java.lang.Object

org.AttributeHelper

All Implemented Interfaces:: HelperClass

public class AttributeHelper
extends Object
implements HelperClass

Attribute Helper Class - Makes it more easy to work with graph/node attributes.

Version:: $Revision: 1.129.2.1.2.1 $
Author:: Christian Klukas

Field Summary

Fields

Modifier and Type Field Description

static String attributeSeparator

static String id_ttestCircleSize

static Color[] knownColors

static String preFilePath
Constructor Summary

Constructors

Constructor Description

AttributeHelper()

Method Summary

Modifier and Type	Method	Description
`static void`	`addAttributeFolder(Attributable attributable, String path)`
`static void`	`addAttributeFolder(Attributable attributable, String path, boolean overwrite)`
`static CoordinateAttribute`	`addEdgeBend(Edge edge, double x, double y)`
`static CoordinateAttribute`	`addEdgeBend(Edge edge, double x, double y, boolean safeAdd)`
`static void`	`addEdgeBend(Edge edge, Vector2d point)`
`static void`	`addEdgeBends(Edge edge, Collection<Vector2d> points)`
`static boolean`	`addEdgeShape(String description, String className)`
`static void`	`copyReplaceStringAttribute(Attributable a, String path, String name, String copyTo, String searchString, String replaceString)`
`static boolean`	`deleteAttribute(Attributable attributable, String path, String name)`	Removes a single attribute or a number of attributes from the Attributable.
`static String`	`formatNumber(double d, String pattern)`
`static String`	`getArrowhead(Edge edge)`
`static double`	`getArrowSize(Edge edge)`
`static String`	`getArrowtail(Edge edge)`
`static Attribute`	`getAttribute(Attributable attributable, String attributeName)`
`static Object`	`getAttributeValue(Attributable attributable, String path, String attributeName, Object defaultValue, Object resultType)`
`static Object`	`getAttributeValue(Attributable attributable, String path, String attributeName, Object defaultValue, Object resultType, boolean setDefaultIfMissing)`	Return an Attribute value, if not present, return the defaultValue.
`static Set<Object>`	`getAttributeValueSet(Collection<Attributable> attributables, String path, String attributeName, Object defaultValue, Object resultType, boolean setDefaultIfMissing)`
`static Color`	`getColorFrom3floatValues0to1(String color, Color ifUnkown)`
`static Color`	`getColorFromAttribute(Attributable attr, String path, String name, Color defaultValue)`
`static Color`	`getColorFromName(String name, Color ifUnkown)`
`static String`	`getColorName(Color attrColor)`
`static float[]`	`getDashInfo(Edge edge)`
`static Date`	`getDateFromString(String value)`
`static String`	`getDateString(Date date)`	If date is null, the current date is used!
`static String`	`getDefaultAttributeDescriptionFor(String id, String tabName, Attribute a)`
`static ImageIcon`	`getDefaultAttributeIconFor(String id)`
`static CollectionAttribute`	`getDefaultGraphicsAttributeForEdge(Color colArrow, Color colLine, boolean directed)`
`static CollectionAttribute`	`getDefaultGraphicsAttributeForKeggNode(double x, double y)`
`static CollectionAttribute`	`getDefaultGraphicsAttributeForNode(double x, double y)`
`static CollectionAttribute`	`getDefaultGraphicsAttributeForNode(Vector2d position)`
`static double`	`getDepth(Node node, double defaultReturn, boolean setDefault)`
`static ArrayList<CoordinateAttribute>`	`getEdgeBendCoordinateAttributes(Edge edge)`
`static ArrayList<Vector2d>`	`getEdgeBends(Edge edge)`
`static String`	`getEdgeBendStyle(Edge edge)`
`static HashMap<String,String>`	`getEdgeShapes()`
`static String`	`getEncodedUrl(String input)`
`static Color`	`getFillColor(Attributable attributable)`	Returns the fill color of a given `Atttibutable`.
`static double`	`getFrameThickNess(GraphElement ge)`
`static HashSet<String>`	`getFuzzyLabels(String label)`
`static double`	`getHeatMapGamma(Graph graph)`
`static double`	`getHeatMapLowerBound(Graph graph)`
`static double`	`getHeatMapMiddleBound(Graph graph)`
`static double`	`getHeatMapUpperBound(Graph graph)`
`static double`	`getHeight(Node myNode)`
`static String`	`getHelpTopicFor(String tabName, String groupName)`
`static String`	`getLabel(int index, Attributable node, String defaultReturn)`
`static EdgeLabelAttribute`	`getLabel(int index, Edge edge)`	Get EdgeLabelAttribute (if available)
`static NodeLabelAttribute`	`getLabel(int index, Node node)`	Get NodeLabelAttribute (if available)
`static String`	`getLabel(Attributable node, String defaultReturn)`	Gets the Label of a Node
`static AlignmentSetting`	`getLabelAlignment(int index, Node node)`
`static Color`	`getLabelColor(Node n)`
`static String`	`getLabelConsumption(Edge e, String returnIfNull)`
`Vector2d`	`getLabelOffset(Attributable attributable)`	Get the relative offset of label position from center of a node.
`static String`	`getLabelPath()`	Get the Labelpath
`static String`	`getLabelPosition(Attributable attributable)`
`static String`	`getLabelProduction(Edge e, String returnIfNull)`
`static ArrayList<String>`	`getLabels(GraphElement graphElement)`
`static ArrayList<String>`	`getLabels(GraphElement graphElement, boolean includeMainLabel)`
`static String`	`getMD5fromFile(File f)`	Deprecated.
`static String`	`getMD5fromFile(String filename)`	Deprecated.
`static String`	`getMD5fromInputStream(InputStream is)`	Deprecated.
`static String`	`getMD5fromInputStream(InputStream is, ObjectRef optFileSize)`	Deprecated.
`static EdgeGraphicAttribute`	`getNewEdgeGraphicsAttribute(Color colArrow, Color colLine, boolean directed)`
`static String`	`getNiceEdgeOrNodeLabel(GraphElement ge, String nodeLabelIfMissing)`
`static String`	`getNiceIdFromAttributeId(String attributeId)`
`static Rectangle2D.Double`	`getNodeRectangle(Node node)`
`static Rectangle`	`getNodeRectangleAWT(Node node)`
`static double`	`getOpacity(GraphElement ge)`	Gets the opacity of a given graph element
`static Color`	`getOutlineColor(Attributable attributable)`	Returns the outline color of a given `Atttibutable`.
`static String`	`getPathwayReference(Attributable a)`
`static ArrayList<String>`	`getPathwayReferences(Attributable a, boolean includeOnlyIndexed)`
`static Point2D`	`getPosition(Node a)`	Returns the position of a node
`static Vector2d`	`getPositionVec2d(Node a)`	Returns the position of a node
`static Vector2df`	`getPositionVec2df(Node a)`	Returns the position of a node
`static Vector3d`	`getPositionVec3d(Node node, boolean setDefault)`	If setDefault is true, values will be initilized, saved and returned as 0.
`static Vector3d`	`getPositionVec3d(Node node, double zReturnIfNotAvailable, boolean setDefaultZ)`
`static double`	`getPositionX(Node a)`	For getting the x position of a node through attribute access,
`static double`	`getPositionY(Node a)`	For geting the y position of a node through attribute access,
`static double`	`getPositionZ(Node node, boolean setDefault)`
`static double`	`getPositionZ(Node node, double defaultReturn, boolean setDefault)`
`static String`	`getReferenceURL(Attributable ge)`
`static double`	`getRoundedEdges(Node node)`
`static String`	`getSaveAttributeName(String attributeName)`
`static String`	`getSBMLid(GraphElement ge)`
`static String`	`getSBMLrole(GraphElement ge)`
`static String`	`getShape(Node node)`
`static String[]`	`getShapeClasses()`
`static String`	`getShapeClassFromDescription(String desc)`
`static String`	`getShapeClassFromShapeName(String s)`
`static String[]`	`getShapeDescritions()`
`static Vector2d`	`getSize(Node myNode)`	Gets the size of the Node.
`static Vector3d`	`getSize3D(Node myNode, double defaultDepth, boolean setDefault)`
