convert lists to tables for more compact presentation

Initialization:

------------------------------

* :doc:`newton <newton>`,

* :doc:`package <package>`,

* :doc:`processors <processors>`,

* :doc:`suffix <suffix>`,

.. table_from_list::

   :columns: 5

   * :doc:`newton <newton>`

   * :doc:`package <package>`

   * :doc:`processors <processors>`

   * :doc:`suffix <suffix>`

   * :doc:`units <units>`

Setup simulation box:

------------------------------

* :doc:`boundary <boundary>`,

* :doc:`box <box>`,

* :doc:`change_box <change_box>`,

* :doc:`create_box <create_box>`,

* :doc:`dimension <dimension>`,

* :doc:`lattice <lattice>`,

.. table_from_list::

   :columns: 4

   * :doc:`boundary <boundary>`

   * :doc:`box <box>`

   * :doc:`change_box <change_box>`

   * :doc:`create_box <create_box>`

   * :doc:`dimension <dimension>`

   * :doc:`lattice <lattice>`

   * :doc:`region <region>`

Setup atoms:

------------------------------

* :doc:`atom_modify <atom_modify>`,

* :doc:`atom_style <atom_style>`,

* :doc:`balance <balance>`,

* :doc:`create_atoms <create_atoms>`,

* :doc:`create_bonds <create_bonds>`,

* :doc:`delete_atoms <delete_atoms>`,

* :doc:`delete_bonds <delete_bonds>`,

* :doc:`displace_atoms <displace_atoms>`,

* :doc:`group <group>`,

* :doc:`mass <mass>`,

* :doc:`molecule <molecule>`,

* :doc:`read_data <read_data>`,

* :doc:`read_dump <read_dump>`,

* :doc:`read_restart <read_restart>`,

* :doc:`replicate <replicate>`,

* :doc:`set <set>`,

.. table_from_list::

   :columns: 4

   * :doc:`atom_modify <atom_modify>`

   * :doc:`atom_style <atom_style>`

   * :doc:`balance <balance>`

   * :doc:`create_atoms <create_atoms>`

   * :doc:`create_bonds <create_bonds>`

   * :doc:`delete_atoms <delete_atoms>`

   * :doc:`delete_bonds <delete_bonds>`

   * :doc:`displace_atoms <displace_atoms>`

   * :doc:`group <group>`

   * :doc:`mass <mass>`

   * :doc:`molecule <molecule>`

   * :doc:`read_data <read_data>`

   * :doc:`read_dump <read_dump>`

   * :doc:`read_restart <read_restart>`

   * :doc:`replicate <replicate>`

   * :doc:`set <set>`

   * :doc:`velocity <velocity>`

Force fields:

------------------------------

* :doc:`angle_coeff <angle_coeff>`,

* :doc:`angle_style <angle_style>`,

* :doc:`bond_coeff <bond_coeff>`,

* :doc:`bond_style <bond_style>`,

* :doc:`bond_write <bond_write>`,

* :doc:`dielectric <dielectric>`,

* :doc:`dihedral_coeff <dihedral_coeff>`,

* :doc:`dihedral_style <dihedral_style>`,

* :doc:`improper_coeff <improper_coeff>`,

* :doc:`improper_style <improper_style>`,

* :doc:`kspace_modify <kspace_modify>`,

* :doc:`kspace_style <kspace_style>`,

* :doc:`pair_coeff <pair_coeff>`,

* :doc:`pair_modify <pair_modify>`,

* :doc:`pair_style <pair_style>`,

* :doc:`pair_write <pair_write>`,

.. table_from_list::

   :columns: 4

   * :doc:`angle_coeff <angle_coeff>`

   * :doc:`angle_style <angle_style>`

   * :doc:`bond_coeff <bond_coeff>`

   * :doc:`bond_style <bond_style>`

   * :doc:`bond_write <bond_write>`

   * :doc:`dielectric <dielectric>`

   * :doc:`dihedral_coeff <dihedral_coeff>`

   * :doc:`dihedral_style <dihedral_style>`

   * :doc:`improper_coeff <improper_coeff>`

   * :doc:`improper_style <improper_style>`

   * :doc:`kspace_modify <kspace_modify>`

   * :doc:`kspace_style <kspace_style>`

   * :doc:`pair_coeff <pair_coeff>`

   * :doc:`pair_modify <pair_modify>`

   * :doc:`pair_style <pair_style>`

   * :doc:`pair_write <pair_write>`

   * :doc:`special_bonds <special_bonds>`

Settings:

