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fix_modify command

Syntax

fix_modify fix-ID keyword value ...

  • fix-ID = ID of the fix to modify

  • one or more keyword/value pairs may be appended

  • keyword = bodyforces or colname or dynamic/dof or energy or press or respa or temp or virial

    bodyforces value = early or late
  early/late = compute rigid-body forces/torques early or late in the timestep
colname values =  ID string
  string = new column header name
  ID = integer from 1 to N, or integer from -1 to -N, where N = # of quantities being output
       or a fix output property keyword or reference to compute, fix, property or variable.
dynamic/dof value = yes or no
  yes/no = do or do not re-compute the number of degrees of freedom (DOF) contributing to the temperature
energy value = yes or no
press value = compute ID that calculates a pressure
respa value = 1 to max respa level or 0 (for outermost level)
temp value = compute ID that calculates a temperature
virial value = yes or no

Examples

fix_modify 3 temp myTemp press myPress
fix_modify 1 energy yes
fix_modify tether respa 2
fix_modify ave colname c_thermo_press Pressure colname 1 Temperature

Description

Modify one or more parameters of a previously defined fix. Only specific fix styles support specific parameters. See the doc pages for individual fix commands for info on which ones support which fix_modify parameters.

The temp keyword is used to determine how a fix computes temperature. The specified compute ID must have been previously defined by the user via the compute command and it must be a style of compute that calculates a temperature. All fixes that compute temperatures define their own compute by default, as described in their documentation. Thus this option allows the user to override the default method for computing T.

The press keyword is used to determine how a fix computes pressure. The specified compute ID must have been previously defined by the user via the compute command and it must be a style of compute that calculates a pressure. All fixes that compute pressures define their own compute by default, as described in their documentation. Thus this option allows the user to override the default method for computing P.

The energy keyword can be used with fixes that support it, which is explained at the bottom of their doc page. Energy yes will add a contribution to the potential energy of the system. More specifically, the fix’s global or per-atom energy is included in the calculation performed by the compute pe or compute pe/atom commands. The former is what is used the thermo_style command for output of any quantity that includes the global potential energy of the system. Note that the compute pe and compute pe/atom commands also have an option to include or exclude the contribution from fixes. For fixes that tally a global energy, it can also be printed with thermodynamic output by using the keyword f_ID in the thermo_style custom command, where ID is the fix-ID of the appropriate fix.

Note

If you are performing an energy minimization with one of these fixes and want the energy and forces it produces to be part of the optimization criteria, you must specify the energy yes setting.

Note

For most fixes that support the energy keyword, the default setting is no. For a few it is yes, when a user would expect that to be the case. The page of each fix gives the default.

The virial keyword can be used with fixes that support it, which is explained at the bottom of their doc page. Virial yes will add a contribution to the virial of the system. More specifically, the fix’s global or per-atom virial is included in the calculation performed by the compute pressure or compute stress/atom commands. The former is what is used the thermo_style command for output of any quantity that includes the global pressure of the system. Note that the compute pressure and compute stress/atom commands also have an option to include or exclude the contribution from fixes.

Note

If you are performing an energy minimization with box relaxation and one of these fixes and want the virial contribution of the fix to be part of the optimization criteria, you must specify the virial yes setting.

Note

For most fixes that support the virial keyword, the default setting is no. For a few it is yes, when a user would expect that to be the case. The page of each fix gives the default.

For fixes that set or modify forces, it may be possible to select at which r-RESPA level the fix operates via the respa keyword. The RESPA level at which the fix is active can be selected. This is a number ranging from 1 to the number of levels. If the RESPA level is larger than the current maximum, the outermost level will be used, which is also the default setting. This default can be restored using a value of 0 for the RESPA level. The affected fix has to be enabled to support this feature; if not, fix_modify will report an error. Active fixes with a custom RESPA level setting are reported with their specified level at the beginning of a r-RESPA run.

The dynamic/dof keyword determines whether the number of atoms N in the fix group and their associated degrees of freedom are re-computed each time a temperature is computed. Only fix styles that calculate their own internal temperature use this option. Currently this is only the fix rigid/nvt/small and fix rigid/npt/small commands for the purpose of thermostatting rigid body translation and rotation. By default, N and their DOF are assumed to be constant. If you are adding atoms or molecules to the system (see the fix pour, fix deposit, and fix gcmc commands) or expect atoms or molecules to be lost (e.g. due to exiting the simulation box or via fix evaporate), then this option should be used to ensure the temperature is correctly normalized.

Note

Other thermostatting fixes, such as fix nvt, do not use the dynamic/dof keyword because they use a temperature compute to calculate temperature. See the compute_modify dynamic/dof command for a similar way to ensure correct temperature normalization for those thermostats.

The bodyforces keyword determines whether the forces and torques acting on rigid bodies are computed early at the post-force stage of each timestep (right after per-atom forces have been computed and communicated among processors), or late at the final-integrate stage of each timestep (after any other fixes have finished their post-force tasks). Only the rigid-body integration fixes use this option, which includes fix rigid and fix rigid/small, and their variants, and also fix poems.

The default is late. If there are other fixes that add forces to individual atoms, then the rigid-body constraints will include these forces when time-integrating the rigid bodies. If early is specified, then new fixes can be written that use or modify the per-body force and torque, before time-integration of the rigid bodies occurs. Note however this has the side effect, that fixes such as fix addforce, fix setforce, fix spring, which add forces to individual atoms will have no effect on the motion of the rigid bodies if they are specified in the input script after the fix rigid command. LAMMPS will give a warning if that is the case.

The colname keyword can be used to change the default header keywords in output files of fix styles that support it: currently only fix ave/time is supported. The setting for ID string replaces the default text with the provided string. ID can be a positive integer when it represents the column number counting from the left, a negative integer when it represents the column number from the right (i.e. -1 is the last column/keyword), or a custom fix output keyword (or compute, fix, property, or variable reference) and then it replaces the string for that specific keyword. The colname keyword can be used multiple times. If multiple colname settings refer to the same keyword, the last setting has precedence.

Restrictions

none

Default

The option defaults are temp = ID defined by fix, press = ID defined by fix, energy = no, virial = different for each fix style, respa = 0, bodyforce = late.