forked from lijiext/lammps
git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@3582 f3b2605a-c512-4ea7-a41b-209d697bcdaa
This commit is contained in:
parent
bc155995d7
commit
c7292cdb37
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@ -347,11 +347,11 @@ each style or click on the style itself for a full description:
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</P>
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</P>
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<DIV ALIGN=center><TABLE BORDER=1 >
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<DIV ALIGN=center><TABLE BORDER=1 >
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||||||
<TR ALIGN="center"><TD ><A HREF = "compute_angle_local.html">angle/local</A></TD><TD ><A HREF = "compute_bond_local.html">bond/local</A></TD><TD ><A HREF = "compute_cna_atom.html">cna/atom</A></TD><TD ><A HREF = "compute_com.html">com</A></TD><TD ><A HREF = "compute_coord_atom.html">coord/atom</A></TD><TD ><A HREF = "compute_damage_atom.html">damage/atom</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_angle_local.html">angle/local</A></TD><TD ><A HREF = "compute_bond_local.html">bond/local</A></TD><TD ><A HREF = "compute_cna_atom.html">cna/atom</A></TD><TD ><A HREF = "compute_com.html">com</A></TD><TD ><A HREF = "compute_coord_atom.html">coord/atom</A></TD><TD ><A HREF = "compute_damage_atom.html">damage/atom</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_displace_atom.html">displace/atom</A></TD><TD ><A HREF = "compute_erotate_asphere.html">erotate/asphere</A></TD><TD ><A HREF = "compute_erotate_sphere.html">erotate/sphere</A></TD><TD ><A HREF = "compute_event_displace.html">event/displace</A></TD><TD ><A HREF = "compute_group_group.html">group/group</A></TD><TD ><A HREF = "compute_gyration.html">gyration</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_dihedral_local.html">dihedral/local</A></TD><TD ><A HREF = "compute_displace_atom.html">displace/atom</A></TD><TD ><A HREF = "compute_erotate_asphere.html">erotate/asphere</A></TD><TD ><A HREF = "compute_erotate_sphere.html">erotate/sphere</A></TD><TD ><A HREF = "compute_event_displace.html">event/displace</A></TD><TD ><A HREF = "compute_group_group.html">group/group</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_heat_flux.html">heat/flux</A></TD><TD ><A HREF = "compute_ke.html">ke</A></TD><TD ><A HREF = "compute_ke_atom.html">ke/atom</A></TD><TD ><A HREF = "compute_msd.html">msd</A></TD><TD ><A HREF = "compute_pe.html">pe</A></TD><TD ><A HREF = "compute_pe_atom.html">pe/atom</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_gyration.html">gyration</A></TD><TD ><A HREF = "compute_heat_flux.html">heat/flux</A></TD><TD ><A HREF = "compute_improper_local.html">improper/local</A></TD><TD ><A HREF = "compute_ke.html">ke</A></TD><TD ><A HREF = "compute_ke_atom.html">ke/atom</A></TD><TD ><A HREF = "compute_msd.html">msd</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_pressure.html">pressure</A></TD><TD ><A HREF = "compute_property_atom.html">property/atom</A></TD><TD ><A HREF = "compute_property_local.html">property/local</A></TD><TD ><A HREF = "compute_rdf.html">rdf</A></TD><TD ><A HREF = "compute_reduce.html">reduce</A></TD><TD ><A HREF = "compute_reduce.html">reduce/region</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_pe.html">pe</A></TD><TD ><A HREF = "compute_pe_atom.html">pe/atom</A></TD><TD ><A HREF = "compute_pressure.html">pressure</A></TD><TD ><A HREF = "compute_property_atom.html">property/atom</A></TD><TD ><A HREF = "compute_property_local.html">property/local</A></TD><TD ><A HREF = "compute_rdf.html">rdf</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_stress_atom.html">stress/atom</A></TD><TD ><A HREF = "compute_temp.html">temp</A></TD><TD ><A HREF = "compute_temp_asphere.html">temp/asphere</A></TD><TD ><A HREF = "compute_temp_com.html">temp/com</A></TD><TD ><A HREF = "compute_temp_deform.html">temp/deform</A></TD><TD ><A HREF = "compute_temp_partial.html">temp/partial</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_reduce.html">reduce</A></TD><TD ><A HREF = "compute_reduce.html">reduce/region</A></TD><TD ><A HREF = "compute_stress_atom.html">stress/atom</A></TD><TD ><A HREF = "compute_temp.html">temp</A></TD><TD ><A HREF = "compute_temp_asphere.html">temp/asphere</A></TD><TD ><A HREF = "compute_temp_com.html">temp/com</A></TD></TR>
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<TR ALIGN="center"><TD ><A HREF = "compute_temp_profile.html">temp/profile</A></TD><TD ><A HREF = "compute_temp_ramp.html">temp/ramp</A></TD><TD ><A HREF = "compute_temp_region.html">temp/region</A></TD><TD ><A HREF = "compute_temp_sphere.html">temp/sphere</A>
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<TR ALIGN="center"><TD ><A HREF = "compute_temp_deform.html">temp/deform</A></TD><TD ><A HREF = "compute_temp_partial.html">temp/partial</A></TD><TD ><A HREF = "compute_temp_profile.html">temp/profile</A></TD><TD ><A HREF = "compute_temp_ramp.html">temp/ramp</A></TD><TD ><A HREF = "compute_temp_region.html">temp/region</A></TD><TD ><A HREF = "compute_temp_sphere.html">temp/sphere</A>
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</TD></TR></TABLE></DIV>
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</TD></TR></TABLE></DIV>
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<P>These are compute styles contributed by users, which can be used if
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<P>These are compute styles contributed by users, which can be used if
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@ -465,6 +465,7 @@ each style or click on the style itself for a full description:
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"com"_compute_com.html,
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"com"_compute_com.html,
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"coord/atom"_compute_coord_atom.html,
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"coord/atom"_compute_coord_atom.html,
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"damage/atom"_compute_damage_atom.html,
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"damage/atom"_compute_damage_atom.html,