`static Dimension`	`getSizeD(Node myNode)`	Gets the size of the Node.
`static String`	`getStringList(File[] elements, String div)`
`static String`	`getStringList(String[] elements, String div)`
`static String`	`getStringList(ArrayList<?> elements, String div)`	Deprecated. Use `StringManipulationTools.getStringList(ArrayList,String)` instead
`static String`	`getStringList(Collection elements, String div)`
`static String`	`getToBeDeletedPathFromAttributePath(String attributePath)`
`static String`	`getToolTipText(Attributable atta)`
`static ArrayList<String>`	`getWebPageContent(String urlText)`
`static double`	`getWidth(Node myNode)`
`static boolean`	`hasAttribute(Attributable n, String attributeName)`	Check the existence of a named Attribute
`static boolean`	`hasAttribute(Attributable n, String path, String attributeName)`
`static boolean`	`isHiddenGraphElement(GraphElement ge)`
`static boolean`	`isLabelAlignmentKnownConstant(int index, Node node)`
`static boolean`	`isSBMLreaction(GraphElement ge)`
`static boolean`	`isSBMLreversibleReaction(GraphElement ge)`
`static boolean`	`linuxRunning()`
`static boolean`	`macOSrunning()`
`static void`	`moveGraph(Graph graph, int x, int y)`
`static void`	`removeEdgeBends(Edge edge)`
`static void`	`removePathwayReferences(Attributable a, boolean includeNonIndexed)`
`static void`	`setArrowhead(Edge edge, boolean show)`
`static void`	`setArrowhead(Edge edge, String knownShapeClassName)`
`static void`	`setArrowSize(Edge edge, double arrowSize)`
`static void`	`setArrowtail(Edge edge, boolean show)`	Assign a arrow shape in the opposite direction.of an edge.
`static void`	`setArrowtail(Edge edge, String knownShapeClassName)`
`static void`	`setAttribute(Attributable attributable, String path, String attributeName, Object attributeValue)`	SetAttribute, sets or adds a attribute to the given `Attributeable`.
`static void`	`setAttributeTextField(Attributable attributable, String path, String attributeName, Object attributeValue)`	setAttributeTextField
`static void`	`setBorderWidth(Edge edge, double frameThickness)`
`static void`	`setBorderWidth(GraphElement graphElement, double frameThickness)`
`static void`	`setBorderWidth(Node node, double frameThickness)`
`static void`	`setColorFromAttribute(Attributable attr, String path, String name, Color value)`
`static void`	`setDashArray(Edge edge, float[] dashArray)`
`static void`	`setDashArray(Edge edge, float[] dashArray, float dashphase)`
`static void`	`setDashInfo(GraphElement edgeOrNode, float[] values)`
`static void`	`setDashInfo(GraphElement edgeOrNode, float a, float b)`
`static void`	`setDefaultGraphicsAttribute(Node node, double x, double y)`
`static void`	`setDefaultGraphicsAttribute(Node newNode, Point2D position)`
`static void`	`setDeleteableAttribute(String attributePath, String pathToBeDeleted)`	Memorizes an attribute, which's editor may be clicked, resulting in the deletion of an attribute (not necessarily the clicked one):
`static void`	`setDepth(Node node, double depth)`
`static void`	`setEdgeBendStyle(Edge edge, String shape)`
`static void`	`setFillColor(Attributable attributable, Color color)`	Sets the fill color of a given `Atttibutable`.
`static void`	`setFillColorHEX(Attributable attr, String hexStr)`
`static void`	`setFont(LabelAttribute label, String fontName)`	Sets the font to use when the label is drawed.
`static void`	`setFrameThickNess(GraphElement ge, double frameThinkness)`
`static void`	`setHeight(Node myNode, double height)`
`static void`	`setHidden(boolean doHide, GraphElement ge)`
`static void`	`setHidden(boolean doHide, Node n, boolean processOutEdges, boolean processInEdges, boolean processUndirEdges)`
`static void`	`setHidden(Collection<GraphElement> graphElements, boolean doHide)`
`static void`	`setHidden(Set<GraphElement> graphElements, boolean doHide)`
`static void`	`setKEGGhiddenCompoundInformation(Edge e, String compID)`
`static void`	`setLabel(int idx, GraphElement ge, String label, String fontName, String alignment)`
`static void`	`setLabel(Edge edge, String label)`	Sets the Label of a Edge
`static void`	`setLabel(Edge edge, String label, String fontName)`	Sets the label of an edge
`static void`	`setLabel(GraphElement ge, String label)`
`static void`	`setLabel(Node node, String label)`	Sets the Label of a Node.
`static void`	`setLabel(Node node, String label, String fontName, String alignment)`	Sets the label of a node.
`static void`	`setLabelAlignment(int index, Node node, AlignmentSetting align)`
`static void`	`setLabelColor(int index, GraphElement ge, Color color)`
`static void`	`setLabelConsumption(Edge e, String srcLabel)`
`static void`	`setLabelFrameStyle(int index, Node n, LabelFrameSetting setting)`
`static void`	`setLabelOffset(Attributable attributable, double offsetX, double offsetY)`	Set the relative offset of label position from center of a node.
`static void`	`setLabelPosition(Node node, String pos)`
`static void`	`setLabelProduction(Edge e, String tgtLabel)`
`static void`	`setMacOSsettings(String applicationName)`
`static void`	`setNiceId(String attributeID, String description)`	Memorize a attribute description, shown in the node, edge and graph tabs, for display instead of a attribute name.
`static void`	`setNodeGraphicsAttribute(double posx, double posy, double frameThickness_3, double width_25, double height_25, Color frameColor_0_0_0_255, Color fillColor_0_100_250_100, CollectionAttribute col)`
`static void`	`setOpacity(GraphElement ge, double opacity)`	Sets the opacity of a given graph element This value will also influence the opacity of dependent Graph Attribute Components (Labels, Charts, etc)
`static void`	`setOutlineColor(Attributable attributable, Color color)`	Sets the outline color of a given `Atttibutable`.
`static void`	`setOutlineColorHEX(Attributable attr, String hexStr)`
`static void`	`setPathwayReference(Attributable a, int idx, String url)`
`static void`	`setPathwayReference(GraphElement ge, String url)`
`static void`	`setPosition(Node n, double x, double y)`	Sets the position of a node
`static void`	`setPosition(Node n, Point2D p)`	Sets the position of a node
`static void`	`setPosition(Node node, Vector2d position)`
`static void`	`setPosition3d(Node n, double x, double y, double z)`
`static void`	`setPositionZ(Node node, double z)`
`static void`	`setReferenceURL(Attributable ge, String url)`
`static void`	`setRoundedEdges(Node node, double rounding)`
`static void`	`setSBMLid(GraphElement ge, String id)`
`static void`	`setSBMLmodelID(GraphElement ge, String modelID)`
`static void`	`setSBMLreversibleReaction(GraphElement ge, String reactionReversible)`
`static void`	`setSBMLrole(GraphElement ge, String role)`
`static void`	`setShape(Edge edge, String knownShapeClassName)`
`static void`	`setShape(Node node, String knownShapeClassName)`
`static void`	`setShapeEllipse(Node node)`
`static void`	`setShapeRectangle(Node node)`
`static void`	`setSize(Node myNode, double width, double height)`	Sets the size of the Node.
`static void`	`setSize(Node myNode, int width, int height)`	Sets the size of the Node.
`static void`	`setSize(Node myNode, Vector2d newSize)`	Sets the size of the Node.
`static void`	`setToolTipText(Attributable atta, String statusText)`
`static void`	`setVisibilityOfChildElements(Collection<Node> nodes, boolean doHide)`
`static void`	`setWidth(Node myNode, double width)`
`static void`	`showInBrowser(String url)`
`static void`	`switchVisibilityOfChildElements(Collection<Node> nodes)`
`static boolean`	`windowsRunning()`