------------------------------

* :doc:`comm_modify <comm_modify>`,

* :doc:`comm_style <comm_style>`,

* :doc:`info <info>`,

* :doc:`min_modify <min_modify>`,

* :doc:`min_style <min_style>`,

* :doc:`neigh_modify <neigh_modify>`,

* :doc:`neighbor <neighbor>`,

* :doc:`partition <partition>`,

* :doc:`reset_timestep <reset_timestep>`,

* :doc:`run_style <run_style>`,

* :doc:`timer <timer>`,

.. table_from_list::

   :columns: 4

   * :doc:`comm_modify <comm_modify>`

   * :doc:`comm_style <comm_style>`

   * :doc:`info <info>`

   * :doc:`min_modify <min_modify>`

   * :doc:`min_style <min_style>`

   * :doc:`neigh_modify <neigh_modify>`

   * :doc:`neighbor <neighbor>`

   * :doc:`partition <partition>`

   * :doc:`reset_timestep <reset_timestep>`

   * :doc:`run_style <run_style>`

   * :doc:`timer <timer>`

   * :doc:`timestep <timestep>`

Operations within timestepping (fixes) and diagnostics (computes):

------------------------------------------------------------------------------------------

* :doc:`compute <compute>`,

* :doc:`compute_modify <compute_modify>`,

* :doc:`fix <fix>`,

* :doc:`fix_modify <fix_modify>`,

* :doc:`uncompute <uncompute>`,

.. table_from_list::

   :columns: 4

   * :doc:`compute <compute>`

   * :doc:`compute_modify <compute_modify>`

   * :doc:`fix <fix>`

   * :doc:`fix_modify <fix_modify>`

   * :doc:`uncompute <uncompute>`

   * :doc:`unfix <unfix>`

Output:

------------------------------

* :doc:`dump image <dump_image>`,

* :doc:`dump movie <dump_image>`,

* :doc:`dump <dump>`,

* :doc:`dump_modify <dump_modify>`,

* :doc:`restart <restart>`,

* :doc:`thermo <thermo>`,

* :doc:`thermo_modify <thermo_modify>`,

* :doc:`thermo_style <thermo_style>`,

* :doc:`undump <undump>`,

* :doc:`write_coeff <write_coeff>`,

* :doc:`write_data <write_data>`,

* :doc:`write_dump <write_dump>`,

.. table_from_list::

   :columns: 4

   * :doc:`dump image <dump_image>`

   * :doc:`dump movie <dump_image>`

   * :doc:`dump <dump>`

   * :doc:`dump_modify <dump_modify>`

   * :doc:`restart <restart>`

   * :doc:`thermo <thermo>`

   * :doc:`thermo_modify <thermo_modify>`

   * :doc:`thermo_style <thermo_style>`

   * :doc:`undump <undump>`

   * :doc:`write_coeff <write_coeff>`

   * :doc:`write_data <write_data>`

   * :doc:`write_dump <write_dump>`

   * :doc:`write_restart <write_restart>`

Actions:

------------------------------

* :doc:`minimize <minimize>`,

* :doc:`neb <neb>`,

* :doc:`neb_spin <neb_spin>`,

* :doc:`prd <prd>`,

* :doc:`rerun <rerun>`,

* :doc:`run <run>`,

* :doc:`tad <tad>`,

.. table_from_list::

   :columns: 6

   * :doc:`minimize <minimize>`

   * :doc:`neb <neb>`

   * :doc:`neb_spin <neb_spin>`

   * :doc:`prd <prd>`

   * :doc:`rerun <rerun>`

   * :doc:`run <run>`

   * :doc:`tad <tad>`

   * :doc:`temper <temper>`

Input script control:

------------------------------

* :doc:`clear <clear>`,

* :doc:`echo <echo>`,

* :doc:`if <if>`,

* :doc:`include <include>`,

* :doc:`jump <jump>`,

* :doc:`label <label>`,

* :doc:`log <log>`,

* :doc:`next <next>`,

* :doc:`print <print>`,

* :doc:`python <python>`,

* :doc:`quit <quit>`,

* :doc:`shell <shell>`,

.. table_from_list::

   :columns: 7

   * :doc:`clear <clear>`

   * :doc:`echo <echo>`

   * :doc:`if <if>`

   * :doc:`include <include>`

   * :doc:`info <info>`

   * :doc:`jump <jump>`

   * :doc:`label <label>`

   * :doc:`log <log>`

   * :doc:`next <next>`

   * :doc:`print <print>`

   * :doc:`python <python>`

   * :doc:`quit <quit>`

   * :doc:`shell <shell>`

   * :doc:`variable <variable>`