ini.trakem2.display

Class Dissector

java.lang.Object

ini.trakem2.persistence.DBObject

ini.trakem2.display.Displayable

ini.trakem2.display.ZDisplayable

ini.trakem2.display.Dissector

All Implemented Interfaces:

Paintable, VectorData

public class Dissector
extends ZDisplayable
implements VectorData

Implements the Double Dissector method with scale-invariant grouped labels. Each label is simply a cross marker with a number attached; labels are grouped; each member label of the group has the same number.

Nested Class Summary

Nested classes/interfaces inherited from class ini.trakem2.display.Displayable

Displayable.DataPackage, Displayable.DoEdit, Displayable.DoEdits, Displayable.DoTransforms, Displayable.SliderListener

Field Summary

Fields inherited from class ini.trakem2.display.ZDisplayable

layer_set

Fields inherited from class ini.trakem2.display.Displayable

alpha, annotation, at, color, COMPOSITE_ADD, COMPOSITE_COLOR_YCBCR, COMPOSITE_DIFFERENCE, COMPOSITE_MULTIPLY, COMPOSITE_NORMAL, COMPOSITE_SUBTRACT, compositeModes, height, hs_linked, last_color, layer, linked_props, linked_props_origins, locked, props, TAG_ATTR1, TAG_ATTR2, title, visible, width

Fields inherited from class ini.trakem2.persistence.DBObject

id, project

Constructor Summary

Constructors

Constructor and Description
Dissector(Project project, long id, HashMap<String,String> ht, HashMap<Displayable,String> ht_links) Reconstruct from XML.
Dissector(Project project, long id, String title, float width, float height, float alpha, boolean visible, Color color, boolean locked, AffineTransform at)
Dissector(Project project, String title, double x, double y)

Method Summary

Modifier and Type	Method and Description
void	addItem(int tag, int radius, String data) For reconstruction purposes from XML.
boolean	apply(Layer la, Area roi, CoordinateTransform ict) Applies the 2D transform @ict (which is expected to operate on the world coordinates version of the data contained here) only to the data that falls within the @param roi (in world coords), and then recomputes the bounding box and affine transform (to a translation or identity).
boolean	apply(VectorDataTransform vdt)
protected boolean	calculateBoundingBox(Layer la)
Displayable	clone(Project pr, boolean copy_id) Returns a deep copy.
boolean	contains(Layer layer, double x, double y) Calls contains(x_p, y_p) unless overriden -- in ZDisplayable objects, it tests whether the given point is contained in the part of the ZDisplayable that shows in the given layer.
boolean	crop(List<Layer> range) Retain the data within the layer range, and through out all the rest.
static void	exportDTD(StringBuilder sb_header, HashSet<String> hs, String indent)
void	exportXML(StringBuilder sb_body, String indent, XMLOptions options) The oid is this objects' id, whereas the 'id' tag will be the id of the wrapper Thing object.
Area	getAreaAt(Layer layer) This area is meant to represent the entire area where a Displayable paints to in the @param layer.
Layer	getFirstLayer() Returns the layer of lowest Z coordinate where this ZDisplayable has a point in.
String	getInfo() Returns: - first line: the title of this dissector - second line: the number of items included in this dissector and then a list of 5 tab-separated columns: item tag, radius, x, y, z
Collection<Long>	getLayerIds() Get the list of Layer ids on which this ZDisplayable has data on.
boolean	intersects(Area area, double z_first, double z_last)
boolean	isDeletable()
protected boolean	layerRemoved(Layer la) Update internal datastructures to reflect the fact that @param layer has been removed from the containing LayerSet.
boolean	linkPatches() Link the Patch objects that lay underneath the part of the bounding box of this profile that shows in the current layer, so that they cannot be dragged independently.
ij.measure.ResultsTable	measure(ij.measure.ResultsTable rt) Does nothing unless overriden.
void	mouseDragged(MouseEvent me, Layer la, int x_p, int y_p, int x_d, int y_d, int x_d_old, int y_d_old)
void	mousePressed(MouseEvent me, Layer la, int x_p, int y_p, double mag)
void	mouseReleased(MouseEvent me, Layer la, int x_p, int y_p, int x_d, int y_d, int x_r, int y_r)
void	paint(Graphics2D g, Rectangle srcRect, double magnification, boolean active, int channels, Layer active_layer, List<Layer> layers)
void	paintSnapshot(Graphics2D g, Layer layer, List<Layer> layers, Rectangle srcRect, double mag) Always paint as box.