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"dihedral/local"_compute_dihedral_local.html,
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"displace/atom"_compute_displace_atom.html,
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"displace/atom"_compute_displace_atom.html,
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"erotate/asphere"_compute_erotate_asphere.html,
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"erotate/asphere"_compute_erotate_asphere.html,
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"erotate/sphere"_compute_erotate_sphere.html,
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"erotate/sphere"_compute_erotate_sphere.html,
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@ -472,6 +473,7 @@ each style or click on the style itself for a full description:
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"group/group"_compute_group_group.html,
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"group/group"_compute_group_group.html,
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"gyration"_compute_gyration.html,
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"gyration"_compute_gyration.html,
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"heat/flux"_compute_heat_flux.html,
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"heat/flux"_compute_heat_flux.html,
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"improper/local"_compute_improper_local.html,
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"ke"_compute_ke.html,
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"ke"_compute_ke.html,
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"ke/atom"_compute_ke_atom.html,
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"ke/atom"_compute_ke_atom.html,
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"msd"_compute_msd.html,
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"msd"_compute_msd.html,
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@ -173,6 +173,7 @@ available in LAMMPS:
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<LI><A HREF = "compute_com.html">com</A> - center-of-mass of group of atoms
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<LI><A HREF = "compute_com.html">com</A> - center-of-mass of group of atoms
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<LI><A HREF = "compute_coord_atom.html">coord/atom</A> - coordination number for each atom
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<LI><A HREF = "compute_coord_atom.html">coord/atom</A> - coordination number for each atom
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<LI><A HREF = "compute_damage_atom.html">damage/atom</A> - Peridynamic damage for each atom
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<LI><A HREF = "compute_damage_atom.html">damage/atom</A> - Peridynamic damage for each atom
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<LI><A HREF = "compute_dihedral_local.html">dihedral/local</A> - angle of each dihedral
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<LI><A HREF = "compute_displace_atom.html">displace/atom</A> - displacement of each atom
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<LI><A HREF = "compute_displace_atom.html">displace/atom</A> - displacement of each atom
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<LI><A HREF = "compute_erotate_asphere.html">erotate/asphere</A> - rotational energy of aspherical particles
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<LI><A HREF = "compute_erotate_asphere.html">erotate/asphere</A> - rotational energy of aspherical particles
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<LI><A HREF = "compute_erotate_sphere.html">erotate/sphere</A> - rotational energy of spherical particles
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<LI><A HREF = "compute_erotate_sphere.html">erotate/sphere</A> - rotational energy of spherical particles
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@ -180,6 +181,7 @@ available in LAMMPS:
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<LI><A HREF = "compute_group_group.html">group/group</A> - energy/force between two groups of atoms
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<LI><A HREF = "compute_group_group.html">group/group</A> - energy/force between two groups of atoms
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<LI><A HREF = "compute_gyration.html">gyration</A> - radius of gyration of group of atoms
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<LI><A HREF = "compute_gyration.html">gyration</A> - radius of gyration of group of atoms
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<LI><A HREF = "compute_heat_flux.html">heat/flux</A> - heat flux through a group of atoms
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<LI><A HREF = "compute_heat_flux.html">heat/flux</A> - heat flux through a group of atoms
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<LI><A HREF = "compute_improper_local.html">improper/local</A> - angle of each improper
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<LI><A HREF = "compute_ke.html">ke</A> - translational kinetic energy
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<LI><A HREF = "compute_ke.html">ke</A> - translational kinetic energy
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<LI><A HREF = "compute_ke_atom.html">ke/atom</A> - kinetic energy for each atom
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<LI><A HREF = "compute_ke_atom.html">ke/atom</A> - kinetic energy for each atom
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<LI><A HREF = "compute_msd.html">msd</A> - mean-squared displacement of group of atoms
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<LI><A HREF = "compute_msd.html">msd</A> - mean-squared displacement of group of atoms
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@ -168,6 +168,7 @@ available in LAMMPS:
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"com"_compute_com.html - center-of-mass of group of atoms
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"com"_compute_com.html - center-of-mass of group of atoms
