Only return symmetry that has operators. @return SymmetryInterface or null

gets the next token and sets global theToken and theValue @return the next token

filter out unnecessary lines

Does a clean replace of any of the characters in str with strTo If strTo contains strFrom, then only a single pass is done. Otherwise, multiple passes

Returns the current VARNA Panel configuration. The returned instance should not be modified directly, but rather through the getters/setters from the

note: nameOf is a very inefficient mechanism for getting the name of a token. But it is only used for error messages and listings of variables and suc

Sets a property for the current AtomSet used specifically for creating directories and plots of frequencies and molecular energies @param key

Returns the index of the currently selected base, defaulting to the closest base to the last mouse-click. @return Index of the currently selected bas

Returns the translation used for zooming in and out @return A vector describing the translation

@return The file type which contains the user's choice

finds the position in the Jmol-required list of function types. This list is reader-dependent. @param shell TODO @param fileList @param shellT

Returns the squared length of this vector. Was in Vector3f; more useful here, though. @return the squared length of this vector

pull one save structure off the stack array ctx._aSaved @param ctx @return

note -- cannot copy if array is null! does not copy if length is unchanged @param array @param newLength @return array

Sets the bit at the specified index to the specified value. @param bitIndex a bit index @param value a boolean value to set @throws