HOOMD-blue
v2.9.4
Getting started
Installing binaries
Compiling from source
Change Log
Command line options
Concepts
Units
Periodic boundary conditions
Rotational degrees of freedom
Neighbor lists
MPI domain decomposition
Autotuner
Restartable jobs
Variable period specification
Developer Topics
Stable Python packages
hoomd
hpmc
md
mpcd
dem
Additional Python packages
cgcmm
deprecated
jit
metal
Reference
Deprecated features
License
Credits
Index
HOOMD-blue
Docs
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Index
Edit on GitHub
Index
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A
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B
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C
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D
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E
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F
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G
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H
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I
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L
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M
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N
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O
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P
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Q
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R
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S
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T
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U
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V
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W
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X
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Y
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Z
_
__init__() (hoomd.dump.getar method)
A
a (hoomd.data.angle_data_proxy attribute)
(hoomd.data.bond_data_proxy attribute)
(hoomd.data.constraint_data_proxy attribute)
(hoomd.data.dihedral_data_proxy attribute)
acceleration (hoomd.data.particle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
active (class in hoomd.md.force)
add() (hoomd.md.wall.group method)
add_cylinder() (hoomd.md.wall.group method)
add_cylinder_wall() (hoomd.hpmc.field.wall method)
add_exclusion() (hoomd.md.nlist.nlist method)
add_field() (hoomd.hpmc.field.external_field_composite method)
add_plane() (hoomd.md.wall.group method)
add_plane_wall() (hoomd.hpmc.field.wall method)
add_sphere() (hoomd.md.wall.group method)
add_sphere_wall() (hoomd.hpmc.field.wall method)
ai_pair (class in hoomd.md.pair)
all() (in module hoomd.group)
alpha_iso (hoomd.jit.patch.user attribute)
(hoomd.jit.patch.user_union attribute)
alpha_union (hoomd.jit.patch.user_union attribute)
angle_data_proxy (class in hoomd.data)
angles (hoomd.data.system_data attribute)
angmom (hoomd.data.SnapshotParticleData attribute)
area() (in module hoomd.dem.utils)
aspect() (hoomd.hpmc.update.boxmc method)
at (class in hoomd.mpcd.collide)
B
b (hoomd.data.angle_data_proxy attribute)
(hoomd.data.bond_data_proxy attribute)
(hoomd.data.constraint_data_proxy attribute)
(hoomd.data.dihedral_data_proxy attribute)
balance (class in hoomd.update)
barrier() (in module hoomd.comm)
barrier_all() (in module hoomd.comm)
bcc() (in module hoomd.lattice)
berendsen (class in hoomd.md.integrate)
block (class in hoomd.mpcd.force)
body (hoomd.data.particle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
body() (in module hoomd.group)
bond_data_proxy (class in hoomd.data)
bonds (hoomd.data.system_data attribute)
box (hoomd.data.system_data attribute)
box_resize (class in hoomd.update)
boxdim (class in hoomd.data)
boxmc (class in hoomd.hpmc.update)
brownian (class in hoomd.md.integrate)
buckingham (class in hoomd.md.pair)
bulk (class in hoomd.mpcd.stream)
C
c (hoomd.data.angle_data_proxy attribute)
(hoomd.data.dihedral_data_proxy attribute)
callback (class in hoomd.analyze)
(class in hoomd.hpmc.field)
cell (class in hoomd.md.nlist)
center() (in module hoomd.dem.utils)
cgcmm (class in hoomd.cgcmm.angle)
(class in hoomd.cgcmm.pair)
charge (hoomd.data.particle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
charged() (in module hoomd.group)
close() (hoomd.dump.getar method)
clusters (class in hoomd.hpmc.update)
coeff (class in hoomd.md.angle)
(class in hoomd.md.bond)
(class in hoomd.md.dihedral)
(class in hoomd.md.external)
(class in hoomd.md.improper)
(class in hoomd.md.pair)
(class in hoomd.md.special_pair)
compile_user() (hoomd.jit.external.user method)
(hoomd.jit.patch.user method)
(hoomd.jit.patch.user_union method)
compute_energy() (hoomd.md.pair.ai_pair method)
(hoomd.md.pair.DLVO method)
(hoomd.md.pair.buckingham method)
(hoomd.md.pair.dipole method)
(hoomd.md.pair.dpd method)
(hoomd.md.pair.dpd_conservative method)
(hoomd.md.pair.dpdlj method)
(hoomd.md.pair.ewald method)
(hoomd.md.pair.force_shifted_lj method)
(hoomd.md.pair.fourier method)
(hoomd.md.pair.gauss method)
(hoomd.md.pair.gb method)
(hoomd.md.pair.lj method)
(hoomd.md.pair.lj1208 method)
(hoomd.md.pair.mie method)
