Serialized Form

Package ca.ucalgary.seahawk.gui

Class ca.ucalgary.seahawk.gui.DataImportChoiceDialog extends JDialog implements Serializable

Serialized Fields

dataChoices

MobyDataObject[] dataChoices

choiceList

JList choiceList

okButton

JButton okButton

cancelButton

JButton cancelButton

listener

DataImportChoiceListener listener

workflowName

String workflowName

Class ca.ucalgary.seahawk.gui.FileAndTextTransferHandler extends TransferHandler implements Serializable

Serialized Fields

fileFlavor

DataFlavor fileFlavor

stringFlavor

DataFlavor stringFlavor

gui

MobyContentGUI gui

openDataInNewTab

boolean openDataInNewTab

Class ca.ucalgary.seahawk.gui.FilterSearchWidget extends JPanel implements Serializable

Serialized Fields

currentFilterSearch

FilterSearch currentFilterSearch

closeIcon

JLabel closeIcon

caseButton

JToggleButton caseButton

inverseButton

JButton inverseButton

searchField

JTextField searchField

docPartOptions

JComboBox docPartOptions

contentPane

MobyContentPane contentPane

semaphore

Semaphore semaphore

Class ca.ucalgary.seahawk.gui.MobyContentClipboard extends MobyContentPane implements Serializable

Serialized Fields

content

MobyContentInstance content

clipboardFile

File clipboardFile

query

MobyDataJob query

collection

MobyDataObjectSet collection

previousImportDataType

MobyDataType previousImportDataType

previousImportNS

MobyNamespace previousImportNS

commentRegex

Pattern commentRegex

scriptRegex

Pattern scriptRegex

styleRegex

Pattern styleRegex

tagRegex

Pattern tagRegex

deleteDataPopupItem

JMenuItem deleteDataPopupItem

itemToDelete

MobyDataInstance itemToDelete

Class ca.ucalgary.seahawk.gui.MobyContentGUI extends JFrame implements Serializable

Serialized Fields

lastClickX

int lastClickX

lastClickY

int lastClickY

tabbedPane

JTabbedPane tabbedPane

status

JLabel status

statusPanel

JPanel statusPanel

backwardButton

JButton backwardButton

forwardButton

JButton forwardButton

openButton

JButton openButton

saveButton

JButton saveButton

filterButton

JButton filterButton

printButton

JButton printButton

helpButton

JButton helpButton

settingsButton

JButton settingsButton

moby2HTMLConverter

Transformer moby2HTMLConverter

servicesGUI

MobyServicesGUI servicesGUI

docBuilder

DocumentBuilder docBuilder

clipboard

MobyContentClipboard clipboard

helpPane

MobyContentHelpPane helpPane

dataRecorder

DataFlowRecorder dataRecorder

settingsGUI

SeahawkOptionsGUI settingsGUI

setup

boolean setup

request2tab

Map<K,V> request2tab

activeTabIndex

int activeTabIndex

Class ca.ucalgary.seahawk.gui.MobyContentHelpPane extends MobyContentPane implements Serializable

Class ca.ucalgary.seahawk.gui.MobyContentPane extends JPanel implements Serializable

Serialized Fields

scrollPane

JScrollPane scrollPane

tabbedPane

JTabbedPane tabbedPane

status

JLabel status

editorPane

PrintableJEditorPane editorPane

filterSearchWidget

FilterSearchWidget filterSearchWidget

searchPanel

JPanel searchPanel

servicesGUI

MobyServicesGUI servicesGUI

contentGUI

MobyContentGUI contentGUI

history

Vector<E> history

historyTabLabels

HashMap<K,V> historyTabLabels

filterHistory

HashMap<K,V> filterHistory

deletedFilters

HashMap<K,V> deletedFilters

historyIndex

int historyIndex

lastClickX

int lastClickX

lastClickY

int lastClickY

hasFailed

boolean hasFailed

isContentsXML

boolean isContentsXML

dataRecorder

DataFlowRecorder dataRecorder

xPtrsReferencedInNextService

List<E> xPtrsReferencedInNextService

filteredData

Map<K,V> filteredData

filterChanged

boolean filterChanged

currentDoc

Document currentDoc

currentSelectedData

MutableNodeList currentSelectedData

currentSelectionXPath

StringBuffer currentSelectionXPath

filterableNodes

List<E> filterableNodes

jobXPtrs

Map<K,V> jobXPtrs

origStyles

List<E> origStyles

firstDocRendering

boolean firstDocRendering

createServicePopupItem

JMenuItem createServicePopupItem

itemToReturn

MobyDataInstance itemToReturn

dot

int dot

mark

int mark

oldMark

int oldMark

oldDot

int oldDot

dragging

boolean dragging

isWrapping

boolean isWrapping

wrappingEnabled

boolean wrappingEnabled

selectedTextData

String selectedTextData

overHyperlink

boolean overHyperlink

lastHyperlinkDragged

URL lastHyperlinkDragged

lastHyperlinkHovered

URL lastHyperlinkHovered

Class ca.ucalgary.seahawk.gui.MobyDataObjectWidget extends JLabel implements Serializable

Serialized Fields

targetData

MobyPrimaryData targetData

actualData

MobyPrimaryData actualData

name

String name

listeners

Vector<E> listeners

Class ca.ucalgary.seahawk.gui.MobyObjectTransferHandler extends FileAndTextTransferHandler implements Serializable

Serialized Fields

client

MobyClient client

Class ca.ucalgary.seahawk.gui.MobySecondaryInputGUI extends JDialog implements Serializable

Serialized Fields

inputsPrimary

MobyPrimaryData[] inputsPrimary

inputs

MobyDataSecondaryInstance[] inputs

cancelButton

JButton cancelButton

cancelMessage

String cancelMessage

confirmButton

JButton confirmButton

confirmMessage

String confirmMessage

optionsPanel

JPanel optionsPanel

data2widget

Map<K,V> data2widget

listener

ActionListener listener

handlerCode

int handlerCode

showingNew

boolean showingNew

mobyClient

MobyClient mobyClient

Class ca.ucalgary.seahawk.gui.SeahawkOptionsGUI extends JDialog implements Serializable

Serialized Fields

registryComboBox

JComboBox registryComboBox

registryDescTextArea

JTextPane registryDescTextArea

registryEndpoint

JTextField registryEndpoint

registryNamespace

JTextField registryNamespace

deleteCacheButton

JButton deleteCacheButton

selectCacheDirButton

JButton selectCacheDirButton

converterHostTextField

JTextField converterHostTextField

converterPortTextField

JTextField converterPortTextField

cacheExpiryTextField

JTextField cacheExpiryTextField

cacheDirFileChooser

JFileChooser cacheDirFileChooser

sendReferrerCheckBox

JCheckBox sendReferrerCheckBox

resetButton

JButton resetButton

okButton

JButton okButton

cancelButton

JButton cancelButton

registriesList

RegistriesList registriesList

registryNames

String[] registryNames

lastCustomEndpoint

String lastCustomEndpoint

lastCustomNamespace

String lastCustomNamespace

Class ca.ucalgary.seahawk.gui.ServiceSearchDialog extends JDialog implements Serializable

Serialized Fields

serviceChoices

List<E> serviceChoices

activeChoices

DefaultListModel activeChoices

searchField

JTextField searchField

choiceList

JList choiceList

okButton

JButton okButton

cancelButton

JButton cancelButton

listener

ServiceChoiceListener listener

Class ca.ucalgary.seahawk.gui.WorkflowPreviewDialog extends JDialog implements Serializable

Serialized Fields

titleField

ca.ucalgary.seahawk.gui.WorkflowPreviewDialog.HintTextField titleField

descArea

ca.ucalgary.seahawk.gui.WorkflowPreviewDialog.HintTextArea descArea

authorField

ca.ucalgary.seahawk.gui.WorkflowPreviewDialog.HintTextField authorField

okButton

JButton okButton

cancelButton

JButton cancelButton

listener

WorkflowPreviewListener listener

byteArrayBuffer

ByteArrayOutputStream byteArrayBuffer

workflowName

String workflowName

dataFlowRecorder

DataFlowRecorder dataFlowRecorder

resultList

Map<K,V> resultList

Package ca.ucalgary.seahawk.gui.splash

Class ca.ucalgary.seahawk.gui.splash.SeahawkSplasher extends JApplet implements Serializable

Serialized Fields

passedAppletArgs

String[] passedAppletArgs

Class ca.ucalgary.seahawk.gui.splash.SplashWindow extends Window implements Serializable

Serialized Fields

image

Image image

The splash image which is displayed on the splash window.

paintCalled

boolean paintCalled

This attribute indicates whether the method paint(Graphics) has been called at least once since the construction of this window.
This attribute is used to notify method splash(Image) that the window has been drawn at least once by the AWT event dispatcher thread.
This attribute acts like a latch. Once set to true, it will never be changed back to false again.

See Also:

SplashWindow.paint(java.awt.Graphics), SplashWindow.splash(java.awt.Image, java.lang.String)

Package ca.ucalgary.seahawk.util

Class ca.ucalgary.seahawk.util.DynamicJPopupMenu extends JPopupMenu implements Serializable

Serialized Fields

semaphore

Object semaphore

Class ca.ucalgary.seahawk.util.PrintableJEditorPane extends JTextPane implements Serializable

Class ca.ucalgary.seahawk.util.SplashWindow extends Window implements Serializable

Serialized Fields

image

Image image

The splash image which is displayed on the splash window.

paintCalled

boolean paintCalled

This attribute indicates whether the method paint(Graphics) has been called at least once since the construction of this window.
This attribute is used to notify method splash(Image) that the window has been drawn at least once by the AWT event dispatcher thread.
This attribute acts like a latch. Once set to true, it will never be changed back to false again.

