public class LinearPlacing extends MembranePackingAlgorithm
basicOperations, BORDER_EAST, BORDER_MAX_Y, BORDER_MIN_Y, BORDER_NORTH, BORDER_SOUTH, BORDER_WEST, calculationManager, CurrentMicroDomain, databaseOperations, EXTRA, INTRA, lipidsEC, lipidsIC, LIPIDTYPE, membraneViewListener, microDomains, PROTEINTYPE, random
Constructor and Description |
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LinearPlacing() |
Modifier and Type | Method and Description |
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boolean |
buildAndShowGui() |
void |
fillWithLipids() |
java.lang.String |
getFullInformation() |
java.lang.String |
getName() |
java.awt.Component |
getRuntimeControlPanel() |
java.lang.String |
getShortInformation() |
java.lang.String |
getStringRepresentationOfSetupParameters() |
boolean |
overrideExistingLipids() |
void |
stopAlgorithm() |
boolean |
supportsAbsoluteValues() |
boolean |
supportsMicrodomains() |
addEntryToDB, addExtracellularLipid, addIntracellularLipid, clearAllLipids, copyMatrix, countSampleLipids_Extracellular, countSampleLipids_Intracellular, countTotalLipidsThatAreAdded, createAUnitMatrix, createNextExtracellularLipid, createNextExtracellularLipid, createNextIntracellularLipid, createNextIntracellularLipid, createRandomLayerID, createRandomXZPosition, displayInformation, distance, distance, dock, getAlgorithm_Directory_In_Workspace, getAllLipids, getAllLipidsInDomain, getAllMoleculesInCurrentModel, getAllProteins, getAllProteinsInDomain, getAllSampleLipids_ExtraCellular, getAllSampleLipids_ExtraCellular, getAllSampleLipids_IntraCellular, getAllSampleLipids_IntraCellular, getAllSampleLipidsInModel, getCurrentLayerID, getCurrentRenderMode, getDecimalPlaces, getDesiredAtomDistance, getExtracellularLipidByPDBCode, getIntersectedBorders, getIntersectedMolecules, getIntracellularLipidByPDBCode, getJ3DBranchGroup, getLayerAtIndex, getLayerByLayerID, getLayerCount, getLipidInMembraneHeight, getLipidsInRadiusExcept, getMembraneArea, getMembraneBounds2D, getMembraneSize, getMicroDomain, getMicroDomainAt, getMicroDomainAtPoint, getMicroDomainAtPoint, getMicroDomainCount, getMinAtomDistance, getMoleculesInRadius, getMoleculesInRadiusExcept, getMoleculesInRadiusOnMySide, getMoleculesInRadiusOnMySide, getMoleculesInRadiusOnMySideExcept, getNearestLipidOnMySide, getNearestMolecule, getNearestMoleculeExcept, getNearestMoleculeExceptDetailed, getNearestMoleculeExceptOnMySide, getNearestMoleculeExceptOnMySideDetailed, getNearestMoleculeOnMySide, getNearestMoleculeOnMySideDetailed, getNearestProtein, getNearestProteinDetailed, getNearestProteinExcept, getNearestProteinExceptDetailed, getOriginalConstraintLenghts, getOriginalConstraintLengths, getPercentages_ExtraCellular, getPercentages_IntraCellular, getSampleLipid_Extracellular, getSampleLipid_Intracellular, getSelectedArea, getStartingTime, getSystemCovalentRadius, getSystemVanDerWaalsRadius, getTerminationTime, getTotalHeight, getTotalHeight, hasMembraneAnyExtracellularLipids, hasMembraneAnyIntracellularLipids, hasMembraneAnyProteins, hasMultipleLayers, intersects, intersectsAnyMicroDomain, intersectsBorderEast, intersectsBorderNorth, intersectsBorders, intersectsBorderSouth, intersectsBorderWest, intersectsEarth, intersectsEarthOrSky, intersectsMoleculeWithMolecule, intersectsMoleculeWithMolecules, intersectsSky, intersectsWithLipid, intersectsWithProteins, isAtomCollisionOn, isAtomDistanceAbsolute, isComputeAbsoluteValuesSelected, isInSystemTray, isOnAir, isStartInBackgroundAllowed, isStartInBackgroundSelected, manuallyUpdateStatistics, MembraneHasAnyExtracellularLipids, MembraneHasAnyIntracellularLipids, nearestAtomPoints, nearestTrianglePoints, refreshViews, removeExtracellularLipid, removeIntracellularLipid, removeLipidsFromMembrane, requestChangeOfRenderMode, restoreMembraneFromPDB, returnFromSystemTray, sendToSystemTray, setComputeAbsoluteValues, setDisplayedProgress, setListenerAndPrepare, setListenerAndPrepare, setListenerAndPrepare, setPercentages, setSimpleRandom, setStartInBackgroundAllowed, setStartInBackgroundSelected, setStartingTime, setTerminationTime, setUniqueRandom
public boolean buildAndShowGui()
public void fillWithLipids() throws IllegalOperationException
IllegalOperationException
public java.lang.String getFullInformation()
public java.lang.String getName()
public java.lang.String getShortInformation()
public java.lang.String getStringRepresentationOfSetupParameters()
public void stopAlgorithm()
public boolean supportsAbsoluteValues()
public boolean supportsMicrodomains()
public boolean overrideExistingLipids()
public java.awt.Component getRuntimeControlPanel()