Class List

Here are the classes, structs, unions and interfaces with brief descriptions:

[detail level 123]

gmx	Generic GROMACS namespace
AbstractAnalysisData	Abstract base class for all objects that provide data
AnalysisData	Parallelizable data container for raw data
AnalysisDataHandle	Handle for inserting data into AnalysisData
AbstractAnalysisArrayData	Abstract base class for data objects that present in-memory data
AnalysisArrayData	Simple in-memory data array
AnalysisDataValue	Value type for representing a single value in analysis data objects
AnalysisDataFrameHeader	Value type for storing frame-level information for analysis data
AnalysisDataPointSetRef	Value type wrapper for non-mutable access to a set of data column values
AnalysisDataFrameRef	Value type wrapper for non-mutable access to a data frame
IAnalysisDataModule	Interface for a module that gets notified whenever data is added
AnalysisDataModuleSerial	Convenience base class for serial analysis data modules
AnalysisDataModuleParallel	Convenience base class for parallel analysis data modules
AnalysisDataAverageModule	Data module for independently averaging each column in input data
AnalysisDataFrameAverageModule	Data module for averaging of columns for each frame
AnalysisDataDisplacementModule	Data module for calculating displacements
AnalysisHistogramSettingsInitializer	Provides "named parameter" idiom for constructing histograms
AnalysisHistogramSettings	Contains parameters that specify histogram bin locations
AbstractAverageHistogram	Base class for representing histograms averaged over frames
AnalysisDataSimpleHistogramModule	Data module for per-frame histograms
AnalysisDataWeightedHistogramModule	Data module for per-frame weighted histograms
AnalysisDataBinAverageModule	Data module for bin averages
AnalysisDataLifetimeModule	Data module for computing lifetime histograms for columns in input data
AnalysisDataPlotSettings	Common settings for data plots
AbstractPlotModule	Abstract data module for writing data into a file
AnalysisDataPlotModule	Plotting module for straightforward plotting of data
AnalysisDataVectorPlotModule	Plotting module specifically for data consisting of vectors
ArrayRef	STL-like container for an interface to a C array of T (or part of a std::vector<T, A> or std::array<T>)
CommandLineHelpWriter	Writes help information for Options
CommandLineModuleSettings	Settings to pass information between a module and the general runner
ICommandLineModule	Module that can be run from command line using CommandLineModuleManager
ICommandLineOptionsModuleSettings	Settings to pass information between a CommandLineOptionsModule and generic code that runs it
ICommandLineOptionsModule	Module that can be run from a command line and uses gmx::Options for argument processing
CommandLineParser	Implements command-line parsing for Options objects
StaticLog2	Evaluate log2(n) for integer n statically at compile time
StaticLog2< 1 >	Specialization of StaticLog2<n> for n==1
StaticLog2< 0 >	Specialization of StaticLog2<n> for n==0
BasicVector	C++ class for 3D vectors
AbstractOption	Abstract base class for specifying option properties
OptionTemplate	Templated base class for constructing concrete option settings classes
OptionInfo	Gives information and allows modifications to an option after creation
AbstractOptionSection	Base class for specifying option section properties
AbstractOptionSectionHandle	Base class for handles to option sections
BooleanOption	Specifies an option that provides boolean values
IntegerOption	Specifies an option that provides integer values
Int64Option	Specifies an option that provides 64-bit integer values
DoubleOption	Specifies an option that provides floating-point (double) values
FloatOption	Specifies an option that provides floating-point (float) values
StringOption	Specifies an option that provides string values
EnumOption	Specifies an option that accepts enumerated string values and writes the selected index into an enum variable
BooleanOptionInfo	Wrapper class for accessing boolean option information
IntegerOptionInfo	Wrapper class for accessing integer option information
Int64OptionInfo	Wrapper class for accessing 64-bit integer option information
DoubleOptionInfo	Wrapper class for accessing floating-point option information
FloatOptionInfo	Wrapper class for accessing floating-point option information
StringOptionInfo	Wrapper class for accessing string option information
EnumOptionInfo	Wrapper class for accessing enum option information
FileNameOption	Specifies an option that provides file names
FileNameOptionInfo	Wrapper class for accessing file name option information
FileNameOptionManager	Handles interaction of file name options with global options
IOptionsBehavior	Interface to provide extension points for options parsing
IOptionsContainer	Interface for adding input options
IOptionsContainerWithSections	Interface for adding input options with sections
IOptionManager	Base class for option managers
Options	Collection of options
OptionSection	Declares a simple option section
OptionSectionHandle	Allows adding options to an OptionSection
