net.sourceforge.fluxion.pussycat.svg
Class SequenceMap

java.lang.Object
  net.sourceforge.fluxion.pussycat.svg.SequenceMap

All Implemented Interfaces:

RenderableInPussycat, RenderableOWLEntity<org.semanticweb.owl.model.OWLIndividual>, PussycatMap, PussycatSVGEntity<org.semanticweb.owl.model.OWLIndividual>

public class SequenceMap
extends java.lang.Object
implements PussycatMap

The SequenceMap class Defines a single backbone map, displaying a region of a defined size, capable of being zoomed

Author:

Rob Davey

Constructor Summary

SequenceMap(org.mindswap.pellet.owlapi.Reasoner reasoner, org.semanticweb.owl.model.OWLOntology ontology, org.semanticweb.owl.model.OWLIndividual i)

Method Summary

void	build()
java.lang.String	buildCollapsedMap()
java.lang.String	buildExpandedMap()
java.lang.String	buildMapBiggerButton()
java.lang.String	buildMapMenuButton()
java.lang.String	buildMapMoveButton()
java.lang.String	buildMapSmallerButton()
java.lang.String	buildNavigationArrows(double startpos, double endpos)
java.lang.String	buildVisibleMarkers(double mapStart, double mapEnd, boolean componentText)
java.lang.String	buildZoomBox(double startpos, double endpos)
void	destroy()
java.util.Hashtable<java.lang.String,java.lang.String[]>	getAllMarkerHomologyInfoFromMap(org.mindswap.pellet.owlapi.Reasoner reasoner)
java.util.Hashtable<java.lang.String,java.lang.String[]>	getAllMarkerInfoFromMap(org.mindswap.pellet.owlapi.Reasoner reasoner)
java.util.Hashtable<java.lang.String,java.lang.String[]>	getAllMarkerModelInfoFromMap(org.mindswap.pellet.owlapi.Reasoner reasoner)
java.util.Hashtable<java.lang.String,java.lang.String[]>	getAllMarkersOfType(org.mindswap.pellet.owlapi.Reasoner reasoner, java.lang.String type)
org.semanticweb.owl.model.OWLIndividual	getEntity()
org.semanticweb.owl.model.OWLClass	getGlyphClass()
double	getHeight()
java.lang.String	getId()
org.semanticweb.owl.model.OWLIndividual	getMapIndividual()
java.lang.String	getMapName()
java.util.Set<PussycatMarkerEntity>	getMarkers()
org.semanticweb.owl.model.OWLOntology	getSchema()
double	getScrollUnit()
java.net.URI	getURI()
int	getXOffset()
int	getYOffset()
boolean	isCollapsed()
boolean	isDockable()
boolean	isMinimised()
void	setCollapsed(boolean collapsed)
void	setEntity(org.semanticweb.owl.model.OWLIndividual i)
void	setHeight(double h)
void	setId(java.lang.String id)
void	setMapName(java.lang.String n)
void	setMinimised(boolean minimised)
void	setRenderlet(Renderlet renderlet)
void	setSchema(org.semanticweb.owl.model.OWLOntology m)
void	setScrollUnit(double scrollunit)
void	setXOffset(int xo)
void	setYOffset(int yo)
java.lang.String	toString()
void	updateMapScrollBounds(double startpos, double endpos)
void	updateMultipliers()
void	updateMultipliers(double startpos, double endpos)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

SequenceMap

public SequenceMap(org.mindswap.pellet.owlapi.Reasoner reasoner,
                   org.semanticweb.owl.model.OWLOntology ontology,
                   org.semanticweb.owl.model.OWLIndividual i)
            throws org.semanticweb.owl.model.OWLException,
                   PussycatException

Throws:

org.semanticweb.owl.model.OWLException

PussycatException

Method Detail

isDockable

public boolean isDockable()

Specified by:

isDockable in interface RenderableInPussycat

build

public void build()
           throws PussycatException

Specified by:

build in interface RenderableInPussycat

Throws:

PussycatException

updateMapScrollBounds

public void updateMapScrollBounds(double startpos,
                                  double endpos)

Specified by:

updateMapScrollBounds in interface PussycatMap

updateMultipliers

public void updateMultipliers()

updateMultipliers

public void updateMultipliers(double startpos,
                              double endpos)

Specified by:

updateMultipliers in interface PussycatMap

buildCollapsedMap

public java.lang.String buildCollapsedMap()

Specified by:

buildCollapsedMap in interface PussycatMap

buildExpandedMap

public java.lang.String buildExpandedMap()
                                  throws PussycatException

Specified by:

buildExpandedMap in interface PussycatMap

Throws:

PussycatException

buildMapSmallerButton

public java.lang.String buildMapSmallerButton()

buildMapBiggerButton

public java.lang.String buildMapBiggerButton()

buildMapMoveButton

public java.lang.String buildMapMoveButton()

buildMapMenuButton

public java.lang.String buildMapMenuButton()

buildZoomBox

public java.lang.String buildZoomBox(double startpos,
                                     double endpos)

buildVisibleMarkers

public java.lang.String buildVisibleMarkers(double mapStart,
                                            double mapEnd,
                                            boolean componentText)
                                     throws PussycatException