(hoomd.md.pair.moliere method)
(hoomd.md.pair.morse method)
(hoomd.md.pair.pair method)
(hoomd.md.pair.reaction_field method)
(hoomd.md.pair.slj method)
(hoomd.md.pair.square_density method)
(hoomd.md.pair.tersoff method)
(hoomd.md.pair.yukawa method)
(hoomd.md.pair.zbl method)
constant (class in hoomd.md.force)
(class in hoomd.mpcd.force)
constraint (hoomd.data.system_data attribute)
constraint_data_proxy (class in hoomd.data)
constraint_ellipsoid (class in hoomd.md.update)
convex_polygon (class in hoomd.hpmc.integrate)
convex_polyhedron (class in hoomd.hpmc.integrate)
convex_polyhedron_union (class in hoomd.hpmc.integrate)
convex_spheropolygon (class in hoomd.hpmc.integrate)
convex_spheropolyhedron (class in hoomd.hpmc.integrate)
convex_spheropolyhedron_union (class in hoomd.hpmc.integrate)
convexHull() (in module hoomd.dem.utils)
cosinesq (class in hoomd.md.angle)
coulomb (class in hoomd.md.special_pair)
count_overlaps() (hoomd.hpmc.field.wall method)
(hoomd.hpmc.integrate.mode_hpmc method)
create_bodies() (hoomd.md.constrain.rigid method)
create_lattice() (in module hoomd.init)
create_random() (in module hoomd.deprecated.init)
create_random_polymers() (in module hoomd.deprecated.init)
cuboid() (in module hoomd.group)
cuda_profile_start() (in module hoomd.util)
cuda_profile_stop() (in module hoomd.util)
cylinder (class in hoomd.md.wall)
D
d (hoomd.data.constraint_data_proxy attribute)
(hoomd.data.dihedral_data_proxy attribute)
dcd (class in hoomd.dump)
decomposition (class in hoomd.comm)
del_cylinder() (hoomd.md.wall.group method)
del_plane() (hoomd.md.wall.group method)
del_sphere() (hoomd.md.wall.group method)
diameter (hoomd.data.particle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
difference() (in module hoomd.group)
dihedral_data_proxy (class in hoomd.data)
dihedrals (hoomd.data.system_data attribute)
dipole (class in hoomd.md.force)
(class in hoomd.md.pair)
disable() (hoomd.analyze.callback method)
(hoomd.analyze.imd method)
(hoomd.analyze.log method)
(hoomd.cgcmm.angle.cgcmm method)
(hoomd.cgcmm.pair.cgcmm method)
(hoomd.compute.thermo method)
(hoomd.dem.pair.SWCA method)
(hoomd.dem.pair.WCA method)
(hoomd.deprecated.analyze.msd method)
(hoomd.deprecated.dump.pos method)
(hoomd.deprecated.dump.xml method)
(hoomd.dump.dcd method)
(hoomd.dump.getar method)
(hoomd.dump.gsd method)
(hoomd.hdf5.log method)
(hoomd.hpmc.analyze.sdf method)
(hoomd.hpmc.compute.free_volume method)
(hoomd.hpmc.field.callback method)
(hoomd.hpmc.field.external_field_composite method)
(hoomd.hpmc.field.frenkel_ladd_energy method)
(hoomd.hpmc.field.lattice_field method)
(hoomd.hpmc.field.wall method)
(hoomd.hpmc.update.boxmc method)
(hoomd.hpmc.update.clusters method)
(hoomd.hpmc.update.muvt method)
(hoomd.hpmc.update.remove_drift method)
(hoomd.hpmc.update.wall method)
(hoomd.jit.external.user method)
(hoomd.md.angle.cosinesq method)
(hoomd.md.angle.harmonic method)
(hoomd.md.angle.table method)
(hoomd.md.bond.fene method)
(hoomd.md.bond.harmonic method)
(hoomd.md.bond.table method)
(hoomd.md.charge.pppm method)
(hoomd.md.constrain.distance method)
(hoomd.md.constrain.oneD method)
(hoomd.md.constrain.rigid method)
(hoomd.md.constrain.sphere method)
(hoomd.md.dihedral.harmonic method)
(hoomd.md.dihedral.opls method)
(hoomd.md.dihedral.table method)
(hoomd.md.external.e_field method)
(hoomd.md.external.periodic method)
(hoomd.md.force.active method)
(hoomd.md.force.constant method)
(hoomd.md.force.dipole method)
(hoomd.md.improper.harmonic method)
(hoomd.md.integrate.berendsen method)
(hoomd.md.integrate.brownian method)
(hoomd.md.integrate.langevin method)
(hoomd.md.integrate.nph method)
(hoomd.md.integrate.npt method)
(hoomd.md.integrate.nve method)
(hoomd.md.integrate.nvt method)
(hoomd.md.pair.DLVO method)
(hoomd.md.pair.ai_pair method)
(hoomd.md.pair.buckingham method)
(hoomd.md.pair.dipole method)
(hoomd.md.pair.dpd method)
(hoomd.md.pair.dpd_conservative method)
(hoomd.md.pair.dpdlj method)
(hoomd.md.pair.ewald method)
(hoomd.md.pair.force_shifted_lj method)
(hoomd.md.pair.fourier method)
(hoomd.md.pair.gauss method)
(hoomd.md.pair.gb method)
(hoomd.md.pair.lj method)
(hoomd.md.pair.lj1208 method)
(hoomd.md.pair.mie method)
(hoomd.md.pair.moliere method)
(hoomd.md.pair.morse method)
(hoomd.md.pair.pair method)
(hoomd.md.pair.reaction_field method)
(hoomd.md.pair.slj method)
(hoomd.md.pair.square_density method)
(hoomd.md.pair.table method)
(hoomd.md.pair.tersoff method)
(hoomd.md.pair.yukawa method)
(hoomd.md.pair.zbl method)
(hoomd.md.special_pair.coulomb method)
(hoomd.md.special_pair.lj method)
(hoomd.md.update.constraint_ellipsoid method)
(hoomd.md.update.enforce2d method)
(hoomd.md.update.mueller_plathe_flow method)
(hoomd.md.update.rescale_temp method)
(hoomd.md.update.zero_momentum method)
(hoomd.md.wall.force_shifted_lj method)
(hoomd.md.wall.gauss method)
(hoomd.md.wall.lj method)
(hoomd.md.wall.mie method)
(hoomd.md.wall.morse method)
(hoomd.md.wall.slj method)
(hoomd.md.wall.wallpotential method)
(hoomd.md.wall.yukawa method)
(hoomd.metal.pair.eam method)
(hoomd.mpcd.collide.at method)
(hoomd.mpcd.collide.srd method)