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"coord/atom"_compute_coord_atom.html - coordination number for each atom
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"coord/atom"_compute_coord_atom.html - coordination number for each atom
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"damage/atom"_compute_damage_atom.html - Peridynamic damage for each atom
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"damage/atom"_compute_damage_atom.html - Peridynamic damage for each atom
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"dihedral/local"_compute_dihedral_local.html - angle of each dihedral
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"displace/atom"_compute_displace_atom.html - displacement of each atom
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"displace/atom"_compute_displace_atom.html - displacement of each atom
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"erotate/asphere"_compute_erotate_asphere.html - rotational energy of aspherical particles
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"erotate/asphere"_compute_erotate_asphere.html - rotational energy of aspherical particles
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"erotate/sphere"_compute_erotate_sphere.html - rotational energy of spherical particles
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"erotate/sphere"_compute_erotate_sphere.html - rotational energy of spherical particles
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@ -175,6 +176,7 @@ available in LAMMPS:
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"group/group"_compute_group_group.html - energy/force between two groups of atoms
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"group/group"_compute_group_group.html - energy/force between two groups of atoms
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"gyration"_compute_gyration.html - radius of gyration of group of atoms
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"gyration"_compute_gyration.html - radius of gyration of group of atoms
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"heat/flux"_compute_heat_flux.html - heat flux through a group of atoms
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"heat/flux"_compute_heat_flux.html - heat flux through a group of atoms
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"improper/local"_compute_improper_local.html - angle of each improper
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"ke"_compute_ke.html - translational kinetic energy
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"ke"_compute_ke.html - translational kinetic energy
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"ke/atom"_compute_ke_atom.html - kinetic energy for each atom
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"ke/atom"_compute_ke_atom.html - kinetic energy for each atom
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"msd"_compute_msd.html - mean-squared displacement of group of atoms
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"msd"_compute_msd.html - mean-squared displacement of group of atoms
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@ -21,17 +21,17 @@
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<LI>zero or more keywords may be appended
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<LI>zero or more keywords may be appended
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<LI>keyword = <I>theta</I> or <I>energy</I>
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<LI>keyword = <I>theta</I> or <I>eng</I>
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<PRE> <I>theta</I> = tabulate angles
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<PRE> <I>theta</I> = tabulate angles
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<I>energy</I> = tabulate angle energies
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<I>eng</I> = tabulate angle energies
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</PRE>
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</PRE>
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</UL>
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</UL>
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<P><B>Examples:</B>
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<P><B>Examples:</B>
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</P>
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</P>
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<PRE>compute 1 all angle/local theta
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<PRE>compute 1 all angle/local theta
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compute 1 all angle/local theta energy
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compute 1 all angle/local eng theta
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</PRE>
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</PRE>
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<P><B>Description:</B>
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<P><B>Description:</B>
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</P>
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</P>
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@ -40,10 +40,16 @@ The number of datums generated, aggregated across all processors,
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equals the number of angles in the system.
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equals the number of angles in the system.
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</P>
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</P>
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<P>The local data stored by this command is generated by looping over all
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<P>The local data stored by this command is generated by looping over all
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the atoms owned on a processor and their angles. An angle will only be
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the atoms owned on a processor and their angles. An angle will only
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included if all 3 atoms in the angle are in the specified compute group.
