Commands to manage the Colvars module

• cv addenergy <E>
  Add an energy to the MD engine (no effect in VMD)
  Parameters
  E : float - Amount of energy to add
• cv config <conf>
  Read configuration from the given string
  Parameters
  conf : string - Configuration string
• cv configfile <conf_file>
  Read configuration from a file
  Parameters
  conf_file : string - Path to configuration file
• cv delete
  Delete this Colvars module instance (VMD only)
• cv frame [frame]
  Get or set current frame number (VMD only)
  Parameters
  frame : integer - Frame number (optional)
• cv getconfig
  Get the module's configuration string read so far
• cv getenergy
  Get the current Colvars energy
• cv help [command]
  Get the help string of the Colvars scripting interface
  Parameters
  command : string - Get the help string of this specific command (optional)
• cv list [param]
  Return a list of all variables or biases
  Parameters
  param : string - "colvars" or "biases"; default is "colvars" (optional)
• cv listcommands
  Get the list of script functions, prefixed with "cv_", "colvar_" or "bias_"
• cv load <prefix>
  Load data from a state file into all matching colvars and biases
  Parameters
  prefix : string - Path to existing state file or input prefix
• cv loadfromstring <buffer>
  Load state data from a string into all matching colvars and biases
  Parameters
  buffer : string - String buffer containing the state information
• cv molid [molid]
  Get or set the molecule ID on which Colvars is defined (VMD only)
  Parameters
  molid : integer - Molecule ID; -1 means undefined (optional)
• cv printframe
  Return the values that would be written to colvars.traj
• cv printframelabels
  Return the labels that would be written to colvars.traj
• cv reset
  Delete all internal configuration
• cv resetindexgroups
  Clear the index groups loaded so far, allowing to replace them
• cv save <prefix>
  Change the prefix of all output files and save them
  Parameters
  prefix : string - Output prefix with trailing ".colvars.state" gets removed)
• cv savetostring
  Write the Colvars state to a string and return it
• cv units [units]
  Get or set the current Colvars unit system
  Parameters
  units : string - The new unit system (optional)
• cv update
  Recalculate colvars and biases
• cv version
  Get the Colvars Module version number