Methods inherited from class ini.trakem2.display.ZDisplayable

exportDTD, getBucketable, getLayerSet, paintsAt, remove, remove2, setColor, setLayer, setLayerSet, setLayerSet, setVisible, softRemove, transformPoints, updateBucket, updateBucket

Methods inherited from class ini.trakem2.display.Displayable

adjustProperties, areThereLayerCrossLinks, canSendTo, clone, clone, commonDTDChildren, contains, deselect, destroy, displacePoints, exportSVG, findById, findNearestPoint, findNearestPoint, getAffineTransform, getAffineTransformCopy, getAlpha, getAnnotation, getArea, getAreaForBucket, getBoundingBox, getBoundingBox, getBoundingBox, getBounds, getBounds, getColor, getComposite, getComposite, getCompositeMode, getHeight, getIntersection, getLayer, getLayersWithData, getLinked, getLinked, getLinkedBox, getLinkedGroup, getLinkedProperties, getLinkedProperties, getLinkedProperty, getLinkedProperty, getMinimalBoundingBox, getNameId, getPerimeter, getPerimeter, getProperties, getProperty, getProperty, getShortTitle, getTitle, getWidth, getX, getXMLSafeValue, getXMLSafeValue, getY, hasLinkedGroupWithinLayer, hasProperties, intersects, intersects, intersects, intersects, inverseTransformPoint, isLinked, isLinked, isLinked, isLocked, isLocked2, isOnlyLinkedTo, isOnlyLinkedTo, isOutOfRepaintingClip, isOutOfRepaintingClip, isRoughlyInside, isVisible, keyPressed, link, link, makeAdjustPropertiesDialog, mouseWheelMoved, paintAsBox, paintOffscreen, preConcatenate, prePaint, preTransform, processAdjustPropertiesDialog, removeLinkedProperties, removeLinkedPropertiesFromOrigins, repaint, restXML, rotate, rotate, rotatePoints, scale, scale, scalePoints, setAffineTransform, setAlpha, setAlpha, setAnnotation, setCompositeMode, setDimensions, setDimensions, setLayer, setLinkedProperties, setLinkedProperty, setLocation, setLocked, setProperty, setTitle, setVisible, snapTo, toString, transform, transformPoint, transformPoint, transformPoints, transformPoints, transformPoints, transformPoints, transformPoints, transformPoints, transformPoints, transformPoints, transformPoints, transformRectangle, translate, translate, unlink, unlink, unlinkAll, updateInDatabase, xmlError, xmlError

Methods inherited from class ini.trakem2.persistence.DBObject

addToDatabase, getId, getProject, getUniqueIdentifier, removeFromDatabase, updateInDatabase

Methods inherited from class java.lang.Object

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

Constructor Detail

Dissector

public Dissector(Project project,
                 String title,
                 double x,
                 double y)

Dissector

public Dissector(Project project,
                 long id,
                 String title,
                 float width,
                 float height,
                 float alpha,
                 boolean visible,
                 Color color,
                 boolean locked,
                 AffineTransform at)

Dissector

public Dissector(Project project,
                 long id,
                 HashMap<String,String> ht,
                 HashMap<Displayable,String> ht_links)

Reconstruct from XML.

Method Detail

paint

public void paint(Graphics2D g,
                  Rectangle srcRect,
                  double magnification,
                  boolean active,
                  int channels,
                  Layer active_layer,
                  List<Layer> layers)

Specified by:

paint in interface Paintable

Overrides:

paint in class Displayable

getFirstLayer

public Layer getFirstLayer()

Description copied from class: ZDisplayable

Returns the layer of lowest Z coordinate where this ZDisplayable has a point in.

Specified by:

getFirstLayer in class ZDisplayable

linkPatches

public boolean linkPatches()

Description copied from class: ZDisplayable

Link the Patch objects that lay underneath the part of the bounding box of this profile that shows in the current layer, so that they cannot be dragged independently.

Specified by:

linkPatches in class ZDisplayable

Returns:

whether the locking state changed.

contains

public boolean contains(Layer layer,
                        double x,
                        double y)

Description copied from class: Displayable

Calls contains(x_p, y_p) unless overriden -- in ZDisplayable objects, it tests whether the given point is contained in the part of the ZDisplayable that shows in the given layer.

