org.strbio.mol
Class PolymerProperties

java.lang.Object
  extended by org.strbio.mol.PolymerProperties

public class PolymerProperties
extends java.lang.Object

Class containing all possible Polymer properties, in one place, rather than spreading them out among many files.

  Version 1.1, 3/31/00 - separated PRECALC_ANGLES into
    PRECALC_PHIPSI and PRECALC_ALPHATAU
  Version 1.0, 10/14/99 - original version
  

Version:
1.1, 3/31/00
Author:
JMC

Field Summary
static int BACKBONE_POTENTIAL
          ProfilePSI property: is there a local secondary structure prediction based potential?
static int KNOWN_2ARY
          Protein property: is there known secondary structure?
static int KNOWN_ATOMS
          Polymer property: is there information on atomic coordinates?
static int KNOWN_ENV
          Protein property: is there information on environmental class?
static int MULTI_CHAIN
          Polymer property: Are there multiple chains?
static int PRECALC_ALPHATAU
          Protein property: is there precalculated information on backbone alpha/tau dihedral angles?
static int PRECALC_CW
          Profile property: are R&S Conservation weights calculated?
static int PRECALC_FREQ
          Profile property: precalculated frequencies
static int PRECALC_PHIPSI
          Protein property: is there precalculated information on backbone phi/psi dihedral angles?
static int PRED_2ARY
          Protein property: is there a secondary structure prediction?
static int PSI_BLAST_MATRIX
          ProfilePSI property: is there a psi-blast matrix?
static int VAR_TOM_INFO
          Protein property: is there TOM information on residue variability?
 
Constructor Summary
PolymerProperties()
           
 
Method Summary
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Field Detail

KNOWN_ATOMS

public static final int KNOWN_ATOMS
Polymer property: is there information on atomic coordinates?

See Also:
Constant Field Values

MULTI_CHAIN

public static final int MULTI_CHAIN
Polymer property: Are there multiple chains? If so, you might want to call autoSplit to break it up into multiple Polymers.

See Also:
Constant Field Values

KNOWN_2ARY

public static final int KNOWN_2ARY
Protein property: is there known secondary structure?

See Also:
Constant Field Values

PRED_2ARY

public static final int PRED_2ARY
Protein property: is there a secondary structure prediction?

See Also:
Constant Field Values

PRECALC_PHIPSI

public static final int PRECALC_PHIPSI
Protein property: is there precalculated information on backbone phi/psi dihedral angles?

See Also:
Constant Field Values

KNOWN_ENV

public static final int KNOWN_ENV
Protein property: is there information on environmental class?

See Also:
Constant Field Values

VAR_TOM_INFO

public static final int VAR_TOM_INFO
Protein property: is there TOM information on residue variability?

See Also:
Constant Field Values

PSI_BLAST_MATRIX

public static final int PSI_BLAST_MATRIX
ProfilePSI property: is there a psi-blast matrix?

See Also:
Constant Field Values

BACKBONE_POTENTIAL

public static final int BACKBONE_POTENTIAL
ProfilePSI property: is there a local secondary structure prediction based potential?

See Also:
Constant Field Values

PRECALC_CW

public static final int PRECALC_CW
Profile property: are R&S Conservation weights calculated?

See Also:
Constant Field Values

PRECALC_FREQ

public static final int PRECALC_FREQ
Profile property: precalculated frequencies

See Also:
Constant Field Values

PRECALC_ALPHATAU

public static final int PRECALC_ALPHATAU
Protein property: is there precalculated information on backbone alpha/tau dihedral angles?

See Also:
Constant Field Values
Constructor Detail

PolymerProperties

public PolymerProperties()