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Details
- attributeSeparator
  
  public static String attributeSeparator
- id_ttestCircleSize
  
  public static String id_ttestCircleSize
- knownColors
  
  public static final Color[] knownColors
- preFilePath
  
  public static String preFilePath
Constructor Details
- AttributeHelper
  
  public AttributeHelper()
Method Details
- getEncodedUrl
  
  public static String getEncodedUrl(String input)
- showInBrowser
  
  public static void showInBrowser(String url)
- macOSrunning
  
  public static boolean macOSrunning()
- setMacOSsettings
  
  public static void setMacOSsettings(String applicationName)
- getDefaultAttributeDescriptionFor
  
  public static String getDefaultAttributeDescriptionFor(String id, String tabName, Attribute a)
- setDeleteableAttribute
  
  public static void setDeleteableAttribute(String attributePath, String pathToBeDeleted)
  Memorizes an attribute, which's editor may be clicked, resulting in the deletion of an attribute (not necessarily the clicked one):
  attributePath:
  
  ".mapping.measurementdata" -> this attribute will be clickable
  
  ".mapping." -> this attribute and all child attributes will be clickable
  
  pathToBeDeleted:
  
  "mapping" -> attribute ".mapping" (and all child attributes) will be deleted
  
  "graphics.component" -> attribute ".graphics.component" (and all child attributes) will be deleted, but not any other ".graphics." attributes
  
  "mapping$charting" -> attributes ".mapping", ".charting" and all child attributes will be deleted. "$" may be used more than once
  Parameters:
  
  attributePath - The path of the attribute, which will be clickable
  
  pathToBeDeleted - The path(s) of the attribute(s) to be deleted
- getToBeDeletedPathFromAttributePath
  
  public static String getToBeDeletedPathFromAttributePath(String attributePath)
- setNiceId
  
  public static void setNiceId(String attributeID, String description)
  
  Memorize a attribute description, shown in the node, edge and graph tabs, for display instead of a attribute name. Use "A:B" as the description, to create a group "A", which contains a item "B", for the given attributeID.
  
