- radii - Static variable in class org.cellmicrocosmos.cm2.engine.DataPool.AtomValues
-
- radiusCov - Variable in class org.cellmicrocosmos.cm2.dataobjects.Atom_3D
-
- radiusVDW - Variable in class org.cellmicrocosmos.cm2.dataobjects.Atom_3D
-
- random - Variable in class org.cellmicrocosmos.cm2.membranepackingalgorithm.MembranePackingAlgorithm
-
The random that may be used
- RandomPlacing - Class in org.cellmicrocosmos.cm2.membranepackingalgorithms
-
Places the lipids randomly within membrane bounds and may
try to approach proteins or the membrane center and
twisting and shaking the lipids.
- RandomPlacing() - Constructor for class org.cellmicrocosmos.cm2.membranepackingalgorithms.RandomPlacing
-
- Raster - Class in org.cellmicrocosmos.cm2.functionality3d
-
The Raster that is painted on the plane in the 3d view.
- Raster() - Constructor for class org.cellmicrocosmos.cm2.functionality3d.Raster
-
- rasterVisible - Variable in class org.cellmicrocosmos.cm2.functionality3d.Membrane3D
-
- RAWDATA_SEPERATOR - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.IO
-
- rawPdbData - Static variable in class org.cellmicrocosmos.cm2.engine.DataPool
-
- rb1 - Variable in class org.cellmicrocosmos.cm2.membranepackingalgorithms.RandomPlacing
-
- rb2 - Variable in class org.cellmicrocosmos.cm2.membranepackingalgorithms.RandomPlacing
-
- rcsbdownloadLink - Static variable in class org.cellmicrocosmos.cm2.engine.DataPool.InternetSettings
-
- rcsbentriesLink - Static variable in class org.cellmicrocosmos.cm2.engine.DataPool.InternetSettings
-
- rcsbimageLink - Static variable in class org.cellmicrocosmos.cm2.engine.DataPool.InternetSettings
-
- rcsbLink - Static variable in class org.cellmicrocosmos.cm2.engine.DataPool.InternetSettings
-
- read() - Static method in class org.cellmicrocosmos.cm2.pluginmanager.PluginIO
-
- READ_HELPFILES_DIRECTLY_FROM_MAIN_FOLDER - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.DEBUG
-
- readAttributes(File) - Method in class org.cellmicrocosmos.cm2.io.PdbReader_3D
-
Reads in some attributes of the passed Pdb File.
- readAttributes(String[]) - Method in class org.cellmicrocosmos.cm2.io.PdbReader_3D
-
Reads in some attributes of the passed pdb file contents (must be the
lines from an Pdb File in Strings).
- readDataFromDisc() - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.ConfigIO
-
restores the Hasttable from the cfg_file.
- readDataFromDisc() - Static method in class org.cellmicrocosmos.cm2.misc.ConfigParser
-
restores the Hasttable from the cfg_file.
- readDefaultProfile(Molecule_3D) - Static method in class org.cellmicrocosmos.cm2.coarsegrainsupport.Molecule_Profile_IO
-
- readFile(File) - Method in class org.cellmicrocosmos.cm2.io.PdbReader_3D
-
Just reads the passed pdb File
- readIcons() - Static method in class org.cellmicrocosmos.cm2.misc.Cm2_IconDepot
-
Initializes all icons
- readLipid(File, int, Vector<String>) - Method in class org.cellmicrocosmos.cm2.io.PdbReader_3D
-
Constructs a Lipid_3D according to the file
- readMembrane(File) - Method in class org.cellmicrocosmos.cm2.io.MembraneXmlReader
-
Reads in the passed file and fills the MembraneModel with Data
- readModel(String[], int) - Method in class org.cellmicrocosmos.cm2.io.PdbReader_3D
-
Reads all ATOM/HETATM/TER lines for the specified model
- readPreview(File) - Static method in class org.cellmicrocosmos.cm2.io.DatabaseIO
-
Read the data from a file and return a preview
- readPreview(File) - Static method in class org.cellmicrocosmos.cm2.io.MembraneXmlReader
-
Reads in the passed file and returns Info
- readProfile(Molecule_3D, String, String) - Static method in class org.cellmicrocosmos.cm2.coarsegrainsupport.Molecule_Profile_IO
-
- readProtein(File, int, Vector<String>) - Method in class org.cellmicrocosmos.cm2.io.PdbReader_3D
-
Constructs a Protein_3D according to the file
- readSection(File, String) - Method in class org.cellmicrocosmos.cm2.io.PdbReader_3D
-
Reads (only!) the lines of a section in a pdb file that uses the passed
tag as recordname
- readToPlugin(File) - Method in class org.cellmicrocosmos.cm2.pluginmanager.PluginManager
-
- recalculatePoints() - Method in class org.cellmicrocosmos.cm2.dataobjects.Molecule_3D
-
Allows to realign the trianglePoints and the boundingbox manually.
