
9 1.5644176069499448e-03 3.7365546445246702e-03 1.5047408832397751e-02
|
||||
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|
||||
11 -4.7835964007472464e-03 -3.7481383012996786e-03 -2.3464103653896310e-03
|
||||
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|
||||
13 2.7531739986205606e-03 5.8171065863360308e-03 -7.9467449090663456e-04
|
||||
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|
||||
15 -1.8547943904014333e-03 -5.8554729842982909e-03 6.2938484741557809e-03
|
||||
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|
||||
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|
||||
18 3.6201702653131140e-04 -3.1019808758173800e-04 8.1201764037217537e-04
|
||||
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|
||||
20 -6.5417980186682713e-04 4.4256252972757129e-04 4.7856452381576193e-04
|
||||
21 -1.3982466143572327e-03 -3.2420186877161783e-04 1.1419969006099733e-03
|
||||
22 -1.5884121227847409e-03 -1.5258103137919276e-03 1.4829684065368715e-03
|
||||
23 2.8156656234650006e-04 -3.9296160890725804e-03 -3.6141001623026133e-04
|
||||
24 8.5788312813832768e-04 -9.4446247923316430e-04 5.5288134920163914e-04
|
||||
25 1.6004032839658105e-03 -2.2093787045529070e-03 -5.4710568918423246e-04
|
||||
26 -1.5640453157606073e-03 3.5755072465497545e-04 2.4453237299123754e-03
|
||||
27 4.5604120291777391e-04 -1.0305523027099432e-03 2.1188058380935704e-04
|
||||
28 -6.2544520861865490e-03 1.4127711176129324e-03 -1.8429821884795277e-03
|
||||
29 6.4110631474916110e-04 3.1273432713407900e-03 3.7253671102111473e-03
|
||||
...
|
|
@ -0,0 +1,77 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 16:30:22 202
|
||||
epsilon: 2e-12
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix shake
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix move all nve
|
||||
fix test solute shake 1.0e-5 20 4 m 4.00794
|
||||
fix_modify test virial yes
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_stress: ! |2-
|
||||
4.1327164284089424e+00 4.1298776885725212e+00 7.7065049821613400e+01 7.3427739401911385e-01 3.1021321349896283e+01 3.0482918118325731e+01
|
||||
run_pos: ! |2
|
||||
1 -2.6863205200661111e-01 2.4924200251053290e+00 -1.6940797171639235e-01
|
||||
2 3.0314855494326542e-01 2.9555142432097057e+00 -8.4661597718762593e-01
|
||||
3 -7.0471630526064610e-01 1.2320076232474950e+00 -6.3059972306981116e-01
|
||||
4 -1.5777965340724665e+00 1.4826179820449468e+00 -1.2510232575370359e+00
|
||||
5 -9.0838614372668147e-01 9.2479324973660515e-01 4.0580653202856448e-01
|
||||
6 2.4793967906067266e-01 2.8343287430300662e-01 -1.2316652319085906e+00
|
||||
7 3.4143850947000215e-01 -2.2651528366236535e-02 -2.5292473574049557e+00
|
||||
8 1.1730749609547342e+00 -4.9001540353149414e-01 -6.4332649946665554e-01
|
||||
9 1.3845859932367997e+00 -2.4786933347311280e-01 3.0357812296279302e-01
|
||||
10 2.0524841105947438e+00 -1.4583699771497181e+00 -9.7983952239384009e-01
|
||||
11 1.7850840352923725e+00 -1.9987544346588086e+00 -1.8998839983899150e+00
|
||||
12 3.0095045212031324e+00 -4.8782153578051046e-01 -1.6261252340943422e+00
|
||||
13 4.0351185088311912e+00 -8.8522351740468841e-01 -1.6398224375628421e+00
|
||||
14 2.6123239686636546e+00 -4.1890190267071897e-01 -2.6495985815032790e+00
|
||||
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|
||||
16 2.6747027555918814e+00 -2.4124113563394083e+00 -2.3415671532674848e-02
|
||||
17 2.2153595673079205e+00 -2.0898013762372747e+00 1.1963177401330016e+00
|
||||
18 2.1369701694435119e+00 3.0158507393675174e+00 -3.5179348311269880e+00
|
||||
19 1.5355837135166919e+00 2.6255292354443638e+00 -4.2353987776659867e+00
|
||||
20 2.7727573004750279e+00 3.6923910448253729e+00 -3.9330842457663850e+00
|
||||
21 4.9040128074584084e+00 -4.0752348173558683e+00 -3.6210314712921452e+00
|
||||
22 4.3582355554470675e+00 -4.2126119427230533e+00 -4.4612844196479138e+00
|
||||
23 5.7439382849367417e+00 -3.5821957939146403e+00 -3.8766361296113812e+00
|
||||
24 2.0689243589978767e+00 3.1513346914192564e+00 3.1550389757754025e+00
|
||||
25 1.3045351338498816e+00 3.2665125711118623e+00 2.5111855260643079e+00
|
||||
26 2.5809237403158591e+00 4.0117602606099725e+00 3.2212060529034496e+00
|
||||
27 -1.9611343131186747e+00 -4.3563411932863181e+00 2.1098293116020814e+00
|
||||
28 -2.7473562684591109e+00 -4.0200819932508631e+00 1.5830052163456609e+00
|
||||
29 -1.3126000191565619e+00 -3.5962518039874860e+00 2.2746342468906682e+00
|
||||
run_vel: ! |2
|
||||
1 7.7374089697702340e-03 1.5916892554636120e-02 5.0456645075959315e-03
|
||||
2 6.5175317085631830e-03 6.0077809909591315e-03 -2.7565762268061691e-03
|
||||
3 -7.3639495008649726e-03 -1.2783103383496114e-02 -3.3210885167291849e-03
|
||||
4 -5.8960928588029050e-03 -5.9659026594337371e-03 -2.6326334955469629e-03
|
||||
5 -1.0929649166221467e-02 -9.6585820819745337e-03 -3.0956626591882317e-03
|
||||
6 -4.0123707366825134e-02 4.7187394112873600e-02 3.6871538264118715e-02
|
||||
7 9.1133487010605738e-04 -1.0132608633652593e-02 -5.1595915280729321e-02
|
||||
8 7.0089143878456980e-03 -4.2476532224071028e-03 3.0986626913844219e-02
|
||||
9 4.6371837171993438e-03 7.0467783396206997e-03 2.8626734931872490e-02
|
||||
10 3.0610207065038343e-02 -2.7619291009667819e-02 -1.2133094808158711e-02
|
||||
11 -7.2029914080563463e-03 -9.4537429127199805e-03 -1.1792451031601467e-02
|
||||
12 1.5104136100256851e-03 -8.6488026266383442e-04 -2.9343726025856101e-03
|
||||
13 4.0386002756917826e-03 5.5920871347548079e-03 -9.5141171089924864e-04
|
||||
14 3.7450160863088276e-03 -5.7205370491546937e-03 -4.1283641103704487e-03
|
||||
15 -1.6192252475286013e-03 -4.5865111215587151e-03 6.6369580798579545e-03
|
||||
16 1.8683716258411448e-02 -1.3263096088951513e-02 -4.5607321000770314e-02
|
||||
17 -1.2893753425925471e-02 9.7485795481259876e-03 3.7300775385779875e-02
|
||||
18 -8.0065894051881148e-04 -8.6270684963651867e-04 -1.4483015146944855e-03
|
||||
19 1.2452389852680510e-03 -2.5061098313021958e-03 7.2998634573395622e-03
|
||||
20 3.5930058838403115e-03 3.6938858373569165e-03 3.2322734729320975e-03
|
||||
21 -1.4689219027528956e-03 -2.7352134530947056e-04 7.0581593448005328e-04
|
||||
22 -7.0694199260273143e-03 -4.2577148857392598e-03 2.8079115157198279e-04
|
||||
23 6.0446963222438397e-03 -1.4000131442962716e-03 2.5819754631691500e-03
|
||||
24 3.1926442964369691e-04 -9.9445591935644600e-04 1.5000033448111903e-04
|
||||
25 1.3789825021844792e-04 -4.4335889596263511e-03 -8.1808100227326449e-04
|
||||
26 2.0485904735292599e-03 2.7813359659683385e-03 4.3245727170611618e-03
|
||||
27 4.5604110580961207e-04 -1.0305524671180935e-03 2.1188063421234097e-04
|
||||
28 -6.2544520944132998e-03 1.4127711036803850e-03 -1.8429821866102578e-03
|
||||
29 6.4110628696208052e-04 3.1273432221612541e-03 3.7253671295737062e-03
|
||||
...