  Parameters:
  
  attributeID - The name of the attribute
  
  description - The group and "nice name" of the attribute
- getNiceIdFromAttributeId
  
  public static String getNiceIdFromAttributeId(String attributeId)
- getLabelPath
  
  public static String getLabelPath()
  
  Get the Labelpath
  
  Returns:
  
  Label Path
- setLabel
  
  public static void setLabel(Edge edge, String label)
  
  Sets the Label of a Edge
  
  Parameters:
  
  edge - The Node to work with
  
  label - The new label for the node (created if not available)
- setLabel
  
  public static void setLabel(Node node, String label)
  
  Sets the Label of a Node. If the given label is null, the label attribute is removed from the node.
  
  Parameters:
  
  node - The Node to work with
  
  label - The new label for the node (created if not available)
- setLabel
  
  public static void setLabel(Edge edge, String label, String fontName)
  
  Sets the label of an edge
  
  Parameters:
  
  edge - - the edge to use
  
  label - - the new label for the edge (created if not available)
  
  fontName - - the name of the font to use with this label
- setLabel
  
  public static void setLabel(Node node, String label, String fontName, String alignment)
  
  Sets the label of a node. If the given label is null, the label attribute is removed from the node.
  
  Parameters:
  
  node - - the node to use
  
  label - - the new label for the node (created if not available)
  
  fontName - - the name of the font to use with this label
- setLabel
  
  public static void setLabel(int idx, GraphElement ge, String label, String fontName, String alignment)
  
  Parameters:
  
  idx - Use -1 to get main label, use 0..99 to get annotation labels
- setLabelAlignment
  
  public static void setLabelAlignment(int index, Node node, AlignmentSetting align)
  
  Parameters:
  
  index - Use -1 to get main label, use 0..99 to get annotation labels
- getLabelAlignment
  
  public static AlignmentSetting getLabelAlignment(int index, Node node)
  
  Parameters:
  
  index - Use -1 to get main label, use 0..99 to get annotation labels
- isLabelAlignmentKnownConstant
  
  public static boolean isLabelAlignmentKnownConstant(int index, Node node)
  
  Parameters:
  
  index - Use -1 to get main label, use 0..99 to get annotation labels
- setFont
  
  public static void setFont(LabelAttribute label, String fontName)
  
  Sets the font to use when the label is drawed.
  
  Parameters:
  
  label - - the label
  
  fontName - - the name of the font
- getLabel
  
  public static String getLabel(Attributable node, String defaultReturn)
  
  Gets the Label of a Node
  
  Parameters:
  
  node - The node to work with
  
  defaultReturn - The standard return value if no label is set
  
  Returns:
  
  The actual label or the labelDefaul value, if the label-attribute is not set.
- getLabels
  
  public static ArrayList<String> getLabels(GraphElement graphElement, boolean includeMainLabel)
- getLabels
  
  public static ArrayList<String> getLabels(GraphElement graphElement)
- getLabel
  
  public static String getLabel(int index, Attributable node, String defaultReturn)
  
  Parameters:
  
  index - Use -1 to get main label, use 0..99 to get annotation labels
- hasAttribute
  
  public static boolean hasAttribute(Attributable n, String attributeName)
  
  Check the existence of a named Attribute
  
  Parameters:
  
  n - The node to work with
  
  attributeName - The name of the attribute to be checked
  
  Returns:
  
  True, if the attribute is available for the node n. False, if the attribute is not available.
- hasAttribute
  
  public static boolean hasAttribute(Attributable n, String path, String attributeName)
- setPosition
  
  public static void setPosition(Node n, Point2D p)
  
  Sets the position of a node
  
  Parameters:
  
  n - The node to work with
  
  p - The new position as a Point2D
- setPosition
  
  public static void setPosition(Node n, double x, double y)
  
  Sets the position of a node
  
  Parameters:
  
  n - The node to work with
  
  p - The new position as a Point2D
- setPosition3d
  
  public static void setPosition3d(Node n, double x, double y, double z)
- getPositionX
  
  public static double getPositionX(Node a)
  
  For getting the x position of a node through attribute access,
  
  Parameters:
  
  a - Node to be analyzed.
  
  Returns:
  
  X position of node.
- getPosition
  
  public static Point2D getPosition(Node a)
  
  Returns the position of a node
  
  Parameters:
  
  a - The node to be analyzed.
  
  Returns:
  
  The position of the Node (aPoint2D structure)
- getPositionVec2d
  
  public static Vector2d getPositionVec2d(Node a)
  
  Returns the position of a node
  
  Parameters:
  
  a - The node to be analyzed.
  
  Returns:
  
  The position of the Node (aVector2d structure)
- getPositionVec2df
  
  public static Vector2df getPositionVec2df(Node a)
  
  Returns the position of a node
  
  Parameters:
  
  a - The node to be analyzed.
  
  Returns:
  
  The position of the Node (aVector2df structure)
- getPositionY
  
  public static double getPositionY(Node a)
  
  For geting the y position of a node through attribute access,
  
  Parameters:
  
  a - Node to be analysed.
  