See Also:

SplashWindow.paint(java.awt.Graphics), SplashWindow.splash(java.awt.Image, java.lang.String)

Package ca.ucalgary.services

Class ca.ucalgary.services.ACDService extends LegacyService implements Serializable

Serialized Fields

programBinaryFile

File programBinaryFile

embossRootDirName

String embossRootDirName

acdRootDirName

String acdRootDirName

acdTypes

Map<K,V> acdTypes

acdBasicTypes

Map<K,V> acdBasicTypes

runtime

Runtime runtime

fixedSecondaryData

Vector<E> fixedSecondaryData

outputPattern

Pattern outputPattern

outputPatternName

String outputPatternName

Class ca.ucalgary.services.CGIService extends WrapperService<XHTMLForm> implements Serializable

Serialized Fields

remoteFormURL

URL remoteFormURL

formConfig

XHTMLForm formConfig

mobyPrimary2FormFields

Map<K,V> mobyPrimary2FormFields

mobySecondary2FormFields

Map<K,V> mobySecondary2FormFields

httpClient

org.apache.commons.httpclient.HttpClient httpClient

connectionManager

org.apache.commons.httpclient.MultiThreadedHttpConnectionManager connectionManager

Class ca.ucalgary.services.CGIServlet extends WrappingServlet implements Serializable

Class ca.ucalgary.services.LegacyService extends MobyServlet implements Serializable

Serialized Fields

mobyClient

MobyClient mobyClient

textClient

TextClient textClient

binaryDataType

MobyDataType binaryDataType

Class ca.ucalgary.services.SoapServlet extends WrappingServlet implements Serializable

Class ca.ucalgary.services.WrapperService extends LegacyService implements Serializable

Class ca.ucalgary.services.WrappingServlet extends javax.servlet.http.HttpServlet implements Serializable

Serialized Fields

recorder

DataRecorder recorder

responseTransformer

Transformer responseTransformer

Class ca.ucalgary.services.WSDLService extends WrapperService<WSDLConfig> implements Serializable

Serialized Fields

remoteWSDLUrl

URL remoteWSDLUrl

wsdlConfig

WSDLConfig wsdlConfig

endpoint

URL endpoint

nullTransformer

Transformer nullTransformer

secondaryTransformers

Map<K,V> secondaryTransformers

uri2XmlFormat

Map<K,V> uri2XmlFormat

outXPathString2XPath

Map<K,V> outXPathString2XPath

outXPathString2IsRegex

Map<K,V> outXPathString2IsRegex

usingRawXml

boolean usingRawXml

Package de.mpg.mpiz_koeln.featureClient

Class de.mpg.mpiz_koeln.featureClient.FeatureClientException extends Exception implements Serializable

serialVersionUID: -367172933470417369L

Package org.biomoby.client

Class org.biomoby.client.GraphsServlet extends javax.servlet.http.HttpServlet implements Serializable

serialVersionUID: 1L

Serialized Fields

registry

CentralAll registry

debug

boolean debug

verbose

boolean verbose

lastRead

long lastRead

refreshInterval

long refreshInterval

Package org.biomoby.registry.rdfagent.test

Class org.biomoby.registry.rdfagent.test.TestException extends Exception implements Serializable

serialVersionUID: -6118119045261170044L

Package org.biomoby.service

Class org.biomoby.service.MobyServlet extends javax.servlet.http.HttpServlet implements Serializable

Serialized Fields

thisService

MobyService thisService

isInitialized

boolean isInitialized

hasDataTypeTemplates

boolean hasDataTypeTemplates

isDebug

boolean isDebug

Changing this value makes logging more or less verbose

templatedServicesMap

Map<K,V> templatedServicesMap

Where data type, namespace and service type definition come from, if null, the default registry is used

responseContentInstanceMap

Map<K,V> responseContentInstanceMap

extraConfig

Map<K,V> extraConfig

Package org.biomoby.service.dashboard

Class org.biomoby.service.dashboard.AbstractPanel extends JPanel implements Serializable

Serialized Fields

panelIconFileName

String panelIconFileName

panelIcon

Icon panelIcon

pComponent

JComponent pComponent

propertyChannel

PropertyChannel propertyChannel

Class org.biomoby.service.dashboard.BuildDataTypeTree extends JTree implements Serializable

Serialized Fields

popup

JPopupMenu popup

propertyChannel

PropertyChannel propertyChannel

rootContents

org.biomoby.service.dashboard.BuildDataTypeTree.ISANode rootContents

nameContents

org.biomoby.service.dashboard.BuildDataTypeTree.MainNode nameContents

nameNode

DefaultMutableTreeNode nameNode

lastTriggeredNode

DefaultMutableTreeNode lastTriggeredNode

lastTriggeredMember

org.biomoby.service.dashboard.BuildDataTypeTree.MemberNode lastTriggeredMember

Class org.biomoby.service.dashboard.CommonBoard extends JPanel implements Serializable

Serialized Fields

model

RegistryModel model

channel

PropertyChannel channel

boardId

int boardId

treeTitle

JLabel treeTitle

pBar

JProgressBarWithCancel pBar

tree

CommonTree tree

gbc

GridBagConstraints gbc

Class org.biomoby.service.dashboard.CommonConsole extends JPanel implements Serializable

Serialized Fields

textArea

JTextArea textArea

appendModeBox

JCheckBox appendModeBox

verboseModeBox

JCheckBox verboseModeBox

cleanButton

JButton cleanButton

saveButton

JButton saveButton

appendMode

boolean appendMode

verboseMode

boolean verboseMode

saveChooser

JFileChooser saveChooser

propertyChannel

PropertyChannel propertyChannel

verboseEventName

String verboseEventName

Class org.biomoby.service.dashboard.CommonDataTable extends JTable implements Serializable

Serialized Fields

tableModel

org.biomoby.service.dashboard.CommonDataTable.CommonDataTableModel tableModel

Class org.biomoby.service.dashboard.CommonDataTable.CommonDataTableModel extends AbstractTableModel implements Serializable

Serialized Fields

columnToolTips

String[] columnToolTips

columnNames

String[] columnNames

columnClasses

Class<T>[] columnClasses

data

Vector<E> data

Class org.biomoby.service.dashboard.CommonTree extends JTree implements Serializable

Serialized Fields

treeId

int treeId

popup

JPopupMenu popup

lastSorted

int lastSorted

propertyChannel

PropertyChannel propertyChannel

rootNode

String rootNode

Class org.biomoby.service.dashboard.DataTypesBoard extends CommonBoard implements Serializable

Class org.biomoby.service.dashboard.DataTypesTree extends CommonTree implements Serializable

Serialized Fields

registryModel

RegistryModel registryModel

console

CommonConsole console

showBadGuys

boolean showBadGuys

showMembers

boolean showMembers

deprecatedBox

JCheckBoxMenuItem deprecatedBox

Class org.biomoby.service.dashboard.DebuggingPanel extends AbstractPanel implements Serializable

Serialized Fields

memory

JProgressBar memory

console

CommonConsole console

Class org.biomoby.service.dashboard.DeploymentTable extends CommonDataTable implements Serializable

Class org.biomoby.service.dashboard.DeploymentTable.DeploymentTableModel extends org.biomoby.service.dashboard.CommonDataTable.CommonDataTableModel implements Serializable

Class org.biomoby.service.dashboard.ExamplePanel extends AbstractPanel implements Serializable

Serialized Fields

registryModel

RegistryModel registryModel

Class org.biomoby.service.dashboard.GeneratorPanel extends AbstractPanel implements Serializable

Serialized Fields

antModel

AntModel antModel

registryModel

RegistryModel registryModel

console

CommonConsole console

outputDir

org.tulsoft.tools.gui.JFileChooserWithHistory outputDir

javadocDir

org.tulsoft.tools.gui.JFileChooserWithHistory javadocDir

dotLocation

org.tulsoft.tools.gui.JFileChooserWithHistory dotLocation

labelDotLocation

JLabel labelDotLocation

dtgenButton

JButton dtgenButton

sgenButton

JButton sgenButton

bothButton

JButton bothButton

dtclsButton

JButton dtclsButton

sclsButton

JButton sclsButton

deployButton

JButton deployButton

undeployButton

JButton undeployButton

aSelectedCount

JLabel aSelectedCount

sSelectedCount

JLabel sSelectedCount

dtGenerate

JCheckBox dtGenerate

dtCompile

JCheckBox dtCompile

dtJavadoc

JCheckBox dtJavadoc

dtJar

JCheckBox dtJar

sGenerate

JCheckBox sGenerate

sCompile

JCheckBox sCompile

sJavadoc

JCheckBox sJavadoc

sJar

JCheckBox sJar

pattern

org.tulsoft.tools.gui.JTextFieldWithHistory pattern

dTable

DeploymentTable dTable

copyBySelect

JCheckBox copyBySelect

locally

JRadioButton locally

deployListener

ActionListener deployListener

Class org.biomoby.service.dashboard.GeneratorPanel.CustomServicesTree extends ServicesTree implements Serializable

Class org.biomoby.service.dashboard.JProgressBarWithCancel extends JPanel implements Serializable

Serialized Fields

progressBar

JProgressBar progressBar

cancelButton

JButton cancelButton

Class org.biomoby.service.dashboard.MobyUnitTestingPanel extends AbstractPanel implements Serializable

serialVersionUID: -370045034538998854L

Serialized Fields

registryModel

RegistryModel registryModel

callerModel

UnitTestingServiceCallermodel callerModel

selService

JLabel selService

inFile

org.tulsoft.tools.gui.JFileChooserWithHistory inFile

rdfFile

org.tulsoft.tools.gui.JFileChooserWithHistory rdfFile

runButton

JButton runButton

stopButton

JButton stopButton

testXpathButton

JButton testXpathButton

saveRDFButton

JButton saveRDFButton

downloadTestButton

JButton downloadTestButton

testRegexButton

JButton testRegexButton

testOutputButton

JButton testOutputButton

copyServiceResultsButton

JButton copyServiceResultsButton

iFromFile

JCheckBox iFromFile

saveChooser

JFileChooser saveChooser

endpoint

org.tulsoft.tools.gui.JTextFieldWithHistory endpoint

regularExpression

org.tulsoft.tools.gui.JTextFieldWithHistory regularExpression

xpathExpression

org.tulsoft.tools.gui.JTextFieldWithHistory xpathExpression

dataTablesPanel

JPanel dataTablesPanel

inputDataTables

ServiceInputPanel inputDataTables

runWorker

org.biomoby.service.dashboard.MobyUnitTestingPanel.MySwingWorker runWorker

results

UnitTestingResultPanel results

resultsComp

JComponent resultsComp

resSplit

JSplitPane resSplit

regularExpressionMatchingText

JTextArea regularExpressionMatchingText

default_button_color

Color default_button_color

serviceOutput

String serviceOutput

howToListener

ActionListener howToListener

Class org.biomoby.service.dashboard.MobyUnitTestingPanel.CustomServicesTree extends ServicesTree implements Serializable

serialVersionUID: 5884117301201885425L

Class org.biomoby.service.dashboard.NamespacesBoard extends CommonBoard implements Serializable