|
|
@ -0,0 +1,75 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 07:12:16 202
|
||||
epsilon: 1e-14
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix temp/berendsen
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix all solute nve
|
||||
fix test solute temp/berendsen 50.0 ${t_target} 1.0
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: 140.500399901528
|
||||
run_pos: ! |2
|
||||
1 -2.7309636642471763e-01 2.4861645745691683e+00 -1.6828848361402490e-01
|
||||
2 3.0754156828804369e-01 2.9580811430810168e+00 -8.5566344544442696e-01
|
||||
3 -7.0122770940380430e-01 1.2339445479551032e+00 -6.2630377656128777e-01
|
||||
4 -1.5804472514360892e+00 1.4859973441832681e+00 -1.2520124052982806e+00
|
||||
5 -9.0374947361394331e-01 9.2892484821615950e-01 4.0028294365544248e-01
|
||||
6 2.6054522561991372e-01 2.6809488486741462e-01 -1.2454390553490415e+00
|
||||
7 3.4113678304929385e-01 -1.8979558589829474e-02 -2.5116522993743571e+00
|
||||
8 1.1716199786283663e+00 -4.8725335288759802e-01 -6.4822281049325703e-01
|
||||
9 1.3792620285766666e+00 -2.5270770981342516e-01 2.7933353973879949e-01
|
||||
10 2.0422906283128670e+00 -1.4518843639641870e+00 -9.7890931987345720e-01
|
||||
11 1.7892476580970549e+00 -1.9906322518767001e+00 -1.8873753918956127e+00
|
||||
12 3.0052861385021128e+00 -4.8980879715968567e-01 -1.6218666251486527e+00
|
||||
13 4.0492389166811398e+00 -8.9494016256557662e-01 -1.6394908431361932e+00
|
||||
14 2.6057881176374380e+00 -4.1473486027171080e-01 -2.6608124094383205e+00
|
||||
15 2.9716736613290236e+00 5.5705022673260141e-01 -1.2371490367526674e+00
|
||||
16 2.6686127048309953e+00 -2.4079062466699259e+00 -8.6769783148858658e-03
|
||||
17 2.2194270729627537e+00 -2.0931602868129722e+00 1.1836986021579625e+00
|
||||
18 2.1384791188033843e+00 3.0177261773770208e+00 -3.5160827596876225e+00
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
25 1.2998381073113014e+00 3.2755513587518097e+00 2.5092990173114837e+00
|
||||
26 2.5807438597688113e+00 4.0120175892854135e+00 3.2133398379059099e+00
|
||||
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|
||||
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|
||||
29 -1.3108232656499081e+00 -3.5992986322410760e+00 2.2680459788743503e+00
|
||||
run_vel: ! |2
|
||||
1 4.4822485045367504e-03 9.2630275931323714e-03 2.7690954442220936e-03
|
||||
2 2.5115450429997297e-03 1.9432770966180499e-03 -1.6028636434240902e-03
|
||||
3 -4.3937474121539854e-03 -7.7137150893059059e-03 -2.2604818247973606e-03
|
||||
4 -1.9476891076786384e-03 -3.4752865444196575e-03 2.5858331694165467e-04
|
||||
5 -6.0140772566964372e-03 -5.8056118324908155e-03 -1.6285179811875374e-03
|
||||
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|
||||
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|
||||
8 4.3820080553155973e-03 -1.7125373775392955e-03 1.9574889525765377e-02
|
||||
9 6.1123931362892586e-04 2.7099585868545638e-03 8.3091915039055237e-03
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,75 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 14:54:04 202
|
||||
epsilon: 1e-14
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix temp/csld
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix all solute nve
|
||||
fix test solute temp/csld 50.0 ${t_target} 1.0 62823
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: 150.876840894722
|
||||
run_pos: ! |2
|
||||
1 -2.7647311866382945e-01 2.4857065646723955e+00 -1.6617735618091201e-01
|
||||
2 3.0499516303476115e-01 2.9537709384435074e+00 -8.5187606183120801e-01
|
||||
3 -7.0089965540770716e-01 1.2370509246791983e+00 -6.2647646451254169e-01
|
||||
4 -1.5876070862522318e+00 1.4894674416472973e+00 -1.2438382416135443e+00
|
||||
5 -8.9863030307286906e-01 9.2993444238449641e-01 4.0139614242262101e-01
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
25 1.2998381073113014e+00 3.2755513587518097e+00 2.5092990173114837e+00
|
||||
26 2.5807438597688113e+00 4.0120175892854135e+00 3.2133398379059099e+00
|
||||
27 -1.9613581876744359e+00 -4.3556300596085160e+00 2.1101467673534788e+00
|
||||
28 -2.7406520384725965e+00 -4.0207251278130975e+00 1.5828689861678511e+00
|
||||
29 -1.3108232656499081e+00 -3.5992986322410760e+00 2.2680459788743503e+00
|
||||
run_vel: ! |2
|
||||
1 -6.1518106640055098e-04 9.8413236728091859e-03 2.6821401423517848e-03
|
||||
2 5.7584895033439311e-03 -6.4512016069715183e-03 -4.6331491821159322e-03
|
||||
3 -4.3045744902141230e-03 -1.1357763612046034e-03 -1.5278167433944827e-03
|
||||
4 -7.9024210036195315e-04 8.4724079430485693e-03 8.7245281838652239e-03
|
||||
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|
||||
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|
||||
7 6.3241608228865333e-04 -1.0634159681637320e-03 -1.6769555657594071e-02
|
||||
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|
||||
9 7.4801357958314968e-03 -1.7324571377721242e-04 5.5874995558103397e-03
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
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|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,75 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 14:53:58 202
|
||||
epsilon: 1e-14
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix temp/csvr
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
fix all solute nve
|
||||
fix test solute temp/csvr 50.0 ${t_target} 1.0 82573
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
global_scalar: 138.691817964765
|
||||
run_pos: ! |2
|
||||
1 -2.7280762260987462e-01 2.4866672893615482e+00 -1.6817690082511103e-01
|
||||
2 3.0792532339926826e-01 2.9586317848907591e+00 -8.5537067987838589e-01
|
||||
3 -7.0155509000995808e-01 1.2337201042383152e+00 -6.2645947625508680e-01
|
||||
4 -1.5806259405926315e+00 1.4857183624992281e+00 -1.2524138927067634e+00
|
||||
5 -9.0413749520933206e-01 9.2874389205720931e-01 4.0021691625350447e-01
|
||||
6 2.5940135491607696e-01 2.6955443838876736e-01 -1.2440989174242931e+00
|
||||
7 3.4115709633311569e-01 -1.9361196729511615e-02 -2.5133202867901732e+00
|
||||
8 1.1718886190395006e+00 -4.8742160677430901e-01 -6.4725283909309406e-01
|
||||
9 1.3794054639593258e+00 -2.5286053024356114e-01 2.7978731678256097e-01
|
||||
10 2.0431332821795114e+00 -1.4526503498146288e+00 -9.7932641944253374e-01
|
||||
11 1.7890934771379468e+00 -1.9908605501813910e+00 -1.8876922594986423e+00
|
||||
12 3.0054411287235951e+00 -4.8987634219780540e-01 -1.6220627513203476e+00
|
||||
13 4.0496794476606635e+00 -8.9447232940528654e-01 -1.6395816350351760e+00
|
||||
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|
||||
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|
||||
16 2.6691735451973395e+00 -2.4083535475815920e+00 -9.9660994024412010e-03
|
||||
17 2.2190855332677919e+00 -2.0928268444165918e+00 1.1849187762465219e+00
|
||||
18 2.1384791188033843e+00 3.0177261773770208e+00 -3.5160827596876225e+00
|
||||
19 1.5349125211132961e+00 2.6315969880333707e+00 -4.2472859440220647e+00
