A B C D E F G H I L M N P Q R S T U V W

A

ABSMIDDLE - Static variable in class fr.ens.transcriptome.doelan.gui.MyImageView
 
APP_DESCRITPION - Static variable in class fr.ens.transcriptome.doelan.Defaults
Name of the application.
APP_NAME - Static variable in class fr.ens.transcriptome.doelan.Defaults
Name of the application.
ARRAY_PLOT_MARGIN - Static variable in class fr.ens.transcriptome.doelan.Defaults
Array plot margin.
ARRAY_PLOT_WIDTH - Static variable in class fr.ens.transcriptome.doelan.Defaults
Array plot width.
AUTHORS - Static variable in class fr.ens.transcriptome.doelan.Defaults
Authors
AboutWidget - class fr.ens.transcriptome.doelan.gui.AboutWidget.
About widget
AboutWidget() - Constructor for class fr.ens.transcriptome.doelan.gui.AboutWidget
Public constructor.
AbsentSpotTest - class fr.ens.transcriptome.doelan.tests.AbsentSpotTest.
This class implements the Empty spot test.
AbsentSpotTest() - Constructor for class fr.ens.transcriptome.doelan.tests.AbsentSpotTest
Public constructor.
App - class fr.ens.transcriptome.doelan.App.
A Class to test the application with standalone application.
App() - Constructor for class fr.ens.transcriptome.doelan.App
 
about() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get information about the project.
aboutModule() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanExecuteGlobalTests
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanGenerateReport
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanLoadGenepixData
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanShowReport
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResultData
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResultData
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResultData
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.AbsentSpotTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.BadFeatureTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.DiameterFeatureTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.FeatureFlagTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.GenericTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeatureRemoved
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeaturesTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.HeterogeneousFeatureTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.MaxDiameterFeatureTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.MinDiameterFeatureTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.MinimalIntensityTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.NotFoundFeatureTest
Get the description of the module.
aboutModule() - Method in class fr.ens.transcriptome.doelan.tests.SaturatedPixelsTest
Get the description of the module.
addChipType(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Add a chip type to the list
addGlobalTest(QualityGlobalTest, Parameters) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Add a global test.
addGlobalTest(TestSuiteResult.GlobalTest) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Add a global test.
addTestId(String) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Add a test id for the test order in the report.
addTestSuite(String, QualityTestSuiteURL) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Add a testSuite to the list
algorithmStateChanged(AlgorithmEvent) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Handle algorithm events

B

BOTTOM - Static variable in class fr.ens.transcriptome.doelan.gui.MyImageView
 
BadFeatureTest - class fr.ens.transcriptome.doelan.tests.BadFeatureTest.
This class defines a test for not found spot flag.
BadFeatureTest() - Constructor for class fr.ens.transcriptome.doelan.tests.BadFeatureTest
Public constructor.

C

CENTER - Static variable in class fr.ens.transcriptome.doelan.gui.MyImageView
 
CHIP_TYPE_ANNOTATION_KEY - Static variable in class fr.ens.transcriptome.doelan.Defaults
Annaotation key of the type of the chip.
CONFIGURE_ALGORITHM - Static variable in class fr.ens.transcriptome.doelan.Core
Identifier of the show report algorithm.
CONFIGURE_TEST_EVENT - Static variable in class fr.ens.transcriptome.doelan.algorithms.QualityTest
Identifier for result event.
CONFIG_FILE - Static variable in class fr.ens.transcriptome.doelan.Defaults
Config file.
COPYRIGHT_DATE - Static variable in class fr.ens.transcriptome.doelan.Defaults
Copyrigth date.
CommonWindow - class fr.ens.transcriptome.doelan.gui.CommonWindow.
Common GUI for applet and normal application.
CommonWindow(Applet, URL) - Constructor for class fr.ens.transcriptome.doelan.gui.CommonWindow
Public constructor for applet mode.
CommonWindow(JFrame, URL) - Constructor for class fr.ens.transcriptome.doelan.gui.CommonWindow
Public constructor for standalone mode.
Core - class fr.ens.transcriptome.doelan.Core.
Manage the Workflows
calcColumnWidths(JTable) - Static method in class fr.ens.transcriptome.doelan.gui.TestSuitePanel
Calculate the number of column to display.
changedUpdate(DocumentEvent, Shape, ViewFactory) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
My attributes may have changed.
clear() - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Clear the list.
clear() - Method in class fr.ens.transcriptome.doelan.gui.ReportTabWidget
 