Class org.biomoby.service.dashboard.NamespacesTree extends CommonTree implements Serializable

Serialized Fields

registryModel

RegistryModel registryModel

console

CommonConsole console

Class org.biomoby.service.dashboard.PerlMoSeSPanel extends AbstractPanel implements Serializable

serialVersionUID: 1379466985182986776L

Serialized Fields

registryModel

RegistryModel registryModel

console

CommonConsole console

aSelectedCount

JLabel aSelectedCount

sSelectedCount

JLabel sSelectedCount

currentlyEditing

JLabel currentlyEditing

currentPosition

JLabel currentPosition

editorSaveButton

JButton editorSaveButton

editorCloseButton

JButton editorCloseButton

editorOpenButton

JButton editorOpenButton

scriptsBtn

JButton scriptsBtn

generateBtn

JButton generateBtn

enable_moses_actions

boolean enable_moses_actions

is_windows_pc

boolean is_windows_pc

openFileIcon

Icon openFileIcon

openFileIconDis

Icon openFileIconDis

closeFileIcon

Icon closeFileIcon

closeFileIconDis

Icon closeFileIconDis

saveFileIcon

Icon saveFileIcon

saveFileIconDis

Icon saveFileIconDis

zoomInIcon

Icon zoomInIcon

zoomInIconDis

Icon zoomInIconDis

zoomOutIcon

Icon zoomOutIcon

zoomOutIconDis

Icon zoomOutIconDis

fonts

JComboBox fonts

SERVICE_CACHE_DOESNT_EXIST

String SERVICE_CACHE_DOESNT_EXIST

DATATYPE_CACHE_DOESNT_EXIST

String DATATYPE_CACHE_DOESNT_EXIST

howToListener

ActionListener howToListener

Class org.biomoby.service.dashboard.PerlMoSeSSyntaxDocument extends DefaultStyledDocument implements Serializable

serialVersionUID: -3430148858039659388L

Serialized Fields

doc

DefaultStyledDocument doc

rootElement

Element rootElement

multiLineComment

boolean multiLineComment

normal

MutableAttributeSet normal

keyword

MutableAttributeSet keyword

variable

MutableAttributeSet variable

function

MutableAttributeSet function

comment

MutableAttributeSet comment

quote

MutableAttributeSet quote

keywords

HashSet<E> keywords

functions

HashSet<E> functions

token_map

HashMap<K,V> token_map

inQuote

boolean inQuote

Class org.biomoby.service.dashboard.PrimaryDataTable extends CommonDataTable implements Serializable

Class org.biomoby.service.dashboard.PrimaryDataTable.PrimaryDataTableModel extends org.biomoby.service.dashboard.CommonDataTable.CommonDataTableModel implements Serializable

Class org.biomoby.service.dashboard.PropertyChannel extends Hashtable implements Serializable

Serialized Fields

support

PropertyChangeSupport support

Class org.biomoby.service.dashboard.RegistrationDataTypeSubPanel extends RegistrationPanel implements Serializable

Serialized Fields

buildTree

BuildDataTypeTree buildTree

dtName

org.tulsoft.tools.gui.JTextFieldWithHistory dtName

dtAuth

org.tulsoft.tools.gui.JTextFieldWithHistory dtAuth

dtEmail

org.tulsoft.tools.gui.JTextFieldWithHistory dtEmail

dtDescArea

JTextArea dtDescArea

dtUnregException

MobyException dtUnregException

datatypeTree

org.biomoby.service.dashboard.RegistrationDataTypeSubPanel.CustomDataTypesTree datatypeTree

unregisButton

JButton unregisButton

Class org.biomoby.service.dashboard.RegistrationDataTypeSubPanel.CustomDataTypesTree extends DataTypesTree implements Serializable

Class org.biomoby.service.dashboard.RegistrationNamespaceSubPanel extends RegistrationPanel implements Serializable

Serialized Fields

nsName

org.tulsoft.tools.gui.JTextFieldWithHistory nsName

nsAuth

org.tulsoft.tools.gui.JTextFieldWithHistory nsAuth

nsEmail

org.tulsoft.tools.gui.JTextFieldWithHistory nsEmail

nsDescArea

JTextArea nsDescArea

unregisButton

JButton unregisButton

namespacesTree

org.biomoby.service.dashboard.RegistrationNamespaceSubPanel.CustomNamespacesTree namespacesTree

Class org.biomoby.service.dashboard.RegistrationNamespaceSubPanel.CustomNamespacesTree extends NamespacesTree implements Serializable

Class org.biomoby.service.dashboard.RegistrationPanel extends AbstractPanel implements Serializable

Serialized Fields

registryModel

RegistryModel registryModel

console

CommonConsole console

registerButton

JButton registerButton

showXMLButton

JButton showXMLButton

fromXMLButton

JButton fromXMLButton

copyBySelect

JCheckBox copyBySelect

Class org.biomoby.service.dashboard.RegistrationServiceSubPanel extends RegistrationPanel implements Serializable

Serialized Fields

sName

org.tulsoft.tools.gui.JTextFieldWithHistory sName

sAuth

org.tulsoft.tools.gui.JTextFieldWithHistory sAuth

sEmail

org.tulsoft.tools.gui.JTextFieldWithHistory sEmail

sURL

org.tulsoft.tools.gui.JTextFieldWithHistory sURL

sSigURL

org.tulsoft.tools.gui.JTextFieldWithHistory sSigURL

sCategories

JComboBox sCategories

sDescArea

JTextArea sDescArea

sType

JLabel sType

labelSigURL

JLabel labelSigURL

labelRDFPath

JLabel labelRDFPath

localRDFFile

org.tulsoft.tools.gui.JFileChooserWithHistory localRDFFile

useAuth

JCheckBox useAuth

useSignature

JCheckBox useSignature

rbInputs

JRadioButton rbInputs

rbOutputs

JRadioButton rbOutputs

primInTable

PrimaryDataTable primInTable

primOutTable

PrimaryDataTable primOutTable

secTable

SecondaryDataTable secTable

unregisButton

JButton unregisButton

agentButton

JButton agentButton

Class org.biomoby.service.dashboard.RegistrationServiceSubPanel.CustomDataTypesSimplestTree extends DataTypesTree implements Serializable

Class org.biomoby.service.dashboard.RegistrationServiceSubPanel.CustomNamespacesSimplestTree extends NamespacesTree implements Serializable

Class org.biomoby.service.dashboard.RegistrationServiceSubPanel.CustomServiceTypesTree2 extends ServiceTypesTree implements Serializable

Class org.biomoby.service.dashboard.RegistrationServiceTypeSubPanel extends RegistrationPanel implements Serializable

Serialized Fields

stName

org.tulsoft.tools.gui.JTextFieldWithHistory stName

stAuth

org.tulsoft.tools.gui.JTextFieldWithHistory stAuth

stEmail

org.tulsoft.tools.gui.JTextFieldWithHistory stEmail

stDescArea

JTextArea stDescArea

stISA

JLabel stISA

serviceTypeTree

org.biomoby.service.dashboard.RegistrationServiceTypeSubPanel.CustomServiceTypesTree serviceTypeTree

unregisButton

JButton unregisButton

Class org.biomoby.service.dashboard.RegistrationServiceTypeSubPanel.CustomServiceTypesTree extends ServiceTypesTree implements Serializable

Class org.biomoby.service.dashboard.RegistryPanel extends AbstractPanel implements Serializable

Serialized Fields

registryModel

RegistryModel registryModel

registryURL

org.tulsoft.tools.gui.JTextFieldWithHistory registryURL

registryNS

org.tulsoft.tools.gui.JTextFieldWithHistory registryNS

cacheDir

org.tulsoft.tools.gui.JFileChooserWithHistory cacheDir

labelCacheDir

JLabel labelCacheDir

console

CommonConsole console

bServices

JCheckBox bServices

bDataTypes

JCheckBox bDataTypes

bNamespaces

JCheckBox bNamespaces

bServiceTypes

JCheckBox bServiceTypes

bAll

JCheckBox bAll

infoButton

JButton infoButton

updateButton

JButton updateButton

eraseButton

JButton eraseButton

dataTypesBoard

DataTypesBoard dataTypesBoard

serviceTypesBoard

ServiceTypesBoard serviceTypesBoard

namespacesBoard

NamespacesBoard namespacesBoard

servicesBoard

ServicesBoard servicesBoard

Class org.biomoby.service.dashboard.ResultsPanel extends AbstractPanel implements Serializable

Serialized Fields

results

ArrayList<E> results

rendRegistry

RendererRegistry rendRegistry

detachButton

JButton detachButton

cleanButton

JButton cleanButton

saveButton

JButton saveButton

saveChooser

JFileChooser saveChooser

viewers

JComboBox viewers

resultsPane

JTabbedPane resultsPane

alreadyReported

boolean alreadyReported

Class org.biomoby.service.dashboard.SecondaryDataTable extends CommonDataTable implements Serializable

Class org.biomoby.service.dashboard.SecondaryDataTable.SecondaryDataTableModel extends org.biomoby.service.dashboard.CommonDataTable.CommonDataTableModel implements Serializable

Class org.biomoby.service.dashboard.ServicesBoard extends CommonBoard implements Serializable

Class org.biomoby.service.dashboard.ServicesTree extends CommonTree implements Serializable

Serialized Fields

registryModel

RegistryModel registryModel

console

CommonConsole console

Class org.biomoby.service.dashboard.ServiceTypesBoard extends CommonBoard implements Serializable

Class org.biomoby.service.dashboard.ServiceTypesTree extends CommonTree implements Serializable

Serialized Fields

registryModel

RegistryModel registryModel

console

CommonConsole console

Class org.biomoby.service.dashboard.SimpleClientPanel extends AbstractPanel implements Serializable

Serialized Fields

registryModel

RegistryModel registryModel

callerModel

ServiceCallerModel callerModel

selService

JLabel selService

input

CommonConsole input

outFile

org.tulsoft.tools.gui.JFileChooserWithHistory outFile

inFile

org.tulsoft.tools.gui.JFileChooserWithHistory inFile

runButton

JButton runButton

stopButton

JButton stopButton

iShowXML

JCheckBox iShowXML

iFromFile

JCheckBox iFromFile

className

org.tulsoft.tools.gui.JTextFieldWithHistory className

endpoint

org.tulsoft.tools.gui.JTextFieldWithHistory endpoint

dataTablesPanel

JPanel dataTablesPanel

inputDataTables

ServiceInputPanel inputDataTables

runWorker

org.biomoby.service.dashboard.SimpleClientPanel.MySwingWorker runWorker

results

ResultsPanel results

resultsComp

JComponent resultsComp

resSplit

JSplitPane resSplit

selectionAllowed

boolean selectionAllowed

howToListener

ActionListener howToListener

Class org.biomoby.service.dashboard.SimpleClientPanel.CustomServicesTree extends ServicesTree implements Serializable