|
||||
20 2.7641167828863153e+00 3.6833419064000221e+00 -3.9380850623312638e+00
|
||||
21 4.9064454390208301e+00 -4.0751205255383196e+00 -3.6215576073601046e+00
|
||||
22 4.3687453488627543e+00 -4.2054270536772504e+00 -4.4651491269372565e+00
|
||||
23 5.7374928154769504e+00 -3.5763355905184966e+00 -3.8820297194230728e+00
|
||||
24 2.0684115301174013e+00 3.1518221747664397e+00 3.1554242678474576e+00
|
||||
25 1.2998381073113014e+00 3.2755513587518097e+00 2.5092990173114837e+00
|
||||
26 2.5807438597688113e+00 4.0120175892854135e+00 3.2133398379059099e+00
|
||||
27 -1.9613581876744359e+00 -4.3556300596085160e+00 2.1101467673534788e+00
|
||||
28 -2.7406520384725965e+00 -4.0207251278130975e+00 1.5828689861678511e+00
|
||||
29 -1.3108232656499081e+00 -3.5992986322410760e+00 2.2680459788743503e+00
|
||||
run_vel: ! |2
|
||||
1 4.6937564710920216e-03 9.6555961564013804e-03 2.8708039254905881e-03
|
||||
2 2.7267170444366185e-03 2.2058192686523290e-03 -1.5353913821082035e-03
|
||||
3 -4.6306766915023894e-03 -7.9351414155915453e-03 -2.3497227140117419e-03
|
||||
4 -2.0674867361574730e-03 -3.6722365151599765e-03 1.1155363952115448e-04
|
||||
5 -6.3227892412089171e-03 -6.0246930339812061e-03 -1.6991048796308555e-03
|
||||
6 -2.3313325205229000e-02 2.7197550589909671e-02 2.0738710039103190e-02
|
||||
7 5.6010701530313550e-04 -5.7071338016654654e-03 -2.9476037762661333e-02
|
||||
8 4.5357117797050145e-03 -1.7956042409071231e-03 2.0337353845153724e-02
|
||||
9 6.9780844880996972e-04 2.7260623247486841e-03 8.7428367624614034e-03
|
||||
10 1.7158823348639104e-02 -1.7353191765645898e-02 -8.8565471428928583e-03
|
||||
11 -2.7754554284794915e-03 -1.9484853125617634e-03 -8.5708629159661183e-04
|
||||
12 1.1446489442763310e-03 -8.1052477490650056e-05 -1.5736644561053304e-03
|
||||
13 8.6708264237769490e-04 2.7906792431300104e-03 -3.2527835321513224e-04
|
||||
14 2.1170915886558860e-03 -2.6750828934791800e-03 -1.6081787775879092e-03
|
||||
15 -2.7969721465264459e-04 -2.8792217329085164e-03 3.1381108795769806e-03
|
||||
16 1.0810115663068724e-02 -7.5713924362591457e-03 -2.6575629458356204e-02
|
||||
17 -7.5547245737932044e-03 5.5628964952133871e-03 2.1384064341807719e-02
|
||||
18 -6.0936815808025862e-04 -9.3774557532468582e-04 -3.3558072507805731e-04
|
||||
19 -6.9919768291957119e-04 -3.6060777270430031e-03 4.2833405289822791e-03
|
||||
20 4.7777805013736515e-03 5.1003745845520452e-03 1.8002873923729241e-03
|
||||
21 -9.5568188553430398e-04 1.6594630943762931e-04 -1.8199788009966615e-04
|
||||
22 -3.3137518957653462e-03 -2.8683968287936054e-03 3.6384389958326871e-03
|
||||
23 2.4209481134686401e-04 -4.5457709985051130e-03 2.7663581642115042e-03
|
||||
24 2.5447450568861086e-04 4.8412447786110117e-04 -4.8021914527341357e-04
|
||||
25 4.3722771097312743e-03 -4.5184411669545515e-03 2.5200952006556795e-03
|
||||
26 -1.9250110555001179e-03 -3.0342169883610837e-03 3.5062814567984532e-03
|
||||
27 -2.6510179146429716e-04 3.6306203629019116e-04 -5.6235585400647747e-04
|
||||
28 -2.3068708109787484e-04 -8.5663070212203200e-04 2.1302563179109169e-03
|
||||
29 -2.5054744388303732e-03 -1.6773997805290820e-04 2.8436699761004796e-03
|
||||
...
|
|
@ -0,0 +1,81 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Sun Aug 9 16:30:22 202
|
||||
epsilon: 1e-14
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
fix wall/harmonic
|
||||
pre_commands: ! |
|
||||
boundary p f p
|
||||
post_commands: ! |
|
||||
fix move all nve
|
||||
fix test solute wall/harmonic ylo EDGE 100.0 0.0 5.0 yhi EDGE 100.0 0.0 5.0
|
||||
fix_modify test virial yes
|
||||
input_file: in.fourmol
|
||||
natoms: 29
|
||||
run_stress: ! |2-
|
||||
0.0000000000000000e+00 7.2422093200265749e+02 0.0000000000000000e+00 0.0000000000000000e+00 0.0000000000000000e+00 0.0000000000000000e+00
|
||||
global_scalar: 42.6997744353244
|
||||
global_vector: ! |-
|
||||
2 0.0 161.92409617466126
|
||||
run_pos: ! |2
|
||||
1 -2.7051715090682593e-01 2.4891718422041942e+00 -1.6687343912524535e-01
|
||||
2 3.1037661579862175e-01 2.9347166386691113e+00 -8.5496435221221156e-01
|
||||
3 -7.0402515865264603e-01 1.2304739304383521e+00 -6.2777422080240730e-01
|
||||
4 -1.5818156002522876e+00 1.4837443919066966e+00 -1.2538703954644463e+00
|
||||
5 -9.0719963033698159e-01 9.2651871779341399e-01 3.9954137559444142e-01
|
||||
6 2.4831695467823400e-01 2.8312974957866005e-01 -1.2314232372542311e+00
|
||||
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|
||||
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|
||||
9 1.3800524227031346e+00 -2.5274721005121037e-01 2.8353985882456578e-01
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
21 4.9040128073837339e+00 -4.0752348170758461e+00 -3.6210314709795299e+00
|
||||
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|
||||
23 5.7439382849366911e+00 -3.5821957939240279e+00 -3.8766361295959513e+00
|
||||
24 2.0689243582618388e+00 3.1513346906720905e+00 3.1550389755134005e+00
|
||||
25 1.3045351331892774e+00 3.2665125705550957e+00 2.5111855258151388e+00
|
||||
26 2.5809237402747862e+00 4.0117602605470681e+00 3.2212060529139430e+00
|
||||
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|
||||
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|
||||
29 -1.3126000191357743e+00 -3.5962518039473323e+00 2.2746342468733483e+00
|
||||
run_vel: ! |2
|
||||
1 8.0432349631399738e-03 1.4401841389211066e-02 4.9594370365889035e-03
|
||||
2 6.1330361195047721e-03 -2.0880295268721646e-02 -2.0467529305087974e-03
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
7 9.1033730239907995e-04 -1.0128528243740664e-02 -5.1568250829251872e-02
|
||||
8 7.9064772413549398e-03 -3.3507427942055237e-03 3.4557101116794005e-02
|
||||
9 1.5644169779778431e-03 3.7365552198096001e-03 1.5047408727814703e-02
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
15 -1.8547944555517618e-03 -5.8554729566882438e-03 6.2938485388423782e-03
|
||||
16 1.8681499934669346e-02 -1.3262466149576241e-02 -4.5638651461858082e-02
|
||||
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|
||||
18 -8.0065791408039360e-04 -8.6270482947906340e-04 -1.4483041230016333e-03
|
||||
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|
||||
20 3.5930057934746205e-03 3.6938851526077707e-03 3.2322732077980764e-03
|
||||
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|
||||
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|
||||
23 6.0446963236685126e-03 -1.4000131545098867e-03 2.5819754799379689e-03
|
||||
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|
||||
25 1.3789762510432095e-04 -4.4335895501596183e-03 -8.1808122106665057e-04
|
||||
26 2.0485904106950122e-03 2.7813358601316666e-03 4.3245727251785618e-03
|
||||
27 4.5604120562021776e-04 -1.0305522931718021e-03 2.1188058006115626e-04
|
||||
28 -6.2544520854975879e-03 1.4127711193315995e-03 -1.8429821890767147e-03
|
||||
29 6.4110631581209361e-04 3.1273432740202512e-03 3.7253671096581808e-03
|
||||
...