- recombineEditedMembers(boolean) - Method in class org.cellmicrocosmos.cm2.coarsegrainsupport.MoleculeEditor
-
- recordName - Variable in class org.cellmicrocosmos.cm2.dataobjects.Atom_3D
-
- RECTANGULAR - Static variable in class org.cellmicrocosmos.cm2.dataobjects.MicroDomain_3D
-
- REDIRECT_ERRORS_TO_LOGFILE - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.DEBUG
-
if true, all Errors will be printed into a file instead of the System
Tray
- redoAtomsShiftedToOtherSide - Variable in class org.cellmicrocosmos.cm2.io.ReversePDBParser
-
- redoMesh(Vector<Point3f>, Point3f) - Method in class org.cellmicrocosmos.cm2.io.PdbReader_3D
-
- refreshMembranesInCm1(String, String) - Method in class org.cellmicrocosmos.cmX.mrna.MRNA
-
- refreshViews(boolean, boolean, boolean, boolean, boolean, boolean) - Method in class org.cellmicrocosmos.cm2.engine.Engine.J3DOperations
-
- refreshViews(boolean, boolean, boolean, boolean, boolean, boolean, boolean) - Method in class org.cellmicrocosmos.cm2.engine.Engine.MembraneOperations
-
- refreshViews(boolean, boolean, boolean, boolean, boolean, boolean, boolean) - Method in interface org.cellmicrocosmos.cm2.interfaces.MembraneViewListener
-
- refreshViews(boolean, boolean, boolean, boolean, boolean, boolean) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.MembranePackingAlgorithm
-
Use this method if you changed some values relevant for the GUI of CmME.
- reloadGeometry() - Method in class org.cellmicrocosmos.cm2.engine.Engine.BasicOperations
-
Called, when its necessary to rebuild all shapes in the mebrane, for
instance when another detail level is chosen.
- reloadGeometry() - Method in class org.cellmicrocosmos.cm2.engine.Engine.MembraneOperations
-
- reloadGeometry() - Method in interface org.cellmicrocosmos.cm2.interfaces.GuiListener
-
- reloadGeometry() - Method in interface org.cellmicrocosmos.cm2.interfaces.MembraneViewListener
-
- remark() - Method in class org.cellmicrocosmos.cm2.io.Compatibility
-
- removeExtracellularLipid(Lipid) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.MembranePackingAlgorithm
-
- removeInnerAtomsFactor - Static variable in class org.cellmicrocosmos.cm2.engine.DataPool.J3DSettings
-
- removeIntersectingEarthOrSkyLipids(HashSet<Lipid>) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithms.TheWandererRookie
-
Remove all lost wanderers from the intra- and extracellular side.