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be included if all 3 atoms in the angle are in the specified compute
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group. Any angles that have been broken (see the
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<A HREF = "angle_style.html">angle_style</A> command) by setting their angle type to
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0 are not included. Angles that have been turned off (see the <A HREF = "fix_shake.html">fix
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shake</A> or <A HREF = "delete_bonds.html">delete_bonds</A> commands) by
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setting their angle type negative are written into the file, but their
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energy will be 0.0.
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</P>
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</P>
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<P>The output <I>theta</I> will be in degrees. The output <I>energy</I> will be in
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<P>The output <I>theta</I> will be in degrees. The output <I>eng</I> will be in
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energy <A HREF = "units.html">units</A>.
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energy <A HREF = "units.html">units</A>.
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</P>
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</P>
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<P>Note that as atoms migrate from processor to processor, there will be
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<P>Note that as atoms migrate from processor to processor, there will be
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@ -15,15 +15,15 @@ compute ID group-ID angle/local input1 input2 ... :pre
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ID, group-ID are documented in "compute"_compute.html command :ulb,l
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ID, group-ID are documented in "compute"_compute.html command :ulb,l
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angle/local = style name of this compute command :l
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angle/local = style name of this compute command :l
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zero or more keywords may be appended :l
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zero or more keywords may be appended :l
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keyword = {theta} or {energy} :l
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keyword = {theta} or {eng} :l
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{theta} = tabulate angles
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{theta} = tabulate angles
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{energy} = tabulate angle energies :pre
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{eng} = tabulate angle energies :pre
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:ule
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:ule
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[Examples:]
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[Examples:]
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compute 1 all angle/local theta
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compute 1 all angle/local theta
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compute 1 all angle/local theta energy :pre
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compute 1 all angle/local eng theta :pre
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[Description:]
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[Description:]
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@ -32,10 +32,16 @@ The number of datums generated, aggregated across all processors,
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equals the number of angles in the system.
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equals the number of angles in the system.
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The local data stored by this command is generated by looping over all
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The local data stored by this command is generated by looping over all
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the atoms owned on a processor and their angles. An angle will only be
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the atoms owned on a processor and their angles. An angle will only
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included if all 3 atoms in the angle are in the specified compute group.
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be included if all 3 atoms in the angle are in the specified compute
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group. Any angles that have been broken (see the
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"angle_style"_angle_style.html command) by setting their angle type to
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0 are not included. Angles that have been turned off (see the "fix
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shake"_fix_shake.html or "delete_bonds"_delete_bonds.html commands) by
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setting their angle type negative are written into the file, but their
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energy will be 0.0.
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The output {theta} will be in degrees. The output {energy} will be in
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The output {theta} will be in degrees. The output {eng} will be in
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energy "units"_units.html.
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energy "units"_units.html.
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Note that as atoms migrate from processor to processor, there will be
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Note that as atoms migrate from processor to processor, there will be
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@ -21,17 +21,17 @@
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<LI>zero or more keywords may be appended
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<LI>zero or more keywords may be appended
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<LI>keyword = <I>distance</I> or <I>energy</I>
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<LI>keyword = <I>dist</I> or <I>eng</I>
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<PRE> <I>distance</I> = tabulate bond distances
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<PRE> <I>dist</I> = tabulate bond distances
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<I>energy</I> = tablutate bond energies
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<I>eng</I> = tablutate bond energies
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</PRE>
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</PRE>
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</UL>
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</UL>
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<P><B>Examples:</B>
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<P><B>Examples:</B>
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</P>
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</P>
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<PRE>compute 1 all bond/local energy
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<PRE>compute 1 all bond/local eng
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compute 1 all bond/local distance energy
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compute 1 all bond/local dist eng
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</PRE>
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</PRE>
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<P><B>Description:</B>
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<P><B>Description:</B>
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</P>
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</P>
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@ -42,9 +42,14 @@ equals the number of bonds in the system.
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<P>The local data stored by this command is generated by looping over all
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<P>The local data stored by this command is generated by looping over all
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the atoms owned on a processor and their bonds. A bond will only be
|
the atoms owned on a processor and their bonds. A bond will only be
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included if both atoms in the bond are in the specified compute group.
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included if both atoms in the bond are in the specified compute group.
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Any bonds that have been broken (see the <A HREF = "bond_style.html">bond_style</A>
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command) by setting their bond type to 0 are not included. Bonds that
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have been turned off (see the <A HREF = "fix_shake.html">fix shake</A> or
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<A HREF = "delete_bonds.html">delete_bonds</A> commands) by setting their bond type
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negative are written into the file, but their energy will be 0.0.