Class org.biomoby.service.dashboard.StatisticsPanel extends AbstractPanel implements Serializable

Serialized Fields

registryModel

RegistryModel registryModel

table

JTable table

ssModel

org.biomoby.service.dashboard.StatisticsPanel.ServiceStatisticsModel ssModel

Class org.biomoby.service.dashboard.TableSorter extends AbstractTableModel implements Serializable

Serialized Fields

tableModel

TableModel tableModel

viewToModel

org.biomoby.service.dashboard.TableSorter.Row[] viewToModel

modelToView

int[] modelToView

tableHeader

JTableHeader tableHeader

mouseListener

MouseListener mouseListener

tableModelListener

TableModelListener tableModelListener

columnComparators

Map<K,V> columnComparators

sortingColumns

List<E> sortingColumns

Class org.biomoby.service.dashboard.UnitTestingResultPanel extends AbstractPanel implements Serializable

serialVersionUID: 198014784585455842L

Serialized Fields

results

ArrayList<E> results

rendRegistry

RendererRegistry rendRegistry

cleanButton

JButton cleanButton

saveButton

JButton saveButton

saveChooser

JFileChooser saveChooser

viewers

JComboBox viewers

resultsPane

JTabbedPane resultsPane

alreadyReported

boolean alreadyReported

Package org.biomoby.service.dashboard.chooser

Class org.biomoby.service.dashboard.chooser.DateTimeChooser extends JPanel implements Serializable

Serialized Fields

lList

EventListenerList lList

initialDate

Date initialDate

calendar

com.toedter.calendar.JCalendar calendar

hours

com.toedter.components.JSpinField hours

mins

com.toedter.components.JSpinField mins

secs

com.toedter.components.JSpinField secs

previewPanel

JPanel previewPanel

Class org.biomoby.service.dashboard.chooser.DateTimeChooserEditor extends AbstractCellEditor implements Serializable

Serialized Fields

delegate

JButton delegate

Package org.biomoby.service.dashboard.data

Class org.biomoby.service.dashboard.data.DataTypeTreeTable extends JTreeTable implements Serializable

Class org.biomoby.service.dashboard.data.ParametersTable extends JTable implements Serializable

Serialized Fields

tableModel

org.biomoby.service.dashboard.data.ParametersTable.ParametersTableModel tableModel

paramDefs

MobySecondaryData[] paramDefs

Class org.biomoby.service.dashboard.data.ParametersTable.ParametersTableModel extends AbstractTableModel implements Serializable

Serialized Fields

columnToolTips

String[] columnToolTips

columnNames

String[] columnNames

columnClasses

Class<T>[] columnClasses

paramDefs

MobySecondaryData[] paramDefs

values

Object[] values

Class org.biomoby.service.dashboard.data.ServiceInputPanel extends JPanel implements Serializable

Serialized Fields

inputTables

Vector<E> inputTables

paramsTable

ParametersTable paramsTable

Package org.biomoby.service.dashboard.renderers

Class org.biomoby.service.dashboard.renderers.XMLTree extends JTree implements Serializable

Serialized Fields

textSizeLimit

int textSizeLimit

rootElement

org.jdom.Element rootElement

Package org.biomoby.service.dashboard.treetable

Class org.biomoby.service.dashboard.treetable.JTreeTable extends JTable implements Serializable

Serialized Fields

tree

JTreeTable.TreeTableCellRenderer tree

treeTableModel

TreeTableModel treeTableModel

Class org.biomoby.service.dashboard.treetable.JTreeTable.TreeTableCellEditor extends AbstractCellEditor implements Serializable

Class org.biomoby.service.dashboard.treetable.JTreeTable.TreeTableCellRenderer extends JTree implements Serializable

Serialized Fields

visibleRow

int visibleRow

Last table/tree row asked to renderer.

Class org.biomoby.service.dashboard.treetable.TreeTableModelAdapter extends AbstractTableModel implements Serializable

Serialized Fields

tree

JTree tree

treeTableModel

TreeTableModel treeTableModel

Package org.biomoby.service.test

Class org.biomoby.service.test.ConvertAAtoFASTA_AA extends MobyServlet implements Serializable

Class org.biomoby.service.test.FromFastaToDNASequence extends MobyServlet implements Serializable

Package org.biomoby.shared

Class org.biomoby.shared.MobyException extends Exception implements Serializable

serialVersionUID: 3257853190165969203L

Class org.biomoby.shared.MobyResourceRef extends Object implements Serializable

Serialized Fields

resourceName

String resourceName

location

URL location

contentType

String contentType

Class org.biomoby.shared.NoSuccessException extends Exception implements Serializable

serialVersionUID: 4048790148043127088L

Serialized Fields

culprit

Object culprit

Class org.biomoby.shared.PendingCurationException extends Exception implements Serializable

serialVersionUID: 3256438114472769333L

Class org.biomoby.shared.SOAPException extends RuntimeException implements Serializable

serialVersionUID: 3257848770762126647L

Package org.biomoby.shared.data

Class org.biomoby.shared.data.MobyDataJob extends HashMap<String,MobyDataInstance> implements Serializable

Serialized Fields

id

String id

Class org.biomoby.shared.data.MobyServiceException extends ServiceException implements Serializable

Package org.biomoby.shared.event

Class org.biomoby.shared.event.NotificationEvent extends EventObject implements Serializable

Serialized Fields

type

int type

message

Object message

details

Object details

Package org.biomoby.shared.parser

Class org.biomoby.shared.parser.ServiceException extends MobyException implements Serializable

Serialized Fields

refQueryID

String refQueryID

refElement

String refElement

severity

int severity

code

int code

description

String description

Package org.biomoby.shared.schema

Class org.biomoby.shared.schema.Frame extends JFrame implements Serializable

serialVersionUID: 1939367498077695253L

Package org.inb.biomoby.central

Class org.inb.biomoby.central.MobyCentral extends AbstractEntity<MobyCentral> implements Serializable

Serialized Fields

endpointURL

String endpointURL

namespace

String namespace

Package org.inb.biomoby.central.gui

Class org.inb.biomoby.central.gui.AbstractEntityTreePanel extends JLayeredPane implements Serializable

Serialized Fields

tree

JTree tree

control

JPanel control

scroll

DecoratedJScrollPane scroll

Class org.inb.biomoby.central.gui.AbstractMobyDatatypesTreePanel extends AbstractEntityTreePanel implements Serializable

Class org.inb.biomoby.central.gui.AbstractMobyObjectPropertyTable extends AbstractMobyPropertyTable implements Serializable

Class org.inb.biomoby.central.gui.AbstractMobyPropertyTable extends JTable implements Serializable

Class org.inb.biomoby.central.gui.AbstractMobyServicesTreePanel extends AbstractEntityTreePanel implements Serializable

Class org.inb.biomoby.central.gui.MobyPropertyTable extends AbstractMobyPropertyTable implements Serializable

Class org.inb.biomoby.central.gui.ObjectTypeAnnotationPanel extends JPanel implements Serializable

Serialized Fields

model

AbstractModel<T> model

objectType

ObjectType objectType

fContactEmail

JTextField fContactEmail

fDescription

JTextArea fDescription

Class org.inb.biomoby.central.gui.RegistryComboBox extends JComboBox implements Serializable

Class org.inb.biomoby.central.gui.RegistryComboBox.RegistryComboBoxRenderer extends DefaultListCellRenderer implements Serializable

Package org.inb.biomoby.central.gui.dnd

Class org.inb.biomoby.central.gui.dnd.ObjectTypeTransferHandler extends TransferHandler implements Serializable

Serialized Fields

flavor

DataFlavor flavor

Package org.inb.biomoby.central.gui.model

Class org.inb.biomoby.central.gui.model.AbstractEntityTreeNode extends DefaultMutableTreeNode implements Serializable

Class org.inb.biomoby.central.gui.model.DataTypesTreeModel extends DefaultTreeModel implements Serializable

Serialized Fields

orphans

List<E> orphans

Class org.inb.biomoby.central.gui.model.MobyObjectPropertiesTableModel extends MobyPropertiesTableModel implements Serializable

Serialized Fields

objectType

ObjectType objectType

model

AbstractModel<T> model

Class org.inb.biomoby.central.gui.model.MobyPropertiesTableModel extends AbstractTableModel implements Serializable

Serialized Fields

properties

List<E> properties

Class org.inb.biomoby.central.gui.model.RegistryComboBoxModel extends DefaultComboBoxModel implements Serializable

Class org.inb.biomoby.central.gui.model.ServicesTreeModel extends DefaultTreeModel implements Serializable

Package org.inb.biomoby.central.gui.renderer

Class org.inb.biomoby.central.gui.renderer.AbstractCellRenderer extends JLabel implements Serializable

Class org.inb.biomoby.central.gui.renderer.AbstractTableCellRenderer extends AbstractCellRenderer implements Serializable

Class org.inb.biomoby.central.gui.renderer.AbstractTreeCellRenderer extends AbstractCellRenderer implements Serializable

Class org.inb.biomoby.central.gui.renderer.CardinalityTableCellEditor extends AbstractCellEditor implements Serializable

Serialized Fields

component

CardinalityTableCellEditor.CardinalityComponent component

Class org.inb.biomoby.central.gui.renderer.CardinalityTableCellEditor.CardinalityComponent extends JPanel implements Serializable

Serialized Fields

hasaButton

JRadioButton hasaButton

hasButton

JRadioButton hasButton

Class org.inb.biomoby.central.gui.renderer.CardinalityTableCellRenderer extends AbstractTableCellRenderer implements Serializable

Class org.inb.biomoby.central.gui.renderer.ClassNameTreeCellEditor extends MobyNameCellEditor implements Serializable

Serialized Fields

container

ClassNameTreeCellEditor.EditorContainer container

objectType

ObjectType objectType

Class org.inb.biomoby.central.gui.renderer.ClassNameTreeCellEditor.EditorContainer extends Container implements Serializable