clearResults() - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Clear results.
clearResults() - Method in class fr.ens.transcriptome.doelan.gui.TestSuitePanel
Clear the result column.
close() - Method in class fr.ens.transcriptome.doelan.gui.EditParametersWidget
Hide the widget.
close() - Method in class fr.ens.transcriptome.doelan.gui.NewWorkflowElementWidget
Hide the widget.
create(Element) - Method in class fr.ens.transcriptome.doelan.gui.DoelanEditorKit.HTMLFactoryX
Display an element.
createDemoWorkflow() - Method in class fr.ens.transcriptome.doelan.Core
Create and activate the demo test suite.
createEmptyWorkflow() - Method in class fr.ens.transcriptome.doelan.Core
Create and activate the empty test suite.
createQualityTestSuiteListIO(String) - Method in class fr.ens.transcriptome.doelan.io.QualityTestIOFactory
Create IO object for quality tests suites lists.
createQualityTestSuiteListIO(InputStream) - Method in class fr.ens.transcriptome.doelan.io.QualityTestIOFactory
Create IO object for quality tests suites lists.
createQualityTestSuiteListIO(OutputStream) - Method in class fr.ens.transcriptome.doelan.io.QualityTestIOFactory
Create IO object for quality tests suites lists.

D

DEBUG - Static variable in class fr.ens.transcriptome.doelan.Defaults
Debug mode.
DEFAULT_TEST_VERSION - Static variable in class fr.ens.transcriptome.doelan.Defaults
Default version of the tests.
DOELAN_CHART_HEIGHT - Static variable in class fr.ens.transcriptome.doelan.Defaults
Chart plot height.
DOELAN_WORKFLOW_TYPE - Static variable in class fr.ens.transcriptome.doelan.Defaults
Type of workflow for doelan test suite.
DOELAN_WORKFLOW_VERSION - Static variable in class fr.ens.transcriptome.doelan.Defaults
Version of the workflow for doelan test suite.
DOELAN_WORKFLOW_VERSION_ANNOTATION_KEY - Static variable in class fr.ens.transcriptome.doelan.Defaults
Annatation key for the version of the test suite workflow.
DOLEAN_CHART_WIDTH - Static variable in class fr.ens.transcriptome.doelan.Defaults
Chart plot width.
Defaults - class fr.ens.transcriptome.doelan.Defaults.
Default values of the application.
Defaults() - Constructor for class fr.ens.transcriptome.doelan.Defaults
 
DescriptionWidget - class fr.ens.transcriptome.doelan.gui.DescriptionWidget.
This class implements a file chooser.
DescriptionWidget(String, int, JPanel, int) - Constructor for class fr.ens.transcriptome.doelan.gui.DescriptionWidget
Public constructor.
DiameterFeatureTest - class fr.ens.transcriptome.doelan.tests.DiameterFeatureTest.
This class defines a quality test based on spot diameter.
DiameterFeatureTest() - Constructor for class fr.ens.transcriptome.doelan.tests.DiameterFeatureTest
Public constructor.
DoelanChart - class fr.ens.transcriptome.doelan.DoelanChart.
This class allow to generate a plot.
DoelanChart() - Constructor for class fr.ens.transcriptome.doelan.DoelanChart
 
DoelanConfigure - class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure.
Configure Defaults for the test suite.
DoelanConfigure() - Constructor for class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure
Public constructor.
DoelanDataDefaults - class fr.ens.transcriptome.doelan.data.DoelanDataDefaults.
This class defines constants for doelan data types.
DoelanDataDefaults() - Constructor for class fr.ens.transcriptome.doelan.data.DoelanDataDefaults
 
DoelanDataUtils - class fr.ens.transcriptome.doelan.data.DoelanDataUtils.
This class defines some useful method for quality tests
DoelanEditorKit - class fr.ens.transcriptome.doelan.gui.DoelanEditorKit.
HTML viewer which can display image.
DoelanEditorKit() - Constructor for class fr.ens.transcriptome.doelan.gui.DoelanEditorKit
 