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</P>
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</P>
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<P>The output <I>distance</I> will be in distance <A HREF = "units.html">units</A>. The
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<P>The output <I>dist</I> will be in distance <A HREF = "units.html">units</A>. The output
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output <I>energy</I> will be in energy <A HREF = "units.html">units</A>.
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<I>eng</I> will be in energy <A HREF = "units.html">units</A>.
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</P>
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</P>
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<P>Note that as atoms migrate from processor to processor, there will be
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<P>Note that as atoms migrate from processor to processor, there will be
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no consistent ordering of the entries within the local vector or array
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no consistent ordering of the entries within the local vector or array
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@ -15,15 +15,15 @@ compute ID group-ID bond/local input1 input2 ... :pre
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ID, group-ID are documented in "compute"_compute.html command :ulb,l
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ID, group-ID are documented in "compute"_compute.html command :ulb,l
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bond/local = style name of this compute command :l
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bond/local = style name of this compute command :l
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zero or more keywords may be appended :l
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zero or more keywords may be appended :l
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keyword = {distance} or {energy} :l
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keyword = {dist} or {eng} :l
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{distance} = tabulate bond distances
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{dist} = tabulate bond distances
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{energy} = tablutate bond energies :pre
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{eng} = tablutate bond energies :pre
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:ule
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:ule
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|
|
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[Examples:]
|
[Examples:]
|
||||||
|
|
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compute 1 all bond/local energy
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compute 1 all bond/local eng
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compute 1 all bond/local distance energy :pre
|
compute 1 all bond/local dist eng :pre
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|
|
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[Description:]
|
[Description:]
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|
|
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@ -34,9 +34,14 @@ equals the number of bonds in the system.
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The local data stored by this command is generated by looping over all
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The local data stored by this command is generated by looping over all
|
||||||
the atoms owned on a processor and their bonds. A bond will only be
|
the atoms owned on a processor and their bonds. A bond will only be
|
||||||
included if both atoms in the bond are in the specified compute group.
|
included if both atoms in the bond are in the specified compute group.
|
||||||
|
Any bonds that have been broken (see the "bond_style"_bond_style.html
|
||||||
|
command) by setting their bond type to 0 are not included. Bonds that
|
||||||
|
have been turned off (see the "fix shake"_fix_shake.html or
|
||||||
|
"delete_bonds"_delete_bonds.html commands) by setting their bond type
|
||||||
|
negative are written into the file, but their energy will be 0.0.
|
||||||
|
|
||||||
The output {distance} will be in distance "units"_units.html. The
|
The output {dist} will be in distance "units"_units.html. The output
|
||||||
output {energy} will be in energy "units"_units.html.
|
{eng} will be in energy "units"_units.html.
|
||||||
|
|
||||||
Note that as atoms migrate from processor to processor, there will be
|
Note that as atoms migrate from processor to processor, there will be
|
||||||
no consistent ordering of the entries within the local vector or array
|
no consistent ordering of the entries within the local vector or array
|
||||||
|
|
|
@ -0,0 +1,78 @@
|
||||||
|
<HTML>
|
||||||
|
<CENTER><A HREF = "http://lammps.sandia.gov">LAMMPS WWW Site</A> - <A HREF = "Manual.html">LAMMPS Documentation</A> - <A HREF = "Section_commands.html#comm">LAMMPS Commands</A>
|
||||||
|
</CENTER>
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
<HR>
|
||||||
|
|
||||||
|
<H3>compute dihedral/local command
|
||||||
|
</H3>
|
||||||
|
<P><B>Syntax:</B>
|
||||||
|
</P>
|
||||||
|
<PRE>compute ID group-ID dihedral/local input1 input2 ...
|
||||||
|
</PRE>
|
||||||
|
<UL><LI>ID, group-ID are documented in <A HREF = "compute.html">compute</A> command
|
||||||
|
|
||||||
|
<LI>dihedral/local = style name of this compute command
|
||||||
|
|
||||||
|
<LI>zero or more keywords may be appended
|
||||||
|
|
||||||
|
<LI>keyword = <I>phi</I>
|
||||||
|
|
||||||
|
<PRE> <I>phi</I> = tabulate dihedral angles
|
||||||
|
</PRE>
|
||||||
|
|
||||||
|
</UL>
|
||||||
|
<P><B>Examples:</B>
|
||||||
|
</P>
|
||||||
|
<PRE>compute 1 all dihedral/local phi
|
||||||
|
</PRE>
|
||||||
|
<P><B>Description:</B>
|
||||||
|
</P>
|
||||||
|
<P>Define a computation that calculates properties of individual
|
||||||
|
dihedrals. The number of datums generated, aggregated across all
|
||||||
|
processors, equals the number of angles in the system.
