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.CyNode

public static final String	HAS_NESTED_NETWORK_ATTR	"has_nested_network"
public static final String	NESTED_NETWORK_ID_ATTR	"nested_network_id"
public static final String	NESTED_NETWORK_IS_VISIBLE_ATTR	"nested_network_is_visible"
public static final String	PARENT_NODES_ATTR	"parent_nodes"

cytoscape.Cytoscape

public static final String	NESTED_NETWORK_CREATED	"NESTED_NETWORK_CREATED"
public static final String	NESTED_NETWORK_DESTROYED	"NESTED_NETWORK_DESTROYED"
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	NETWORK_TITLE_MODIFIED	"NETWORK_TITLE_MODIFIED"
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	PROXY_MODIFIED	"PROXY_MODIFIED"
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_CLOSED	3

cytoscape.CytoscapeModifiedNetworkManager

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

cytoscape.actions.*

cytoscape.actions.DeleteAction

public static final String

ACTION_TITLE

"Delete Selected Nodes and Edges"

cytoscape.actions.ExportAction

public static final String

MENU_LABEL

"Export as..."

cytoscape.actions.HideSelectedEdgesAction

public static final String

MENU_LABEL

"Hide Edge Selection"

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.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	BIOLOGICAL_PROCESS	"biological_process"
public static final String	CANONICAL_NAME	"canonicalName"
public static final String	CELLULAR_COMPONENT	"cellular_component"
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	INTERACTION	"interaction"
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.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.CyAttributesReader

public static final String

DECODE_PROPERTY

"cytoscape.decode.attributes"

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.synonyms.Aliases

public static final String

ALIAS

"cytoscape.alias.list"

cytoscape.data.webservice.util.WebServiceThemeInstall

public static final String

WEBSERVICE_THEME

"WebServiceClientPack"

cytoscape.data.writers.CyAttributesWriter

public static final String	ENCODE_PROPERTY	"cytoscape.encode.attributes"
public static final String	ENCODING_SCHEME	"UTF-8"

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	ENCODE_PROPERTY	"cytoscape.encode.xgmml.attributes"
public static final String	ENCODING	"UTF-8"
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.ding.*

cytoscape.ding.DingNetworkView

public static final String

NESTED_NETWORK_SNAPSHOT_SIZE_PROP

"nestedNetworkSnapshotSize"

cytoscape.groups.*

cytoscape.groups.CyGroup

public static final String	GROUP_STATE_ATTR	"__groupState"
public static final String	GROUP_VIEWER_ATTR	"__groupViewer"
public static final String	MEMBER_LIST_ATTR	"__groupMembers"

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.layout.*

cytoscape.layout.Tunable

public static final int	BOOLEAN	2
public static final int	BUTTON	8
public static final int	COLLAPSABLE	32
public static final int	DOUBLE	1
public static final int	EDGEATTRIBUTE	5
public static final int	GROUP	7
public static final int	IMMUTABLE	16
public static final int	INTEGER	0
public static final int	LIST	6
public static final int	MULTISELECT	4
public static final int	NODEATTRIBUTE	4
public static final int	NOINPUT	1
public static final int	NUMERICATTRIBUTE	2
public static final int	STRING	3
public static final int	USESLIDER	8

cytoscape.plugin.*

cytoscape.plugin.InstallablePlugin

public static final String

MATCH_JAR_REGEXP

".*\\.jar$"

cytoscape.plugin.PluginVersionUtils

public static final int	BUGFIX	3
public static final int	MAJOR	1
public static final int	MINOR	2
public static final String	versionMatch	"^\\d+\\.\\d+"
public static final String	versionSplit	"\\."

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\\:)?((http|https|ftp|file)+\\:\\/+\\S+)(\\!\\/\\S*)?$"

cytoscape.util.ProxyHandler

public static final String	PROXY_HOST_PROPERTY_NAME	"proxy.server"
public static final String	PROXY_PORT_PROPERTY_NAME	"proxy.server.port"
public static final String	PROXY_TYPE_PROPERTY_NAME	"proxy.server.type"

cytoscape.util.ZipUtil

public static final int

DEF_COMPRESSION_LEVEL

1

cytoscape.util.swing.AttributeImportPanel

public static final String

CLOSE_EVENT

"CLOSE"

cytoscape.util.swing.CheckBoxJList

public static final String

LIST_UPDATED

"LIST_UPDATED"

cytoscape.view.*

cytoscape.view.CytoscapeDesktop

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 String	NETWORK_VIEWS_SELECTED	"NETWORK_VIEWS_SELECTED"
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.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.calculators.Calculator

public static final String

ID

"ID"

cytoscape.visual.customgraphic.CustomGraphicsManager

public static final String

METADATA_FILE

"image_metadata.props"

cytoscape.visual.customgraphic.impl.AbstractDCustomGraphics

public static final String

LIST_DELIMITER

"|"

cytoscape.visual.mappings.ObjectMapping

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

cytoscape.visual.ui.editors.continuous.BelowAndAbovePanel

public static final String

COLOR_CHANGED

"COLOR_CHANGED"

cytoscape.visual.ui.editors.continuous.ContinuousMappingEditorPanel

public static final String	EDITOR_WINDOW_CLOSED	"EDITOR_WINDOW_CLOSED"
public static final String	EDITOR_WINDOW_OPENED	"EDITOR_WINDOW_OPENED"

cytoscape.visual.ui.icon.VisualPropertyIcon

public static final int

DEFAULT_ICON_SIZE

32