  Returns:
  
  Y position of node.
- getSize
  
  public static Vector2d getSize(Node myNode)
  
  Gets the size of the Node.
  
  Parameters:
  
  myNode -
  
  Returns:
  
  Tehe size as a Vector2d structure.
- setSize
  
  public static void setSize(Node myNode, double width, double height)
  
  Sets the size of the Node.
  
  Parameters:
  
  myNode -
  
  width - New width
  
  height - New height
- setHeight
  
  public static void setHeight(Node myNode, double height)
- setWidth
  
  public static void setWidth(Node myNode, double width)
- setSize
  
  public static void setSize(Node myNode, int width, int height)
  
  Sets the size of the Node.
  
  Parameters:
  
  myNode -
  
  width - New width
  
  height - New height
- setSize
  
  public static void setSize(Node myNode, Vector2d newSize)
  
  Sets the size of the Node.
  
  Parameters:
  
  myNode -
  
  newSize - The new size as a Vector2d struct. X = width, Y = height.
- setFillColor
  
  public static void setFillColor(Attributable attributable, Color color)
  
  Sets the fill color of a given Atttibutable.
  
  Parameters:
  
  attributable - - the Attributable (Node, Edge, ...) to set the color
  
  color - - the color to set
  
  See Also:
  
  getFillColor(Attributable), setOutlineColor(Attributable, Color), getOutlineColor(Attributable)
- getFillColor
  
  public static Color getFillColor(Attributable attributable)
  
  Returns the fill color of a given Atttibutable.
  
  Parameters:
  
  attributable - - the Attributable (Node, Edge, ...) to get the color from
  
  See Also:
  
  setFillColor(Attributable, Color), setOutlineColor(Attributable, Color), getOutlineColor(Attributable)
- setOutlineColor
  
  public static void setOutlineColor(Attributable attributable, Color color)
  
  Sets the outline color of a given Atttibutable.
  
  Parameters:
  
  attributable - - the Attributable (Node, Edge, ...) to set the color
  
  color - - the color to set
  
  See Also:
  
  getOutlineColor(Attributable), setFillColor(Attributable, Color), getFillColor(Attributable)
- getOutlineColor
  
  public static Color getOutlineColor(Attributable attributable)
  
  Returns the outline color of a given Atttibutable.
  
  Parameters:
  
  attributable - - the Attributable (Node, Edge, ...) to get the color from
  
  See Also:
  
  setOutlineColor(Attributable, Color), setFillColor(Attributable, Color), getFillColor(Attributable)
- setOpacity
  
  public static void setOpacity(GraphElement ge, double opacity)
  
  Sets the opacity of a given graph element This value will also influence the opacity of dependent Graph Attribute Components (Labels, Charts, etc)
  
  Parameters:
  
  ge - graph element
  
  opacity - a value between 0.0 (transparent) and 1.0 (opaque)
- getOpacity
  
  public static double getOpacity(GraphElement ge)
  
  Gets the opacity of a given graph element
  
  Parameters:
  
  ge - graph element
  
  opacity - a value between 0.0 (transparent) and 1.0 (opaque)
- setAttribute
  
  public static void setAttribute(Attributable attributable, String path, String attributeName, Object attributeValue)
  
  SetAttribute, sets or adds a attribute to the given Attributeable. If the attributeValue is from a known type (Boolean, Byte, Double, Float, Integer, Long, Short or String) the attribute values are set with "standard attributes". If it has a unknown type a ObjectAttribute is added or set. These attributes can not be saved or loaded, so this should be avoided if possible.
- setAttributeTextField
  
  public static void setAttributeTextField(Attributable attributable, String path, String attributeName, Object attributeValue)
  
  setAttributeTextField
- getAttributeValueSet
  
  public static Set<Object> getAttributeValueSet(Collection<Attributable> attributables, String path, String attributeName, Object defaultValue, Object resultType, boolean setDefaultIfMissing)
- getAttributeValue
  
  public static Object getAttributeValue(Attributable attributable, String path, String attributeName, Object defaultValue, Object resultType)
- getAttributeValue
  
  public static Object getAttributeValue(Attributable attributable, String path, String attributeName, Object defaultValue, Object resultType, boolean setDefaultIfMissing)
  
  Return an Attribute value, if not present, return the defaultValue.
- getAttribute
  
  public static Attribute getAttribute(Attributable attributable, String attributeName)
  
  Parameters:
  
  attributable -
  
  attributeName -
  
  Returns:
- addAttributeFolder
  
  public static void addAttributeFolder(Attributable attributable, String path)
  
  Parameters:
  
  attributable - An attributable is usually a graph, node or an edge.
  
  path - Path can be a simple ID or a composite path built using attributeSeparators.
- addAttributeFolder
  
  public static void addAttributeFolder(Attributable attributable, String path, boolean overwrite)
  
  Parameters:
  
  attributable - An attributable is usually a graph, node or an edge.
  
  path - Path can be a simple ID or a composite path built using attributeSeparators.
  
  overwrite - Whether, while adding new folders, any existing folders should be overwritten.
  