(hoomd.mpcd.integrate.slit method)
(hoomd.mpcd.integrate.slit_pore method)
(hoomd.mpcd.stream.bulk method)
(hoomd.mpcd.stream.slit method)
(hoomd.mpcd.stream.slit_pore method)
(hoomd.update.balance method)
(hoomd.update.box_resize method)
(hoomd.update.sort method)
distance (class in hoomd.md.constrain)
DLVO (class in hoomd.md.pair)
dpd (class in hoomd.md.pair)
dpd_conservative (class in hoomd.md.pair)
dpdlj (class in hoomd.md.pair)
dump_metadata() (in module hoomd.meta)
dump_shape() (hoomd.dump.gsd method)
dump_state() (hoomd.dump.gsd method)
E
e_field (class in hoomd.md.external)
eam (class in hoomd.metal.pair)
ellipsoid (class in hoomd.hpmc.integrate)
embed() (hoomd.mpcd.collide.at method)
(hoomd.mpcd.collide.srd method)
enable() (hoomd.analyze.callback method)
(hoomd.analyze.imd method)
(hoomd.analyze.log method)
(hoomd.cgcmm.angle.cgcmm method)
(hoomd.cgcmm.pair.cgcmm method)
(hoomd.compute.thermo method)
(hoomd.dem.pair.SWCA method)
(hoomd.dem.pair.WCA method)
(hoomd.deprecated.analyze.msd method)
(hoomd.deprecated.dump.pos method)
(hoomd.deprecated.dump.xml method)
(hoomd.dump.dcd method)
(hoomd.dump.getar method)
(hoomd.dump.gsd method)
(hoomd.hdf5.log method)
(hoomd.hpmc.analyze.sdf method)
(hoomd.hpmc.compute.free_volume method)
(hoomd.hpmc.field.callback method)
(hoomd.hpmc.field.external_field_composite method)
(hoomd.hpmc.field.frenkel_ladd_energy method)
(hoomd.hpmc.field.lattice_field method)
(hoomd.hpmc.field.wall method)
(hoomd.hpmc.update.boxmc method)
(hoomd.hpmc.update.clusters method)
(hoomd.hpmc.update.muvt method)
(hoomd.hpmc.update.remove_drift method)
(hoomd.hpmc.update.wall method)
(hoomd.jit.external.user method)
(hoomd.md.angle.cosinesq method)
(hoomd.md.angle.harmonic method)
(hoomd.md.angle.table method)
(hoomd.md.bond.fene method)
(hoomd.md.bond.harmonic method)
(hoomd.md.bond.table method)
(hoomd.md.charge.pppm method)
(hoomd.md.constrain.distance method)
(hoomd.md.constrain.oneD method)
(hoomd.md.constrain.rigid method)
(hoomd.md.constrain.sphere method)
(hoomd.md.dihedral.harmonic method)
(hoomd.md.dihedral.opls method)
(hoomd.md.dihedral.table method)
(hoomd.md.external.e_field method)
(hoomd.md.external.periodic method)
(hoomd.md.force.active method)
(hoomd.md.force.constant method)
(hoomd.md.force.dipole method)
(hoomd.md.improper.harmonic method)
(hoomd.md.integrate.berendsen method)
(hoomd.md.integrate.brownian method)
(hoomd.md.integrate.langevin method)
(hoomd.md.integrate.nph method)
(hoomd.md.integrate.npt method)
(hoomd.md.integrate.nve method)
(hoomd.md.integrate.nvt method)
(hoomd.md.pair.DLVO method)
(hoomd.md.pair.ai_pair method)
(hoomd.md.pair.buckingham method)
(hoomd.md.pair.dipole method)
(hoomd.md.pair.dpd method)
(hoomd.md.pair.dpd_conservative method)
(hoomd.md.pair.dpdlj method)
(hoomd.md.pair.ewald method)
(hoomd.md.pair.force_shifted_lj method)
(hoomd.md.pair.fourier method)
(hoomd.md.pair.gauss method)
(hoomd.md.pair.gb method)
(hoomd.md.pair.lj method)
(hoomd.md.pair.lj1208 method)
(hoomd.md.pair.mie method)
(hoomd.md.pair.moliere method)
(hoomd.md.pair.morse method)
(hoomd.md.pair.pair method)
(hoomd.md.pair.reaction_field method)
(hoomd.md.pair.slj method)
(hoomd.md.pair.square_density method)
(hoomd.md.pair.table method)
(hoomd.md.pair.tersoff method)
(hoomd.md.pair.yukawa method)
(hoomd.md.pair.zbl method)
(hoomd.md.special_pair.coulomb method)
(hoomd.md.special_pair.lj method)
(hoomd.md.update.constraint_ellipsoid method)
(hoomd.md.update.enforce2d method)
(hoomd.md.update.mueller_plathe_flow method)
(hoomd.md.update.rescale_temp method)
(hoomd.md.update.zero_momentum method)
(hoomd.md.wall.force_shifted_lj method)
(hoomd.md.wall.gauss method)
(hoomd.md.wall.lj method)
(hoomd.md.wall.mie method)
(hoomd.md.wall.morse method)
(hoomd.md.wall.slj method)
(hoomd.md.wall.wallpotential method)
(hoomd.md.wall.yukawa method)
(hoomd.metal.pair.eam method)
(hoomd.mpcd.collide.at method)
(hoomd.mpcd.collide.srd method)
(hoomd.mpcd.integrate.slit method)
(hoomd.mpcd.integrate.slit_pore method)
(hoomd.mpcd.stream.bulk method)
(hoomd.mpcd.stream.slit method)
(hoomd.mpcd.stream.slit_pore method)
(hoomd.update.balance method)
(hoomd.update.box_resize method)
(hoomd.update.sort method)
energy (hoomd.data.force_data_proxy attribute)
enforce2d (class in hoomd.md.update)
ewald (class in hoomd.md.pair)
external_field_composite (class in hoomd.hpmc.field)
F
faceted_ellipsoid (class in hoomd.hpmc.integrate)
faceted_ellipsoid_union (class in hoomd.hpmc.integrate)
faceted_sphere (class in hoomd.hpmc.integrate)
fcc() (in module hoomd.lattice)
fene (class in hoomd.md.bond)
File (class in hoomd.hdf5)
floppy() (in module hoomd.group)
force (hoomd.data.force_data_proxy attribute)
force_data_proxy (class in hoomd.data)
force_shifted_lj (class in hoomd.md.pair)
(class in hoomd.md.wall)
force_update() (hoomd.group.group method)
fourier (class in hoomd.md.pair)
free_volume (class in hoomd.hpmc.compute)
frenkel_ladd_energy (class in hoomd.hpmc.field)
G
gauss (class in hoomd.md.pair)
(class in hoomd.md.wall)
gb (class in hoomd.md.pair)
get_a() (hoomd.hpmc.integrate.mode_hpmc method)
get_accepted_count() (hoomd.hpmc.update.wall method)
