Constant Field Values

Contents

• cytoscape.*

cytoscape.*

cytoscape.CyNetworkEvent

public static final int	BEGIN	0
public static final int	END	1
public static final int	GRAPH_REPLACED	10
public static final int	UNKNOWN	-1

cytoscape.Cytoscape

public static final String	NETWORK_LOADED	"NETWORK_LOADED"
public static final String	NETWORK_MODIFIED	"NETWORK_MODIFIED"
public static final String	NETWORK_SAVED	"NETWORK_SAVED"
public static final String	ONTOLOGY_ROOT	"ONTOLOGY_ROOT"
public static final String	PREFERENCE_MODIFIED	"PREFERENCE_MODIFIED"
public static final String	PREFERENCES_UPDATED	"PREFERENCES_UPDATED"
public static final String	READER_CLIENT_KEY	"reader_client_key"
public static final String	RESTORE_PLUGIN_STATE	"RESTORE_PLUGIN_STATE"
public static final String	SAVE_PLUGIN_STATE	"SAVE_PLUGIN_STATE"
public static final int	SELECT_EDGES_ONLY	2
public static final int	SELECT_NODES_AND_EDGES	3
public static final int	SELECT_NODES_ONLY	1
public static final int	SESSION_CHANGED	2
public static final int	SESSION_CLOSED	3
public static final int	SESSION_NEW	0
public static final int	SESSION_OPENED	1

cytoscape.CytoscapeModifiedNetworkManager

public static final String	CLEAN	"Clean"
public static final String	MODIFIED	"Modified"

cytoscape.actions.*

cytoscape.actions.ExportAction

public static final String

MENU_LABEL

"Export As..."

cytoscape.actions.ExportAsGraphicsAction

public static final String

MENU_LABEL

"Network As Graphics"

cytoscape.actions.OpenSessionAction

public static final String

SESSION_EXT

"cys"

cytoscape.actions.PrintAction

public static final String

MENU_LABEL

"Print..."

cytoscape.actions.SaveSessionAction

public static final String

SESSION_EXT

".cys"

cytoscape.data.*

cytoscape.data.AttributeSaverDialog

public static final int	EDGES	1
public static final int	NODES	0

cytoscape.data.CyAttributes

public static final byte	TYPE_BOOLEAN	1
public static final byte	TYPE_COMPLEX	-4
public static final byte	TYPE_FLOATING	2
public static final byte	TYPE_INTEGER	3
public static final byte	TYPE_SIMPLE_LIST	-2
public static final byte	TYPE_SIMPLE_MAP	-3
public static final byte	TYPE_STRING	4
public static final byte	TYPE_UNDEFINED	-1

cytoscape.data.ExpressionData

public static final int	LAMBDA	1
public static final int	MAX_LINE_SIZE	8192
public static final int	NONE	2
public static final int	PVAL	0
public static final int	UNKNOWN	3

cytoscape.data.FlagEvent

public static final int	EDGE_SET	3
public static final int	NODE_SET	2
public static final int	SINGLE_EDGE	1
public static final int	SINGLE_NODE	0

cytoscape.data.SelectEvent

public static final int	EDGE_SET	3
public static final int	NODE_SET	2
public static final int	SINGLE_EDGE	1
public static final int	SINGLE_NODE	0

cytoscape.data.Semantics

public static final String	ALIASES	"aliases"
public static final String	BIOLOGICAL_PROCESS	"biological_process"
public static final String	CANONICAL_NAME	"canonicalName"
public static final String	CELLULAR_COMPONENT	"cellular_component"
public static final String	COMMON_NAME	"commonName"
public static final String	DNA	"DNA"
public static final String	GO_ALIASES	"GO Aliases"
public static final String	GO_COMMON_NAME	"GO Common Name"
public static final String	IDENTIFIER	"identifier"
public static final String	INTERACTION	"interaction"
public static final String	LABEL	"label"
public static final String	MOLECULAR_FUNCTION	"molecular_function"
public static final String	MOLECULE_TYPE	"molecule_type"
public static final String	PROTEIN	"protein"
public static final String	RNA	"RNA"
public static final String	SPECIES	"species"

cytoscape.data.annotation.OntologyMapperDialog

public static final String	GO_BIOLOGICAL_PROCESS	"GO Biological Process"
public static final String	GO_CELLULAR_COMPONENT	"GO Cellular Component"
public static final String	GO_MOLECULAR_FUNCTION	"GO Molecular Function"

cytoscape.data.attr.MultiHashMapDefinition

public static final byte	TYPE_BOOLEAN	1
public static final byte	TYPE_FLOATING_POINT	2
public static final byte	TYPE_INTEGER	3
public static final byte	TYPE_STRING	4

cytoscape.data.ontology.Ontology

public static final String

IS_ONTOLOGY

"Is_Ontology"

cytoscape.data.ontology.readers.OBOFlatFileReader

public static final String	OBO_PREFIX	"ontology"
public static final String	ONTOLOGY_DAG_ROOT	"Ontology DAGs"