- removeIntracellularLipid(Lipid) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.MembranePackingAlgorithm
-
- removeLayer(Layer) - Method in class org.cellmicrocosmos.cm2.dataobjects.MembraneModel
-
- removeLipidExtra(Lipid_3D) - Method in class org.cellmicrocosmos.cm2.engine.Engine.MembraneOperations
-
- removeLipidExtra(Lipid_3D) - Method in interface org.cellmicrocosmos.cm2.interfaces.MembraneViewListener
-
- removeLipidIntra(Lipid_3D) - Method in class org.cellmicrocosmos.cm2.engine.Engine.MembraneOperations
-
- removeLipidIntra(Lipid_3D) - Method in interface org.cellmicrocosmos.cm2.interfaces.MembraneViewListener
-
- removeLipidsFrom3D(Lipid_3D[]) - Method in class org.cellmicrocosmos.cm2.engine.Engine.MembraneOperations
-
- removeLipidsFrom3D(Lipid_3D[]) - Method in interface org.cellmicrocosmos.cm2.interfaces.MembraneViewListener
-
- removeLipidsFromMembrane(Lipid[]) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.MembranePackingAlgorithm
-
Removes the passed list of lipids from the membrane
- removeMicroDomain(MicroDomain_3D) - Method in class org.cellmicrocosmos.cm2.dataobjects.MembraneModel
-
- removeMicroDomain(MicroDomain_3D) - Method in class org.cellmicrocosmos.cm2.engine.Engine.MembraneOperations
-
- removeMicroDomain(MicroDomain_3D) - Method in interface org.cellmicrocosmos.cm2.interfaces.MembraneViewListener
-
- removeMoleculesFrom3D(Molecule_3D[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.Membrane3D
-
removes given proteins from the 3D model
- removeProteinsFrom3D(Protein_3D[]) - Method in class org.cellmicrocosmos.cm2.engine.Engine.MembraneOperations
-
- removeProteinsFrom3D(Protein_3D[]) - Method in interface org.cellmicrocosmos.cm2.interfaces.MembraneViewListener
-
- RENDER_MODE_BALLS_N_STICKS - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.RENDERMODE
-
- RENDER_MODE_BALLS_N_STICKS - Static variable in class org.cellmicrocosmos.cm2.membranepackingalgorithm.Molecule
-
- RENDER_MODE_COLORED_STICKS - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.RENDERMODE
-
- RENDER_MODE_COLORED_STICKS - Static variable in class org.cellmicrocosmos.cm2.membranepackingalgorithm.Molecule
-
- RENDER_MODE_COVALENT - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.RENDERMODE
-
- RENDER_MODE_COVALENT - Static variable in class org.cellmicrocosmos.cm2.membranepackingalgorithm.Molecule
-
- RENDER_MODE_POLYGON - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.RENDERMODE
-
- RENDER_MODE_POLYGON - Static variable in class org.cellmicrocosmos.cm2.membranepackingalgorithm.Molecule
-
- RENDER_MODE_VAN_DER_WAALS - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.RENDERMODE
-
- RENDER_MODE_VAN_DER_WAALS - Static variable in class org.cellmicrocosmos.cm2.membranepackingalgorithm.Molecule
-
- RENDERMODE() - Constructor for class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.RENDERMODE
-
- repaintByMembraneModel(MembraneModel) - Method in class org.cellmicrocosmos.cm2.functionality3d.Membrane3D
-
repaints the 3D model by using the informations from the model.