get_aspect_acceptance() (hoomd.hpmc.update.boxmc method)
get_average_energy() (hoomd.hpmc.field.lattice_field method)
get_configurational_bias_ratio() (hoomd.hpmc.integrate.mode_hpmc method)
get_counters() (hoomd.hpmc.integrate.mode_hpmc method)
get_curr_box() (hoomd.hpmc.field.wall method)
get_cylinder_wall_param() (hoomd.hpmc.field.wall method)
get_d() (hoomd.hpmc.integrate.mode_hpmc method)
get_depletant_type() (hoomd.hpmc.integrate.mode_hpmc method)
get_energy() (hoomd.cgcmm.angle.cgcmm method)
(hoomd.cgcmm.pair.cgcmm method)
(hoomd.dem.pair.SWCA method)
(hoomd.dem.pair.WCA method)
(hoomd.hpmc.field.lattice_field method)
(hoomd.md.angle.cosinesq method)
(hoomd.md.angle.harmonic method)
(hoomd.md.angle.table method)
(hoomd.md.bond.fene method)
(hoomd.md.bond.harmonic method)
(hoomd.md.bond.table method)
(hoomd.md.charge.pppm method)
(hoomd.md.dihedral.harmonic method)
(hoomd.md.dihedral.opls method)
(hoomd.md.dihedral.table method)
(hoomd.md.external.e_field method)
(hoomd.md.external.periodic method)
(hoomd.md.force.active method)
(hoomd.md.force.constant method)
(hoomd.md.force.dipole method)
(hoomd.md.improper.harmonic method)
(hoomd.md.integrate.mode_minimize_fire method)
(hoomd.md.pair.DLVO method)
(hoomd.md.pair.ai_pair method)
(hoomd.md.pair.buckingham method)
(hoomd.md.pair.dipole method)
(hoomd.md.pair.dpd method)
(hoomd.md.pair.dpd_conservative method)
(hoomd.md.pair.dpdlj method)
(hoomd.md.pair.ewald method)
(hoomd.md.pair.force_shifted_lj method)
(hoomd.md.pair.fourier method)
(hoomd.md.pair.gauss method)
(hoomd.md.pair.gb method)
(hoomd.md.pair.lj method)
(hoomd.md.pair.lj1208 method)
(hoomd.md.pair.mie method)
(hoomd.md.pair.moliere method)
(hoomd.md.pair.morse method)
(hoomd.md.pair.pair method)
(hoomd.md.pair.reaction_field method)
(hoomd.md.pair.slj method)
(hoomd.md.pair.square_density method)
(hoomd.md.pair.table method)
(hoomd.md.pair.tersoff method)
(hoomd.md.pair.yukawa method)
(hoomd.md.pair.zbl method)
(hoomd.md.special_pair.coulomb method)
(hoomd.md.special_pair.lj method)
(hoomd.md.wall.force_shifted_lj method)
(hoomd.md.wall.gauss method)
(hoomd.md.wall.lj method)
(hoomd.md.wall.mie method)
(hoomd.md.wall.morse method)
(hoomd.md.wall.slj method)
(hoomd.md.wall.wallpotential method)
(hoomd.md.wall.yukawa method)
(hoomd.metal.pair.eam method)
get_flow_epsilon() (hoomd.md.update.mueller_plathe_flow method)
get_lattice_vector() (hoomd.data.boxdim method)
get_ln_volume_acceptance() (hoomd.hpmc.update.boxmc method)
get_max_slab() (hoomd.md.update.mueller_plathe_flow method)
get_min_slab() (hoomd.md.update.mueller_plathe_flow method)
get_move_ratio() (hoomd.hpmc.integrate.mode_hpmc method)
get_mps() (hoomd.hpmc.integrate.mode_hpmc method)
get_n_slabs() (hoomd.md.update.mueller_plathe_flow method)
get_net_force() (hoomd.cgcmm.angle.cgcmm method)
(hoomd.cgcmm.pair.cgcmm method)
(hoomd.dem.pair.SWCA method)
(hoomd.dem.pair.WCA method)
(hoomd.md.angle.cosinesq method)
(hoomd.md.angle.harmonic method)
(hoomd.md.angle.table method)
(hoomd.md.bond.fene method)
(hoomd.md.bond.harmonic method)
(hoomd.md.bond.table method)
(hoomd.md.charge.pppm method)
(hoomd.md.dihedral.harmonic method)
(hoomd.md.dihedral.opls method)
(hoomd.md.dihedral.table method)
(hoomd.md.external.e_field method)
(hoomd.md.external.periodic method)
(hoomd.md.force.active method)
(hoomd.md.force.constant method)
(hoomd.md.force.dipole method)
(hoomd.md.improper.harmonic method)
(hoomd.md.pair.DLVO method)
(hoomd.md.pair.ai_pair method)
(hoomd.md.pair.buckingham method)
(hoomd.md.pair.dipole method)
(hoomd.md.pair.dpd method)
(hoomd.md.pair.dpd_conservative method)
(hoomd.md.pair.dpdlj method)
(hoomd.md.pair.ewald method)
(hoomd.md.pair.force_shifted_lj method)
(hoomd.md.pair.fourier method)
(hoomd.md.pair.gauss method)
(hoomd.md.pair.gb method)
(hoomd.md.pair.lj method)
(hoomd.md.pair.lj1208 method)
(hoomd.md.pair.mie method)
(hoomd.md.pair.moliere method)
(hoomd.md.pair.morse method)
(hoomd.md.pair.pair method)
(hoomd.md.pair.reaction_field method)
(hoomd.md.pair.slj method)
(hoomd.md.pair.square_density method)
(hoomd.md.pair.table method)
(hoomd.md.pair.tersoff method)
(hoomd.md.pair.yukawa method)
(hoomd.md.pair.zbl method)
(hoomd.md.special_pair.coulomb method)
(hoomd.md.special_pair.lj method)
(hoomd.md.wall.force_shifted_lj method)
(hoomd.md.wall.gauss method)
(hoomd.md.wall.lj method)
(hoomd.md.wall.mie method)
(hoomd.md.wall.morse method)
(hoomd.md.wall.slj method)
(hoomd.md.wall.wallpotential method)
(hoomd.md.wall.yukawa method)
(hoomd.metal.pair.eam method)
get_net_virial() (hoomd.cgcmm.angle.cgcmm method)
(hoomd.cgcmm.pair.cgcmm method)
(hoomd.dem.pair.SWCA method)
(hoomd.dem.pair.WCA method)
(hoomd.md.angle.cosinesq method)
(hoomd.md.angle.harmonic method)
(hoomd.md.angle.table method)
(hoomd.md.bond.fene method)
(hoomd.md.bond.harmonic method)
(hoomd.md.bond.table method)
(hoomd.md.charge.pppm method)
(hoomd.md.dihedral.harmonic method)
(hoomd.md.dihedral.opls method)
(hoomd.md.dihedral.table method)
(hoomd.md.external.e_field method)
(hoomd.md.external.periodic method)
(hoomd.md.force.active method)
(hoomd.md.force.constant method)
