starfish.chemistry.io
Class MMcifReader

java.lang.Object
  starfish.chemistry.io.MMcifReader

public class MMcifReader
extends java.lang.Object

Method Summary

java.lang.CharSequence	fromFile(java.lang.String filename)
java.lang.String	getLine()
java.lang.String	getTclToken(tcl.lang.Interp interp)
java.lang.String	getToken(tcl.lang.Interp interp)
void	readMMcifAtomSite(tcl.lang.Interp interp, int[] index, int structureNumber)
void	readMMcifCompAtoms(tcl.lang.Interp interp, int[] index, Compound compound, java.lang.String asymSet, int structureNumber)
void	readMMcifCompBonds(tcl.lang.Interp interp, int[] index, Compound compound)
void	writeToken(java.lang.String token)

Methods inherited from class java.lang.Object

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

Method Detail

fromFile

public java.lang.CharSequence fromFile(java.lang.String filename)
                                throws java.io.IOException

Throws:

java.io.IOException

writeToken

public void writeToken(java.lang.String token)

getTclToken

public java.lang.String getTclToken(tcl.lang.Interp interp)
                             throws tcl.lang.TclException

Throws:

tcl.lang.TclException

getToken

public java.lang.String getToken(tcl.lang.Interp interp)

getLine

public java.lang.String getLine()

readMMcifAtomSite

public void readMMcifAtomSite(tcl.lang.Interp interp,
                              int[] index,
                              int structureNumber)
                       throws tcl.lang.TclException

Throws:

tcl.lang.TclException

readMMcifCompAtoms

public void readMMcifCompAtoms(tcl.lang.Interp interp,
                               int[] index,
                               Compound compound,
                               java.lang.String asymSet,
                               int structureNumber)
                        throws tcl.lang.TclException

Throws:

tcl.lang.TclException

readMMcifCompBonds

public void readMMcifCompBonds(tcl.lang.Interp interp,
                               int[] index,
                               Compound compound)
                        throws tcl.lang.TclException

Throws:

tcl.lang.TclException