Specified by:

buildVisibleMarkers in interface PussycatMap

Throws:

PussycatException

buildNavigationArrows

public java.lang.String buildNavigationArrows(double startpos,
                                              double endpos)
                                       throws java.net.URISyntaxException

Throws:

java.net.URISyntaxException

getAllMarkersOfType

public java.util.Hashtable<java.lang.String,java.lang.String[]> getAllMarkersOfType(org.mindswap.pellet.owlapi.Reasoner reasoner,
                                                                                    java.lang.String type)
                                                                             throws org.semanticweb.owl.model.OWLException

Throws:

org.semanticweb.owl.model.OWLException

getAllMarkerInfoFromMap

public java.util.Hashtable<java.lang.String,java.lang.String[]> getAllMarkerInfoFromMap(org.mindswap.pellet.owlapi.Reasoner reasoner)
                                                                                 throws org.semanticweb.owl.model.OWLException

Throws:

org.semanticweb.owl.model.OWLException

getAllMarkerModelInfoFromMap

public java.util.Hashtable<java.lang.String,java.lang.String[]> getAllMarkerModelInfoFromMap(org.mindswap.pellet.owlapi.Reasoner reasoner)
                                                                                      throws org.semanticweb.owl.model.OWLException

Throws:

org.semanticweb.owl.model.OWLException

getAllMarkerHomologyInfoFromMap

public java.util.Hashtable<java.lang.String,java.lang.String[]> getAllMarkerHomologyInfoFromMap(org.mindswap.pellet.owlapi.Reasoner reasoner)
                                                                                         throws org.semanticweb.owl.model.OWLException

Throws:

org.semanticweb.owl.model.OWLException

getId

public java.lang.String getId()

Specified by:

getId in interface RenderableInPussycat

setId

public void setId(java.lang.String id)

Specified by:

setId in interface RenderableInPussycat

getMapName

public java.lang.String getMapName()

setMapName

public void setMapName(java.lang.String n)

getSchema

public org.semanticweb.owl.model.OWLOntology getSchema()

Specified by:

getSchema in interface PussycatSVGEntity<org.semanticweb.owl.model.OWLIndividual>

setSchema

public void setSchema(org.semanticweb.owl.model.OWLOntology m)

Specified by:

setSchema in interface PussycatSVGEntity<org.semanticweb.owl.model.OWLIndividual>

getMapIndividual

public org.semanticweb.owl.model.OWLIndividual getMapIndividual()

getURI

public java.net.URI getURI()

getXOffset

public int getXOffset()

Specified by:

getXOffset in interface PussycatMap

setXOffset

public void setXOffset(int xo)

Specified by:

setXOffset in interface PussycatMap

getYOffset

public int getYOffset()

Specified by:

getYOffset in interface PussycatMap

setYOffset

public void setYOffset(int yo)

Specified by:

setYOffset in interface PussycatMap

getHeight

public double getHeight()

Specified by:

getHeight in interface PussycatMap

setHeight

public void setHeight(double h)

Specified by:

setHeight in interface PussycatMap

getScrollUnit

public double getScrollUnit()

setScrollUnit

public void setScrollUnit(double scrollunit)

isCollapsed

public boolean isCollapsed()

Specified by:

isCollapsed in interface PussycatMap

setCollapsed

public void setCollapsed(boolean collapsed)

Specified by:

setCollapsed in interface PussycatMap

isMinimised

public boolean isMinimised()

setMinimised

public void setMinimised(boolean minimised)

toString

public java.lang.String toString()

Specified by:

toString in interface RenderableInPussycat

Overrides:

toString in class java.lang.Object

getGlyphClass

public org.semanticweb.owl.model.OWLClass getGlyphClass()

Specified by:

getGlyphClass in interface PussycatSVGEntity<org.semanticweb.owl.model.OWLIndividual>

getMarkers

public java.util.Set<PussycatMarkerEntity> getMarkers()

Specified by:

getMarkers in interface PussycatMap

setRenderlet

public void setRenderlet(Renderlet renderlet)

Specified by:

setRenderlet in interface RenderableInPussycat

getEntity

public org.semanticweb.owl.model.OWLIndividual getEntity()
                                                  throws PussycatException

Specified by:

getEntity in interface RenderableOWLEntity<org.semanticweb.owl.model.OWLIndividual>

Throws:

PussycatException

setEntity

public void setEntity(org.semanticweb.owl.model.OWLIndividual i)
               throws PussycatException

Specified by:

setEntity in interface RenderableOWLEntity<org.semanticweb.owl.model.OWLIndividual>

Throws:

PussycatException

destroy

public void destroy()

Specified by:

destroy in interface RenderableInPussycat