- repainted(Graphics) - Method in interface org.cellmicrocosmos.cm2.interfaces.CM2AdditionalListener
-
- replaceLastLog(String, int) - Method in class org.cellmicrocosmos.cm2.coarsegrainsupport.ControlPanel
-
- replaceMembraneModel(MembraneModel) - Static method in class org.cellmicrocosmos.cm2.engine.DataPool
-
replaces the current Membrane completely
- reportDBLoadingException(Exception) - Method in class org.cellmicrocosmos.cm2.io.FileIOHandler
-
Report an Exception that occured during loading the DB here and the User
will be informed regarding to the type of exception
- reportDBSavingException(IOException) - Method in class org.cellmicrocosmos.cm2.io.FileIOHandler
-
Report an Exception occured during saving the DB here to inform the User
- reportImageSavingException(Exception) - Method in class org.cellmicrocosmos.cm2.io.FileIOHandler
-
Report an Exception occured during saving here to inform the User
- reportMembraneGeneratingException(Exception) - Method in class org.cellmicrocosmos.cm2.io.FileIOHandler
-
Report an Exception occured during Generating the Membrane into a pdb
file
- reportMembraneLoadingException(Exception) - Method in class org.cellmicrocosmos.cm2.io.FileIOHandler
-
Report an Exception that occured during loading here and the User will be
informed regarding to the type of exception
- reportMembraneSavingException(Exception) - Method in class org.cellmicrocosmos.cm2.io.FileIOHandler
-
Report an Exception occured during saving here to inform the User
- reportProtocolSavingException(Exception) - Method in class org.cellmicrocosmos.cm2.io.FileIOHandler
-
Report an Exception occured during saving here to inform the User
- REQUEST_KEY_AUTHORIZATION - Static variable in class org.cellmicrocosmos.cm2.io.ppe.toolbox.PPE_CONSTANTS.CONNECTION
-
- requestChangeOfRenderMode() - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.MembranePackingAlgorithm
-
NOT MEANT TO BE USED BY PLUGIN DEVELOPERS!
- requestFocusOnView(int) - Method in class org.cellmicrocosmos.cm2.engine.Engine.MembraneOperations
-
- requestFocusOnView(int) - Method in interface org.cellmicrocosmos.cm2.interfaces.MembraneViewListener
-
- requestRenderModeChange() - Method in class org.cellmicrocosmos.cm2.engine.Engine.MembraneOperations
-
- requestRenderModeChange() - Method in interface org.cellmicrocosmos.cm2.interfaces.MembraneViewListener
-
- requestUsertoChooseFile(int) - Method in class org.cellmicrocosmos.cm2.io.FileIOHandler
-
Initializes the specified file Choosing operation.
- requestUsertoChooseFileForGeneratingMembrane() - Method in class org.cellmicrocosmos.cm2.io.FileIOHandler
-
Initializes the specified file Choosing operation for the pdb File the
generated Membran will have.
- requiredAtomserials() - Method in class org.cellmicrocosmos.cm2.io.Compatibility
-
- requiredChains() - Method in class org.cellmicrocosmos.cm2.io.Compatibility
-
- resetModels() - Method in class org.cellmicrocosmos.cm2.gui.elements.DatabaseView
-
sets new Models on the tables which means that they get completely
cleared
- reshapeDomains() - Method in class org.cellmicrocosmos.cm2.dataobjects.MembraneModel
-
- residueName - Variable in class org.cellmicrocosmos.cm2.dataobjects.Atom_3D
-
- restartNumberingWith0 - Static variable in class org.cellmicrocosmos.cm2.engine.DataPool.LimitationSettings
-
- restoreFromCoarseGrain(Particle) - Method in class org.cellmicrocosmos.cm2.dataobjects.Molecule_3D
-
- restoreLayout() - Method in class org.cellmicrocosmos.cm2.gui.MainGui
-
trying to retrieve the layout here from the layout file.
- restoreMembraneFromPDB(String, String, CoordinateTransformationHints, boolean) - Method in class org.cellmicrocosmos.cm2.engine.Engine.BasicOperations
-
Restore a membrane from a PDB file with the following options and
wait until the reverse parsing status is returned.
- restoreMembraneFromPDB(String, String, CoordinateTransformationHints, boolean, boolean) - Method in class org.cellmicrocosmos.cm2.engine.Engine.BasicOperations
-
Restore a membrane from a PDB file with the following options
(Set optional parameters to null if not needed):
- restoreMembraneFromPDB(String, String, CoordinateTransformationHints, boolean) - Method in class org.cellmicrocosmos.cm2.engine.Engine
-
This method loads a PDB-Membrane into the running MembraneEditor.