  Since:
  
  2.7.0
- getFrameThickNess
  
  public static double getFrameThickNess(GraphElement ge)
  
  Parameters:
  
  ge -
  
  Returns:
- setFrameThickNess
  
  public static void setFrameThickNess(GraphElement ge, double frameThinkness)
- setDefaultGraphicsAttribute
  
  public static void setDefaultGraphicsAttribute(Node node, double x, double y)
  
  Parameters:
  
  node -
- setNodeGraphicsAttribute
  
  public static void setNodeGraphicsAttribute(double posx, double posy, double frameThickness_3, double width_25, double height_25, Color frameColor_0_0_0_255, Color fillColor_0_100_250_100, CollectionAttribute col)
  
  Parameters:
  
  posx -
  
  posy -
  
  frameThickness_3 -
  
  width_25 -
  
  height_25 -
  
  frameColor_0_0_0_255 -
  
  fillColor_0_100_250_100 -
  
  col -
- setDefaultGraphicsAttribute
  
  public static void setDefaultGraphicsAttribute(Node newNode, Point2D position)
  
  Parameters:
  
  newNode -
  
  position -
- getDefaultGraphicsAttributeForEdge
  
  public static CollectionAttribute getDefaultGraphicsAttributeForEdge(Color colArrow, Color colLine, boolean directed)
- getNewEdgeGraphicsAttribute
  
  public static EdgeGraphicAttribute getNewEdgeGraphicsAttribute(Color colArrow, Color colLine, boolean directed)
- getSizeD
  
  public static Dimension getSizeD(Node myNode)
  
  Gets the size of the Node.
  
  Parameters:
  
  myNode -
  
  Returns:
  
  Tehe size as a Vector2d structure.
- getSize3D
  
  public static Vector3d getSize3D(Node myNode, double defaultDepth, boolean setDefault)
- getWidth
  
  public static double getWidth(Node myNode)
- getHeight
  
  public static double getHeight(Node myNode)
- setPosition
  
  public static void setPosition(Node node, Vector2d position)
  
  Parameters:
  
  node -
  
  oldPos -
- setToolTipText
  
  public static void setToolTipText(Attributable atta, String statusText)
- getToolTipText
  
  public static String getToolTipText(Attributable atta)
- setBorderWidth
  
  public static void setBorderWidth(Node node, double frameThickness)
- setBorderWidth
  
  public static void setBorderWidth(GraphElement graphElement, double frameThickness)
- setBorderWidth
  
  public static void setBorderWidth(Edge edge, double frameThickness)
- setArrowSize
  
  public static void setArrowSize(Edge edge, double arrowSize)
- getArrowSize
  
  public static double getArrowSize(Edge edge)
- setFillColorHEX
  
  public static void setFillColorHEX(Attributable attr, String hexStr)
  
  Parameters:
  
  attr -
  
  hexStr - A color defined like #FFFFFF (must be 6 characters (hex) for the color components)
- setOutlineColorHEX
  
  public static void setOutlineColorHEX(Attributable attr, String hexStr)
  
  Parameters:
  
  attr -
  
  hexStr - A color defined like #FFFFFF (must be 6 characters (hex) for the color components)
- setSBMLid
  
  public static void setSBMLid(GraphElement ge, String id)
- getSBMLid
  
  public static String getSBMLid(GraphElement ge)
- setSBMLmodelID
  
  public static void setSBMLmodelID(GraphElement ge, String modelID)
- setSBMLreversibleReaction
  
  public static void setSBMLreversibleReaction(GraphElement ge, String reactionReversible)
- isSBMLreversibleReaction
  
  public static boolean isSBMLreversibleReaction(GraphElement ge)
- isSBMLreaction
  
  public static boolean isSBMLreaction(GraphElement ge)
- setSBMLrole
  
  public static void setSBMLrole(GraphElement ge, String role)
- getSBMLrole
  
  public static String getSBMLrole(GraphElement ge)
- setRoundedEdges
  
  public static void setRoundedEdges(Node node, double rounding)
- getRoundedEdges
  
  public static double getRoundedEdges(Node node)
- setKEGGhiddenCompoundInformation
  
  public static void setKEGGhiddenCompoundInformation(Edge e, String compID)
- getDefaultAttributeIconFor
  
  public static ImageIcon getDefaultAttributeIconFor(String id)
- getColorFrom3floatValues0to1
  
  public static Color getColorFrom3floatValues0to1(String color, Color ifUnkown)
- getColorFromName
  
  public static Color getColorFromName(String name, Color ifUnkown)
- getColorName
  
  public static String getColorName(Color attrColor)
- setDashInfo
  
  public static void setDashInfo(GraphElement edgeOrNode, float a, float b)
- setDashInfo
  
  public static void setDashInfo(GraphElement edgeOrNode, float[] values)
- getDashInfo
  
  public static float[] getDashInfo(Edge edge)
- getDefaultGraphicsAttributeForNode
  
  public static CollectionAttribute getDefaultGraphicsAttributeForNode(Vector2d position)
- getDefaultGraphicsAttributeForNode
  
  public static CollectionAttribute getDefaultGraphicsAttributeForNode(double x, double y)
- getDefaultGraphicsAttributeForKeggNode
  
  public static CollectionAttribute getDefaultGraphicsAttributeForKeggNode(double x, double y)
- getHelpTopicFor
  
  public static String getHelpTopicFor(String tabName, String groupName)
- copyReplaceStringAttribute
  
  public static void copyReplaceStringAttribute(Attributable a, String path, String name, String copyTo, String searchString, String replaceString)
- setLabel
  
  public static void setLabel(GraphElement ge, String label)
- getLabelPosition
  
  public static String getLabelPosition(Attributable attributable)
- setLabelPosition
  
  public static void setLabelPosition(Node node, String pos)
- getLabelOffset
  
  public Vector2d getLabelOffset(Attributable attributable)
  
  Get the relative offset of label position from center of a node. Offset is relative to node width/height; (0, 0) center of node, (-1, -1) top-left corner of node, (1, -1) top-right corner of node, (1, 1) bottom-right corner of node, (-1, 1) bottom-left corner of node.
  
  Parameters:
  
  attributable - currently only a node
  
  Returns:
  
  relative offset of label position from center of a node, default return (0, 0)
- setLabelOffset
  
  public static void setLabelOffset(Attributable attributable, double offsetX, double offsetY)
  
  Set the relative offset of label position from center of a node. Offset is relative to node width/height; (0, 0) center of node, (-1, -1) top-left corner of node, (1, -1) top-right corner of node, (1, 1) bottom-right corner of node, (-1, 1) bottom-left corner of node.
  