(hoomd.md.force.dipole method)
(hoomd.md.improper.harmonic method)
(hoomd.md.pair.DLVO method)
(hoomd.md.pair.ai_pair method)
(hoomd.md.pair.buckingham method)
(hoomd.md.pair.dipole method)
(hoomd.md.pair.dpd method)
(hoomd.md.pair.dpd_conservative method)
(hoomd.md.pair.dpdlj method)
(hoomd.md.pair.ewald method)
(hoomd.md.pair.force_shifted_lj method)
(hoomd.md.pair.fourier method)
(hoomd.md.pair.gauss method)
(hoomd.md.pair.gb method)
(hoomd.md.pair.lj method)
(hoomd.md.pair.lj1208 method)
(hoomd.md.pair.mie method)
(hoomd.md.pair.moliere method)
(hoomd.md.pair.morse method)
(hoomd.md.pair.pair method)
(hoomd.md.pair.reaction_field method)
(hoomd.md.pair.slj method)
(hoomd.md.pair.square_density method)
(hoomd.md.pair.table method)
(hoomd.md.pair.tersoff method)
(hoomd.md.pair.yukawa method)
(hoomd.md.pair.zbl method)
(hoomd.md.special_pair.coulomb method)
(hoomd.md.special_pair.lj method)
(hoomd.md.wall.force_shifted_lj method)
(hoomd.md.wall.gauss method)
(hoomd.md.wall.lj method)
(hoomd.md.wall.mie method)
(hoomd.md.wall.morse method)
(hoomd.md.wall.slj method)
(hoomd.md.wall.wallpotential method)
(hoomd.md.wall.yukawa method)
(hoomd.metal.pair.eam method)
get_nR() (hoomd.hpmc.integrate.mode_hpmc method)
get_nselect() (hoomd.hpmc.integrate.mode_hpmc method)
get_ntrial() (hoomd.hpmc.integrate.mode_hpmc method)
get_num_cylinder_walls() (hoomd.hpmc.field.wall method)
get_num_plane_walls() (hoomd.hpmc.field.wall method)
get_num_ranks() (in module hoomd.comm)
get_num_sphere_walls() (hoomd.hpmc.field.wall method)
get_partition() (in module hoomd.comm)
get_pivot_acceptance() (hoomd.hpmc.update.clusters method)
get_plane_wall_param() (hoomd.hpmc.field.wall method)
get_rank() (in module hoomd.comm)
get_reflection_acceptance() (hoomd.hpmc.update.clusters method)
get_rotate_acceptance() (hoomd.hpmc.integrate.mode_hpmc method)
get_shear_acceptance() (hoomd.hpmc.update.boxmc method)
get_sigma_energy() (hoomd.hpmc.field.lattice_field method)
get_snapshot() (hoomd.lattice.unitcell method)
get_sphere_wall_param() (hoomd.hpmc.field.wall method)
get_step() (in module hoomd)
get_summed_exchanged_momentum() (hoomd.md.update.mueller_plathe_flow method)
get_swap_acceptance() (hoomd.hpmc.update.clusters method)
get_total_count() (hoomd.hpmc.update.wall method)
get_translate_acceptance() (hoomd.hpmc.integrate.mode_hpmc method)
get_type_list() (hoomd.lattice.unitcell method)
get_type_shapes() (hoomd.dem.pair.SWCA method)
(hoomd.dem.pair.WCA method)
(hoomd.hpmc.integrate.convex_polygon method)
(hoomd.hpmc.integrate.convex_polyhedron method)
(hoomd.hpmc.integrate.convex_spheropolygon method)
(hoomd.hpmc.integrate.convex_spheropolyhedron method)
(hoomd.hpmc.integrate.ellipsoid method)
(hoomd.hpmc.integrate.mode_hpmc method)
(hoomd.hpmc.integrate.polyhedron method)
(hoomd.hpmc.integrate.simple_polygon method)
(hoomd.hpmc.integrate.sphere method)
(hoomd.md.pair.DLVO method)
(hoomd.md.pair.ai_pair method)
(hoomd.md.pair.buckingham method)
(hoomd.md.pair.dipole method)
(hoomd.md.pair.dpd method)
(hoomd.md.pair.dpd_conservative method)
(hoomd.md.pair.dpdlj method)
(hoomd.md.pair.ewald method)
(hoomd.md.pair.force_shifted_lj method)
(hoomd.md.pair.fourier method)
(hoomd.md.pair.gauss method)
(hoomd.md.pair.gb method)
(hoomd.md.pair.lj method)
(hoomd.md.pair.lj1208 method)
(hoomd.md.pair.mie method)
(hoomd.md.pair.moliere method)
(hoomd.md.pair.morse method)
(hoomd.md.pair.pair method)
(hoomd.md.pair.reaction_field method)
(hoomd.md.pair.slj method)
(hoomd.md.pair.square_density method)
(hoomd.md.pair.tersoff method)
(hoomd.md.pair.yukawa method)
(hoomd.md.pair.zbl method)
get_typeid_mapping() (hoomd.lattice.unitcell method)
get_user() (in module hoomd.option)
get_volume() (hoomd.data.boxdim method)
(hoomd.hpmc.field.wall method)
get_volume_acceptance() (hoomd.hpmc.update.boxmc method)
getar (class in hoomd.dump)
getar.DumpProp (class in hoomd.dump)
group (class in hoomd.group)
(class in hoomd.md.wall)
gsd (class in hoomd.dump)
gsd_snapshot() (in module hoomd.data)
H
harmonic (class in hoomd.md.angle)
(class in hoomd.md.bond)
(class in hoomd.md.dihedral)
(class in hoomd.md.improper)
has_converged() (hoomd.md.integrate.mode_minimize_fire method)
has_max_slab() (hoomd.md.update.mueller_plathe_flow method)
has_min_slab() (hoomd.md.update.mueller_plathe_flow method)
hex() (in module hoomd.lattice)
hoomd (module)
hoomd.analyze (module)
hoomd.benchmark (module)
hoomd.cgcmm (module)
hoomd.cgcmm.angle (module)
hoomd.cgcmm.pair (module)
hoomd.cite (module)
hoomd.comm (module)
hoomd.compute (module)
hoomd.context (module)
hoomd.data (module)
hoomd.dem (module)
hoomd.dem.pair (module)
hoomd.dem.utils (module)
hoomd.deprecated (module)
hoomd.deprecated.analyze (module)
hoomd.deprecated.dump (module)
hoomd.deprecated.init (module)
hoomd.dump (module)
hoomd.group (module)
hoomd.hdf5 (module)
hoomd.hpmc (module)
hoomd.hpmc.analyze (module)
hoomd.hpmc.compute (module)
hoomd.hpmc.data (module)
hoomd.hpmc.field (module)
hoomd.hpmc.integrate (module)
hoomd.hpmc.update (module)
hoomd.hpmc.util (module)
hoomd.init (module)
hoomd.jit (module)
hoomd.jit.external (module)