DoelanEditorKit.HTMLFactoryX - class fr.ens.transcriptome.doelan.gui.DoelanEditorKit.HTMLFactoryX.
This class implements a HTML factory which can display image.
DoelanException - exception fr.ens.transcriptome.doelan.DoelanException.
A nestable quality exception.
DoelanException(String) - Constructor for class fr.ens.transcriptome.doelan.DoelanException
Create a new QualityException with a message.
DoelanException(Throwable) - Constructor for class fr.ens.transcriptome.doelan.DoelanException
Create a new QualityException with a cause.
DoelanException(Throwable, String) - Constructor for class fr.ens.transcriptome.doelan.DoelanException
Deprecated. use new QualityException(message, ex) instead
DoelanException(String, Throwable) - Constructor for class fr.ens.transcriptome.doelan.DoelanException
Create a new QualityException with a cause and a message.
DoelanException() - Constructor for class fr.ens.transcriptome.doelan.DoelanException
Create a new QualityException.
DoelanExecuteGlobalTests - class fr.ens.transcriptome.doelan.algorithms.DoelanExecuteGlobalTests.
This algorithm execute all the global tests and compute the ouput array list.
DoelanExecuteGlobalTests() - Constructor for class fr.ens.transcriptome.doelan.algorithms.DoelanExecuteGlobalTests
Public constructor.
DoelanGenerateReport - class fr.ens.transcriptome.doelan.algorithms.DoelanGenerateReport.
This class define an algorithm to show test suite report.
DoelanGenerateReport() - Constructor for class fr.ens.transcriptome.doelan.algorithms.DoelanGenerateReport
Public constructor.
DoelanLoadGenepixData - class fr.ens.transcriptome.doelan.algorithms.DoelanLoadGenepixData.
This class implements a module witch load GPR and GAL file.
DoelanLoadGenepixData() - Constructor for class fr.ens.transcriptome.doelan.algorithms.DoelanLoadGenepixData
Public constructor.
DoelanRegistery - class fr.ens.transcriptome.doelan.DoelanRegistery.
Globals setting for the application
DoelanShowReport - class fr.ens.transcriptome.doelan.algorithms.DoelanShowReport.
This algorithm show in doelan GUI the status and the report of the test suite.
DoelanShowReport() - Constructor for class fr.ens.transcriptome.doelan.algorithms.DoelanShowReport
Public constructor.
defineParameters() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanExecuteGlobalTests
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanGenerateReport
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanLoadGenepixData
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanShowReport
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.DiameterFeatureTest
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.FeatureFlagTest
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.GenericTest
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeatureRemoved
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeaturesTest
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.HeterogeneousFeatureTest
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.MaxDiameterFeatureTest
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.MinDiameterFeatureTest
Set the parameters of the element.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.MinimalIntensityTest
Define the parameters of the algorithm.
defineParameters() - Method in class fr.ens.transcriptome.doelan.tests.SaturatedPixelsTest
Set the parameters of the element.
doIt(Container, Parameters) - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure
 
doIt(Container, Parameters) - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanExecuteGlobalTests
This method contains all the code to manipulate the container c in this element.
doIt(Container, Parameters) - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanGenerateReport
This method contains all the code to manipulate the container c in this element.
doIt(Container, Parameters) - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanLoadGenepixData
This method contains all the code to manipulate the container c in this element.
doIt(Container, Parameters) - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanShowReport
This method contains all the code to manipulate the container c in this element.
doIt(Container, Parameters) - Method in class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest
 
doIt(Container, Parameters) - Method in class fr.ens.transcriptome.doelan.algorithms.QualityUnitTest
 
doTest(Container, Parameters) - Method in class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest
This method is called once all the unit tests was executed.

E

EXECUTE_GLOBAL_TESTS_ALGORITHM - Static variable in class fr.ens.transcriptome.doelan.Core
Identifier of the algorithm for executing global test.
EclipseApp - class fr.ens.transcriptome.doelan.EclipseApp.
This class allow to launch Doelan within Eclipse
EditParametersWidget - class fr.ens.transcriptome.doelan.gui.EditParametersWidget.
This class describe a widhet used to edit parameters of an algorithm.
EditParametersWidget(Algorithm) - Constructor for class fr.ens.transcriptome.doelan.gui.EditParametersWidget
Public consructor.
edit() - Method in class fr.ens.transcriptome.doelan.gui.EditParametersWidget
Show the widget for editing parameters.
executeTest(Container) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult.GlobalTest
Excecute the test with its parameters