  Parameters:
  
  attributable - currently only a node
  
  offsetX - horizontal offset of label position from center of a node
  
  offsetY - vertical offset of label position from center of a node
- getLabel
  
  public static NodeLabelAttribute getLabel(int index, Node node)
  
  Get NodeLabelAttribute (if available)
  
  Parameters:
  
  index - Use -1 to get main label, use 0..99 to get annotation labels
  
  node - Node to be processed
  
  Returns:
  
  NodeLabelAttribute, if present, otherwise null.
- getLabel
  
  public static EdgeLabelAttribute getLabel(int index, Edge edge)
  
  Get EdgeLabelAttribute (if available)
  
  Parameters:
  
  index - Use -1 to get main label, use 0..99 to get annotation labels
  
  edge - Edge to be processed
  
  Returns:
  
  EdgeLabelAttribute, if present, otherwise null.
- setLabelFrameStyle
  
  public static void setLabelFrameStyle(int index, Node n, LabelFrameSetting setting)
- formatNumber
  
  public static String formatNumber(double d, String pattern)
- setDashArray
  
  public static void setDashArray(Edge edge, float[] dashArray)
- setDashArray
  
  public static void setDashArray(Edge edge, float[] dashArray, float dashphase)
- setShapeEllipse
  
  public static void setShapeEllipse(Node node)
- setShapeRectangle
  
  public static void setShapeRectangle(Node node)
- setShape
  
  public static void setShape(Node node, String knownShapeClassName)
- setShape
  
  public static void setShape(Edge edge, String knownShapeClassName)
- getShape
  
  public static String getShape(Node node)
- setArrowtail
  
  public static void setArrowtail(Edge edge, boolean show)
  
  Assign a arrow shape in the opposite direction.of an edge.
  
  Parameters:
  
  edge -
  
  show - If set to true, the edge will have on both ends an arrow
- setArrowhead
  
  public static void setArrowhead(Edge edge, boolean show)
- getArrowhead
  
  public static String getArrowhead(Edge edge)
- getArrowtail
  
  public static String getArrowtail(Edge edge)
- setArrowhead
  
  public static void setArrowhead(Edge edge, String knownShapeClassName)
- setArrowtail
  
  public static void setArrowtail(Edge edge, String knownShapeClassName)
- deleteAttribute
  
  public static boolean deleteAttribute(Attributable attributable, String path, String name)
  
  Removes a single attribute or a number of attributes from the Attributable. In case the name ends with "*", all attributes with a name, which starts with the same string, will be removed. Otherwise a single attribute (if available) with the exact name as given, is removed.
  
  Parameters:
  
  attributable -
  
  path -
  
  name - A name of a single attribute "test" or a group of attributes "test*" (test1, test2, testA, testABC, ...).
  
  Returns:
  
  True, if the removal was successful. Fals, if a error has occured, which is added to the system log.
- setLabelColor
  
  public static void setLabelColor(int index, GraphElement ge, Color color)
- getLabelColor
  
  public static Color getLabelColor(Node n)
- addEdgeBend
  
  public static void addEdgeBend(Edge edge, Vector2d point)
- addEdgeBends
  
  public static void addEdgeBends(Edge edge, Collection<Vector2d> points)
- addEdgeBend
  
  public static CoordinateAttribute addEdgeBend(Edge edge, double x, double y)
- addEdgeBend
  
  public static CoordinateAttribute addEdgeBend(Edge edge, double x, double y, boolean safeAdd)
- getEdgeBends
  
  public static ArrayList<Vector2d> getEdgeBends(Edge edge)
- getEdgeBendCoordinateAttributes
  
  public static ArrayList<CoordinateAttribute> getEdgeBendCoordinateAttributes(Edge edge)
- removeEdgeBends
  
  public static void removeEdgeBends(Edge edge)
- setEdgeBendStyle
  
  public static void setEdgeBendStyle(Edge edge, String shape)
- getEdgeShapes
  
  public static HashMap<String,String> getEdgeShapes()
- addEdgeShape
  
  public static boolean addEdgeShape(String description, String className)
- getEdgeBendStyle
  
  public static String getEdgeBendStyle(Edge edge)
- getWebPageContent
  
  public static ArrayList<String> getWebPageContent(String urlText)
- getNiceEdgeOrNodeLabel
  
  public static String getNiceEdgeOrNodeLabel(GraphElement ge, String nodeLabelIfMissing)
- getSaveAttributeName
  
  public static String getSaveAttributeName(String attributeName)
- getPositionVec3d
  
  public static Vector3d getPositionVec3d(Node node, boolean setDefault)
  
  If setDefault is true, values will be initilized, saved and returned as 0. Behaviour may be different between different getPosition* methods. (AAA)
  
  Parameters:
  
  node -
  
  setDefault -
  
  Returns:
  
  Position vector (3D)
- getPositionVec3d
  
  public static Vector3d getPositionVec3d(Node node, double zReturnIfNotAvailable, boolean setDefaultZ)
- getPositionZ
  
  public static double getPositionZ(Node node, boolean setDefault)
- getPositionZ
  
  public static double getPositionZ(Node node, double defaultReturn, boolean setDefault)
- setPositionZ
  
  public static void setPositionZ(Node node, double z)
- getDepth
  
  public static double getDepth(Node node, double defaultReturn, boolean setDefault)
- setDepth
  
  public static void setDepth(Node node, double depth)
- isHiddenGraphElement
  
  public static boolean isHiddenGraphElement(GraphElement ge)
- switchVisibilityOfChildElements
  
  public static void switchVisibilityOfChildElements(Collection<Node> nodes)
- setVisibilityOfChildElements
  
  public static void setVisibilityOfChildElements(Collection<Node> nodes, boolean doHide)
- setHidden
  
  public static void setHidden(boolean doHide, GraphElement ge)
- setHidden
  
  public static void setHidden(boolean doHide, Node n, boolean processOutEdges, boolean processInEdges, boolean processUndirEdges)
- setHidden
  
  public static void setHidden(Collection<GraphElement> graphElements, boolean doHide)
- setHidden
  
  public static void setHidden(Set<GraphElement> graphElements, boolean doHide)
- getStringList
  
  public static String getStringList(String[] elements, String div)
- getStringList
  
  public static String getStringList(File[] elements, String div)
- getStringList
  
  public static String getStringList(Collection elements, String div)
- getStringList
  