|
|
@ -11,6 +11,7 @@ variable bond_style index zero
|
|||
variable angle_style index zero
|
||||
variable dihedral_style index zero
|
||||
variable improper_style index zero
|
||||
variable t_target index 100.0
|
||||
|
||||
atom_style full
|
||||
atom_modify map array
|
||||
|
|
|
@ -0,0 +1,155 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Tue Aug 11 09:00:37 202
|
||||
epsilon: 5e-13
|
||||
prerequisites: ! |
|
||||
pair extep
|
||||
pre_commands: ! |
|
||||
variable newton_pair delete
|
||||
variable newton_pair index on
|
||||
post_commands: ! ""
|
||||
input_file: in.manybody
|
||||
pair_style: extep
|
||||
pair_coeff: ! |
|
||||
* * BN.extep B B B B N N N N
|
||||
extract: ! ""
|
||||
natoms: 64
|
||||
init_vdwl: -8.35953889724907
|
||||
init_coul: 0
|
||||
init_stress: ! |-
|
||||
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|
||||
init_forces: ! |2
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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||||
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||||
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||||
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|
||||
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|
||||
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|
||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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||||
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|
||||
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||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
64 -5.8791675102747618e+00 -6.4393494182844400e+00 -6.6208407800581917e+00
|
||||
run_vdwl: -16.8840416364271
|
||||
run_coul: 0
|
||||
run_stress: ! |-
|
||||
-1.3023969384493245e+02 -1.3580025778156107e+02 -1.4536894208589501e+02 1.0061876221810238e+01 -3.8457172367649790e+01 -3.0279819359183634e+01
|
||||
run_forces: ! |2
|
||||
1 4.2151301161565744e+00 -3.6390534480677870e+00 -4.5749170420795036e+00
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
45 3.0409089877497220e+00 -3.5877275612389248e+00 3.7505875102201349e+00
|
||||
46 5.5606611340878409e+00 4.2750056677139590e+00 -9.0030219276983683e+00
|
||||
47 -2.0059845366884623e+00 -1.7288349179273728e+00 -2.1071433121282954e+00
|
||||
48 0.0000000000000000e+00 0.0000000000000000e+00 0.0000000000000000e+00
|
||||
49 6.7165455943000545e+00 8.2672242001536667e+00 9.2130977806023040e+00
|
||||
50 0.0000000000000000e+00 0.0000000000000000e+00 0.0000000000000000e+00
|
||||
51 6.6173330934528316e+00 -7.7485901268776303e+00 -6.1667071332991661e+00
|
||||
52 -7.6636831036306248e+00 7.3963275970137801e+00 -9.2299416767852378e+00
|
||||
53 -6.7165455943000545e+00 -8.2672242001536667e+00 -9.2130977806023040e+00
|
||||
54 -4.2151301161565744e+00 3.6390534480677870e+00 4.5749170420795036e+00
|
||||
55 -5.6053787149515859e+00 6.2455123012552054e+00 5.2017396921686627e+00
|
||||
56 0.0000000000000000e+00 0.0000000000000000e+00 0.0000000000000000e+00
|
||||
57 0.0000000000000000e+00 0.0000000000000000e+00 0.0000000000000000e+00
|
||||
58 0.0000000000000000e+00 0.0000000000000000e+00 0.0000000000000000e+00
|
||||
59 -8.2476519310731433e+00 -7.4728668043315274e+00 6.1589659169511144e+00
|
||||
60 7.7635109064849708e+00 8.7298107718933409e+00 8.8995529941093068e+00
|
||||
61 0.0000000000000000e+00 0.0000000000000000e+00 0.0000000000000000e+00
|
||||
62 1.8498915690341950e+00 -2.1904456930058798e+00 1.7641018344430419e+00
|
||||
63 -6.5253555197300255e+00 5.2364862076387979e+00 7.4476646183239730e+00
|
||||
64 -7.7635109064849708e+00 -8.7298107718933409e+00 -8.8995529941093068e+00
|
||||
...
|
|
@ -0,0 +1,103 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Tue Aug 11 08:52:27 202
|
||||
epsilon: 5e-14
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
pair lj/cut/tip4p/cut
|
||||
pair e3b
|
||||
pre_commands: ! |
|
||||
variable newton_pair delete
|
||||
variable newton_pair index on
|
||||
post_commands: ! |
|
||||
pair_modify mix arithmetic
|
||||
input_file: in.fourmol
|
||||
pair_style: hybrid/overlay lj/cut/tip4p/cut 5 2 5 1 0.15 10.0 e3b 5
|
||||
pair_coeff: ! |
|
||||
1 1 lj/cut/tip4p/cut 0.02 2.5 8
|
||||
1 2 lj/cut/tip4p/cut 0.01 1.75 8
|
||||
1 3 lj/cut/tip4p/cut 0.02 2.85 8
|
||||
1 4 lj/cut/tip4p/cut 0.0173205 2.8 8
|
||||
1 5 lj/cut/tip4p/cut 0.0173205 2.8 8
|
||||
2 2 lj/cut/tip4p/cut 0.0 1 8
|
||||
2 3 lj/cut/tip4p/cut 0.0 2.1 8
|
||||
2 4 lj/cut/tip4p/cut 0.0 0.5 8
|
||||
2 5 lj/cut/tip4p/cut 0.0 2.05 8
|
||||
3 3 lj/cut/tip4p/cut 0.02 3.2 8
|
||||
3 4 lj/cut/tip4p/cut 0.0173205 3.15 8
|
||||
3 5 lj/cut/tip4p/cut 0.0173205 3.15 8
|
||||
4 4 lj/cut/tip4p/cut 0.015 3.1 8
|
||||
4 5 lj/cut/tip4p/cut 0.015 3.1 8
|
||||
5 5 lj/cut/tip4p/cut 0.015 3.1 8
|
||||
* * e3b preset 2015
|
||||
extract: ! ""
|
||||
natoms: 29
|
||||
init_vdwl: 584.671488129934
|
||||
init_coul: -128.977932168035
|
||||
init_stress: ! |2-
|
||||
1.4231803769197056e+03 1.6927616344571190e+03 3.8078398830142301e+03 -1.0764791807445065e+03 -2.0803020422504056e+02 7.2362454225684814e+02