cytoscape.data.readers.CytoscapeSessionReader

public static final String	BOOKMARK_PACKAGE_NAME	"cytoscape.bookmarks"
public static final String	CY_PROPS	"cytoscape.props"
public static final String	CYSESSION	"cysession.xml"
public static final String	PACKAGE_NAME	"cytoscape.generated"
public static final String	VIZMAP_PROPS	"vizmap.props"
public static final String	XGMML_EXT	".xgmml"

cytoscape.data.readers.MetadataParser

public static final String

DEFAULT_NETWORK_METADATA_LABEL

"Network Metadata"

cytoscape.data.servers.ui.AnotationPanelDescriptor

public static final String

IDENTIFIER

"ANNOTATION_CHOOSE_PANEL"

cytoscape.data.servers.ui.ManifestFileSelectionPanelDescriptor

public static final String

IDENTIFIER

"SELECT_OLDFILE_PANEL"

cytoscape.data.servers.ui.OboPanelDescriptor

public static final String

IDENTIFIER

"OBO_PANEL"

cytoscape.data.servers.ui.SelectFormatPanelDescriptor

public static final String

IDENTIFIER

"INTRODUCTION_PANEL"

cytoscape.data.servers.ui.SpeciesPanelDescriptor

public static final String

IDENTIFIER

"SPECIES_PANEL"

cytoscape.data.synonyms.Aliases

public static final String

ALIAS

"alias"

cytoscape.data.writers.CytoscapeSessionWriter

public static final int	EDGE	2
public static final int	NODE	1

cytoscape.data.writers.XGMMLWriter

public static final String	BACKGROUND	"backgroundColor"
public static final String	GRAPH_VIEW_CENTER_X	"GRAPH_VIEW_CENTER_X"
public static final String	GRAPH_VIEW_CENTER_Y	"GRAPH_VIEW_CENTER_Y"
public static final String	GRAPH_VIEW_ZOOM	"GRAPH_VIEW_ZOOM"

cytoscape.init.*

cytoscape.init.CyInitParams

public static final int	EMBEDDED_WINDOW	4
public static final int	ERROR	0
public static final int	GUI	1
public static final int	LIBRARY	3
public static final int	TEXT	2

cytoscape.util.*

cytoscape.util.CytoscapeMenuBar

public static final String

DEFAULT_MENU_SPECIFIER

"Tools"

cytoscape.util.CytoscapeProgressMonitor

public static final int

ONE_SECOND

1000

cytoscape.util.FileUtil

public static final String

urlPattern

"^(jar\\:)?(\\w+\\:\\/+\\S+)(\\!\\/\\S*)?$"

cytoscape.util.ZipUtil

public static final int

DEF_COMPRESSION_LEVEL

1

cytoscape.view.*

cytoscape.view.CytoscapeDesktop

public static final int	EXTERNAL_VIEW	2
public static final int	INTERNAL_VIEW	1
public static final String	NETWORK_VIEW_CREATED	"NETWORK_VIEW_CREATED"
public static final String	NETWORK_VIEW_DESTROYED	"NETWORK_VIEW_DESTROYED"
public static final String	NETWORK_VIEW_FOCUS	"NETWORK_VIEW_FOCUS"
public static final String	NETWORK_VIEW_FOCUSED	"NETWORK_VIEW_FOCUSED"
public static final int	TABBED_VIEW	0
public static final String	VISUAL_STYLE	"VISUAL_STYLE"
public static final String	VIZMAP_ENABLED	"VIZMAP_ENABLED"

cytoscape.view.cytopanels.BiModalJSplitPane

public static final int	MODE_HIDE_SPLIT	2
public static final String	MODE_PROPERTY	"MODE_PROPERTY"
public static final int	MODE_SHOW_SPLIT	1