|
||||||
|
</P>
|
||||||
|
<P>The local data stored by this command is generated by looping over all
|
||||||
|
the atoms owned on a processor and their dihedrals. A dihedral will
|
||||||
|
only be included if all 4 atoms in the dihedral are in the specified
|
||||||
|
compute group.
|
||||||
|
</P>
|
||||||
|
<P>The output <I>phi</I> will be in degrees.
|
||||||
|
</P>
|
||||||
|
<P>Note that as atoms migrate from processor to processor, there will be
|
||||||
|
no consistent ordering of the entries within the local vector or array
|
||||||
|
from one timestep to the next. The only consistency that is
|
||||||
|
guaranteed is that the ordering on a particular timestep will be the
|
||||||
|
same for local vectors or arrays generated by other compute commands.
|
||||||
|
For example, dihedral output from the <A HREF = "compute_property_local.html">compute
|
||||||
|
property/local</A> command can be combined
|
||||||
|
with data from this command and output by the <A HREF = "dump.html">dump local</A>
|
||||||
|
command in a consistent way.
|
||||||
|
</P>
|
||||||
|
<P><B>Output info:</B>
|
||||||
|
</P>
|
||||||
|
<P>This compute calculates a local vector or local array depending on the
|
||||||
|
number of keywords. The length of the vector or number of rows in the
|
||||||
|
array is the number of dihedrals. If a single keyword is specified, a
|
||||||
|
local vector is produced. If two or more keywords are specified, a
|
||||||
|
local array is produced where the number of columns = the number of
|
||||||
|
keywords. The vector or array can be accessed by any command that
|
||||||
|
uses local values from a compute as input. See <A HREF = "Section_howto.html#4_15">this
|
||||||
|
section</A> for an overview of LAMMPS output
|
||||||
|
options.
|
||||||
|
</P>
|
||||||
|
<P><B>Restrictions:</B> none
|
||||||
|
</P>
|
||||||
|
<P><B>Related commands:</B>
|
||||||
|
</P>
|
||||||
|
<P><A HREF = "dump.html">dump local</A>, <A HREF = "compute_property_local.html">compute
|
||||||
|
property/local</A>
|
||||||
|
</P>
|
||||||
|
<P><B>Default:</B> none
|
||||||
|
</P>
|
||||||
|
</HTML>
|
|
@ -0,0 +1,68 @@
|
||||||
|
"LAMMPS WWW Site"_lws - "LAMMPS Documentation"_ld - "LAMMPS Commands"_lc :c
|
||||||
|
|
||||||
|
:link(lws,http://lammps.sandia.gov)
|
||||||
|
:link(ld,Manual.html)
|
||||||
|
:link(lc,Section_commands.html#comm)
|
||||||
|
|
||||||
|
:line
|
||||||
|
|
||||||
|
compute dihedral/local command :h3
|
||||||
|
|
||||||
|
[Syntax:]
|
||||||
|
|
||||||
|
compute ID group-ID dihedral/local input1 input2 ... :pre
|
||||||
|
|
||||||
|
ID, group-ID are documented in "compute"_compute.html command :ulb,l
|
||||||
|
dihedral/local = style name of this compute command :l
|
||||||
|
zero or more keywords may be appended :l
|
||||||
|
keyword = {phi} :l
|
||||||
|
{phi} = tabulate dihedral angles :pre
|
||||||
|
:ule
|
||||||
|
|
||||||
|
[Examples:]
|
||||||
|
|
||||||
|
compute 1 all dihedral/local phi :pre
|
||||||
|
|
||||||
|
[Description:]
|
||||||
|
|
||||||
|
Define a computation that calculates properties of individual
|
||||||
|
dihedrals. The number of datums generated, aggregated across all
|
||||||
|
processors, equals the number of angles in the system.
|
||||||
|
|
||||||
|
The local data stored by this command is generated by looping over all
|
||||||
|
the atoms owned on a processor and their dihedrals. A dihedral will
|
||||||
|
only be included if all 4 atoms in the dihedral are in the specified
|
||||||
|
compute group.
|
||||||
|
|
||||||
|
The output {phi} will be in degrees.
