Package org.jmol.api
Interface JmolAnnotationParser
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AnnotationParser
,DSSR1
public interface JmolAnnotationParser
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Method Summary
All Methods Instance Methods Abstract Methods Modifier and Type Method Description String
calculateDSSRStructure(Viewer vwr, javajs.util.BS bsAtoms)
String
catalogStructureUnits(Viewer vwr, SV svMap, int[] modelAtomIndices, Map<String,int[]> resMap, Object object, Map<String,Integer> modelMap)
javajs.util.Lst<Object>
catalogValidations(Viewer vwr, SV validation, int[] modelAtomIndices, Map<String,int[]> valResMap, Map<String,Integer> map, Map<String,Integer> modelMap)
void
fixAtoms(int modelIndex, SV v, javajs.util.BS bsAddedMask, int type, int margin)
String
fixDSSRJSONMap(Map<String,Object> map)
String
getAnnotationInfo(Viewer vwr, SV a, String match, int type, int modelIndex)
javajs.util.BS
getAtomBits(Viewer vwr, String key, Object dssr, Map<String,Object> cache, int type, int modelIndex, javajs.util.BS bsModel)
void
getAtomicDSSRData(ModelSet ms, int modelIndex, float[] dssrData, String dataType)
javajs.util.Lst<Float>
getAtomValidation(Viewer vwr, String type, Atom atom)
void
getBasePairs(Viewer vwr, int modelIndex)
javajs.util.P3[]
getDSSRFrame(Map<String,Object> dssrNT)
String
getHBonds(ModelSet ms, int modelIndex, javajs.util.Lst<Bond> vHBonds, boolean doReport)
javajs.util.Lst<SV>
initializeAnnotation(SV objAnn, int type, int modelIndex)
void
setGroup1(ModelSet ms, int modelIndex)
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Method Detail
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getAtomBits
javajs.util.BS getAtomBits(Viewer vwr, String key, Object dssr, Map<String,Object> cache, int type, int modelIndex, javajs.util.BS bsModel)
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getBasePairs
void getBasePairs(Viewer vwr, int modelIndex)
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getHBonds
String getHBonds(ModelSet ms, int modelIndex, javajs.util.Lst<Bond> vHBonds, boolean doReport)
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getAtomicDSSRData
void getAtomicDSSRData(ModelSet ms, int modelIndex, float[] dssrData, String dataType)
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getAnnotationInfo
String getAnnotationInfo(Viewer vwr, SV a, String match, int type, int modelIndex)
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catalogValidations
javajs.util.Lst<Object> catalogValidations(Viewer vwr, SV validation, int[] modelAtomIndices, Map<String,int[]> valResMap, Map<String,Integer> map, Map<String,Integer> modelMap)
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fixAtoms
void fixAtoms(int modelIndex, SV v, javajs.util.BS bsAddedMask, int type, int margin)
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catalogStructureUnits
String catalogStructureUnits(Viewer vwr, SV svMap, int[] modelAtomIndices, Map<String,int[]> resMap, Object object, Map<String,Integer> modelMap)
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setGroup1
void setGroup1(ModelSet ms, int modelIndex)
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