group2ndx.txt
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group2ndx.txt
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			.. index:: group2ndx

			group2ndx command
			=================

			Syntax
			""""""

			.. parsed-literal::

			group2ndx file group-ID ...

			* file = name of index file to write out
			* zero or more group IDs may be appended


			Examples
			""""""""

			.. parsed-literal::

			group2ndx allindex.ndx
			group2ndx someindex.ndx upper lower mobile

			Description
			"""""""""""

			Write a Gromacs style index file in text format that associates atom IDs
			with the corresponding group definitions. This index file can be used
			with in combination with Gromacs analysis tools or to import group
			definitions into the :doc:`fix colvars <fix_colvars>` input file.

			Without specifying any group IDs, all groups will be written to the index
			file. When specifying group IDs, only those groups will be written to the
			index file. In order to follow the Gromacs conventions, the group all
			will be renamed to System in the index file.


			----------


			Restrictions
			""""""""""""


			This command requires that atoms have atom IDs, since this is the
			information that is written to the index file.

			This fix is part of the USER-COLVARS package. It is only enabled if
			LAMMPS was built with that package. See the :ref:`Making LAMMPS <start_3>` section for more info.

			Related commands
			""""""""""""""""

			:doc:`group <group>`, :doc:`dump <dump>`, :doc:`fix colvars <fix_colvars>`

			Default: none


			.. _lws: http://lammps.sandia.gov
			.. _ld: Manual.html
			.. _lc: Section_commands.html#comm