Package ffx.potential.parsers
@ParametersAreNonnullByDefault
package ffx.potential.parsers
The Parsers package handles reading/writing files to/from the internal data structure.
- Since:
- 1.0
- Author:
- Michael J. Schnieders
-
ClassDescriptionThe ARCFileFilter class is used to choose a TINKER Archive (*.ARC).The BARFilter class parses TINKER bar(*.BAR) files.The CIFFilter class parses CIF coordinate (*.CIF) files.The CoordinateFileFilter class globally determines if a file is a valid coordinate file (PDB, XYZ, INT, or ARC formats).The DistanceMatrixFileFilter class is used to choose a Distance Matrix (*.DST) file.The DistanceMatrixFilter class parses a Distance Matrix (*.DST) files.The DYNFileFilter class is used to choose a TINKER Restart (*.DYN) file.The DYNFilter class parses TINKER Restart (*.DYN) files.The ESVFileFilter class is used to choose a Extended System Restart (*.ESV) file.The ESVFilter class parses Extended System Restart (*.ESV) files.The FFXFileFilter class is used to choose Force Field X script (*.FFX) files.The FileOpener interface specifies Runnable objects which can return one or more MolecularAssemblies.The ForceFieldFileFilter class is used to choose a TINKER Parameter file (*.PRM).The ForceFieldFilter Class is used to parse and store molecular mechanics data from keyword/property and parameter (*.PRM) files.The InducedFileFilter class is used to choose a TINKER induced dipole (*.IND) file.The InducedFilter class parses TINKER Induced Dipole (*.*U) files.The INTFileFilter class is used to choose TINKER Internal Coordinate (*.INT) files.The INTFilter class parses TINKER internal coordinate (*.INT) files.The KeyFileFilter class is used to choose a Force Field X keyword (*.KEY) or property (*.properties) file.The KeyFilter class parses Force Field X Keyword (*.KEY) and Property (*.PROPERTIES) files.The MBARFilter class parses mbar (*.mbar or *.bar) files.The MergeFilter class allows Force Field X to treat merging of Systems just like opening a file from a hard disk or socket.The PDBFileFilter class is used to choose a Protein Databank (*.PDB) file.The PDBFilter class parses data from a Protein DataBank (*.PDB) file.Presently, VERSION3_3 is default, and VERSION3_2 is anything non-standard.The PDBXFileFilter class is used to choose a PDBML File (*.XML).PDBMLFilter class.The SystemFilter class is the base class for most Force Field X file parsers.The XPHFileFilter class is used to choose a XPH Coordinate (*.XPH) file.The XYZFilter class parses TINKER Cartesian coordinate (*.XYZ) files.The XYZFileFilter class is used to choose a TINKER Cartesian Coordinate (*.XYZ) file.The XYZFilter class parses TINKER Cartesian coordinate (*.XYZ) files.