Serialized Fields

offset

int offset

Class org.inb.biomoby.central.gui.renderer.EntityTreeCellRenderer extends AbstractTreeCellRenderer implements Serializable

Class org.inb.biomoby.central.gui.renderer.MobyNameCellEditor extends DefaultCellEditor implements Serializable

Class org.inb.biomoby.central.gui.renderer.ObjectTypeListCellRenderer extends DefaultListCellRenderer implements Serializable

Class org.inb.biomoby.central.gui.renderer.ObjectTypeTableCellEditor extends DefaultCellEditor implements Serializable

Class org.inb.biomoby.central.gui.renderer.ObjectTypeTableCellEditor.ObjectTypeComboBoxModel extends AbstractListModel implements Serializable

Serialized Fields

objectTypes

List<E> objectTypes

item

Object item

Class org.inb.biomoby.central.gui.renderer.ObjectTypeTableCellRenderer extends PropertyTableCellRenderer implements Serializable

Class org.inb.biomoby.central.gui.renderer.PropertyNameTableCellEditor extends MobyNameCellEditor implements Serializable

Serialized Fields

objectType

ObjectType objectType

Class org.inb.biomoby.central.gui.renderer.PropertyNameTableCellRenderer extends PropertyTableCellRenderer implements Serializable

Class org.inb.biomoby.central.gui.renderer.PropertyTableCellRenderer extends AbstractTableCellRenderer implements Serializable

Serialized Fields

objectType

ObjectType objectType

hsb

float[] hsb

Package org.inb.biomoby.client.gui

Class org.inb.biomoby.client.gui.AbstractMobyComponent extends JPanel implements Serializable

Serialized Fields

data

AbstractMobyObject data

Class org.inb.biomoby.client.gui.DefaultMobyComponent extends AbstractMobyComponent<T extends AbstractMobyObject> implements Serializable

Class org.inb.biomoby.client.gui.DynamicMobyComponent extends AbstractMobyComponent<K extends AbstractMobyObject> implements Serializable

Serialized Fields

queue

MobyMessageQueue<T extends IDynamicComponent.MobyComponentListener> queue

Package org.inb.biomoby.client.gui.auxiliary

Class org.inb.biomoby.client.gui.auxiliary.AbstractAnnotationListPane extends AbstractTransformableMobyPanel<K extends AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Serialized Fields

size

Dimension size

annotations

List<E> annotations

visible

Map<K,V> visible

areOverlapped

Boolean areOverlapped

Class org.inb.biomoby.client.gui.auxiliary.AbstractDescriptionMobyComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

popup

JComponent popup

Class org.inb.biomoby.client.gui.auxiliary.AbstractMultilineDescriptionMobyComponent extends AbstractDescriptionMobyComponent implements Serializable

Serialized Fields

dim

Dimension dim

width

int width

height

int height

style

int style

font

Font font

Class org.inb.biomoby.client.gui.auxiliary.AbstractPopupMobyComponent extends AbstractMobyComponent implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.AbstractTransformableMobyPanel extends DynamicMobyPanel<T extends IDynamicComponent.MobyComponentListener> implements Serializable

Serialized Fields

transformer

ISequenceCoordinateTransformer transformer

Class org.inb.biomoby.client.gui.auxiliary.AntigenicAnnotationListPane extends LabeledAnnotationListPane<T extends AntigenicAnnotation,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.ArrayFloatChartPane extends AbstractTransformableMobyPanel<ArrayFloatChartPane.ArrayFloatListener> implements Serializable

Serialized Fields

arrayFloat

ArrayFloat arrayFloat

color

Color color

Class org.inb.biomoby.client.gui.auxiliary.AssertedWrapperComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

layered

JLayeredPane layered

label

JLabel label

component

AbstractMobyComponent<T extends AbstractMobyObject> component

Class org.inb.biomoby.client.gui.auxiliary.DynamicMobyPanel extends JPanel implements Serializable

Serialized Fields

queue

MobyMessageQueue<T extends IDynamicComponent.MobyComponentListener> queue

Class org.inb.biomoby.client.gui.auxiliary.EquicktandemAnnotationListPane extends LabeledAnnotationListPane<T extends EquicktandemAnnotation,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.FamilyBLOCKAnnotationPane extends LabeledAnnotationListPane<T extends BLOCKAnnotation,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Serialized Fields

annotations

FamilyBLOCKAnnotation annotations

highlighted

boolean highlighted

height

int height

font

Font font

Class org.inb.biomoby.client.gui.auxiliary.FeatureAnnotationListPane extends LabeledAnnotationListPane<T extends FeatureAnnotation,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.ImageComponent extends JPanel implements Serializable

Serialized Fields

image

BufferedImage image

Class org.inb.biomoby.client.gui.auxiliary.InterProMotifAnnotationListPane extends ScoredMotifAnnotationListPane<T extends InterProMotifAnnotation> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.JmolPane extends JPanel implements Serializable

Serialized Fields

viewer

Object viewer

renderScreenImage

Method renderScreenImage

openStringInline

Method openStringInline

scriptWait

Method scriptWait

evalString

Method evalString

Class org.inb.biomoby.client.gui.auxiliary.LabeledAnnotationListPane extends AbstractAnnotationListPane<T extends Annotation,K extends AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Serialized Fields

height

int height

font

Font font

popup

JLabel popup

Class org.inb.biomoby.client.gui.auxiliary.MolWeightAnnotationListPane extends LabeledAnnotationListPane<T extends MolWeightAnnotation,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.MotifAnnotationListPane extends LabeledAnnotationListPane<T extends MotifAnnotation,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.MultilineCommentedAASequenceDescriptionPane extends AbstractMultilineDescriptionMobyComponent implements Serializable

Serialized Fields

sequence

CommentedAASequence sequence

Class org.inb.biomoby.client.gui.auxiliary.MultilineCommentedNASequenceDescriptionMobyComponent extends AbstractMultilineDescriptionMobyComponent implements Serializable

Serialized Fields

sequence

CommentedNASequence sequence

Class org.inb.biomoby.client.gui.auxiliary.RestrictAnnotationListPane extends LabeledAnnotationListPane<T extends RestrictAnnotation,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.ScoredMotifAnnotationListPane extends MotifAnnotationListPane<T extends ScoredMotifAnnotation> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.ScrollableTextPane extends JScrollPane implements Serializable

Serialized Fields

textArea

JTextArea textArea

Class org.inb.biomoby.client.gui.auxiliary.SigcleaveAnnotationListPane extends LabeledAnnotationListPane<T extends SigcleaveAnnotation,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.StructureBoundariesListPane extends LabeledAnnotationListPane<T extends StructureBoundaries,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.StructureFragmentListPane extends StructureBoundariesListPane<StructureFragment> implements Serializable

Class org.inb.biomoby.client.gui.auxiliary.TransmembraneAnnotationListPane extends LabeledAnnotationListPane<T extends TransmembraneAnnotation,AbstractAnnotationListPane.AnnotationListListener> implements Serializable

Package org.inb.biomoby.client.gui.ontology

Class org.inb.biomoby.client.gui.ontology.AminoAcidSequenceComponent extends GenericSequenceComponent implements Serializable

Class org.inb.biomoby.client.gui.ontology.AnnotatedAASequenceComponent extends CommentedAASequenceComponent implements Serializable

Class org.inb.biomoby.client.gui.ontology.AnnotatedNASequenceComponent extends CommentedNASequenceComponent implements Serializable

Class org.inb.biomoby.client.gui.ontology.AnnotatedStructureComponent extends PDB__TextComponent<T extends AnnotatedStructure> implements Serializable

Class org.inb.biomoby.client.gui.ontology.AnnotationComponent extends DynamicMobyComponent implements Serializable

Serialized Fields

annotation

Annotation annotation

label

RoundedMultilineLabel label

Class org.inb.biomoby.client.gui.ontology.AnnotationHitsComponent extends DynamicMobyComponent implements Serializable

Serialized Fields

hits

AnnotationHits hits

image

BufferedImage image

width

int width

height

int height

Class org.inb.biomoby.client.gui.ontology.AntigenicAnnotatedAASequenceComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotatedAASequencePanel

AnnotatedAASequenceComponent annotatedAASequencePanel

annotations

AntigenicAnnotationListPane<T extends AntigenicAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.AntigenicReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotationHitsPanel

AnnotationHitsComponent annotationHitsPanel

antigenicAnnotatedAASequencePanel

AntigenicAnnotatedAASequenceComponent antigenicAnnotatedAASequencePanel

Class org.inb.biomoby.client.gui.ontology.ArrayXYDataComponent extends AbstractPopupMobyComponent implements Serializable

Serialized Fields

data

ArrayXYData data

points

Set<E> points

popup

ImageComponent popup

xMin

double xMin

xMax

double xMax

yMin

double yMin

yMax

double yMax

width

double width

height

double height

titleHeight

double titleHeight

titleWidth

double titleWidth

titleDescent

double titleDescent

font

Font font

Class org.inb.biomoby.client.gui.ontology.BlocksAnnotatedAASequenceComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotatedAASequencePanel

AnnotatedAASequenceComponent annotatedAASequencePanel

annotations

List<E> annotations

Class org.inb.biomoby.client.gui.ontology.CommentedAASequenceComponent extends AbstractMobyComponent<T extends CommentedAASequence> implements Serializable

Serialized Fields

genericSequencePanel

GenericSequenceComponent<T extends GenericSequence> genericSequencePanel

description

MultilineCommentedAASequenceDescriptionPane description

Class org.inb.biomoby.client.gui.ontology.CommentedAASubsequenceComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

description

AbstractDescriptionMobyComponent description

genericSubequencePanel

GenericSubsequenceComponent genericSubequencePanel

label

RoundedMultilineLabel label

Class org.inb.biomoby.client.gui.ontology.CommentedNASequenceComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

genericSequencePanel

GenericSequenceComponent<T extends GenericSequence> genericSequencePanel

description

MultilineCommentedNASequenceDescriptionMobyComponent description

Class org.inb.biomoby.client.gui.ontology.DigestReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotationHitsPanel

AnnotationHitsComponent annotationHitsPanel

molWeightsAnnotatedAASequencePanel

MolWeightsAnnotatedAASequenceComponent<T extends MolWeightsAnnotatedAASequence> molWeightsAnnotatedAASequencePanel

Class org.inb.biomoby.client.gui.ontology.EquicktandemAnnotatedNASequenceComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotatedNASequencePanel

AnnotatedNASequenceComponent annotatedNASequencePanel

annotations

EquicktandemAnnotationListPane<T extends EquicktandemAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.EquicktandemReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotationHitsPanel

AnnotationHitsComponent annotationHitsPanel

equicktandemAnnotatedNASequencePanel

EquicktandemAnnotatedNASequenceComponent equicktandemAnnotatedNASequencePanel

Class org.inb.biomoby.client.gui.ontology.FeatureAASequenceComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

commentedAASequencePanel

CommentedAASequenceComponent<T extends CommentedAASequence> commentedAASequencePanel

arrayFloatChartPane

ArrayFloatChartPane arrayFloatChartPane

Class org.inb.biomoby.client.gui.ontology.FeatureAnnotatedAASequenceComponent extends AbstractMobyComponent<T extends FeatureAnnotatedAASequence> implements Serializable

Serialized Fields

annotatedAASequencePanel

AnnotatedAASequenceComponent annotatedAASequencePanel

annotations

FeatureAnnotationListPane<T extends FeatureAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.FeatureAnnotationComponent extends AnnotationComponent<FeatureAnnotation> implements Serializable

Class org.inb.biomoby.client.gui.ontology.GenericSequenceComponent extends DynamicMobyComponent<T extends GenericSequence,GenericSequenceComponent.GenericSequenceListener> implements Serializable

Serialized Fields

popup

JPopupMenu popup

sequence

GenericSequence sequence

characters

CharSequence characters

transformer

ISequenceTransformer transformer

mousePoint

Point mousePoint

lastEvent

MouseEvent lastEvent

Class org.inb.biomoby.client.gui.ontology.GenericSubsequenceComponent extends GenericSequenceComponent implements Serializable

Serialized Fields

characters

GenericSubsequenceComponent.GenericSubsequence characters

sequence

CommentedAASubsequence sequence

Class org.inb.biomoby.client.gui.ontology.HMMPfam_ReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

report

HMMPfam_Report report

Class org.inb.biomoby.client.gui.ontology.Image_EncodedComponent extends AbstractDescriptionMobyComponent implements Serializable

Serialized Fields

imageEncoded

Image_Encoded imageEncoded

image

BufferedImage image

popup

ImageComponent popup

Class org.inb.biomoby.client.gui.ontology.InterProMotifAnnotatedAASequenceComponent extends AbstractMobyComponent<T extends InterProMotifAnnotatedAASequence> implements Serializable

Serialized Fields

annotatedAASequencePanel

AnnotatedAASequenceComponent annotatedAASequencePanel

annotations

InterProMotifAnnotationListPane<T extends InterProMotifAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.MobyObjectComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

object

MobyObject object

Class org.inb.biomoby.client.gui.ontology.MolWeightsAnnotatedAASequenceComponent extends AbstractMobyComponent<T extends MolWeightsAnnotatedAASequence> implements Serializable

Serialized Fields

annotatedAASequencePanel

AnnotatedAASequenceComponent annotatedAASequencePanel

annotations

MolWeightAnnotationListPane<T extends MolWeightAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.MotifAnnotatedAASequenceComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotatedAASequencePanel

AnnotatedAASequenceComponent annotatedAASequencePanel

annotations

MotifAnnotationListPane<T extends MotifAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.MotifMatrixComponent extends Text__formattedComponent implements Serializable

Class org.inb.biomoby.client.gui.ontology.OMIMComponent extends AbstractMobyComponent<T extends OMIM> implements Serializable

Class org.inb.biomoby.client.gui.ontology.PatmatdbReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotationHitsPanel

AnnotationHitsComponent annotationHitsPanel

scoredMotifAnnotatedAASequencePanel

ScoredMotifAnnotatedAASequenceComponent scoredMotifAnnotatedAASequencePanel

Class org.inb.biomoby.client.gui.ontology.PatmatmotifsReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotationHitsPanel

AnnotationHitsComponent annotationHitsPanel

scoredMotifAnnotatedAASequencePanel

ScoredMotifAnnotatedAASequenceComponent scoredMotifAnnotatedAASequencePanel

Class org.inb.biomoby.client.gui.ontology.PatternComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

pattern

Pattern pattern

textarea

JTextArea textarea

Class org.inb.biomoby.client.gui.ontology.PDB__TextComponent extends AbstractMobyComponent<T extends PDB__Text> implements Serializable

Serialized Fields

popup

JPopupMenu popup

layered

JLayeredPane layered

text

PDB__Text text

jmol

JmolPane jmol

script

PDB__TextComponent.ScriptTextField script

Class org.inb.biomoby.client.gui.ontology.PDB__TextComponent.ScriptTextField extends JTextField implements Serializable

Serialized Fields

BACKGROUND_DEFAULT

Color BACKGROUND_DEFAULT

Class org.inb.biomoby.client.gui.ontology.Pepcoil_TextComponent extends Text__formattedComponent implements Serializable

Class org.inb.biomoby.client.gui.ontology.PepinfoReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

pepinfoReport

PepinfoReport pepinfoReport

aliphatic

FeatureAASequenceComponent aliphatic

positive

FeatureAASequenceComponent positive

negative

FeatureAASequenceComponent negative

tiny

FeatureAASequenceComponent tiny

small

FeatureAASequenceComponent small

polar

FeatureAASequenceComponent polar

non_polar

FeatureAASequenceComponent non_polar

consensus

FeatureAASequenceComponent consensus

aromatic

FeatureAASequenceComponent aromatic

hydropathy_OHM

FeatureAASequenceComponent hydropathy_OHM

hydropathy_KD

FeatureAASequenceComponent hydropathy_KD

charged

FeatureAASequenceComponent charged

Class org.inb.biomoby.client.gui.ontology.Pepstats_TextComponent extends Text__formattedComponent implements Serializable

Class org.inb.biomoby.client.gui.ontology.PPSearchReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

totalHitsLabel

JLabel totalHitsLabel

motifAnnotatedAASequencePanel

MotifAnnotatedAASequenceComponent motifAnnotatedAASequencePanel

Class org.inb.biomoby.client.gui.ontology.PrositeMotifComponent extends AbstractMobyComponent<T extends PrositeMotif> implements Serializable

Class org.inb.biomoby.client.gui.ontology.RestrictAnnotatedNASequenceComponent extends AbstractMobyComponent<T extends RestrictAnnotatedNASequence> implements Serializable

Serialized Fields

annotatedNASequencePanel

AnnotatedNASequenceComponent annotatedNASequencePanel

annotations

RestrictAnnotationListPane<T extends RestrictAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.RestrictReportComponent extends AbstractMobyComponent<T extends RestrictReport> implements Serializable

Serialized Fields

annotationHitsPanel

AnnotationHitsComponent annotationHitsPanel

restrictAnnotatedNASequencePanel

RestrictAnnotatedNASequenceComponent<T extends RestrictAnnotatedNASequence> restrictAnnotatedNASequencePanel

Class org.inb.biomoby.client.gui.ontology.RulesComponent extends AbstractMobyComponent<T extends Rules> implements Serializable

Serialized Fields

label

RoundedMultilineLabel label

Class org.inb.biomoby.client.gui.ontology.ScoredMotifAnnotatedAASequenceComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotatedAASequencePanel

AnnotatedAASequenceComponent annotatedAASequencePanel

annotations

ScoredMotifAnnotationListPane<T extends ScoredMotifAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.Sequence_alignment_reportComponent extends Text__formattedComponent implements Serializable

Class org.inb.biomoby.client.gui.ontology.SigcleaveAnnotatedAASequenceComponent extends AbstractMobyComponent<T extends SigcleaveAnnotatedAASequence> implements Serializable

Serialized Fields

annotatedAASequencePanel

AnnotatedAASequenceComponent annotatedAASequencePanel

annotations

SigcleaveAnnotationListPane<T extends SigcleaveAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.SigcleaveReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotationHitsPanel

AnnotationHitsComponent annotationHitsPanel

sigcleaveAnnotatedAASequencePanel

SigcleaveAnnotatedAASequenceComponent<T extends SigcleaveAnnotatedAASequence> sigcleaveAnnotatedAASequencePanel

Class org.inb.biomoby.client.gui.ontology.Stockholm_TextComponent extends Sequence_alignment_reportComponent implements Serializable

Class org.inb.biomoby.client.gui.ontology.StructureBoundariesComponent extends AnnotationComponent<StructureBoundaries> implements Serializable

Class org.inb.biomoby.client.gui.ontology.StructureDomainComponent extends AbstractMobyComponent<T extends StructureDomain> implements Serializable

Serialized Fields

segments

ArrayList<E> segments

min

int min

max

int max

dWidth

int dWidth

Class org.inb.biomoby.client.gui.ontology.StructureFragmentComponent extends AnnotationComponent<StructureFragment> implements Serializable

Class org.inb.biomoby.client.gui.ontology.Text__formattedComponent extends Text__plainComponent<T extends Text__formatted> implements Serializable

Class org.inb.biomoby.client.gui.ontology.Text__plainComponent extends AbstractMobyComponent<T extends Text__plain> implements Serializable

Serialized Fields

textarea

JTextArea textarea

Class org.inb.biomoby.client.gui.ontology.TransmembraneAnnotatedAASequenceComponent extends AbstractMobyComponent<T extends TransmembraneAnnotatedAASequence> implements Serializable

Serialized Fields

annotatedAASequencePanel

AnnotatedAASequenceComponent annotatedAASequencePanel

annotations

TransmembraneAnnotationListPane<T extends TransmembraneAnnotation> annotations

Class org.inb.biomoby.client.gui.ontology.TransmembraneReportComponent extends AbstractMobyComponent implements Serializable

Serialized Fields

annotationHitsPanel

AnnotationHitsComponent annotationHitsPanel

transmembraneAnnotatedAASequencePanel

TransmembraneAnnotatedAASequenceComponent<T extends TransmembraneAnnotatedAASequence> transmembraneAnnotatedAASequencePanel

Package org.inb.biomoby.client.gui.swing

Class org.inb.biomoby.client.gui.swing.CollapsablePanel extends JPanel implements Serializable

Serialized Fields

collapse

Icon collapse

expand

Icon expand

button

JButton button

header

JComponent header

panel

JComponent panel

Class org.inb.biomoby.client.gui.swing.RoundedButton extends JButton implements Serializable

Serialized Fields

border

RoundedBorder border

Class org.inb.biomoby.client.gui.swing.RoundedMultilineLabel extends JLabel implements Serializable