hoomd.jit.patch (module)
hoomd.lattice (module)
hoomd.md (module)
hoomd.md.angle (module)
hoomd.md.bond (module)
hoomd.md.charge (module)
hoomd.md.constrain (module)
hoomd.md.dihedral (module)
hoomd.md.external (module)
hoomd.md.force (module)
hoomd.md.improper (module)
hoomd.md.integrate (module)
hoomd.md.nlist (module)
hoomd.md.pair (module)
hoomd.md.special_pair (module)
hoomd.md.update (module)
hoomd.md.wall (module)
hoomd.meta (module)
hoomd.metal (module)
hoomd.metal.pair (module)
hoomd.mpcd (module)
hoomd.mpcd.collide (module)
hoomd.mpcd.data (module)
hoomd.mpcd.force (module)
hoomd.mpcd.init (module)
hoomd.mpcd.integrate (module)
hoomd.mpcd.stream (module)
hoomd.mpcd.update (module)
hoomd.option (module)
hoomd.update (module)
hoomd.util (module)
hoomd.variant (module)
I
image (hoomd.data.particle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
imd (class in hoomd.analyze)
immediate() (hoomd.dump.getar class method)
impropers (hoomd.data.system_data attribute)
initialize() (in module hoomd.context)
integrator (class in hoomd.mpcd)
interaction_matrix (class in hoomd.hpmc.integrate)
intersection() (in module hoomd.group)
L
langevin (class in hoomd.md.integrate)
lattice_field (class in hoomd.hpmc.field)
length() (hoomd.hpmc.update.boxmc method)
linear_interp (class in hoomd.variant)
lj (class in hoomd.md.pair)
(class in hoomd.md.special_pair)
(class in hoomd.md.wall)
lj1208 (class in hoomd.md.pair)
ln_volume() (hoomd.hpmc.update.boxmc method)
log (class in hoomd.analyze)
(class in hoomd.hdf5)
(hoomd.dump.gsd attribute)
M
make_fraction() (hoomd.data.boxdim method)
make_random() (in module hoomd.mpcd.init)
make_snapshot() (in module hoomd.data)
(in module hoomd.mpcd.data)
map_overlaps() (hoomd.hpmc.integrate.mode_hpmc method)
mass (hoomd.data.particle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
massProperties() (in module hoomd.dem.utils)
mie (class in hoomd.md.pair)
(class in hoomd.md.wall)
min_image() (hoomd.data.boxdim method)
mode_hpmc (class in hoomd.hpmc.integrate)
mode_minimize_fire (class in hoomd.md.integrate)
mode_standard (class in hoomd.md.integrate)
moliere (class in hoomd.md.pair)
moment_inertia (hoomd.data.SnapshotParticleData attribute)
morse (class in hoomd.md.pair)
(class in hoomd.md.wall)
msd (class in hoomd.deprecated.analyze)
mueller_plathe_flow (class in hoomd.md.update)
muvt (class in hoomd.hpmc.update)
N
N (hoomd.data.SnapshotParticleData attribute)
net_energy (hoomd.data.particle_data_proxy attribute)
net_force (hoomd.data.particle_data_proxy attribute)
net_torque (hoomd.data.particle_data_proxy attribute)
net_virial (hoomd.data.particle_data_proxy attribute)
nlist (class in hoomd.md.nlist)
nonbody() (in module hoomd.group)
nonfloppy() (in module hoomd.group)
nonrigid() (in module hoomd.group)
nph (class in hoomd.md.integrate)
npt (class in hoomd.md.integrate)
nve (class in hoomd.md.integrate)
nvt (class in hoomd.md.integrate)
O
on_gpu() (hoomd.context.SimulationContext method)
oneD (class in hoomd.md.constrain)
opls (class in hoomd.md.dihedral)
orientation (hoomd.data.particle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
P
pair (class in hoomd.md.pair)
pairs (hoomd.data.system_data attribute)
param_dict (class in hoomd.hpmc.data)
particle_data_proxy (class in hoomd.data)
particles (hoomd.data.system_data attribute)
(hoomd.mpcd.data.snapshot attribute)
periodic (class in hoomd.md.external)
plane (class in hoomd.md.wall)
polyhedron (class in hoomd.hpmc.integrate)
pos (class in hoomd.deprecated.dump)
position (hoomd.data.particle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
pppm (class in hoomd.md.charge)
Q
query() (hoomd.analyze.log method)
(hoomd.hdf5.log method)
query_update_period() (hoomd.md.nlist.nlist method)
quiet_status() (in module hoomd.util)
R
randomize_velocities() (hoomd.md.integrate.berendsen method)
(hoomd.md.integrate.nph method)
(hoomd.md.integrate.npt method)
(hoomd.md.integrate.nve method)
(hoomd.md.integrate.nvt method)
reaction_field (class in hoomd.md.pair)
read_getar() (in module hoomd.init)
read_gsd() (in module hoomd.init)
read_snapshot() (in module hoomd.init)
(in module hoomd.mpcd.init)
read_xml() (in module hoomd.deprecated.init)
register_callback() (hoomd.analyze.log method)
(hoomd.hdf5.log method)
remove_cylinder_wall() (hoomd.hpmc.field.wall method)
remove_drift (class in hoomd.hpmc.update)
remove_filler() (hoomd.mpcd.stream.slit method)
(hoomd.mpcd.stream.slit_pore method)
remove_force() (hoomd.mpcd.stream.bulk method)
(hoomd.mpcd.stream.slit method)
(hoomd.mpcd.stream.slit_pore method)
remove_plane_wall() (hoomd.hpmc.field.wall method)
remove_sphere_wall() (hoomd.hpmc.field.wall method)
replicate() (hoomd.data.system_data method)
(hoomd.mpcd.data.snapshot method)
rescale_temp (class in hoomd.md.update)
reset() (hoomd.hpmc.field.lattice_field method)
(hoomd.md.integrate.mode_minimize_fire method)
reset_exclusions() (hoomd.md.nlist.nlist method)
reset_methods() (hoomd.md.integrate.mode_standard method)
reset_statistics() (hoomd.hpmc.field.frenkel_ladd_energy method)
resize() (hoomd.data.SnapshotParticleData method)
restore_getar() (in module hoomd.init)