|
||||||
|
|
||||||
|
Note that as atoms migrate from processor to processor, there will be
|
||||||
|
no consistent ordering of the entries within the local vector or array
|
||||||
|
from one timestep to the next. The only consistency that is
|
||||||
|
guaranteed is that the ordering on a particular timestep will be the
|
||||||
|
same for local vectors or arrays generated by other compute commands.
|
||||||
|
For example, dihedral output from the "compute
|
||||||
|
property/local"_compute_property_local.html command can be combined
|
||||||
|
with data from this command and output by the "dump local"_dump.html
|
||||||
|
command in a consistent way.
|
||||||
|
|
||||||
|
[Output info:]
|
||||||
|
|
||||||
|
This compute calculates a local vector or local array depending on the
|
||||||
|
number of keywords. The length of the vector or number of rows in the
|
||||||
|
array is the number of dihedrals. If a single keyword is specified, a
|
||||||
|
local vector is produced. If two or more keywords are specified, a
|
||||||
|
local array is produced where the number of columns = the number of
|
||||||
|
keywords. The vector or array can be accessed by any command that
|
||||||
|
uses local values from a compute as input. See "this
|
||||||
|
section"_Section_howto.html#4_15 for an overview of LAMMPS output
|
||||||
|
options.
|
||||||
|
|
||||||
|
[Restrictions:] none
|
||||||
|
|
||||||
|
[Related commands:]
|
||||||
|
|
||||||
|
"dump local"_dump.html, "compute
|
||||||
|
property/local"_compute_property_local.html
|
||||||
|
|
||||||
|
[Default:] none
|
|
@ -0,0 +1,78 @@
|
||||||
|
<HTML>
|
||||||
|
<CENTER><A HREF = "http://lammps.sandia.gov">LAMMPS WWW Site</A> - <A HREF = "Manual.html">LAMMPS Documentation</A> - <A HREF = "Section_commands.html#comm">LAMMPS Commands</A>
|
||||||
|
</CENTER>
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
<HR>
|
||||||
|
|
||||||
|
<H3>compute improper/local command
|
||||||
|
</H3>
|
||||||
|
<P><B>Syntax:</B>
|
||||||
|
</P>
|
||||||
|
<PRE>compute ID group-ID improper/local input1 input2 ...
|
||||||
|
</PRE>
|
||||||
|
<UL><LI>ID, group-ID are documented in <A HREF = "compute.html">compute</A> command
|
||||||
|
|
||||||
|
<LI>improper/local = style name of this compute command
|
||||||
|
|
||||||
|
<LI>zero or more keywords may be appended
|
||||||
|
|
||||||
|
<LI>keyword = <I>chi</I>
|
||||||
|
|
||||||
|
<PRE> <I>chi</I> = tabulate improper angles
|
||||||
|
</PRE>
|
||||||
|
|
||||||
|
</UL>
|
||||||
|
<P><B>Examples:</B>
|
||||||
|
</P>
|
||||||
|
<PRE>compute 1 all improper/local chi
|
||||||
|
</PRE>
|
||||||
|
<P><B>Description:</B>
|
||||||
|
</P>
|
||||||
|
<P>Define a computation that calculates properties of individual improper
|
||||||
|
interactions. The number of datums generated, aggregated across all
|
||||||
|
processors, equals the number of impropers in the system.
|
||||||
|
</P>
|
||||||
|
<P>The local data stored by this command is generated by looping over all
|
||||||
|
the atoms owned on a processor and their impropers. An improper will
|
||||||
|
only be included if all 4 atoms in the improper are in the specified
|
||||||
|
compute group.
|
||||||
|
</P>
|
||||||
|
<P>The output <I>chi</I> will be in degrees.
|
||||||
|
</P>
|
||||||
|
<P>Note that as atoms migrate from processor to processor, there will be
|
||||||
|
no consistent ordering of the entries within the local vector or array
|
||||||
|
from one timestep to the next. The only consistency that is
|
||||||
|
guaranteed is that the ordering on a particular timestep will be the
|
||||||
|
same for local vectors or arrays generated by other compute commands.
|
||||||
|
For example, improper output from the <A HREF = "compute_property_local.html">compute
|
||||||
|
property/local</A> command can be combined
|
||||||
|
with data from this command and output by the <A HREF = "dump.html">dump local</A>
|
||||||
|
command in a consistent way.