Serialized Fields

border

RoundedBorder border

Package org.inb.biomoby.client.gui.swing.border

Class org.inb.biomoby.client.gui.swing.border.HeaderBorder extends TitledBorder implements Serializable

Package org.inb.biomoby.generator.gui

Class org.inb.biomoby.generator.gui.AbstractServiceModelPanel extends AbstractMobyServicesTreePanel implements Serializable

Serialized Fields

reloadButton

LabelButton reloadButton

generateButton

LabelButton generateButton

filePath

String filePath

Class org.inb.biomoby.generator.gui.DatatypesGeneratorPanel extends AbstractMobyDatatypesTreePanel implements Serializable

Serialized Fields

reloadButton

LabelButton reloadButton

generateButton

LabelButton generateButton

Class org.inb.biomoby.generator.gui.Main extends JApplet implements Serializable

Class org.inb.biomoby.generator.gui.MainPanel extends JPanel implements Serializable

Serialized Fields

endpoints

JComboBox endpoints

statusBar

StatusBar statusBar

Class org.inb.biomoby.generator.gui.ServiceAccessorGeneratorPanel extends AbstractServiceModelPanel implements Serializable

Class org.inb.biomoby.generator.gui.ServicesGeneratorPanel extends AbstractServiceModelPanel implements Serializable

Package org.inb.biomoby.shared.datatypes

Class org.inb.biomoby.shared.datatypes.MobyBinary extends AbstractMobyObject implements Serializable

Serialized Fields

handler

DataHandler handler

Class org.inb.biomoby.shared.datatypes.MobyBoolean extends AbstractMobyObject implements Serializable

Serialized Fields

bool

boolean bool

Class org.inb.biomoby.shared.datatypes.MobyDateTime extends AbstractMobyObject implements Serializable

Serialized Fields

time

long time

dirty

boolean dirty

calendar

GregorianCalendar calendar

Class org.inb.biomoby.shared.datatypes.MobyFloat extends AbstractMobyObject implements Serializable

Serialized Fields

_float

double _float

Class org.inb.biomoby.shared.datatypes.MobyInteger extends AbstractMobyObject implements Serializable

Serialized Fields

integer

int integer

Class org.inb.biomoby.shared.datatypes.MobyString extends AbstractMobyObject implements Serializable

Serialized Fields

value

String value

Package org.inb.biomoby.shared.message

Class org.inb.biomoby.shared.message.AbstractMobyElement extends Object implements Serializable

Serialized Fields

articleName

String articleName

Class org.inb.biomoby.shared.message.AbstractMobyObject extends AbstractMobyElement implements Serializable

Serialized Fields

id

String id

namespace

String namespace

Class org.inb.biomoby.shared.message.AnyMobyObject extends MobyObject implements Serializable

Serialized Fields

type

String type

Class org.inb.biomoby.shared.message.CrossReference extends Object implements Serializable

Serialized Fields

objects

ArrayList<E> objects

Class org.inb.biomoby.shared.message.MobyCollection extends MobyDataElement implements Serializable

Serialized Fields

list

List<E> list

Class org.inb.biomoby.shared.message.MobyContent extends Object implements Serializable

Serialized Fields

serviceNotes

ServiceNotes serviceNotes

mobyDataList

ArrayList<E> mobyDataList

Class org.inb.biomoby.shared.message.MobyData extends Object implements Serializable

Serialized Fields

queryID

String queryID

data

List<E> data

parameters

ArrayList<E> parameters

Class org.inb.biomoby.shared.message.MobyDataElement extends AbstractMobyElement implements Serializable

Class org.inb.biomoby.shared.message.MobyException extends Object implements Serializable

Serialized Fields

severity

MobyException.SEVERITY severity

refQueryID

String refQueryID

refElement

String refElement

exceptionCode

String exceptionCode

exceptionMessage

String exceptionMessage

Class org.inb.biomoby.shared.message.MobyExceptions extends Exception implements Serializable

Serialized Fields

exceptions

ArrayList<E> exceptions

Class org.inb.biomoby.shared.message.MobyMessage extends Object implements Serializable

Serialized Fields

mobyContent

MobyContent mobyContent

Class org.inb.biomoby.shared.message.MobyObject extends AbstractMobyObject implements Serializable

Serialized Fields

attributes

List<E> attributes

Class org.inb.biomoby.shared.message.MobyParameter extends AbstractMobyElement implements Serializable

Serialized Fields

value

String value

Class org.inb.biomoby.shared.message.MobySimple extends MobyDataElement implements Serializable

Serialized Fields

object

AbstractMobyObject object

Class org.inb.biomoby.shared.message.ServiceNotes extends Object implements Serializable

Serialized Fields

notes

String notes

exceptions

MobyExceptions exceptions

Package org.inb.biomoby.shared.ontology

Class org.inb.biomoby.shared.ontology.AminoAcidSequence extends GenericSequence implements Serializable

Class org.inb.biomoby.shared.ontology.AnnotatedAASequence extends CommentedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.AnnotatedDomain extends Domain implements Serializable

Class org.inb.biomoby.shared.ontology.AnnotatedNASequence extends CommentedNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.AnnotatedStructure extends PDB__Text implements Serializable

Class org.inb.biomoby.shared.ontology.Annotation extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.AnnotationHits extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.AntigenicAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.AntigenicAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.AntigenicReport extends AntigenicAnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.Array extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.ArrayFloat extends Array implements Serializable

Class org.inb.biomoby.shared.ontology.ArrayInteger extends Array implements Serializable

Class org.inb.biomoby.shared.ontology.ArrayString extends Array implements Serializable

Class org.inb.biomoby.shared.ontology.ArrayXYData extends Array implements Serializable

Class org.inb.biomoby.shared.ontology.BasicAnnotation extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.BL2GAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.BLAST__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.BLAST_XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.BLOCKAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.BlocksAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.ByoDynInput extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.ByoDynOEDParameter extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.ByoDynTarget extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.CATHDomain extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.CathDomainDescription_XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.Clustalw_Evaluated_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.Clustalw_Text extends Sequence_alignment_report implements Serializable

Class org.inb.biomoby.shared.ontology.Clustering extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.ClusterProfile_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.CodcmpReport_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.CodonUsageTable_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.CommentedAASequence extends AminoAcidSequence implements Serializable

Class org.inb.biomoby.shared.ontology.CommentedAASubsequence extends CommentedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.CommentedDNASequence extends DNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.CommentedNASequence extends NucleotideSequence implements Serializable

Class org.inb.biomoby.shared.ontology.CommentedObject extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.CommentedRNASequence extends RNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.CommentedWeightedObject extends CommentedObject implements Serializable

Class org.inb.biomoby.shared.ontology.Consensus_Sequence_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.CpGAnnotatedNASequence extends AnnotatedNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.CpGAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.CpGReport extends CpGAnnotatedNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.DASGFF extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.DCCP_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.DGPI_Report extends Text__html implements Serializable

Class org.inb.biomoby.shared.ontology.DifferentialExpressionTest__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.DifferentialExpressionTest_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.DigestReport extends MolWeightsAnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.Distance_Matrix extends MatrixFloat implements Serializable

Class org.inb.biomoby.shared.ontology.DNASequence extends NucleotideSequence implements Serializable

Class org.inb.biomoby.shared.ontology.Domain extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.DomainAnnotatedSequence extends CommentedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.DSSP_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.DTA_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.Element extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.ElementFloat extends Element implements Serializable

Class org.inb.biomoby.shared.ontology.ElementInteger extends Element implements Serializable

Class org.inb.biomoby.shared.ontology.ElementString extends Element implements Serializable

Class org.inb.biomoby.shared.ontology.ElementXYData extends Element implements Serializable

Class org.inb.biomoby.shared.ontology.EMBL_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.EmowseAnnotatedAASequence extends MolWeightsAnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.ENSEMBLHomolog extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.Enzymatic_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.EquicktandemAnnotatedNASequence extends AnnotatedNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.EquicktandemAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.EquicktandemReport extends EquicktandemAnnotatedNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.ExpressionCore extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.ExpressionStatistics extends ExpressionCore implements Serializable

Class org.inb.biomoby.shared.ontology.FamilyBLOCKAnnotation extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.FASTA extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.FASTA_AA extends FASTA implements Serializable

Class org.inb.biomoby.shared.ontology.FASTA_AA_multi extends FASTA_AA implements Serializable

Class org.inb.biomoby.shared.ontology.FASTA_NA extends FASTA implements Serializable

Class org.inb.biomoby.shared.ontology.FASTA_NA_multi extends FASTA_NA implements Serializable

Class org.inb.biomoby.shared.ontology.FASTA_pep extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.FASTA_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.FatiGO__XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.FatiGO_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.FatiScan__XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.FatiScan_Text extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.FeatureAASequence extends CommentedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.FeatureAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.FeatureAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.FSOLV_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.FSSP_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.FunCUT_Annotation_XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.GenBank_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.GenericSequence extends VirtualSequence implements Serializable

Class org.inb.biomoby.shared.ontology.GFF extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.GFF2 extends GFF implements Serializable

Class org.inb.biomoby.shared.ontology.GFF3 extends GFF implements Serializable

Class org.inb.biomoby.shared.ontology.GOGraph extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.GOTerm extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.HierarchicalClustering extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.HMM_Text extends Consensus_Sequence_Text implements Serializable

Class org.inb.biomoby.shared.ontology.HMMPfam_Report extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.HMMSearch_Report extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.HSSP_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.Image_Encoded extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.IntAct_XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.Interaction extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.InteractionMethod extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.Interactor extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.InterProMotifAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.InterProMotifAnnotation extends ScoredMotifAnnotation implements Serializable

Class org.inb.biomoby.shared.ontology.ISS_Annotation_XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.ISS_Report extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.List__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.List_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.LutefiskAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.LutefiskAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.LutefiskReport extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.MatchingPattern extends Pattern implements Serializable

Class org.inb.biomoby.shared.ontology.Matrix extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.MatrixFloat extends Matrix implements Serializable

Class org.inb.biomoby.shared.ontology.MatrixInteger extends Matrix implements Serializable

Class org.inb.biomoby.shared.ontology.MatrixString extends Matrix implements Serializable

Class org.inb.biomoby.shared.ontology.MEME_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.Meta_Alignment_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.MicroArrayData__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.MicroArrayData_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.MmCIF__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.MmCIF_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.MolWeightAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.MolWeightsAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.MolWeightsArray extends ArrayFloat implements Serializable

