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http://www.nano-hive.org/index.shtml
Introduction
Nano-Hive is a modular simulator used for modeling the physical world at a nanometer scale. The intended purpose of the simulator is to act as a tool for the study, experimentation, and development of nanotech entities. Nano-Hive is a GPL/LGPL licensed open-source development - you can download and use it for free (see Licensing section for more details and restrictions.)
Nano-Hive can be run stand-alone, or easily integrated to support other applications such as CAD tools. See the Feature List and Software Architecture for a good understanding of what Nano-Hive is and what it has to offer.

odporucam pozriet hlavne tie mpegy tuto:
http://www.nano-hive.org/visualizations.shtml





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Prospero
 Prospero      14.04.2004 - 11:20:42 , level: 1, UP   NEW
Designed for scalability across distributed and parallel computing networks from the ground up.
Highly flexible plugin architecture utilizing plugins for the
Physical interactions between atomic and molecular entities
Traversal of atomic and molecular entities in time and space for calculation interactions - allows for multiresolution, hybrid meso-scale/molecular dynamics/quantum mechanics simulations
Management of entity data in dynamic and static storage
Management and presentation of simulation results - both realtime and post-simulation
Import and export of entity data from and to various data formats
Control of the simulator
Atoms and molecules in the nanosystem can be made to follow a predetermined path by the simulator - useful for moving molecular tools in to and out of molecular work areas, for example.
The workflow of each simulation is scriptable for maximum flexibility and customization. With scripting the user can control
Loading the input data
Application of pathing instructions to molecular "handles"
How many times to repeat a simulation and how to change each repitition - useful for exploring multiple nanosystem alternatives and adjustments in a single simulator run
Ordering and parallelization of physical interaction calculations
Intermediate and final output of simulation results
Intermediate and final output of nanosystem state

Version 1.0
This initial version will be targeted for moderate throughput workstation use and will support one simulation at a time running one single-threaded, local physical interaction plugin.

Plugins included with the release:
Physical Interaction
REBO_MBM - employs the Reactive Empirical Bond Order potential for hydrocarbons
Entity Traversal
RC_Traverser - default traversal of simulation space
Entity Management
RAMEntityManager - manages atomic and molecular entities in the computer's RAM
Simulation Results
MeasurementSetToFile - writes simulation results to a file for further analysis
POVRayVideo - generates a series of POVRay scene descriptions which are then rendered into and MPEG video of the simulation
NetCDF_DataSet - writes the simulation results as a NetCDF dataset
Data Import/Export
nanoML_ImportExport - handles nanoML and CML input/output formats
Simulation Control
ConsoleCommand - control Nano-Hive from the command line
RMI_Control - control Nano-Hive via RMI - useful for integration with Java front-ends
Supported scripting elements
top-level "foreach" over "import" commands
top-level "iterate" over "applypath", "calculate", and "intermediate" commands
top-level "final" and "export" commands
Tools included with the release:
POVRayDataLayer - used in conjuction with the POVRayVideo plugin to generate simulation videos

Version 1.5
This version will expand the capabilities of version 1.0 to better utilize high performance workstations and servers for higher simulation throughput. This version will support running multiple, multi-threaded simulations simultaneously, each able to access multiple Physical Interaction plugins.

This version will also target quantum mechanics Physical Interaction plugins specifically to simulate and analyze the electronic properties of nanosystems.

version 2.0
This version will be fully distributable across computing networks.