|
||||
init_forces: ! |2
|
||||
1 1.3685073689571539e+02 3.9938817130363043e+02 1.4670208197474381e+02
|
||||
2 9.0831848103278351e-02 -3.3313499027414042e+00 -1.2979093715118299e+00
|
||||
3 -1.4545924445052987e+02 -3.8860032656119461e+02 -1.3922527196173618e+02
|
||||
4 2.0451930122273901e-01 1.9998707505206059e-01 -1.9241529187480502e-01
|
||||
5 -4.0641917540788286e-01 6.8305809252357585e-01 -8.1657240858196867e-02
|
||||
6 -8.3005250913688155e+02 9.6027287048535652e+02 1.1479388267952975e+03
|
||||
7 5.7965772264279785e+01 -3.3542560545536020e+02 -1.7140602299329378e+03
|
||||
8 2.2225177792226708e+02 -1.9967109198380381e+01 7.5267413514547968e+02
|
||||
9 1.6389055151637297e+00 -5.6390633543953870e+00 1.5311382036446766e+00
|
||||
10 5.2847373884574995e+02 -6.1581374406926625e+02 -1.9338541601100667e+02
|
||||
11 -1.0650139622803310e+00 1.3236640560743722e+00 -5.2793717146291574e-01
|
||||
12 2.5409781891966190e+01 1.5668165497794694e+01 -1.2455369958080537e+01
|
||||
13 -3.8402453550913235e-01 1.8207125947890837e-01 -1.7705990497731289e-01
|
||||
14 -1.2512809595558640e+00 5.7459561642481449e-01 -2.8979110225243121e-01
|
||||
15 2.0365418860293560e-01 -1.2414160528552476e-01 -9.9240093291718068e-01
|
||||
16 4.6129498522272758e+02 -3.2953690411160284e+02 -1.1861885601087611e+03
|
||||
17 -4.5520701054411796e+02 3.2122601151151810e+02 1.1988318762398187e+03
|
||||
18 1.0740180745738025e-01 4.7707032497364823e+00 -8.4412268781496813e+00
|
||||
19 1.7141655109952687e+00 -1.6053719639650721e+00 6.5795299293212599e+00
|
||||
20 -3.3084525007896382e+00 -5.6180547380703150e+00 4.8413072040789036e+00
|
||||
21 9.3296734400806747e-01 3.1537166348997001e+00 -7.8569580243261550e+00
|
||||
22 3.7050652612958657e+00 1.4003826804296502e+00 5.0400300091900805e+00
|
||||
23 -6.8171671139915162e+00 -4.4579919295941908e+00 2.3028567081889286e+00
|
||||
24 -8.7246666836007025e-01 7.8447869020563736e+00 -3.8113771906842273e+00
|
||||
25 5.0290773121564376e+00 -9.4339583438843400e-01 4.1845154167803242e+00
|
||||
26 -4.6561811432502953e+00 -7.1621093380192180e+00 -6.6864416050653208e-01
|
||||
27 -1.0470258927690863e+00 9.2906307144144673e+00 -3.6990588127802435e+00
|
||||
28 8.5365856050054738e+00 -2.4636423220451302e+00 4.2276358718634395e+00
|
||||
29 -3.8831706532739356e+00 -5.2900046950811053e+00 -1.5026494435836046e+00
|
||||
run_vdwl: 102.202850692313
|
||||
run_coul: -113.74103929774
|
||||
run_stress: ! |2-
|
||||
4.0014750547554610e+02 4.7040900572683694e+02 2.6188180201410347e+02 -3.3090394877678114e+02 -8.0167848651330445e+01 1.2621115498095926e+02
|
||||
run_forces: ! |2
|
||||
1 3.1753218849895195e+01 8.3621920552134796e+01 3.0316318454889249e+01
|
||||
2 1.4286535205016118e-01 -2.2824035719485072e+00 -7.5551038919350355e-01
|
||||
3 -2.3574837309870125e+02 9.7602019200417502e+01 8.4388048810067190e+01
|
||||
4 -8.8996093986925678e-02 3.2157992415099795e-01 -2.6834893584213759e-01
|
||||
5 -5.1176909694949801e-01 6.2243255012750509e-01 3.0305985432304289e-01
|
||||
6 1.0988093506139059e+02 -9.6340562635087679e+01 -1.2877640891894038e+02
|
||||
7 4.4591375102032806e+00 -1.1562280722232016e+01 -3.8449881125068998e+01
|
||||
8 -1.8500977069146241e+00 3.2142650450768677e+01 1.0393367243164468e+02
|
||||
9 1.6031488329434944e+00 -6.7043925776626629e+00 9.3597399196991460e-01
|
||||
10 3.9843479450387534e+01 -6.6883719610197858e+01 -8.8591570116850775e+01
|
||||
11 -1.2251023547936200e+00 1.4050644132057466e+00 -8.2053515811467215e-01
|
||||
12 2.1038151487042072e+01 1.6333275200719637e+01 -1.0224098677807561e+01
|
||||
13 -3.5460669347482632e-01 3.4985633903056490e-01 -2.8587442295445253e-01
|
||||
14 -1.5532009179877173e+00 6.6724074348461260e-01 -4.7736430412614694e-01
|
||||
15 1.8618152589723655e-01 -1.8742421063994502e-01 -1.0508719338896062e+00
|
||||
16 5.0203982778403507e+01 -6.4427805216374551e+01 1.3348312651468889e+01
|
||||
17 -1.7324433827001716e+01 1.5943398209626597e+01 3.6242072305639176e+01
|
||||
18 -5.1244673656886619e-01 4.6503724792902705e+00 -7.5634833647837292e+00
|
||||
19 2.1299064571460709e+00 -1.7007860994064594e+00 6.5142742813041359e+00
|
||||
20 -3.2615898343840461e+00 -5.6090812774873386e+00 4.2429891063539174e+00
|
||||
21 8.0741655650871391e-01 3.0937838483255220e+00 -7.2914969367797333e+00
|
||||
22 3.9626151599754680e+00 1.5703953876725520e+00 4.8509806980792467e+00
|
||||
23 -7.0701628159593684e+00 -4.4624515654731045e+00 2.0542173004071516e+00
|
||||
24 -9.5064820343282552e-01 8.5254518575092533e+00 -5.0323755005400344e+00
|
||||
25 5.5723194185180853e+00 -7.0640318784218714e-01 4.4527210593220081e+00
|
||||
26 -4.8649543979323449e+00 -7.4562688050941262e+00 -1.0189293139994318e+00
|
||||
27 -1.5562227560397666e+00 9.3814184738732589e+00 -3.7918644430887172e+00
|
||||
28 8.9221127912602523e+00 -2.5727955175008117e+00 4.4191999926606860e+00
|
||||
29 -3.6328666974943009e+00 -5.3344846333902503e+00 -1.6032273961495329e+00
|
||||
...
|
|
@ -0,0 +1,99 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Tue Aug 11 08:37:39 202
|
||||
epsilon: 5e-14
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
pair lj/expand/coul/long
|
||||
kspace ewald
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
pair_modify mix arithmetic
|
||||
pair_modify table 0
|
||||
kspace_style ewald 1.0e-6
|
||||
kspace_modify gewald 0.3
|
||||
kspace_modify compute no
|
||||
input_file: in.fourmol
|
||||
pair_style: lj/expand/coul/long 8.0
|
||||
pair_coeff: ! |
|
||||
1 1 0.02 2.0 0.2
|
||||
2 2 0.005 0.9 0.05
|
||||
2 4 0.005 0.5 0.0
|
||||
3 3 0.02 3.0 0.1
|
||||
4 4 0.015 2.8 0.2
|
||||
5 5 0.015 3.0 0.1
|
||||
extract: ! |
|
||||
epsilon 2
|
||||
sigma 2
|
||||
delta 2
|
||||
cut_coul 0
|
||||
natoms: 29
|
||||
init_vdwl: 869.656344368552
|
||||
init_coul: 225.821815126925
|
||||
init_stress: ! |2-
|
||||
2.5921580595929599e+03 2.4223089648929408e+03 6.9507399765892142e+03 -7.6459626076358222e+02 -1.7918244275053834e+02 1.1183600453689403e+03
|
||||
init_forces: ! |2
|
||||
1 -4.7163194993221921e+01 2.2834247667596466e+02 3.4399687026134501e+02
|
||||
2 1.7562443841600245e+02 1.4182973479795353e+02 -2.0831292146068489e+02
|
||||
3 -1.2508615422916209e+02 -3.6798478249421532e+02 -1.3720477917795262e+02
|
||||
4 -3.9145743460634925e+00 1.0488894945820071e+00 -2.9680205263326322e+00
|
||||
5 -1.8403216196557828e+00 -1.4631790175600645e+00 6.0818528534738743e+00
|
||||
6 -9.2216725524164417e+02 1.2287745546964902e+03 2.2653003222879815e+03
|
||||
7 1.0275707795039158e+02 -5.6390694232542774e+02 -2.8553236422687523e+03
|
||||
8 1.6813921559524184e+02 -1.4215967591199117e+02 3.8455917372053079e+02
|
||||
9 9.1633373141575092e+01 9.1135118977716260e+01 3.9972970456422297e+02
|
||||
10 5.5213457206939290e+02 -6.1976136814234292e+02 -1.8860732888734617e+02
|
||||
11 -2.0653675404799192e+00 -1.9067213274695838e+00 -5.3629740928473808e+00
|
||||
12 1.0622339756587413e+01 3.7670290663605148e+00 -1.8951373230563124e+00
|
||||
13 3.7979473912697639e+00 -1.5435840347766145e+00 -2.4862388019885942e-01
|
||||
14 -2.6935751635250607e+00 6.8698447653665595e-01 -4.3199669038668977e+00
|
||||
15 2.5305893336076402e-01 3.8734449064195666e+00 4.3728299263740644e-01
|
||||
16 7.2257309643596500e+02 -5.0816302107737170e+02 -1.9004596846603879e+03
|
||||
17 -7.2145162953831516e+02 5.0721299277434184e+02 1.9029446585766536e+03
|
||||
18 3.5593705560721056e-01 4.7720713300386546e+00 -7.8585034601445987e+00
|
||||
19 1.9901810484621900e+00 -7.2114077843799396e-01 5.5216952988893828e+00
|
||||
20 -2.9133092098729327e+00 -3.9873677744238525e+00 4.1253495034041823e+00
|
||||
21 -1.0687319925822113e+02 -1.1890793959935895e+02 3.3030668807680365e+02
|
||||
22 -1.6028118341131955e+02 -3.9850733869417056e+01 -2.4839117366825639e+02
|
||||
23 2.6673946632604520e+02 1.5917281492245272e+02 -8.1412460602247450e+01
|
||||
24 5.1622158551485391e+01 -3.1012002813557126e+02 1.6256339625935138e+02
|
||||
25 -2.1901544438381163e+02 3.2814417155094908e+01 -1.8327904773796419e+02
|
||||
26 1.6682970445882268e+02 2.7704983777814613e+02 2.0098819799158946e+01
|
||||
27 7.8770042564417935e+01 -3.3142512544733739e+02 1.3455926026230580e+02
|
||||
28 -2.6908794572326946e+02 1.1327040559793579e+02 -1.8145185065043862e+02
|
||||
29 1.9071054496393484e+02 2.1815083728566805e+02 4.6871040843718049e+01
|
||||
run_vdwl: 106.16792769211
|
||||
run_coul: 232.783864793706
|
||||
run_stress: ! |2-
|
||||
5.4033888248203050e+02 5.4892480012296539e+02 2.8955268865699099e+02 -3.1667993938546078e+02 -5.9418517757321624e+01 1.4135196526059173e+02
|
||||
run_forces: ! |2
|
||||
1 1.5042193015751637e+01 7.0524187021246291e+01 5.3102809431837898e+01
|
||||
2 1.6025096019454882e+01 1.0007003422930383e+01 -2.1158888230513998e+01
|
||||
3 -2.9508462511221728e+02 1.5540065134595568e+02 1.0032166848378883e+02
|
||||
4 -4.6990135745775357e+00 1.7664562746630565e+00 -3.4155588447655587e+00
|
||||
5 -1.6647491427755032e+00 -7.1384505520861741e-01 5.6231908788594200e+00
|
||||
6 1.9229113379974908e+02 -1.6879183079864617e+02 -1.5821197940587550e+02
|
||||
7 1.3268776214088212e+00 -3.0212070504821389e+00 -1.3945917603050320e+01
|
||||
8 -3.0767948041849035e+01 3.3774723064931294e+01 4.1455210291132609e+01
|
||||
9 1.0981624610986977e+01 3.5815171517217190e+00 4.2835213459206827e+01
|
||||
10 7.0651343131573768e+01 -7.5364530217274577e+01 -6.2700552936028060e+01
|
||||
11 -4.6552674358648485e+00 -3.3640968147579642e+00 -1.0071392966729430e+01
|
||||
12 9.6965594010440821e+00 4.5621471489456713e+00 -2.1188025874175360e+00
|
||||
13 3.5106358717622150e+00 -1.2472767160147971e+00 -3.8580287143749975e-01
|
||||
14 -2.8511582585326667e+00 6.3130353605272560e-01 -3.6224095602913993e+00
|
||||
15 -2.5947961667870077e-02 3.6550638292073843e+00 4.1732465355119469e-01
|
||||
16 3.1351531521993351e+01 -4.3039259230988741e+01 1.7506976000755010e+01
|
||||
17 -9.2563379856300898e+00 1.1242483524947740e+01 1.2152716943210445e+01
|
||||
18 -5.9670106666608946e-01 4.9523970836146356e+00 -6.4763569969688159e+00
|
||||
19 2.3605537941351202e+00 -1.0192980643878549e+00 5.4296196146473630e+00
|
||||
20 -2.7295307430735738e+00 -3.9126961062803156e+00 3.4455294221899790e+00
|
||||
21 -6.6351053993518860e+00 -5.6936051291677838e+00 2.5340192737673494e+01
|
||||
22 -1.2600719852052331e+01 -3.7030527797125199e+00 -1.9178428988156423e+01
|
||||
23 1.8521698071959683e+01 1.0087220143578394e+01 -5.2549329175309047e+00
|
||||
24 8.9245861393053083e+00 -2.1746250247417159e+01 1.5024118744729005e+01
|
||||
25 -2.1454838578353829e+01 2.4698375849765086e+00 -1.7961262545369252e+01
|
||||
26 1.1612405148647868e+01 1.8957323157416415e+01 1.9242901272291062e+00
|
||||
27 8.6191024303209324e-02 -2.3639345894753781e+01 6.2652733477098339e+00
|
||||
28 -1.5812874994926165e+01 6.0673559816231579e+00 -1.0405039947171305e+01
|
||||
29 1.6452388975462700e+01 1.7576623833281324e+01 4.0631922647850391e+00
|
||||
...