- restoreMembraneFromPDB(String, String, CoordinateTransformationHints, boolean) - Method in interface org.cellmicrocosmos.cm2.interfaces.GuiListener
-
- restoreMembraneFromPDB(String, String, CoordinateTransformationHints, boolean) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.MembranePackingAlgorithm
-
Restore a membrane from a PDB file with the following options
(Set optional parameters to null if not needed):
- restoreMembraneFromPDBPressed() - Method in class org.cellmicrocosmos.cm2.engine.Engine.BasicOperations
-
Show the dialog to restore a membrane from a PDB file.
- restoreMembraneFromPDBPressed() - Method in interface org.cellmicrocosmos.cm2.interfaces.GuiListener
-
- restoreMembraneModelFromPdbFile(File) - Method in class org.cellmicrocosmos.cm2.io.ReversePDBParser
-
- restoreMembraneModelFromPdbFile(File, File, CoordinateTransformationHints) - Method in class org.cellmicrocosmos.cm2.io.ReversePDBParser
-
- restoreSettings() - Static method in class org.cellmicrocosmos.cm2.engine.DataPool.AlgorithmSettings
-
Restores the settings from the config file
- restoreSettings() - Static method in class org.cellmicrocosmos.cm2.engine.DataPool.APLVoroSettings
-
- restoreSettings() - Static method in class org.cellmicrocosmos.cm2.engine.DataPool.CoordinateTransformationSettings
-
Restores the settings from the config file
- restoreSettings() - Static method in class org.cellmicrocosmos.cm2.engine.DataPool.InternetSettings
-
- restoreSettings() - Static method in class org.cellmicrocosmos.cm2.engine.DataPool.J3DSettings
-
Restores settings from configParser
- restoreSettings() - Static method in class org.cellmicrocosmos.cm2.engine.DataPool.JmolSettings
-
- restoreSettings() - Static method in class org.cellmicrocosmos.cm2.engine.DataPool.LimitationSettings
-
Restores the settings from the config file
- restoreSettings() - Static method in class org.cellmicrocosmos.cm2.engine.DataPool.PPESettings
-
Restores the settings from the config file
- restoreView(int) - Method in class org.cellmicrocosmos.cm2.gui.MainGui
-
Restores the specified view
- RETRIES_AT_RANDOM_PROTEIN_PLACING - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.MISC
-
number of retries when a Protein gets randomly added
- retrieveUserCommentFromDB(File, int) - Method in class org.cellmicrocosmos.cm2.engine.Engine.DatabaseOperations
-
- retrieveUserCommentFromDB(File, int) - Method in class org.cellmicrocosmos.cm2.gui.elements.DatabaseView
-
- retrieveUserCommentFromDB(File, int) - Method in interface org.cellmicrocosmos.cm2.interfaces.DatabaseViewListener
-
- returnFromSystemTray() - Method in class org.cellmicrocosmos.cm2.gui.elements.MembraneView
-
- returnFromSystemTray() - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.MembranePackingAlgorithm
-
This method returns a CmME instance which has been sent
to the SystemTray back to the screen.
- returnFromSystemTray() - Method in class org.cellmicrocosmos.cm2.pluginmanager.CalculationManager
-
- REVERSE_ALL - Static variable in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Constructor flag to reverse all the behaviors
- REVERSE_ROTATE - Static variable in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Constructor flag to reverse the rotate behavior
- REVERSE_TRANSLATE - Static variable in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Constructor flag to reverse the translate behavior
- REVERSE_ZOOM - Static variable in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Constructor flag to reverse the zoom behavior
- reverseParsing - Static variable in class org.cellmicrocosmos.cm2.engine.DataPool.LimitationSettings
-
- ReversePDBParser - Class in org.cellmicrocosmos.cm2.io
-
This class is used to parse a once saved PDB file against the original Cm2 file.
- ReversePDBParser(File, boolean) - Constructor for class org.cellmicrocosmos.cm2.io.ReversePDBParser
-
- ReverseRotate(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Property which sets reverse rotate behavior.
- ReverseTranslate(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Property which sets reverse translate behavior.
