Package org.jmol.adapter.readers.cif
Class TopoCifParser.TAtom
- java.lang.Object
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- javajs.util.T3
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- javajs.util.P3
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- org.jmol.adapter.smarter.Atom
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- org.jmol.adapter.readers.cif.TopoCifParser.TAtom
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- All Implemented Interfaces:
java.io.Serializable,java.lang.Cloneable,javajs.api.JSONEncodable,TopoCifParser.TPoint
- Enclosing class:
- TopoCifParser
private class TopoCifParser.TAtom extends Atom implements TopoCifParser.TPoint
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Field Summary
Fields Modifier and Type Field Description (package private) java.lang.StringatomLabel(package private) java.lang.Stringid(package private) intidxprivate booleanisFinalized(package private) java.lang.Stringline(package private) java.lang.StringlinkID(package private) TopoCifParser.TNetnet(package private) java.lang.StringnodeID(package private) intsymopprivate javajs.util.P3trans-
Fields inherited from class org.jmol.adapter.smarter.Atom
altLoc, anisoBorU, atomName, atomSerial, atomSetIndex, atomSite, bfactor, bondRadius, bsSymmetry, chainID, elementNumber, elementSymbol, foccupancy, formalCharge, group3, ignoreSymmetry, index, insertionCode, isHetero, partialCharge, radius, sequenceNumber, tensors, typeSymbol, vib
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Constructor Summary
Constructors Constructor Description TAtom()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description (package private) voidfinalizeAtom()private TopoCifParser.TLinkgetLinkById(java.lang.String linkID)TopoCifParser.TNetgetNet()(package private) TopoCifParser.TAtomgetTClone()(package private) booleansetAtom(int[] a, java.lang.String line)java.lang.StringtoString()Returns a string that contains the values of this Tuple3f.-
Methods inherited from class org.jmol.adapter.smarter.Atom
addTensor, copyTo, getClone, getElementSymbol, isValidSym1, isValidSym2, isValidSymNoCase
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Field Detail
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id
java.lang.String id
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atomLabel
java.lang.String atomLabel
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nodeID
java.lang.String nodeID
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linkID
java.lang.String linkID
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symop
int symop
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trans
private javajs.util.P3 trans
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line
java.lang.String line
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isFinalized
private boolean isFinalized
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idx
int idx
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net
TopoCifParser.TNet net
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Method Detail
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getTClone
TopoCifParser.TAtom getTClone()
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getNet
public TopoCifParser.TNet getNet()
- Specified by:
getNetin interfaceTopoCifParser.TPoint
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setAtom
boolean setAtom(int[] a, java.lang.String line)
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finalizeAtom
void finalizeAtom() throws java.lang.Exception- Throws:
java.lang.Exception
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getLinkById
private TopoCifParser.TLink getLinkById(java.lang.String linkID)
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toString
public java.lang.String toString()
Description copied from class:javajs.util.T3Returns a string that contains the values of this Tuple3f. The form is (x,y,z).- Overrides:
toStringin classjavajs.util.T3- Returns:
- the String representation
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