|
|
@ -0,0 +1,99 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Tue Aug 11 08:37:46 202
|
||||
epsilon: 2e-13
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
pair lj/expand/coul/long
|
||||
kspace ewald
|
||||
pre_commands: ! ""
|
||||
post_commands: ! |
|
||||
pair_modify mix arithmetic
|
||||
pair_modify table 16
|
||||
kspace_style ewald 1.0e-6
|
||||
kspace_modify gewald 0.3
|
||||
kspace_modify compute no
|
||||
input_file: in.fourmol
|
||||
pair_style: lj/expand/coul/long 8.0
|
||||
pair_coeff: ! |
|
||||
1 1 0.02 2.0 0.2
|
||||
2 2 0.005 0.9 0.05
|
||||
2 4 0.005 0.5 0.0
|
||||
3 3 0.02 3.0 0.1
|
||||
4 4 0.015 2.8 0.2
|
||||
5 5 0.015 3.0 0.1
|
||||
extract: ! |
|
||||
epsilon 2
|
||||
sigma 2
|
||||
delta 2
|
||||
cut_coul 0
|
||||
natoms: 29
|
||||
init_vdwl: 869.656344368552
|
||||
init_coul: 225.821851347828
|
||||
init_stress: ! |2-
|
||||
2.5921580798556824e+03 2.4223089706490100e+03 6.9507399900138435e+03 -7.6459625746898860e+02 -1.7918243325539206e+02 1.1183600494596001e+03
|
||||
init_forces: ! |2
|
||||
1 -4.7163196497192146e+01 2.2834247625360311e+02 3.4399686846972884e+02
|
||||
2 1.7562443791586878e+02 1.4182973406537658e+02 -2.0831292012253465e+02
|
||||
3 -1.2508615412049755e+02 -3.6798478260953948e+02 -1.3720477930247748e+02
|
||||
4 -3.9145743494796221e+00 1.0488899572714241e+00 -2.9680203360986748e+00
|
||||
5 -1.8403214518471285e+00 -1.4631780700724715e+00 6.0818530886023696e+00
|
||||
6 -9.2216725569750508e+02 1.2287745556395873e+03 2.2653003204922916e+03
|
||||
7 1.0275707715277815e+02 -5.6390694237167190e+02 -2.8553236443303790e+03
|
||||
8 1.6813921486566832e+02 -1.4215967617670751e+02 3.8455917576207537e+02
|
||||
9 9.1633374940159385e+01 9.1135118386813176e+01 3.9972970646304736e+02
|
||||
10 5.5213457218623114e+02 -6.1976136770574067e+02 -1.8860732949551110e+02
|
||||
11 -2.0653676548734623e+00 -1.9067206261734890e+00 -5.3629739888026009e+00
|
||||
12 1.0622339925344464e+01 3.7670291242792402e+00 -1.8951382266525523e+00
|
||||
13 3.7979474711116428e+00 -1.5435841677028326e+00 -2.4862374988427219e-01
|
||||
14 -2.6935753079358653e+00 6.8698435600643282e-01 -4.3199667618308677e+00
|
||||
15 2.5305888243541896e-01 3.8734446145889341e+00 4.3728358791332234e-01
|
||||
16 7.2257309763088028e+02 -5.0816302227466247e+02 -1.9004596843358918e+03
|
||||
17 -7.2145162977104178e+02 5.0721299303460768e+02 1.9029446585142175e+03
|
||||
18 3.5593760651461531e-01 4.7720712851654818e+00 -7.8585043264622421e+00
|
||||
19 1.9901790463157074e+00 -7.2114219691675963e-01 5.5216951671183532e+00
|
||||
20 -2.9133073882620311e+00 -3.9873665785059766e+00 4.1253505922291556e+00
|
||||
21 -1.0687319963014248e+02 -1.1890793903453265e+02 3.3030668864705302e+02
|
||||
22 -1.6028118611248254e+02 -3.9850735525595468e+01 -2.4839117530412136e+02
|
||||
23 2.6673946951865724e+02 1.5917281609743972e+02 -8.1412459717501179e+01
|
||||
24 5.1622158847869976e+01 -3.1012002774355045e+02 1.6256339581267164e+02
|
||||
25 -2.1901544635946527e+02 3.2814415857796341e+01 -1.8327904858335660e+02
|
||||
26 1.6682970674933870e+02 2.7704983923248733e+02 2.0098821433126425e+01
|
||||
27 7.8770042449054543e+01 -3.3142512528162013e+02 1.3455926006838362e+02
|
||||
28 -2.6908794843481189e+02 1.1327040466303316e+02 -1.8145185186649925e+02
|
||||
29 1.9071054758730884e+02 2.1815083779493665e+02 4.6871042349543053e+01
|
||||
run_vdwl: 106.167927306934
|
||||
run_coul: 232.783872560844
|
||||
run_stress: ! |2-
|
||||
5.4033889185122246e+02 5.4892479679809765e+02 2.8955268188032755e+02 -3.1667993134714584e+02 -5.9418514448016722e+01 1.4135196542323126e+02
|
||||
run_forces: ! |2
|
||||
1 1.5042191731528032e+01 7.0524187035940841e+01 5.3102809100251832e+01
|
||||
2 1.6025095744488677e+01 1.0007002564822953e+01 -2.1158887488756886e+01
|
||||
3 -2.9508462401688416e+02 1.5540064992154834e+02 1.0032166792537170e+02
|
||||
4 -4.6990139078806985e+00 1.7664569920998929e+00 -3.4155586861921678e+00
|
||||
5 -1.6647490390909379e+00 -7.1384403123709927e-01 5.6231913002355691e+00
|
||||
6 1.9229113649576860e+02 -1.6879183322567181e+02 -1.5821198229106906e+02
|
||||
7 1.3268779483228397e+00 -3.0212055830968931e+00 -1.3945914850434395e+01
|
||||
8 -3.0767951196938704e+01 3.3774724457681103e+01 4.1455210935792906e+01
|
||||
9 1.0981625491800322e+01 3.5815167138957573e+00 4.2835213672255946e+01
|
||||
10 7.0651342880628548e+01 -7.5364529395568468e+01 -6.2700552629269403e+01
|
||||
11 -4.6552675714512306e+00 -3.3640962703239836e+00 -1.0071392993905647e+01
|
||||
12 9.6965597982755973e+00 4.5621468027776313e+00 -2.1188034676686951e+00
|
||||
13 3.5106360312289651e+00 -1.2472769016775080e+00 -3.8580273777294372e-01
|
||||
14 -2.8511586869301606e+00 6.3130344465834132e-01 -3.6224094710691888e+00
|
||||
15 -2.5948083380200986e-02 3.6550635613088232e+00 4.1732526656150110e-01
|
||||
16 3.1351530288856495e+01 -4.3039257792019207e+01 1.7506979549615181e+01
|
||||
17 -9.2563361597161808e+00 1.1242483077205343e+01 1.2152712647114377e+01
|
||||
18 -5.9670063451193034e-01 4.9523968092195076e+00 -6.4763579876532082e+00
|
||||
19 2.3605517380981142e+00 -1.0192995004118002e+00 5.4296195197490729e+00
|
||||
20 -2.7295289246110710e+00 -3.9126947888476593e+00 3.4455303030875251e+00
|
||||
21 -6.6351057460657072e+00 -5.6936042652828442e+00 2.5340192741066605e+01
|
||||
22 -1.2600721158161978e+01 -3.7030538274119085e+00 -1.9178429616278798e+01
|
||||
23 1.8521699843022176e+01 1.0087220490406569e+01 -5.2549324889294233e+00
|
||||
24 8.9245858291795237e+00 -2.1746249717816461e+01 1.5024117239152851e+01
|
||||
25 -2.1454839054527017e+01 2.4698362443277517e+00 -1.7961262718374137e+01
|
||||
26 1.1612406206864165e+01 1.8957323737221003e+01 1.9242912492915349e+00
|
||||
27 8.6190447470516060e-02 -2.3639345383014803e+01 6.2652730906494423e+00
|
||||
28 -1.5812876277619852e+01 6.0673551856385073e+00 -1.0405040442005870e+01
|
||||
29 1.6452389982237243e+01 1.7576623643628043e+01 4.0631933291837985e+00
|
||||
...