- ReverseZoom(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Property which sets reverse zoom behavior.
- RIGHT_BUTTON_MODIFIER - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.GUI_SETTINGS_AND_CONTROLS
-
modifiers for the right Mouse Button for Systems that only have one
button (like Mac)
- ROOTELEMENTNAME_DB - Static variable in class org.cellmicrocosmos.cm2.io.DatabaseIO
-
- ROOTELEMENTNAME_MEMBRANE - Static variable in class org.cellmicrocosmos.cm2.io.MembraneXmlReader
-
- rotate_X_Axis_Matrix(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.RotationToolkit
-
Simply rotates a matrix around its X Axis.
- rotate_X_Axis_Matrix(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.misc.Cm2_Toolkit
-
- rotate_X_Axis_Of_CoordinateSystem(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.RotationToolkit
-
Rotates a matrix around the X Axis of the MembraneEditor's coordinate
space.
- rotate_X_Axis_Of_CoordinateSystem(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.misc.Cm2_Toolkit
-
- rotate_Y_Axis_Matrix(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.RotationToolkit
-
Simply rotates a matrix around its Y Axis.
- rotate_Y_Axis_Matrix(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.misc.Cm2_Toolkit
-
- rotate_Y_Axis_Of_CoordinateSystem(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.RotationToolkit
-
Rotates a matrix around the Y Axis of the MembraneEditor's coordinate
space.
- rotate_Y_Axis_Of_CoordinateSystem(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.misc.Cm2_Toolkit
-
- rotate_Z_Axis_Matrix(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.RotationToolkit
-
Simply rotates a matrix around its Z Axis.
- rotate_Z_Axis_Matrix(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.misc.Cm2_Toolkit
-
- rotate_Z_Axis_Of_CoordinateSystem(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.RotationToolkit
-
Rotates a matrix around the Z Axis of the MembraneEditor's coordinate
space.
- rotate_Z_Axis_Of_CoordinateSystem(Matrix3f, float) - Static method in class org.cellmicrocosmos.cm2.misc.Cm2_Toolkit
-
- rotateCoarseGrainMembers() - Method in class org.cellmicrocosmos.cm2.dataobjects.Molecule_3D
-
- RotateEnable(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Property which enables or disables rotation.
- rotateImage90(BufferedImage) - Static method in class org.cellmicrocosmos.cm2.misc.Cm2_Toolkit
-
- RotationCenter(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Property which sets the center around which the View rotates.
- RotationToolkit - Class in org.cellmicrocosmos.cm2.membranepackingalgorithm
-
This toolkit offers some useful static methods concerning calculations with
matrices
- RotationToolkit() - Constructor for class org.cellmicrocosmos.cm2.membranepackingalgorithm.RotationToolkit
-
- RotFactors(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Property which sets the rotation x and y factors.
- rotX(float) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.Molecule
-
rotates the molecule around the x-axis
- RotXFactor(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Property which sets the rotation x factor.
- rotY(float) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.Molecule
-
rotates the molecule around the y-axis
- RotYFactor(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
-
Property which sets the rotation y factor.
- rotZ(float) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.Molecule
-
rotates the molecule around the z-axis
- rowFinished(int) - Method in interface org.cellmicrocosmos.cm2.interfaces.SearchListener
-
- ROWX_ENTRY - Static variable in class org.cellmicrocosmos.cm2.io.ppe.toolbox.PPE_CONSTANTS.MIFILE
-
- ROWY_ENTRY - Static variable in class org.cellmicrocosmos.cm2.io.ppe.toolbox.PPE_CONSTANTS.MIFILE
-
- ROWZ_ENTRY - Static variable in class org.cellmicrocosmos.cm2.io.ppe.toolbox.PPE_CONSTANTS.MIFILE
-
- run() - Method in class org.cellmicrocosmos.cm2.pluginmanager.CalculationManager.CalculationThread
-
- RUN_MODE - Static variable in class org.cellmicrocosmos.cm2.gui.dialogs.AlgorithmWizzard
-