htpolynet package
=================

htpolynet
---------

.. automodule:: htpolynet.driver
   :members:
   :undoc-members:
   :show-inheritance:

htpolynet.analysis
------------------

.. automodule:: htpolynet.analysis.analyze
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.analysis.plot
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.analysis.postsim
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.analysis.utils
   :members:
   :undoc-members:
   :show-inheritance:

htpolynet.core
--------------

.. automodule:: htpolynet.core.coordinates
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.core.molecule
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.core.topocoord
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.core.topology
   :members:
   :undoc-members:
   :show-inheritance:

htpolynet.cure
--------------

.. automodule:: htpolynet.cure.bondtemplate
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.cure.chain
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.cure.curecontroller
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.cure.expandreactions
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.cure.reaction
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.cure.runtime
   :members:
   :undoc-members:
   :show-inheritance:

htpolynet.external
------------------

.. automodule:: htpolynet.external.ambertools
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.external.command
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.external.gromacs
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.external.software
   :members:
   :undoc-members:
   :show-inheritance:

htpolynet.geometry
------------------

.. automodule:: htpolynet.geometry.bondlist
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.geometry.linkcell
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.geometry.matrix4
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.geometry.ring
   :members:
   :undoc-members:
   :show-inheritance:

htpolynet.utils
---------------

.. automodule:: htpolynet.utils.banner
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.utils.checkpoint
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.utils.configuration
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.utils.dataframetools
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.utils.inputcheck
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.utils.projectfilesystem
   :members:
   :undoc-members:
   :show-inheritance:

.. automodule:: htpolynet.utils.stringthings
   :members:
   :undoc-members:
   :show-inheritance: