starfish.chemistry
Class BioPPMScoreCmd

java.lang.Object
  starfish.chemistry.BioPPMScoreCmd

All Implemented Interfaces:

tcl.lang.Command

public class BioPPMScoreCmd
extends java.lang.Object
implements tcl.lang.Command

Author:

brucejohnson

Field Summary

static java.util.Map

residueMap

Constructor Summary

BioPPMScoreCmd()

Method Summary

void	cmdProc(tcl.lang.Interp interp, tcl.lang.TclObject[] argv)
void	cmdProc2(tcl.lang.Interp interp, tcl.lang.TclObject[] argv)
static PPMScore	scoreAtomPPM(double pOK, Residue residue, starfish.bionmr.AtomShiftData[] atomShiftData)
static java.util.ArrayList	scoreAtomPPM(double pOK, java.lang.String[] atomNames, double[] ppms)
static java.util.ArrayList	scoreAtomPPM(double pOK, java.lang.String[] atomNames, double[] ppms, boolean requireAll)
static boolean	scoreAtomPPM(double pOK, java.lang.String atomName, double ppm)
static PPMScore	scoreAtomPPM(double pOK, java.lang.String resName, java.lang.String[] atomNames, double[] ppms)
static java.lang.Double	scoreAtomPPM(Residue residue, java.lang.String atomName, double ppm)
static java.lang.Double	scoreAtomPPM(java.lang.String resName, java.lang.String atomName, double ppm)
static void	scoreFragment(tcl.lang.Interp interp, tcl.lang.TclObject[] argv)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

residueMap

public static java.util.Map residueMap

Constructor Detail

BioPPMScoreCmd

public BioPPMScoreCmd()

Method Detail

cmdProc

public void cmdProc(tcl.lang.Interp interp,
                    tcl.lang.TclObject[] argv)
             throws tcl.lang.TclException

Specified by:

cmdProc in interface tcl.lang.Command

Throws:

tcl.lang.TclException

cmdProc2

public void cmdProc2(tcl.lang.Interp interp,
                     tcl.lang.TclObject[] argv)
              throws tcl.lang.TclException

Throws:

tcl.lang.TclException

scoreFragment

public static void scoreFragment(tcl.lang.Interp interp,
                                 tcl.lang.TclObject[] argv)
                          throws tcl.lang.TclException

Throws:

tcl.lang.TclException

scoreAtomPPM

public static PPMScore scoreAtomPPM(double pOK,
                                    Residue residue,
                                    starfish.bionmr.AtomShiftData[] atomShiftData)

scoreAtomPPM

public static PPMScore scoreAtomPPM(double pOK,
                                    java.lang.String resName,
                                    java.lang.String[] atomNames,
                                    double[] ppms)

scoreAtomPPM

public static boolean scoreAtomPPM(double pOK,
                                   java.lang.String atomName,
                                   double ppm)

scoreAtomPPM

public static java.util.ArrayList scoreAtomPPM(double pOK,
                                               java.lang.String[] atomNames,
                                               double[] ppms)

scoreAtomPPM

public static java.util.ArrayList scoreAtomPPM(double pOK,
                                               java.lang.String[] atomNames,
                                               double[] ppms,
                                               boolean requireAll)

scoreAtomPPM

public static java.lang.Double scoreAtomPPM(java.lang.String resName,
                                            java.lang.String atomName,
                                            double ppm)

scoreAtomPPM

public static java.lang.Double scoreAtomPPM(Residue residue,
                                            java.lang.String atomName,
                                            double ppm)