Perform some action on an AtomSel. Available actions are the following
functions
   randomizeDomainPos
   randomizeVelocities
   translateFit
 
 and the following classes
   PrintPos
   SetProperty
   RandomizeVelocities
   TranslateFit
 
   The classes are used like
   AtomSel("name C").apply(PrintPos())
 
   or
   AtomSel("resname GLY").apply(SetProperty("residueName","G"))

Classes
		atomSelAction.PyAtomSelAction(atomSelAction.Base) PrintPos RandomizeVelocities SetPropertyArr TranslateFit   class PrintPos(atomSelAction.PyAtomSelAction)     PrintPos(otherCoords=0)   print position of atoms in selection     Method resolution order: PrintPos atomSelAction.PyAtomSelAction atomSelAction.Base builtins.object Methods defined here: __init__(s, otherCoords=0) Initialize self.  See help(type(self)) for accurate signature. init(s, sel) run(s, sim, index) Methods inherited from atomSelAction.PyAtomSelAction: __repr__ = _swig_repr(self) pyXplorHelp(self, *args, **kwargs) -> 'String' Static methods inherited from atomSelAction.PyAtomSelAction: __swig_destroy__ = delete_PyAtomSelAction(...) Data descriptors inherited from atomSelAction.PyAtomSelAction: thisown   The membership flag Methods inherited from atomSelAction.Base: finish_unused(self, *args, **kwargs) -> 'void' init_unused(self, *args, **kwargs) -> 'void' returnMethodName(self, *args, **kwargs) -> 'String' Data descriptors inherited from atomSelAction.Base: __dict__   dictionary for instance variables (if defined) __weakref__   list of weak references to the object (if defined)   class RandomizeVelocities(atomSelAction.PyAtomSelAction)     RandomizeVelocities(temperature)   randomize atomic velocities according to a Maxwell distribution corresponding to the given temperature.     Method resolution order: RandomizeVelocities atomSelAction.PyAtomSelAction atomSelAction.Base builtins.object Methods defined here: __init__(s, temperature) Initialize self.  See help(type(self)) for accurate signature. run(s, sim, index) Methods inherited from atomSelAction.PyAtomSelAction: __repr__ = _swig_repr(self) pyXplorHelp(self, *args, **kwargs) -> 'String' Static methods inherited from atomSelAction.PyAtomSelAction: __swig_destroy__ = delete_PyAtomSelAction(...) Data descriptors inherited from atomSelAction.PyAtomSelAction: thisown   The membership flag Methods inherited from atomSelAction.Base: finish_unused(self, *args, **kwargs) -> 'void' init_unused(self, *args, **kwargs) -> 'void' returnMethodName(self, *args, **kwargs) -> 'String' Data descriptors inherited from atomSelAction.Base: __dict__   dictionary for instance variables (if defined) __weakref__   list of weak references to the object (if defined)   class SetPropertyArr(atomSelAction.PyAtomSelAction)     SetPropertyArr(name, val)   set named property of all atom.Atoms in a selection usage: sel = AtomSel("string") sel.apply(SetProperty(name,val) where   name is a property of an atom (e.g. pos) and val is the value to set   that property. If val is an sequence of length len(sel), values will be   set appropriately.   atomSelAction.SetProperty is an optimized version of this class which allows atom properties top be set to a constant value.     Method resolution order: SetPropertyArr atomSelAction.PyAtomSelAction atomSelAction.Base builtins.object Methods defined here: __init__(s, name, val) Initialize self.  See help(type(self)) for accurate signature. run(s, sim, index) Methods inherited from atomSelAction.PyAtomSelAction: __repr__ = _swig_repr(self) pyXplorHelp(self, *args, **kwargs) -> 'String' Static methods inherited from atomSelAction.PyAtomSelAction: __swig_destroy__ = delete_PyAtomSelAction(...) Data descriptors inherited from atomSelAction.PyAtomSelAction: thisown   The membership flag Methods inherited from atomSelAction.Base: finish_unused(self, *args, **kwargs) -> 'void' init_unused(self, *args, **kwargs) -> 'void' returnMethodName(self, *args, **kwargs) -> 'String' Data descriptors inherited from atomSelAction.Base: __dict__   dictionary for instance variables (if defined) __weakref__   list of weak references to the object (if defined)   class TranslateFit(atomSelAction.PyAtomSelAction)     TranslateFit(fitCoords, fitSel=0)   translate atom positions to best-fit coordinates specified by fitCoords. fitCoords must have size sim.numAtoms()     Method resolution order: TranslateFit atomSelAction.PyAtomSelAction atomSelAction.Base builtins.object Methods defined here: __init__(s, fitCoords, fitSel=0) fitCoords- coordinates to use for fitting. fitSel   - subset of atoms to use in calculating fit (default: known)   After construction, the fit is calculated and stored in member trans. run(s, sim, index) Methods inherited from atomSelAction.PyAtomSelAction: __repr__ = _swig_repr(self) pyXplorHelp(self, *args, **kwargs) -> 'String' Static methods inherited from atomSelAction.PyAtomSelAction: __swig_destroy__ = delete_PyAtomSelAction(...) Data descriptors inherited from atomSelAction.PyAtomSelAction: thisown   The membership flag Methods inherited from atomSelAction.Base: finish_unused(self, *args, **kwargs) -> 'void' init_unused(self, *args, **kwargs) -> 'void' returnMethodName(self, *args, **kwargs) -> 'String' Data descriptors inherited from atomSelAction.Base: __dict__   dictionary for instance variables (if defined) __weakref__   list of weak references to the object (if defined)

Functions
		centerOfMass(sel='not PSEUDO', useMass=True) Return the center of mass of the specified atoms.   The returned object is a vec3.Vec3 instance representing the center of mass (if useMass is True) or centroid (if useMass is False) of the atoms specified by the argument sel.  sel can be either an atom selection string or an atomSel.AtomSel instance. copyAtomCoords(sel1, sel2) copy atomic coordinates from sel2 to sel1. The two selections must contain the same number of atoms. This is most useful for copying coordinates between segments or between separate simulation.Simulations. The two selections must contain the same number of atoms.   The current implementation requires that identical ordering of the atoms in the two selections, but there may be gaps. genRandomCoords(selection='not pseudo', xyzInterval=10.0) Assign atoms in the specified atom selection random x,y,z, coordinates in the interval -xyzInterval .. +xyzInterval. getProperty(name, sel) get array corresponding to the named property for the given selection. mass(selection='not PSEUDO') Return the mass of the specified atomSel.AtomSel. maxwellDist(temperature, factor) randomizeDomainPos(sel, deltaPos=20, deltaAngle=3.141592653589793, centerSel=None) Randomly rotate and translate the given atom selection,  as a rigid-body about its center of mass.   The deltaPos parameter specifies the maximum displacement to apply.   The deltaAngle parameter specifies the maximal +/- angle (in radians) to rotate. mat3.randRot() is used to generate a random  rotation matrix of deltaAngle.   If centerSel is specified, atoms in sel at first centered around the  average position of centerSel before rotation/translation. randomizeVelocities(temperature, sel='known') randomize atomic velocities according to a Maxwell distribution corresponding to the given temperature. The default selection contains all known atoms. sqrt(x, /) Return the square root of x. translateFit(fitCoords, atomSel=0) Return array of atom positions which best-fit coordinates specified by fitCoords. fitCoords must have size sim.numAtoms() This routine does not change the current coordinates. the default atomSel is known atoms.

Data
		pi = 3.141592653589793