restore_snapshot() (hoomd.data.system_data method)
(hoomd.mpcd.data.system method)
restore_state() (hoomd.analyze.callback method)
(hoomd.analyze.imd method)
(hoomd.analyze.log method)
(hoomd.compute.thermo method)
(hoomd.deprecated.analyze.msd method)
(hoomd.deprecated.dump.pos method)
(hoomd.deprecated.dump.xml method)
(hoomd.dump.dcd method)
(hoomd.dump.getar method)
(hoomd.dump.gsd method)
(hoomd.hpmc.analyze.sdf method)
(hoomd.hpmc.compute.free_volume method)
(hoomd.hpmc.field.callback method)
(hoomd.hpmc.field.external_field_composite method)
(hoomd.hpmc.field.frenkel_ladd_energy method)
(hoomd.hpmc.field.lattice_field method)
(hoomd.hpmc.field.wall method)
(hoomd.hpmc.integrate.mode_hpmc method)
(hoomd.hpmc.update.boxmc method)
(hoomd.hpmc.update.clusters method)
(hoomd.hpmc.update.muvt method)
(hoomd.hpmc.update.remove_drift method)
(hoomd.hpmc.update.wall method)
(hoomd.jit.external.user method)
(hoomd.md.integrate.mode_minimize_fire method)
(hoomd.md.integrate.mode_standard method)
(hoomd.md.update.constraint_ellipsoid method)
(hoomd.md.update.enforce2d method)
(hoomd.md.update.mueller_plathe_flow method)
(hoomd.md.update.rescale_temp method)
(hoomd.md.update.zero_momentum method)
(hoomd.mpcd.integrator method)
(hoomd.update.balance method)
(hoomd.update.box_resize method)
(hoomd.update.sort method)
rigid (class in hoomd.md.constrain)
rigid() (in module hoomd.group)
rigid_center() (in module hoomd.group)
rmax() (in module hoomd.dem.utils)
run() (in module hoomd)
run_upto() (in module hoomd)
S
save() (in module hoomd.cite)
sc() (in module hoomd.lattice)
scale() (hoomd.data.boxdim method)
sdf (class in hoomd.hpmc.analyze)
series() (in module hoomd.benchmark)
set() (hoomd.hpmc.data.param_dict method)
(hoomd.hpmc.integrate.interaction_matrix method)
(hoomd.md.angle.coeff method)
(hoomd.md.bond.coeff method)
(hoomd.md.dihedral.coeff method)
(hoomd.md.external.coeff method)
(hoomd.md.improper.coeff method)
(hoomd.md.pair.coeff method)
(hoomd.md.special_pair.coeff method)
set_autotuner_params() (in module hoomd.option)
set_betap() (hoomd.hpmc.update.boxmc method)
set_cell_width() (hoomd.md.nlist.stencil method)
set_coeff() (hoomd.cgcmm.angle.cgcmm method)
set_curr_box() (hoomd.hpmc.field.wall method)
set_current() (hoomd.context.SimulationContext method)
set_cylinder_wall() (hoomd.hpmc.field.wall method)
set_def() (hoomd.deprecated.dump.pos method)
set_filler() (hoomd.mpcd.stream.slit method)
(hoomd.mpcd.stream.slit_pore method)
set_flow_epsilon() (hoomd.md.update.mueller_plathe_flow method)
set_force() (hoomd.mpcd.stream.bulk method)
(hoomd.mpcd.stream.slit method)
(hoomd.mpcd.stream.slit_pore method)
set_from_file() (hoomd.md.angle.table method)
(hoomd.md.bond.table method)
(hoomd.md.dihedral.table method)
(hoomd.md.pair.table method)
set_fugacity() (hoomd.hpmc.update.muvt method)
set_gamma() (hoomd.md.integrate.brownian method)
(hoomd.md.integrate.langevin method)
set_gamma_r() (hoomd.md.integrate.brownian method)
(hoomd.md.integrate.langevin method)
set_msg_file() (in module hoomd.option)
set_notice_level() (in module hoomd.option)
set_num_threads() (in module hoomd.option)
set_param() (hoomd.md.constrain.rigid method)
set_params() (hoomd.analyze.log method)
(hoomd.comm.decomposition method)
(hoomd.deprecated.analyze.msd method)
(hoomd.deprecated.dump.xml method)
(hoomd.hdf5.log method)
(hoomd.hpmc.field.frenkel_ladd_energy method)
(hoomd.hpmc.field.lattice_field method)
(hoomd.hpmc.integrate.mode_hpmc method)
(hoomd.hpmc.update.clusters method)
(hoomd.hpmc.update.muvt method)
(hoomd.md.charge.pppm method)
(hoomd.md.constrain.distance method)
(hoomd.md.force.dipole method)
(hoomd.md.integrate.brownian method)
(hoomd.md.integrate.langevin method)
(hoomd.md.integrate.mode_minimize_fire method)
(hoomd.md.integrate.mode_standard method)
(hoomd.md.integrate.nph method)
(hoomd.md.integrate.npt method)
(hoomd.md.integrate.nve method)
(hoomd.md.integrate.nvt method)
(hoomd.md.nlist.nlist method)
(hoomd.md.pair.DLVO method)
(hoomd.md.pair.ai_pair method)
(hoomd.md.pair.buckingham method)
(hoomd.md.pair.dipole method)
(hoomd.md.pair.dpd method)
(hoomd.md.pair.dpd_conservative method)
(hoomd.md.pair.dpdlj method)
(hoomd.md.pair.ewald method)
(hoomd.md.pair.force_shifted_lj method)
(hoomd.md.pair.fourier method)
(hoomd.md.pair.gauss method)
(hoomd.md.pair.gb method)
(hoomd.md.pair.lj method)
(hoomd.md.pair.lj1208 method)
(hoomd.md.pair.mie method)
(hoomd.md.pair.moliere method)
(hoomd.md.pair.morse method)
(hoomd.md.pair.pair method)
(hoomd.md.pair.reaction_field method)
(hoomd.md.pair.slj method)
(hoomd.md.pair.square_density method)
(hoomd.md.pair.tersoff method)
(hoomd.md.pair.yukawa method)
(hoomd.md.pair.zbl method)
(hoomd.md.update.rescale_temp method)
(hoomd.mpcd.collide.at method)
(hoomd.mpcd.collide.srd method)
(hoomd.mpcd.data.system method)
(hoomd.mpcd.integrate.slit method)
(hoomd.mpcd.integrate.slit_pore method)
(hoomd.mpcd.integrator method)
(hoomd.mpcd.stream.slit method)
(hoomd.mpcd.stream.slit_pore method)
(hoomd.update.balance method)
(hoomd.update.sort method)
set_period() (hoomd.analyze.callback method)