Overrides:

contains in class Displayable

clone

public Displayable clone(Project pr,
                         boolean copy_id)

Returns a deep copy.

Specified by:

clone in class Displayable

isDeletable

public boolean isDeletable()

Specified by:

isDeletable in class Displayable

mousePressed

public void mousePressed(MouseEvent me,
                         Layer la,
                         int x_p,
                         int y_p,
                         double mag)

Overrides:

mousePressed in class Displayable

mouseDragged

public void mouseDragged(MouseEvent me,
                         Layer la,
                         int x_p,
                         int y_p,
                         int x_d,
                         int y_d,
                         int x_d_old,
                         int y_d_old)

Overrides:

mouseDragged in class Displayable

mouseReleased

public void mouseReleased(MouseEvent me,
                          Layer la,
                          int x_p,
                          int y_p,
                          int x_d,
                          int y_d,
                          int x_r,
                          int y_r)

Overrides:

mouseReleased in class Displayable

calculateBoundingBox

protected boolean calculateBoundingBox(Layer la)

Specified by:

calculateBoundingBox in class ZDisplayable

exportDTD

public static void exportDTD(StringBuilder sb_header,
                             HashSet<String> hs,
                             String indent)

exportXML

public void exportXML(StringBuilder sb_body,
                      String indent,
                      XMLOptions options)

Description copied from class: Displayable

The oid is this objects' id, whereas the 'id' tag will be the id of the wrapper Thing object.

Overrides:

exportXML in class ZDisplayable

addItem

public void addItem(int tag,
                    int radius,
                    String data)

For reconstruction purposes from XML.

getInfo

public String getInfo()

Returns: - first line: the title of this dissector - second line: the number of items included in this dissector and then a list of 5 tab-separated columns: item tag, radius, x, y, z

Overrides:

getInfo in class DBObject

paintSnapshot

public void paintSnapshot(Graphics2D g,
                          Layer layer,
                          List<Layer> layers,
                          Rectangle srcRect,
                          double mag)

Always paint as box. TODO paint as the area of an associated ROI.

Overrides:

paintSnapshot in class Displayable

intersects

public boolean intersects(Area area,
                          double z_first,
                          double z_last)

Specified by:

intersects in class ZDisplayable

measure

public ij.measure.ResultsTable measure(ij.measure.ResultsTable rt)

Description copied from class: Displayable

Does nothing unless overriden.

Overrides:

measure in class Displayable

crop

public boolean crop(List<Layer> range)

Retain the data within the layer range, and through out all the rest.

Overrides:

crop in class ZDisplayable

layerRemoved

protected boolean layerRemoved(Layer la)

Description copied from class: ZDisplayable

Update internal datastructures to reflect the fact that @param layer has been removed from the containing LayerSet.

Overrides:

layerRemoved in class ZDisplayable

apply

public boolean apply(Layer la,
                     Area roi,
                     CoordinateTransform ict)
              throws Exception

Description copied from interface: VectorData

Applies the 2D transform @ict (which is expected to operate on the world coordinates version of the data contained here) only to the data that falls within the @param roi (in world coords), and then recomputes the bounding box and affine transform (to a translation or identity). Does not consider links.

Specified by:

apply in interface VectorData

Parameters:

la - Only data at this Layer may be transformed.

roi - Only data inside this world-coordinates Area may be transformed.

ict - The transform to apply to the data that is in @param la and within @param roi.

Throws:

Exception

apply

public boolean apply(VectorDataTransform vdt)
              throws Exception

Specified by:

apply in interface VectorData

Throws:

Exception

getLayerIds

public Collection<Long> getLayerIds()

Description copied from class: ZDisplayable

Get the list of Layer ids on which this ZDisplayable has data on.

Overrides:

getLayerIds in class ZDisplayable

getAreaAt

public Area getAreaAt(Layer layer)

Description copied from class: Displayable

This area is meant to represent the entire area where a Displayable paints to in the @param layer. But for some this is reduced to areas with data, not with interpolated data. For example, a Polyine would show a list of little 1x1 rectangles for each point in the @param layer.

Overrides:

getAreaAt in class Displayable