F

FeatureFlagTest - class fr.ens.transcriptome.doelan.tests.FeatureFlagTest.
This class defines a test for not found spot flag.
FeatureFlagTest() - Constructor for class fr.ens.transcriptome.doelan.tests.FeatureFlagTest
Public constructor.
FileChooserWidget - class fr.ens.transcriptome.doelan.gui.FileChooserWidget.
This class implements a file chooser.
FileChooserWidget(boolean, String, int, String, String, String, JPanel, int) - Constructor for class fr.ens.transcriptome.doelan.gui.FileChooserWidget
Public constructor.
filterModule(AboutModule, Algorithm, boolean) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Test if an algorithm is a showable quality test.
filterWorkflowElement(WorkflowElement) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Test if an element is a showable Workflow element.
fr.ens.transcriptome.doelan - package fr.ens.transcriptome.doelan
 
fr.ens.transcriptome.doelan.algorithms - package fr.ens.transcriptome.doelan.algorithms
 
fr.ens.transcriptome.doelan.data - package fr.ens.transcriptome.doelan.data
doelan data package.
fr.ens.transcriptome.doelan.gui - package fr.ens.transcriptome.doelan.gui
 
fr.ens.transcriptome.doelan.io - package fr.ens.transcriptome.doelan.io
 
fr.ens.transcriptome.doelan.tests - package fr.ens.transcriptome.doelan.tests
 

G

GENERATE_REPORT_ALGORITHM - Static variable in class fr.ens.transcriptome.doelan.Core
Identifier of the generate report algorithm.
GLOBAL_TEST_INIT_EVENT - Static variable in class fr.ens.transcriptome.doelan.algorithms.QualityTest
Identifier for result event.
GLOBAL_TEST_RESULT_TYPE - Static variable in class fr.ens.transcriptome.doelan.data.DoelanDataDefaults
Global test result type.
GenepixApplet - class fr.ens.transcriptome.doelan.GenepixApplet.
Applet of the application.
GenepixApplet() - Constructor for class fr.ens.transcriptome.doelan.GenepixApplet
 
GenericTest - class fr.ens.transcriptome.doelan.tests.GenericTest.
This class define a generic unit test
GenericTest() - Constructor for class fr.ens.transcriptome.doelan.tests.GenericTest
Public constructor.
GlobalMaxBadFeatureRemoved - class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeatureRemoved.
This class define a Global test which count the number of bad removed spot.
GlobalMaxBadFeatureRemoved() - Constructor for class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeatureRemoved
Public constructor.
GlobalMaxBadFeaturesTest - class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeaturesTest.
This class defines an algorithm to count the maximal bad spots in a test suite.
GlobalMaxBadFeaturesTest() - Constructor for class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeaturesTest
Public constructor.
getAlgorithm() - Method in class fr.ens.transcriptome.doelan.gui.EditParametersWidget
Get the algorithm.
getAlignment(int) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Determines the desired alignment for this view along an axis.
getAlternativeBrowserPath() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the path of the alterantive web browser.
getAppCompileDate() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the date of the compilation.
getAppCopyright() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the copyright.
getAppDescription() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the description of the application.
getAppName() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the name of the application.
getAppURL() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the URL of the project.
getAppVersion() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the version of the application.
getApplet() - Method in class fr.ens.transcriptome.doelan.Core
Get the applet.
getApplet() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanLoadGenepixData
Get the applet.
getArrayList(Container) - Static method in class fr.ens.transcriptome.doelan.data.DoelanDataUtils
This methods return the first array list found in a Container
getArrayLists(Container) - Static method in class fr.ens.transcriptome.doelan.data.DoelanDataUtils
This methods return all the BioAssay found in a Container
getArrayPlot() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the arrayplot image.
getAttributes() - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Fetches the attributes to use when rendering.
getBins() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the number of bins
getBioAssay(Container) - Static method in class fr.ens.transcriptome.doelan.data.DoelanDataUtils
This methods return the first BioAssay found in a Container
getBioAssay() - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Get the bioassay reference.
getBioAssays(Container) - Static method in class fr.ens.transcriptome.doelan.data.DoelanDataUtils
This methods return all the BioAssay found in a Container
getBrowserPath() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the browser path.
getButtonText() - Method in class fr.ens.transcriptome.doelan.gui.FileChooserWidget
Get the text of the button
getChannel() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Get the channel.
getChipType(QualityTestSuiteURL) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Get the type of a test suite from this test suite url.
getChipTypeName() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the name of the type of the chip.
getChipTypes() - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Get the type list of the TestSuites
getColumnClass(int) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Get the class of a column.
getColumnCount() - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Get the number of column.
getColumnName(int) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Get the name of a column.
getCopyrightDate() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the date of the copyright.
getCore() - Static method in class fr.ens.transcriptome.doelan.Core
Return the unique instance of the Core object
getCurrentChipTypeName() - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
 