(hoomd.analyze.imd method)
(hoomd.analyze.log method)
(hoomd.deprecated.analyze.msd method)
(hoomd.deprecated.dump.pos method)
(hoomd.deprecated.dump.xml method)
(hoomd.dump.dcd method)
(hoomd.dump.gsd method)
(hoomd.hpmc.analyze.sdf method)
(hoomd.hpmc.update.boxmc method)
(hoomd.hpmc.update.clusters method)
(hoomd.hpmc.update.muvt method)
(hoomd.hpmc.update.remove_drift method)
(hoomd.hpmc.update.wall method)
(hoomd.md.update.constraint_ellipsoid method)
(hoomd.md.update.enforce2d method)
(hoomd.md.update.mueller_plathe_flow method)
(hoomd.md.update.rescale_temp method)
(hoomd.md.update.zero_momentum method)
(hoomd.mpcd.collide.at method)
(hoomd.mpcd.collide.srd method)
(hoomd.mpcd.stream.bulk method)
(hoomd.mpcd.stream.slit method)
(hoomd.mpcd.stream.slit_pore method)
(hoomd.mpcd.update.sort method)
(hoomd.update.balance method)
(hoomd.update.box_resize method)
(hoomd.update.sort method)
set_plane_wall() (hoomd.hpmc.field.wall method)
set_references() (hoomd.hpmc.field.lattice_field method)
set_sphere_wall() (hoomd.hpmc.field.wall method)
set_volume() (hoomd.data.boxdim method)
(hoomd.hpmc.field.wall method)
setParams2D() (hoomd.dem.pair.SWCA method)
(hoomd.dem.pair.WCA method)
setParams3D() (hoomd.dem.pair.SWCA method)
(hoomd.dem.pair.WCA method)
setup_pos_writer() (hoomd.hpmc.integrate.mode_hpmc method)
shape (hoomd.md.pair.ai_pair attribute)
(hoomd.md.pair.dipole attribute)
(hoomd.md.pair.gb attribute)
shear() (hoomd.hpmc.update.boxmc method)
simple() (hoomd.dump.getar class method)
simple_polygon (class in hoomd.hpmc.integrate)
SimulationContext (class in hoomd.context)
sine (class in hoomd.mpcd.force)
slit (class in hoomd.mpcd.integrate)
(class in hoomd.mpcd.stream)
slit_pore (class in hoomd.mpcd.integrate)
(class in hoomd.mpcd.stream)
slj (class in hoomd.md.pair)
(class in hoomd.md.wall)
snapshot (class in hoomd.mpcd.data)
SnapshotParticleData (class in hoomd.data)
sort (class in hoomd.mpcd.update)
(class in hoomd.update)
sorter (hoomd.context.SimulationContext attribute)
sphere (class in hoomd.hpmc.integrate)
(class in hoomd.md.constrain)
(class in hoomd.md.wall)
sphere_union (class in hoomd.hpmc.integrate)
spheroArea() (in module hoomd.dem.utils)
sphinx (class in hoomd.hpmc.integrate)
sq() (in module hoomd.lattice)
square_density (class in hoomd.md.pair)
srd (class in hoomd.mpcd.collide)
stencil (class in hoomd.md.nlist)
SWCA (class in hoomd.dem.pair)
system (class in hoomd.mpcd.data)
system_data (class in hoomd.data)
system_definition (hoomd.context.SimulationContext attribute)
T
table (class in hoomd.md.angle)
(class in hoomd.md.bond)
(class in hoomd.md.dihedral)
(class in hoomd.md.pair)
tag (hoomd.data.angle_data_proxy attribute)
(hoomd.data.bond_data_proxy attribute)
(hoomd.data.constraint_data_proxy attribute)
(hoomd.data.dihedral_data_proxy attribute)
(hoomd.data.particle_data_proxy attribute)
tag_list() (in module hoomd.group)
tags() (in module hoomd.group)
take_snapshot() (hoomd.data.system_data method)
(hoomd.mpcd.data.system method)
tersoff (class in hoomd.md.pair)
test_overlap() (hoomd.hpmc.integrate.mode_hpmc method)
thermo (class in hoomd.compute)
torque (hoomd.data.force_data_proxy attribute)
tree (class in hoomd.md.nlist)
tune (class in hoomd.hpmc.util)
tune() (hoomd.md.nlist.nlist method)
(hoomd.mpcd.update.sort method)
tune_cell_width() (hoomd.md.nlist.stencil method)
tune_npt (class in hoomd.hpmc.util)
type (hoomd.data.angle_data_proxy attribute)
(hoomd.data.bond_data_proxy attribute)
(hoomd.data.dihedral_data_proxy attribute)
(hoomd.data.particle_data_proxy attribute)
type() (in module hoomd.group)
typeid (hoomd.data.angle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
(hoomd.data.bond_data_proxy attribute)
(hoomd.data.dihedral_data_proxy attribute)
(hoomd.data.particle_data_proxy attribute)
types (hoomd.data.SnapshotParticleData attribute)
U
union() (in module hoomd.group)
unitcell (class in hoomd.lattice)
unquiet_status() (in module hoomd.util)
update() (hoomd.hpmc.util.tune method)
(hoomd.hpmc.util.tune_npt method)
update_coeffs() (hoomd.dem.pair.SWCA method)
(hoomd.dem.pair.WCA method)
user (class in hoomd.jit.external)
(class in hoomd.jit.patch)
user_union (class in hoomd.jit.patch)
V
validate_bodies() (hoomd.md.constrain.rigid method)
velocity (hoomd.data.particle_data_proxy attribute)
(hoomd.data.SnapshotParticleData attribute)
virial (hoomd.data.force_data_proxy attribute)
volume() (hoomd.hpmc.update.boxmc method)
W
wall (class in hoomd.hpmc.field)
(class in hoomd.hpmc.update)
wallpotential (class in hoomd.md.wall)
WCA (class in hoomd.dem.pair)
wrap() (hoomd.data.boxdim method)
write() (hoomd.deprecated.dump.xml method)
write_restart() (hoomd.deprecated.dump.xml method)
(hoomd.dump.gsd method)
writeJSON() (hoomd.dump.getar method)
X
X (hoomd.md.update.mueller_plathe_flow attribute)
xml (class in hoomd.deprecated.dump)
Y
Y (hoomd.md.update.mueller_plathe_flow attribute)
yukawa (class in hoomd.md.pair)
(class in hoomd.md.wall)
Z
Z (hoomd.md.update.mueller_plathe_flow attribute)
zbl (class in hoomd.md.pair)
zero_momentum (class in hoomd.md.update)
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