Biasing and analysis methods

All of the biasing and analysis methods implemented (abf, harmonic, histogram and metadynamics) recognize the following options:

• name $\langle\,$ Identifier for the bias$\,\rangle$
  Context: colvar bias
  Acceptable values: string
  Default value: $<$ type of bias$><$ bias index$>$
  Description: This string is used to identify the bias or analysis method in output messages and to name some output files.

• colvars $\langle\,$ Collective variables involved$\,\rangle$
  Context: colvar bias
  Acceptable values: space-separated list of colvar names
  Description: This option selects by name all the colvars to which this bias or analysis will be applied.

• outputEnergy $\langle\,$ Write the current bias energy to the trajectory file$\,\rangle$
  Context: colvar bias
  Acceptable values: boolean
  Default value: off
  Description: If this option is chosen and colvarsTrajFrequency is not zero, the current value of the biasing energy will be written to the trajectory file during the simulation.

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