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T

T - Variable in class org.cellmicrocosmos.cm2.pluginmanager.CalculationManager
 
tab - Variable in class org.cellmicrocosmos.cm2.gui.dialogs.J3DSettingsDialog
 
TabComponentNoBorder() - Constructor for class org.cellmicrocosmos.cm2.gui.MainGui.TabComponentNoBorder
 
table - Variable in class org.cellmicrocosmos.cm2.membranepackingalgorithm.ParameterMatrixPanel
 
TAGNAMES_MEMBRANE - Static variable in class org.cellmicrocosmos.cm2.io.MembraneXmlReader
 
TEMP_APLVORO_FILE - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.IO
 
TEMP_DIRECTORY - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.IO
 
TEMP_MEMBRANE_FILE - Static variable in class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.IO
 
tempFactor - Variable in class org.cellmicrocosmos.cm2.dataobjects.Atom_3D
 
teporaryMolecule - Variable in class org.cellmicrocosmos.cm2.dataobjects.Molecule_3D
 
terCount - Variable in class org.cellmicrocosmos.cm2.dataobjects.Molecule_3D
 
TestArea - Class in org.cellmicrocosmos.cm2.engine
A class that allows to execute code any time the user pressed the testbutton.
TestArea() - Constructor for class org.cellmicrocosmos.cm2.engine.TestArea
 
testForBetterPositionInFirstState(Lipid, int) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithms.SimulatedAnnealing
Tests if a new Random Position is better then the old Position.
Tetris - Class in org.cellmicrocosmos.cm2.membranepackingalgorithms
See algorithm description...
Tetris() - Constructor for class org.cellmicrocosmos.cm2.membranepackingalgorithms.Tetris
 
TheWandererRookie - Class in org.cellmicrocosmos.cm2.membranepackingalgorithms
The Wanderer is an algorithm looking for an opportunity to rest.
TheWandererRookie() - Constructor for class org.cellmicrocosmos.cm2.membranepackingalgorithms.TheWandererRookie
 
THREADS() - Constructor for class org.cellmicrocosmos.cm2.constants.CM2_CONSTANTS.THREADS
 
TitledPanel(String) - Constructor for class org.cellmicrocosmos.cm2.coarsegrainsupport.ControlPanel.TitledPanel
 
toc_file - Variable in class org.cellmicrocosmos.cm2.gui.dialogs.HelpDialog
 
toggleAllTitlesAndBorders(boolean) - Method in class org.cellmicrocosmos.cm2.gui.MainGui
Hide or show all titles and borders.
toggleOPMLayersButton - Variable in class org.cellmicrocosmos.cm2.gui.elements.MembraneView
 
ToolkitMembranePackingAlgorithm() - Constructor for class org.cellmicrocosmos.cm2.misc.Cm2_Toolkit.ToolkitMembranePackingAlgorithm
 
toString() - Method in class org.cellmicrocosmos.cm2.dataobjects.Atom_3D
Returns a String for Debugging
toString() - Method in class org.cellmicrocosmos.cm2.dataobjects.Molecule_3D
Returns a string representation of this object for debugging
toSystemTray() - Method in class org.cellmicrocosmos.cm2.gui.elements.MembraneView
 
totalEnergy(Atom) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithms.atomlevelminimizer.Energies
 
totalInternalEnergy(Atom) - Method in class org.cellmicrocosmos.cm2.membranepackingalgorithms.atomlevelminimizer.Energies
 
TransFactors(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
Property which sets the translation x and y factors.
TRANSFORM_BOTTOM - Static variable in class org.cellmicrocosmos.cm2.io.Compatibility
 
TRANSFORM_NONE - Static variable in class org.cellmicrocosmos.cm2.io.Compatibility
 
TRANSFORM_PHYSICAL - Static variable in class org.cellmicrocosmos.cm2.io.Compatibility
 
transformToNewPoint(Matrix3f, Point3f) - Static method in class org.cellmicrocosmos.cm2.membranepackingalgorithm.RotationToolkit
Rotates a point according to the passed matrix.
transformToNewPoint(Matrix3f, Point3f) - Static method in class org.cellmicrocosmos.cm2.misc.Cm2_Toolkit
Rotates a point according to the passed matrix.
translateAllMolecules(float, boolean, boolean) - Method in class org.cellmicrocosmos.cm2.dataobjects.MembraneModel
 
TranslateEnable(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
Property which enables or disables translate.
TransXFactor(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
Property which sets the translation x factor.
TransYFactor(Object[]) - Method in class org.cellmicrocosmos.cm2.functionality3d.OrbitBehaviorAdvanced
Property which sets the translation y factor.
treatCurrent(boolean, boolean) - Method in class org.cellmicrocosmos.cm2.coarsegrainsupport.MoleculeEditor
 
treeClicked(TreeSelectionEvent) - Method in class org.cellmicrocosmos.cm2.gui.dialogs.HelpDialog
Called if an Event gets fired from the JTree.
type - Variable in class org.cellmicrocosmos.cm2.pluginmanager.Plugin
 
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