|
|
@ -0,0 +1,96 @@
|
|||
---
|
||||
lammps_version: 21 Jul 2020
|
||||
date_generated: Tue Aug 11 09:15:04 202
|
||||
epsilon: 5e-14
|
||||
prerequisites: ! |
|
||||
atom full
|
||||
pair morse/smooth/linear
|
||||
pre_commands: ! ""
|
||||
post_commands: ! ""
|
||||
input_file: in.fourmol
|
||||
pair_style: morse/smooth/linear 8.0
|
||||
pair_coeff: ! "1 1 0.0202798941614106 2.78203488021395 2.725417159299 \n1 2 0.0101167811264648
|
||||
3.9793050302425 1.90749569018897 \n1 3 0.0202934330695928 2.43948720203264 3.10711749999622
|
||||
\n1 4 0.0175731334238374 2.48316585521317 3.05258880102438 \n1 5 0.0175731334238374
|
||||
2.48316585521317 3.05258880102438 \n2 2 0.00503064360487288 6.98433077606902 1.08960295117864
|
||||
\n2 3 0.0101296013842819 3.31380153807866 2.28919067558352 \n2 4 0.00497405122588691
|
||||
14.0508902925745 0.544416409093563 \n2 5 0.00877114211614446 3.39491256196178 2.23466262511073
|
||||
\n3 3 0.0203039874239943 2.17204344301477 3.48881895084762 \n3 4 0.0175825321440736
|
||||
2.20660439192238 3.43428999287994 \n3 5 0.0175825321440736 2.20660439192238 3.43428999287994
|
||||
\n4 4 0.0152259201379927 2.24227873774009 3.37976131582396 \n4 5 0.0152259201379927
|
||||
2.24227873774009 3.37976131582396 \n5 5 0.0152259201379927 2.24227873774009 3.37976131582396
|
||||
\n"
|
||||
extract: ! |
|
||||
d0 2
|
||||
r0 2
|
||||
alpha 2
|
||||
natoms: 29
|
||||
init_vdwl: 110.576455574558
|
||||
init_coul: 0
|
||||
init_stress: ! |2-
|
||||
2.0965672593667708e+02 2.1015032692452459e+02 3.3202360755330801e+02 -3.7942655658588343e+01 2.3588817932865467e+01 3.0835767484464419e+01
|
||||
init_forces: ! |2
|
||||
1 -3.0480780002327008e+00 2.7921984122028618e+01 3.5405528010927227e+01
|
||||
2 1.7192246011451811e+01 1.4143557582376275e+01 -2.0236514220183114e+01
|
||||
3 -1.4198382794249000e+01 -3.5992270842783007e+01 -1.4439948386213564e+01
|
||||
4 -3.5571543955166662e+00 9.2208514241020678e-01 -2.5349681982497936e+00
|
||||
5 -1.1301072607183411e+00 -1.9175172427659009e+00 5.0830194514203129e+00
|
||||
6 -4.9081806263588575e+01 5.2933354037517596e+01 4.4324760767644200e+01
|
||||
7 -6.5864013709165958e-01 -1.4367994435644658e+01 -9.1085601115349490e+01
|
||||
8 1.1150805850946377e+00 -4.4339866650423687e+00 2.5401312718266635e+01
|
||||
9 7.4783930937568188e+00 8.0676720298458289e+00 3.3115612041353316e+01
|
||||
10 3.3188057609406087e+01 -4.4107423530419425e+01 -1.2533250685202610e+01
|
||||
11 -9.8644754274471402e-01 -2.5309184692840789e+00 -4.1172191247102985e+00
|
||||
12 7.4159396774726947e+00 3.1970602905033090e+00 -3.0999793772095403e+00
|
||||
13 3.7535455067051284e+00 -1.4897927833271114e+00 -6.7477453438214360e-02
|
||||
14 -1.5383546569690458e+00 3.0912292765196109e-01 -3.9556251540727660e+00
|
||||
15 -8.5848623703835225e-02 3.9007406258082198e+00 1.3813013508321210e+00
|
||||
16 2.9105971441820422e+01 -2.3344118296546768e+01 -6.1783781738583087e+01
|
||||
17 -2.4933886705568032e+01 1.6819227323062634e+01 6.9127586364919054e+01
|
||||
18 -2.0463150235275587e-02 -3.1682923586303320e-02 2.7190932368002206e-02
|
||||
19 2.4436300234190135e-04 2.0012946485199428e-04 1.5669609108697242e-04
|
||||
20 -2.8081912468459465e-04 -2.4223792822233381e-04 -4.8875919887793612e-05
|
||||
21 -7.8515953056435253e+00 -9.3116035968764841e+00 2.6685440056459196e+01
|
||||
22 -1.2867736365314238e+01 -3.1182930701545755e+00 -2.0188464470088331e+01
|
||||
23 2.0716179059819009e+01 1.2433662272735450e+01 -6.4932678015133840e+00
|
||||
24 5.1337007408372548e+00 -2.4468533130324765e+01 1.3657847418029165e+01
|
||||
25 -1.7989393885078467e+01 2.8952531925571088e+00 -1.5124698757200122e+01
|
||||
26 1.2846154844554052e+01 2.1568770430924985e+01 1.4520235362983340e+00
|
||||
27 4.7651727706625060e+00 -2.6604514922840195e+01 9.9133238206128400e+00
|
||||
28 -2.0185283324769507e+01 8.6749457166585184e+00 -1.3657622291951469e+01
|
||||
29 1.5422773525965512e+01 1.7931256323978314e+01 3.7433644846642018e+00
|
||||
run_vdwl: 98.417588075604
|
||||
run_coul: 0
|
||||
run_stress: ! |2-
|
||||
1.9601417183585471e+02 1.9700368853406772e+02 2.9154296827992243e+02 -3.7890872102168025e+01 2.2194690018415880e+01 2.9595931426759432e+01
|
||||
run_forces: ! |2
|
||||
1 -1.2307305201683669e+00 2.6447509305163727e+01 3.0470800924098523e+01
|
||||
2 1.4299083308853650e+01 1.1826264766972807e+01 -1.6429998389881643e+01
|
||||
3 -1.4157389063933350e+01 -3.1600856808471050e+01 -1.2693607969343061e+01
|
||||
4 -3.3658701307181786e+00 8.8274427277102663e-01 -2.4548191756434177e+00
|
||||
5 -1.0445920630425243e+00 -1.7759542240829833e+00 4.8041006652309290e+00
|
||||
6 -4.3663249501195480e+01 4.6750257951934081e+01 3.2568897712249886e+01
|
||||
7 -1.1941996581070721e-01 -1.2508303885030813e+01 -7.4567467003068529e+01
|
||||
8 -2.8365183621696771e-01 -2.4283998406502945e+00 2.4825225007617721e+01
|
||||
9 6.4234184377526304e+00 6.6360503245786022e+00 2.7951975394615243e+01
|
||||
10 3.0610663078987621e+01 -4.1069619835647295e+01 -1.2566492949739969e+01
|
||||
11 -9.5038761789038062e-01 -2.2898897341045954e+00 -3.7835192708263246e+00
|
||||
12 7.2054253435572519e+00 3.1352360891284623e+00 -3.4732368787593755e+00
|
||||
13 3.5724626043568888e+00 -1.3512903581673283e+00 -5.3544979313710710e-02
|
||||
14 -1.3844723456086208e+00 2.2392513651771506e-01 -3.5288110784726916e+00
|
||||
15 -1.6704585605001740e-01 3.8585136513780287e+00 1.4472031447069291e+00
|
||||
16 2.5395501554353512e+01 -2.1203014586738636e+01 -5.1476843446578606e+01
|
||||
17 -2.1108999005587926e+01 1.4497424828459637e+01 5.8945089304411582e+01
|
||||
18 -2.0407885139876018e-02 -3.1613478806902184e-02 2.7095801901916405e-02
|
||||
19 1.8505535479816727e-04 1.5148781843684435e-04 1.4466565142221593e-04
|
||||
20 -2.1725919415478855e-04 -1.8964914225522977e-04 -3.4850592786958239e-05
|
||||
21 -7.1560574272745390e+00 -7.8117417587142493e+00 2.3472474332002371e+01
|
||||
22 -1.1620561455492469e+01 -2.9918169870657452e+00 -1.7768473787797753e+01
|
||||
23 1.8773358904345674e+01 1.0807449396958578e+01 -5.7001611321217229e+00
|
||||
24 5.8670774694819343e+00 -2.2854064241583384e+01 1.3389367814003592e+01
|
||||
25 -1.7841968739230779e+01 2.5813803672129412e+00 -1.5089203819513493e+01
|
||||
26 1.1965180636297607e+01 2.0268154831625505e+01 1.6847640847945964e+00
|
||||
27 4.4982185784244653e+00 -2.3705161804550581e+01 8.3847128455906059e+00
|
||||
28 -1.7971511747703875e+01 7.7287341777176994e+00 -1.1947618548178538e+01
|
||||
29 1.3475957448492176e+01 1.5978120604518875e+01 3.5619815829562675e+00
|
||||
...
|
Loading…
Reference in New Issue