RepeatingOptionSectionHandle	Allows adding options to an RepeatingOptionSection
RepeatingOptionSection	Declares an option section that creates a structure for each instance
TimeUnitManager	Provides common functionality for time unit conversions
TimeUnitBehavior	Options behavior to add a time unit option
ExponentialDistribution	Exponential distribution
param_type	Exponential distribution parameters
GammaDistribution	Gamma distribution
param_type	Gamma distribution parameters
NormalDistribution	Normal distribution
param_type	Normal distribution parameters
TabulatedNormalDistribution	Tabulated normal random distribution
param_type	Normal distribution parameter class (mean and stddev)
ThreeFry2x64General	General implementation class for ThreeFry counter-based random engines
ThreeFry2x64	ThreeFry2x64 random engine with 20 iteractions
ThreeFry2x64Fast	ThreeFry2x64 random engine with 13 iteractions
UniformIntDistribution	Uniform integer distribution
param_type	Uniform int distribution parameters
UniformRealDistribution	Uniform real distribution
param_type	Uniform real distribution parameters
AnalysisNeighborhoodPositions	Input positions for neighborhood searching
AnalysisNeighborhood	Neighborhood searching for analysis tools
AnalysisNeighborhoodPair	Value type to represent a pair of positions found in neighborhood searching
AnalysisNeighborhoodSearch	Initialized neighborhood search with a fixed set of reference positions
AnalysisNeighborhoodPairSearch	Initialized neighborhood pair search with a fixed set of positions
Selection	Provides access to a single selection
SelectionPosition	Provides access to information about a single selected position
SelectionCollection	Collection of selections
SelectionTopologyProperties	Describes topology properties required for selection evaluation
SelectionOption	Specifies an option that provides selection(s)
SelectionOptionInfo	Wrapper class for accessing and modifying selection option information
ITopologyProvider	Provides topology information to SelectionOptionBehavior
SelectionOptionBehavior	Options behavior to allow using SelectionOptions
SelectionOptionManager	Handles interaction of selection options with other options and user input
TrajectoryAnalysisModuleData	Base class for thread-local data storage during trajectory analysis
TrajectoryAnalysisModule	Base class for trajectory analysis modules
TrajectoryAnalysisSettings	Trajectory analysis module configuration object
TopologyInformation	Topology information passed to a trajectory analysis module
TrajectoryAnalysisCommandLineRunner	Runner for command-line trajectory analysis tools
EmptyArrayRef	Tag type to initialize empty array references
PrivateImplPointer	Helper class to manage a pointer to a private implementation class
DataFileOptions	Search parameters for DataFileFinder
DataFileInfo	Information about a data file found by DataFileFinder::enumerateFiles()
DataFileFinder	Searches data files from a set of paths
ExceptionInfo	Stores additional context information for exceptions
ExceptionInitializer	Provides information for Gromacs exception constructors
GromacsException	Base class for all exception objects in Gromacs
FileIOError	Exception class for file I/O errors
UserInputError	Exception class for user input errors
InvalidInputError	Exception class for situations where user input cannot be parsed/understood
InconsistentInputError	Exception class for situations where user input is inconsistent
ToleranceError	Exception class when a specified tolerance cannot be achieved
SimulationInstabilityError	Exception class for simulation instabilities
InternalError	Exception class for internal errors
APIError	Exception class for incorrect use of an API
RangeError	Exception class for out-of-range values or indices
NotImplementedError	Exception class for use of an unimplemented feature
FlagsTemplate	Template class for typesafe handling of combination of flags
InstallationPrefixInfo	Provides information about installation prefix (see IProgramContext::installationPrefix())
IProgramContext	Provides context information about the program that is calling the library
StringFormatter	Function object that wraps a call to formatString() that expects a single conversion argument, for use with algorithms
IdentityFormatter	Function object to implement the same interface as StringFormatter to use with strings that should not be formatted further
TextLineWrapperSettings	Stores settings for line wrapping
TextLineWrapper	Wraps lines to a predefined length
df_history_t	Free-energy sampling history struct
gmx_ana_index_t	Stores a single index group
gmx_ana_indexmap_t	Data structure for calculating index group mappings
gmx_ana_pos_t	Stores a set of positions together with their origins
gmx_molblock_t	Block of molecules of the same type, used in gmx_mtop_t
gmx_sparsematrix	Sparse matrix storage format
t_filenm	File name option definition for C code
t_mdatoms	Declares mdatom data structure
t_pargs	Command-line argument definition for C code
t_pbc	Structure containing info on periodic boundary conditions
t_state	The microstate of the system