  @Deprecated public static String getStringList(ArrayList<?> elements, String div)
  
  Deprecated.
  Use StringManipulationTools.getStringList(ArrayList,String) instead
- setReferenceURL
  
  public static void setReferenceURL(Attributable ge, String url)
- getReferenceURL
  
  public static String getReferenceURL(Attributable ge)
- setPathwayReference
  
  public static void setPathwayReference(GraphElement ge, String url)
- setPathwayReference
  
  public static void setPathwayReference(Attributable a, int idx, String url)
- removePathwayReferences
  
  public static void removePathwayReferences(Attributable a, boolean includeNonIndexed)
- getPathwayReference
  
  public static String getPathwayReference(Attributable a)
- getPathwayReferences
  
  public static ArrayList<String> getPathwayReferences(Attributable a, boolean includeOnlyIndexed)
- getHeatMapLowerBound
  
  public static double getHeatMapLowerBound(Graph graph)
- getHeatMapMiddleBound
  
  public static double getHeatMapMiddleBound(Graph graph)
- getHeatMapUpperBound
  
  public static double getHeatMapUpperBound(Graph graph)
- getHeatMapGamma
  
  public static double getHeatMapGamma(Graph graph)
- moveGraph
  
  public static void moveGraph(Graph graph, int x, int y)
- linuxRunning
  
  public static boolean linuxRunning()
- windowsRunning
  
  public static boolean windowsRunning()
- getShapeClassFromShapeName
  
  public static String getShapeClassFromShapeName(String s)
- getShapeDescritions
  
  public static String[] getShapeDescritions()
- getShapeClassFromDescription
  
  public static String getShapeClassFromDescription(String desc)
- getShapeClasses
  
  public static String[] getShapeClasses()
- getLabelConsumption
  
  public static String getLabelConsumption(Edge e, String returnIfNull)
- getLabelProduction
  
  public static String getLabelProduction(Edge e, String returnIfNull)
- setLabelConsumption
  
  public static void setLabelConsumption(Edge e, String srcLabel)
- setLabelProduction
  
  public static void setLabelProduction(Edge e, String tgtLabel)
- getNodeRectangle
  
  public static Rectangle2D.Double getNodeRectangle(Node node)
- getNodeRectangleAWT
  
  public static Rectangle getNodeRectangleAWT(Node node)
- getColorFromAttribute
  
  public static Color getColorFromAttribute(Attributable attr, String path, String name, Color defaultValue)
- setColorFromAttribute
  
  public static void setColorFromAttribute(Attributable attr, String path, String name, Color value)
- getDateFromString
  
  public static Date getDateFromString(String value)
- getMD5fromFile
  
  @Deprecated public static String getMD5fromFile(String filename) throws Exception
  
  Deprecated.
  
  Throws:
  
  Exception
- getMD5fromFile
  
  @Deprecated public static String getMD5fromFile(File f) throws Exception
  
  Deprecated.
  
  Throws:
  
  Exception
- getMD5fromInputStream
  
  @Deprecated public static String getMD5fromInputStream(InputStream is) throws Exception
  
  Deprecated.
  
  Throws:
  
  Exception
- getMD5fromInputStream
  
  @Deprecated public static String getMD5fromInputStream(InputStream is, ObjectRef optFileSize) throws Exception
  
  Deprecated.
  
  Throws:
  
  Exception
- getDateString
  
  public static String getDateString(Date date)
  
  If date is null, the current date is used!
- getFuzzyLabels
  
  public static HashSet<String> getFuzzyLabels(String label)

Modifier and Type	Field	Description
`static String`	`attributeSeparator`
`static String`	`id_ttestCircleSize`
`static Color[]`	`knownColors`
`static String`	`preFilePath`

Class AttributeHelper

Field Summary

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Field Details

attributeSeparator

id_ttestCircleSize

knownColors

preFilePath

Constructor Details

AttributeHelper

Method Details

getEncodedUrl

showInBrowser

macOSrunning

setMacOSsettings

getDefaultAttributeDescriptionFor

setDeleteableAttribute

getToBeDeletedPathFromAttributePath

setNiceId

getNiceIdFromAttributeId

getLabelPath

setLabel

setLabel

setLabel

setLabel

setLabel

setLabelAlignment

getLabelAlignment

isLabelAlignmentKnownConstant

setFont

getLabel

getLabels

getLabels

getLabel

hasAttribute

hasAttribute

setPosition

setPosition

setPosition3d

getPositionX

getPosition

getPositionVec2d

getPositionVec2df

getPositionY

getSize

setSize

setHeight

setWidth

setSize

setSize

setFillColor

getFillColor

setOutlineColor

getOutlineColor

setOpacity

getOpacity

setAttribute

setAttributeTextField

getAttributeValueSet

getAttributeValue

getAttributeValue

getAttribute

addAttributeFolder

addAttributeFolder

getFrameThickNess

setFrameThickNess

setDefaultGraphicsAttribute

setNodeGraphicsAttribute

setDefaultGraphicsAttribute

getDefaultGraphicsAttributeForEdge

getNewEdgeGraphicsAttribute

getSizeD

getSize3D

getWidth

getHeight

setPosition

setToolTipText

getToolTipText