Uses of Class
org.jmol.modelset.ModelSet
Packages that use ModelSet
Package
Description
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Uses of ModelSet in org.jmol.api
Methods in org.jmol.api with parameters of type ModelSetModifier and TypeMethodDescriptionvoid
JmolAnnotationParser.getAtomicDSSRData
(ModelSet ms, int modelIndex, float[] dssrData, String dataType) SymmetryInterface.getSpaceGroupInfo
(ModelSet modelSet, String spaceGroup, int modelIndex, boolean isFull, float[] cellParams) boolean
SymmetryInterface.getSymmetryInfoAtom
(ModelSet ms, int iatom, String xyz, int op, P3 translation, P3 pt, P3 pt2, String id, int type, float scaleFactor, int nth, int options, int[] oplist) SymmetryInterface.notInCentroid
(ModelSet modelSet, BS bsAtoms, int[] minmax) SymmetryInterface.removeDuplicates
(ModelSet ms, BS bs, boolean highPrec) void
void
void
AtomIndexIterator.setModel
(ModelSet modelSet, int modelIndex, int zeroBase, int atomIndex, T3 center, float distance, RadiusData rd) -
Uses of ModelSet in org.jmol.dssx
Methods in org.jmol.dssx with parameters of type ModelSetModifier and TypeMethodDescriptionvoid
AnnotationParser.getAtomicDSSRData
(ModelSet ms, int modelIndex, float[] dssrData, String dataType) void
DSSR1.getAtomicDSSRData
(ModelSet ms, int modelIndex, float[] dssrData, String dataType) void
void
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Uses of ModelSet in org.jmol.minimize
Methods in org.jmol.minimize with parameters of type ModelSetModifier and TypeMethodDescriptionvoid
Minimizer.calculatePartialCharges
(ModelSet ms, BS bsAtoms, BS bsReport) -
Uses of ModelSet in org.jmol.modelkit
Fields in org.jmol.modelkit declared as ModelSet -
Uses of ModelSet in org.jmol.modelset
Fields in org.jmol.modelset declared as ModelSetModifier and TypeFieldDescriptionMeasurement.ms
Model.ms
BE CAREFUL: FAILURE TO NULL REFERENCES TO modelSet WILL PREVENT FINALIZATION AND CREATE A MEMORY LEAK.ModelLoader.ms
Methods in org.jmol.modelset with parameters of type ModelSetModifier and TypeMethodDescriptionstatic String
ModelLoader.createAtomDataSet
(Viewer vwr, ModelSet modelSet, int tokType, Object asc, BS bsSelected) void
MeasurementData.define
(JmolMeasurementClient client, ModelSet modelSet) called by the client to generate a set of measurementsint[]
BondSet.getAssociatedAtoms
(ModelSet ms) protected void
ModelSet.mergeModelArrays
(ModelSet mergeModelSet) initial transfer of model data from old to new model set.Model.set
(ModelSet modelSet, int modelIndex, int trajectoryBaseIndex, String jmolData, Properties properties, Map<String, Object> auxiliaryInfo) Measurement.setM
(ModelSet modelSet, Measurement m, float value, short colix, String strFormat, int index) void
AtomIteratorWithinModel.setModel
(ModelSet modelSet, int modelIndex, int firstModelAtom, int atomIndex, T3 center, float distance, RadiusData rd) MeasurementData.setModelSet
(ModelSet m) Constructors in org.jmol.modelset with parameters of type ModelSet -
Uses of ModelSet in org.jmol.modelsetbio
Methods in org.jmol.modelsetbio with parameters of type ModelSet -
Uses of ModelSet in org.jmol.render
Fields in org.jmol.render declared as ModelSetMethods in org.jmol.render with parameters of type ModelSetModifier and TypeMethodDescriptionvoid
boolean
ShapeRenderer.renderShape
(JmolRendererInterface g3d, ModelSet modelSet, Shape shape) void
ShapeRenderer.setup
(JmolRendererInterface g3d, ModelSet modelSet, Shape shape) -
Uses of ModelSet in org.jmol.shape
Fields in org.jmol.shape declared as ModelSetMethods in org.jmol.shape with parameters of type ModelSetModifier and TypeMethodDescriptionfinal void
Shape.initializeShape
(Viewer vwr, ModelSet modelSet, int shapeID) void
Shape.setModelSet
(ModelSet modelSet) -
Uses of ModelSet in org.jmol.symmetry
Methods in org.jmol.symmetry with parameters of type ModelSetModifier and TypeMethodDescriptionSymmetry.getSpaceGroupInfo
(ModelSet modelSet, String sgName, int modelIndex, boolean isFull, float[] cellParams) boolean
Symmetry.getSymmetryInfoAtom
(ModelSet modelSet, int iatom, String xyz, int op, P3 translation, P3 pt, P3 pt2, String id, int type, float scaleFactor, int nth, int options, int[] opList) Symmetry.notInCentroid
(ModelSet modelSet, BS bsAtoms, int[] minmax) Symmetry.removeDuplicates
(ModelSet ms, BS bs, boolean highPrec) void
UnitCellIterator.setModel
(ModelSet modelSet, int modelIndex, int zeroBase, int atomIndex, T3 center, float distance, RadiusData rd) void
Symmetry.setSymmetryInfoFromFile
(ModelSet ms, int modelIndex, float[] unitCellParams) Set space group and unit cell from the auxiliary info generated by XtalSymmetry specific to a given model. -
Uses of ModelSet in org.jmol.viewer
Fields in org.jmol.viewer declared as ModelSetMethods in org.jmol.viewer with parameters of type ModelSetModifier and TypeMethodDescriptionvoid
ShapeManager.loadDefaultShapes
(ModelSet newModelSet) void
ShapeManager.setModelSet
(ModelSet modelSet) void
Viewer.setModelSet
(ModelSet modelSet)