|
||||||
|
</P>
|
||||||
|
<P><B>Output info:</B>
|
||||||
|
</P>
|
||||||
|
<P>This compute calculates a local vector or local array depending on the
|
||||||
|
number of keywords. The length of the vector or number of rows in the
|
||||||
|
array is the number of impropers. If a single keyword is specified, a
|
||||||
|
local vector is produced. If two or more keywords are specified, a
|
||||||
|
local array is produced where the number of columns = the number of
|
||||||
|
keywords. The vector or array can be accessed by any command that
|
||||||
|
uses local values from a compute as input. See <A HREF = "Section_howto.html#4_15">this
|
||||||
|
section</A> for an overview of LAMMPS output
|
||||||
|
options.
|
||||||
|
</P>
|
||||||
|
<P><B>Restrictions:</B> none
|
||||||
|
</P>
|
||||||
|
<P><B>Related commands:</B>
|
||||||
|
</P>
|
||||||
|
<P><A HREF = "dump.html">dump local</A>, <A HREF = "compute_property_local.html">compute
|
||||||
|
property/local</A>
|
||||||
|
</P>
|
||||||
|
<P><B>Default:</B> none
|
||||||
|
</P>
|
||||||
|
</HTML>
|
|
@ -0,0 +1,68 @@
|
||||||
|
"LAMMPS WWW Site"_lws - "LAMMPS Documentation"_ld - "LAMMPS Commands"_lc :c
|
||||||
|
|
||||||
|
:link(lws,http://lammps.sandia.gov)
|
||||||
|
:link(ld,Manual.html)
|
||||||
|
:link(lc,Section_commands.html#comm)
|
||||||
|
|
||||||
|
:line
|
||||||
|
|
||||||
|
compute improper/local command :h3
|
||||||
|
|
||||||
|
[Syntax:]
|
||||||
|
|
||||||
|
compute ID group-ID improper/local input1 input2 ... :pre
|
||||||
|
|
||||||
|
ID, group-ID are documented in "compute"_compute.html command :ulb,l
|
||||||
|
improper/local = style name of this compute command :l
|
||||||
|
zero or more keywords may be appended :l
|
||||||
|
keyword = {chi} :l
|
||||||
|
{chi} = tabulate improper angles :pre
|
||||||
|
:ule
|
||||||
|
|
||||||
|
[Examples:]
|
||||||
|
|
||||||
|
compute 1 all improper/local chi :pre
|
||||||
|
|
||||||
|
[Description:]
|
||||||
|
|
||||||
|
Define a computation that calculates properties of individual improper
|
||||||
|
interactions. The number of datums generated, aggregated across all
|
||||||
|
processors, equals the number of impropers in the system.
|
||||||
|
|
||||||
|
The local data stored by this command is generated by looping over all
|
||||||
|
the atoms owned on a processor and their impropers. An improper will
|
||||||
|
only be included if all 4 atoms in the improper are in the specified
|
||||||
|
compute group.
|
||||||
|
|
||||||
|
The output {chi} will be in degrees.
|
||||||
|
|
||||||
|
Note that as atoms migrate from processor to processor, there will be
|
||||||
|
no consistent ordering of the entries within the local vector or array
|
||||||
|
from one timestep to the next. The only consistency that is
|
||||||
|
guaranteed is that the ordering on a particular timestep will be the
|
||||||
|
same for local vectors or arrays generated by other compute commands.
|
||||||
|
For example, improper output from the "compute
|
||||||
|
property/local"_compute_property_local.html command can be combined
|
||||||
|
with data from this command and output by the "dump local"_dump.html
|
||||||
|
command in a consistent way.
|
||||||
|
|
||||||
|
[Output info:]
|
||||||
|
|
||||||
|
This compute calculates a local vector or local array depending on the
|
||||||
|
number of keywords. The length of the vector or number of rows in the
|
||||||
|
array is the number of impropers. If a single keyword is specified, a
|
||||||
|
local vector is produced. If two or more keywords are specified, a
|
||||||
|
local array is produced where the number of columns = the number of
|
||||||
|
keywords. The vector or array can be accessed by any command that
|
||||||
|
uses local values from a compute as input. See "this
|
||||||
|
section"_Section_howto.html#4_15 for an overview of LAMMPS output
|
||||||
|
options.
|
||||||
|
|
||||||
|
[Restrictions:] none
|
||||||
|
|
||||||
|
[Related commands:]
|
||||||
|
|
||||||
|
"dump local"_dump.html, "compute
|
||||||
|
property/local"_compute_property_local.html
|
||||||
|
|
||||||
|
[Default:] none
|
Loading…
Reference in New Issue