Class org.inb.biomoby.shared.ontology.MotifAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.MotifAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.MotifMatrix extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.MSF extends Sequence_alignment_report implements Serializable

Class org.inb.biomoby.shared.ontology.MultiParameter extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.NAMD_Conf_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.NAMD_Output extends NAMD_Structure implements Serializable

Class org.inb.biomoby.shared.ontology.NAMD_Structure extends PDB__Text implements Serializable

Class org.inb.biomoby.shared.ontology.NCBI_BLAST_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.NCut_Clusters extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.NCut_Matrix extends MatrixFloat implements Serializable

Class org.inb.biomoby.shared.ontology.NCut_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.NDB__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.Newick__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.Newick_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.NucleotideSequence extends GenericSequence implements Serializable

Class org.inb.biomoby.shared.ontology.OMIM extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.Parameter extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.Parameters4Values extends Parameter implements Serializable

Class org.inb.biomoby.shared.ontology.ParametersToVary extends Parameter implements Serializable

Class org.inb.biomoby.shared.ontology.PatmatdbReport extends ScoredMotifAnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.PatmatmotifsReport extends ScoredMotifAnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.Pattern extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.PDB__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.PDB_Enriched extends PDB__Text implements Serializable

Class org.inb.biomoby.shared.ontology.Pepcoil_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.PepinfoReport extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.PepNovoReport extends ProbMolWeightsAnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.Pepstats_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.PHD_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.Phylip_Interleaved_Text extends Phylip_Text implements Serializable

Class org.inb.biomoby.shared.ontology.Phylip_Text extends Sequence_alignment_report implements Serializable

Class org.inb.biomoby.shared.ontology.Phylip_tree_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.Phylip_treefile_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.PIR_Text extends Sequence_alignment_report implements Serializable

Class org.inb.biomoby.shared.ontology.PMUT_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.PPSearchReport extends MotifAnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.Prediction__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.PredictionModel__XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.PredictorTraining_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.ProbMolWeightAnnotation extends MolWeightAnnotation implements Serializable

Class org.inb.biomoby.shared.ontology.ProbMolWeightsAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.ProdomMotif extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.PropertySequence extends GenericSequence implements Serializable

Class org.inb.biomoby.shared.ontology.PrositeDoc_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.PrositeMotif extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.PSF_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.RefSeq_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.RestrictAnnotatedNASequence extends AnnotatedNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.RestrictAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.RestrictReport extends RestrictAnnotatedNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.RNASequence extends NucleotideSequence implements Serializable

Class org.inb.biomoby.shared.ontology.Rules extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.SCOPDomain extends StructureDomain implements Serializable

Class org.inb.biomoby.shared.ontology.SCOPLayerNode extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.ScoredMotifAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.ScoredMotifAnnotation extends MotifAnnotation implements Serializable

Class org.inb.biomoby.shared.ontology.Sequence_alignment_report extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.SequenceDescription_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.SIAM_Annotation_XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.SigcleaveAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.SigcleaveAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.SigcleaveReport extends SigcleaveAnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.Stockholm_Text extends Sequence_alignment_report implements Serializable

Class org.inb.biomoby.shared.ontology.Structure_Alignment_Report extends PDB_Enriched implements Serializable

Class org.inb.biomoby.shared.ontology.StructureBoundaries extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.StructureDomain extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.StructureFragment extends StructureBoundaries implements Serializable

Class org.inb.biomoby.shared.ontology.SwissProt_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.Target extends Parameter implements Serializable

Class org.inb.biomoby.shared.ontology.TargetArgument extends Parameter implements Serializable

Class org.inb.biomoby.shared.ontology.Text__formatted extends Text__plain implements Serializable

Class org.inb.biomoby.shared.ontology.Text__html extends Text__plain implements Serializable

Class org.inb.biomoby.shared.ontology.Text__plain extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.Text__xhtml extends Text__plain implements Serializable

Class org.inb.biomoby.shared.ontology.Text__xml extends Text__plain implements Serializable

Class org.inb.biomoby.shared.ontology.TFscan_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.TransmembraneAnnotatedAASequence extends AnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.TransmembraneAnnotation extends Annotation implements Serializable

Class org.inb.biomoby.shared.ontology.TransmembraneReport extends TransmembraneAnnotatedAASequence implements Serializable

Class org.inb.biomoby.shared.ontology.TreeDet_Annotation_HTML extends Text__html implements Serializable

Class org.inb.biomoby.shared.ontology.TreeDet_Annotation_XML extends Text__xml implements Serializable

Class org.inb.biomoby.shared.ontology.TreeDet_Report extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.TTS extends CommentedDNASequence implements Serializable

Class org.inb.biomoby.shared.ontology.Typed_Image extends Image_Encoded implements Serializable

Class org.inb.biomoby.shared.ontology.URL__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.VirtualSequence extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.WeightedAminoAcidSequences extends AminoAcidSequence implements Serializable

Class org.inb.biomoby.shared.ontology.WeightedList__Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.WeightedList_Text extends Text__formatted implements Serializable

Class org.inb.biomoby.shared.ontology.WeightedObject extends MobyObject implements Serializable

Class org.inb.biomoby.shared.ontology.Zip_Encoded extends MobyObject implements Serializable

Package org.inb.biomoby.shared.registry

Class org.inb.biomoby.shared.registry.AbstractEntity extends Object implements Serializable

Serialized Fields

name

String name

authURI

String authURI

contactEmail

String contactEmail

title

String title

description

String description

lsid

String lsid

Class org.inb.biomoby.shared.registry.AbstractTypeEntity extends AbstractEntity<T extends AbstractTypeEntity> implements Serializable

Class org.inb.biomoby.shared.registry.Collection extends Object implements Serializable

Serialized Fields

articleName

String articleName

simple

Simple simple

Class org.inb.biomoby.shared.registry.Data extends Object implements Serializable

Serialized Fields

simples

ArrayList<E> simples

collections

ArrayList<E> collections

Class org.inb.biomoby.shared.registry.Input extends Data implements Serializable

Class org.inb.biomoby.shared.registry.Namespace extends AbstractEntity<Namespace> implements Serializable

Class org.inb.biomoby.shared.registry.ObjectType extends AbstractTypeEntity<ObjectType> implements Serializable

Serialized Fields

articleName

String articleName

relationships

ArrayList<E> relationships

Class org.inb.biomoby.shared.registry.Output extends Data implements Serializable

Class org.inb.biomoby.shared.registry.Parameter extends Object implements Serializable

Serialized Fields

articleName

String articleName

datatype

Parameter.PARAMETER_TYPE datatype

description

String description

_default

String _default

max

String max

min

String min

_enum

ArrayList<E> _enum

Class org.inb.biomoby.shared.registry.Registration extends Object implements Serializable

Serialized Fields

success

Registration.SUCCESS_CODE success

id

String id

message

String message

rdf

String rdf

Class org.inb.biomoby.shared.registry.Relationship extends Object implements Serializable

Serialized Fields

relationshipType

Relationship.RELATIONSHIP_TYPE relationshipType

entityTypeList

ArrayList<E> entityTypeList

lsid

String lsid

Class org.inb.biomoby.shared.registry.Resource extends Object implements Serializable

Serialized Fields

name

Resource.RESOURCE_NAME name

url

String url

Class org.inb.biomoby.shared.registry.Service extends AbstractEntity<Service> implements Serializable

Serialized Fields

category

Service.CATEGORY category

serviceType

ServiceType serviceType

authoritative

boolean authoritative

url

String url

signatureURL

String signatureURL

input

Input input

output

Output output

secondaryArticles

ArrayList<E> secondaryArticles

Class org.inb.biomoby.shared.registry.ServiceProvider extends Object implements Serializable

Serialized Fields

name

String name

Class org.inb.biomoby.shared.registry.ServiceType extends AbstractTypeEntity<ServiceType> implements Serializable

Serialized Fields

relationships

ArrayList<E> relationships

wsdl

String wsdl

Class org.inb.biomoby.shared.registry.Simple extends Object implements Serializable

Serialized Fields

articleName

String articleName

objectType

ObjectType objectType

namespaces

ArrayList<E> namespaces

Package org.inb.biomoby.shared.wsrf.fault

Class org.inb.biomoby.shared.wsrf.fault.InvalidQueryExpressionFault extends Exception implements Serializable

Serialized Fields

faultInfo

InvalidQueryExpressionFaultType faultInfo

Class org.inb.biomoby.shared.wsrf.fault.InvalidResourcePropertyQNameFault extends Exception implements Serializable

Serialized Fields

faultInfo

InvalidResourcePropertyQNameFaultType faultInfo

Class org.inb.biomoby.shared.wsrf.fault.QueryEvaluationErrorFault extends Exception implements Serializable

Serialized Fields

faultInfo

QueryEvaluationErrorFaultType faultInfo

Class org.inb.biomoby.shared.wsrf.fault.ResourceNotDestroyedFault extends Exception implements Serializable

Serialized Fields

faultInfo

ResourceNotDestroyedFaultType faultInfo

Class org.inb.biomoby.shared.wsrf.fault.ResourceUnavailableFault extends Exception implements Serializable

Serialized Fields

faultInfo

ResourceUnavailableFaultType faultInfo

Class org.inb.biomoby.shared.wsrf.fault.ResourceUnknownFault extends Exception implements Serializable

Serialized Fields

faultInfo

ResourceUnknownFaultType faultInfo

Class org.inb.biomoby.shared.wsrf.fault.UnknownQueryExpressionDialectFault extends Exception implements Serializable

Serialized Fields

faultInfo

UnknownQueryExpressionDialectFaultType faultInfo

Package org.inb.swing

Class org.inb.swing.DecoratedJScrollPane extends JScrollPane implements Serializable

Serialized Fields

logo

BufferedImage logo

Class org.inb.swing.LabelButton extends JLabel implements Serializable

Class org.inb.swing.StatusBar extends JPanel implements Serializable

Serialized Fields

label

JLabel label

message

String message

logPanel

org.inb.swing.StatusBar.LogPanel logPanel

timer

Timer timer

fader

org.inb.swing.StatusBar.Fader fader

Class org.inb.swing.StatusBar.LogPanel extends JPopupMenu implements Serializable

Serialized Fields

buffer

StringBuilder buffer

textPane

JEditorPane textPane

scrollPane

JScrollPane scrollPane

timer

Timer timer