cytoscape.visual.*

cytoscape.visual.CalculatorIO

public static final String	dirHeader	"cytoscape.visual.calculators."
public static final String	edgeArrowBaseKey	"edgeArrowCalculator"
public static final String	edgeArrowClassName	"EdgeArrowCalculator"
public static final String	edgeColorBaseKey	"edgeColorCalculator"
public static final String	edgeColorClassName	"EdgeColorCalculator"
public static final String	edgeFontFaceBaseKey	"edgeFontFaceCalculator"
public static final String	edgeFontFaceClassName	"EdgeFontFaceCalculator"
public static final String	edgeFontSizeBaseKey	"edgeFontSizeCalculator"
public static final String	edgeFontSizeClassName	"EdgeFontSizeCalculator"
public static final String	edgeLabelBaseKey	"edgeLabelCalculator"
public static final String	edgeLabelClassName	"EdgeLabelCalculator"
public static final String	edgeLineTypeBaseKey	"edgeLineTypeCalculator"
public static final String	edgeLineTypeClassName	"EdgeLineTypeCalculator"
public static final String	edgeToolTipBaseKey	"edgeToolTipCalculator"
public static final String	edgeToolTipClassName	"EdgeToolTipCalculator"
public static final String	nodeColorBaseKey	"nodeColorCalculator"
public static final String	nodeColorClassName	"NodeColorCalculator"
public static final String	nodeFontFaceBaseKey	"nodeFontFaceCalculator"
public static final String	nodeFontFaceClassName	"NodeFontFaceCalculator"
public static final String	nodeFontSizeBaseKey	"nodeFontSizeCalculator"
public static final String	nodeFontSizeClassName	"NodeFontSizeCalculator"
public static final String	nodeLabelBaseKey	"nodeLabelCalculator"
public static final String	nodeLabelClassName	"NodeLabelCalculator"
public static final String	nodeLineTypeBaseKey	"nodeLineTypeCalculator"
public static final String	nodeLineTypeClassName	"NodeLineTypeCalculator"
public static final String	nodeShapeBaseKey	"nodeShapeCalculator"
public static final String	nodeShapeClassName	"NodeShapeCalculator"
public static final String	nodeSizeBaseKey	"nodeSizeCalculator"
public static final String	nodeSizeClassName	"NodeSizeCalculator"
public static final String	nodeToolTipBaseKey	"nodeToolTipCalculator"
public static final String	nodeToolTipClassName	"NodeToolTipCalculator"

cytoscape.visual.LabelPosition

public static final String	centerName	"Center"
public static final String	eastName	"East"
public static final String	justifyCenterName	"Center Justified"
public static final String	justifyLeftName	"Left Justified"
public static final String	justifyRightName	"Right Justified"
public static final String	noName	"none"
public static final String	northEastName	"Northeast"
public static final String	northName	"North"
public static final String	northWestName	"Northwest"
public static final String	southEastName	"Southeast"
public static final String	southName	"South"
public static final String	southWestName	"Southwest"
public static final String	westName	"West"

cytoscape.visual.NodeAppearanceCalculator

public static final String	nodeBorderColorBypass	"node.borderColor"
public static final String	nodeFillColorBypass	"node.fillColor"
public static final String	nodeFontBypass	"node.font"
public static final String	nodeHeightBypass	"node.height"
public static final String	nodeLabelBypass	"node.label"
public static final String	nodeLabelColorBypass	"node.labelColor"
public static final String	nodeLineTypeBypass	"node.lineType"
public static final String	nodeShapeBypass	"node.shape"
public static final String	nodeToolTipBypass	"node.toolTip"
public static final String	nodeWidthBypass	"node.width"

cytoscape.visual.ShapeNodeRealizer

public static final byte	DIAMOND	7
public static final byte	ELLIPSE	8
public static final byte	HEXAGON	9
public static final byte	OCTAGON	10
public static final byte	PARALLELOGRAM	6
public static final byte	RECT	0
public static final byte	RECT_3D	2
public static final byte	ROUND_RECT	1
public static final byte	TRAPEZOID	3
public static final byte	TRAPEZOID_2	4
public static final byte	TRIANGLE	5

cytoscape.visual.calculators.AbstractCalculator

public static final String

ID

"ID"

cytoscape.visual.mappings.ObjectMapping

public static final byte	EDGE_MAPPING	0
public static final byte	NODE_MAPPING	1

cytoscape.visual.mappings.continuous.ContinuousUI

public static final int	EQUAL	1
public static final int	GREATER	2
public static final int	LESSER	0

cytoscape.visual.ui.ValueDisplayer

public static final byte	ARROW	2
public static final byte	COLOR	0
public static final byte	DOUBLE	4
public static final byte	FONT	7
public static final byte	INT	6
public static final byte	LABEL_POSITION	8
public static final byte	LINETYPE	1
public static final byte	NODESHAPE	5
public static final byte	STRING	3

cytoscape.visual.ui.VizMapUI

public static final byte	EDGE_COLOR	8
public static final byte	EDGE_FONT_FACE	124
public static final byte	EDGE_FONT_SIZE	125
public static final byte	EDGE_LABEL	12
public static final byte	EDGE_LABEL_COLOR	18
public static final byte	EDGE_LABEL_FONT	13
public static final byte	EDGE_LABEL_POSITION	17
public static final byte	EDGE_LINETYPE	9
public static final byte	EDGE_SRCARROW	10
public static final byte	EDGE_TGTARROW	11
public static final byte	EDGE_TOOLTIP	15
public static final byte	NODE_BORDER_COLOR	1
public static final byte	NODE_COLOR	0
public static final byte	NODE_FONT_FACE	122
public static final byte	NODE_FONT_SIZE	123
public static final byte	NODE_HEIGHT	126
public static final byte	NODE_LABEL	5
public static final byte	NODE_LABEL_COLOR	7
public static final byte	NODE_LABEL_FONT	6
public static final byte	NODE_LABEL_POSITION	16
public static final byte	NODE_LINETYPE	2
public static final byte	NODE_SHAPE	3
public static final byte	NODE_SIZE	4
public static final byte	NODE_TOOLTIP	14
public static final byte	NODE_WIDTH	127