Library Reference

pDynamo consists of a large number of Python modules and associated files that are grouped as follows:

• pBabel — a package containing modules that handle the input, output and interconversion of different molecular data.
• pCore — a package containing modules that implement various fundamental computing and mathematical operations.
• pDynamo — a package containing modules concerned with the simulation of molecular systems.
• pMoleculeScripts — a collection of Python scripts that automate various common simulation tasks.

pMoleculeScripts and the three packages are arranged hierarchically in the following order: pMoleculeScripts, pBabel, pDynamo and pCore. Items in the list depend uniquely upon those to the right and not those to the left. This means, for example, that pMoleculeScripts imports modules from pBabel, pCore and pDynamo, whereas pCore is independent of the others.