public interface JmolAnnotationParser
Modifier and Type | Method and Description |
---|---|
java.lang.String |
calculateDSSRStructure(Viewer vwr,
BS bsAtoms) |
java.lang.String |
catalogStructureUnits(Viewer vwr,
SV svMap,
int[] modelAtomIndices,
java.util.Map<java.lang.String,int[]> resMap,
java.lang.Object object,
java.util.Map<java.lang.String,java.lang.Integer> modelMap) |
javajs.util.Lst<java.lang.Object> |
catalogValidations(Viewer vwr,
SV validation,
int[] modelAtomIndices,
java.util.Map<java.lang.String,int[]> valResMap,
java.util.Map<java.lang.String,java.lang.Integer> map,
java.util.Map<java.lang.String,java.lang.Integer> modelMap) |
void |
fixAtoms(int modelIndex,
SV v,
BS bsAddedMask,
int type,
int margin) |
java.lang.String |
getAnnotationInfo(Viewer vwr,
SV a,
java.lang.String match,
int type,
int modelIndex) |
BS |
getAtomBits(Viewer vwr,
java.lang.String key,
java.lang.Object dssr,
java.util.Map<java.lang.String,java.lang.Object> cache,
int type,
int modelIndex,
BS bsModel) |
javajs.util.Lst<java.lang.Float> |
getAtomValidation(Viewer vwr,
java.lang.String type,
Atom atom) |
java.lang.String |
getHBonds(ModelSet ms,
int modelIndex,
javajs.util.Lst<Bond> vHBonds,
boolean doReport) |
javajs.util.Lst<SV> |
initializeAnnotation(SV objAnn,
int type,
int modelIndex) |
java.lang.String |
processDSSR(java.util.Map<java.lang.String,java.lang.Object> info,
javajs.api.GenericLineReader reader,
java.lang.String line0,
java.util.Map<java.lang.String,java.lang.String> htGroup1) |
void |
setAllDSSRParametersForModel(Viewer vwr,
int modelIndex) |
java.lang.String processDSSR(java.util.Map<java.lang.String,java.lang.Object> info, javajs.api.GenericLineReader reader, java.lang.String line0, java.util.Map<java.lang.String,java.lang.String> htGroup1) throws java.lang.Exception
java.lang.Exception
BS getAtomBits(Viewer vwr, java.lang.String key, java.lang.Object dssr, java.util.Map<java.lang.String,java.lang.Object> cache, int type, int modelIndex, BS bsModel)
void setAllDSSRParametersForModel(Viewer vwr, int modelIndex)
java.lang.String getHBonds(ModelSet ms, int modelIndex, javajs.util.Lst<Bond> vHBonds, boolean doReport)
java.lang.String getAnnotationInfo(Viewer vwr, SV a, java.lang.String match, int type, int modelIndex)
javajs.util.Lst<java.lang.Object> catalogValidations(Viewer vwr, SV validation, int[] modelAtomIndices, java.util.Map<java.lang.String,int[]> valResMap, java.util.Map<java.lang.String,java.lang.Integer> map, java.util.Map<java.lang.String,java.lang.Integer> modelMap)
javajs.util.Lst<java.lang.Float> getAtomValidation(Viewer vwr, java.lang.String type, Atom atom)