getCurrentTestSuiteName() - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
 
getData() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Get the data to plot
getDataClass() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResultData
Get the class of the data.
getDataClass() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResultData
Get the class of the data.
getDataClass() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResultData
Get the class of the data.
getDefaultThreshold() - Method in class fr.ens.transcriptome.doelan.tests.AbsentSpotTest
 
getDefaultThreshold() - Method in class fr.ens.transcriptome.doelan.tests.BadFeatureTest
 
getDefaultThreshold() - Method in class fr.ens.transcriptome.doelan.tests.FeatureFlagTest
 
getDefaultThreshold() - Method in class fr.ens.transcriptome.doelan.tests.NotFoundFeatureTest
 
getDescription() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the data description
getDescription() - Method in class fr.ens.transcriptome.doelan.gui.DescriptionWidget
Get the text of the description.
getDoelanChartHeigth() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the height of the doelan charts.
getDoelanChartWidth() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the width of the doelan charts.
getDoelanDataDirectory() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the absolute path of the directory for plugins.
getDoelanReportDirectory() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the absolute path of the directory for plugins.
getEmptySpotIds() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the identifiers of the empty spots.
getFile() - Method in class fr.ens.transcriptome.doelan.gui.FileChooserWidget
Get the data file.
getFlagFilerType() - Method in class fr.ens.transcriptome.doelan.tests.AbsentSpotTest
 
getFlagFilerType() - Method in class fr.ens.transcriptome.doelan.tests.BadFeatureTest
 
getFlagFilerType() - Method in class fr.ens.transcriptome.doelan.tests.FeatureFlagTest
 
getFlagFilerType() - Method in class fr.ens.transcriptome.doelan.tests.NotFoundFeatureTest
 
getFlagFilterValue() - Method in class fr.ens.transcriptome.doelan.tests.AbsentSpotTest
 
getFlagFilterValue() - Method in class fr.ens.transcriptome.doelan.tests.BadFeatureTest
 
getFlagFilterValue() - Method in class fr.ens.transcriptome.doelan.tests.FeatureFlagTest
 
getFlagFilterValue() - Method in class fr.ens.transcriptome.doelan.tests.NotFoundFeatureTest
 
getFormat() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResultData
Get the format of the data.
getFormat() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResultData
Get the format of the data.
getFormat() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResultData
Get the format of the data.
getGalData() - Method in class fr.ens.transcriptome.doelan.gui.ReportTabWidget
Get the new Gal data.
getGlobalTests() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the global tests
getHeight() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Get the height of the image.
getHighlightColor() - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Returns the text editor's highlight color.
getHistCaption() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Get the caption of the histogram
getHtmlReport() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the html report.
getId() - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Get identifier of the result.
getIdentifier() - Method in class fr.ens.transcriptome.doelan.gui.NewWorkflowElementWidget
Get the identifier of the new algorithm.
getImage() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Get the image
getImage() - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Get the image.
getMainTab() - Method in class fr.ens.transcriptome.doelan.Core
Get the main tab widget.
getMainTabWidget() - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Get the mainTabWidget.
getMapImages() - Method in class fr.ens.transcriptome.doelan.gui.DoelanEditorKit
Get the map of the images.
getMapImages() - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Get the map of the images.
getMessage() - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Get message of the test.
getMinimumSize() - Method in class fr.ens.transcriptome.doelan.App
Get the minimun size of the main window.
getMnemonicKey() - Method in class fr.ens.transcriptome.doelan.gui.DescriptionWidget
Get the mnemonic key.
getMnemonicKey() - Method in class fr.ens.transcriptome.doelan.gui.FileChooserWidget
Get the mnemonic key.
getModel() - Method in class fr.ens.transcriptome.doelan.gui.TestSuitePanel
Get the model of the table
getModuleLocationSelected() - Method in class fr.ens.transcriptome.doelan.gui.NewWorkflowElementWidget
Get the module location of the selected algorithm.
getName() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResultData
Get the name of the data.
getName() - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteURL
Get the name of the TestSuiteURL
getName() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResultData
Get the name of the data.
getName() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResultData
Get the name of the data.
getNewArrayList() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the new array list.
getNewFlags() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Get the new flags of the bioAssay after the test.
getOrderedQualityTestResults(Container) - Static method in class fr.ens.transcriptome.doelan.data.DoelanDataUtils
This methods return all the test results found in a Container
getOrganizationName() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the name of the organization of the project.
getOrganizationURL() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the url of the organization
getPanel() - Method in class fr.ens.transcriptome.doelan.gui.StatusWidget
Get the panel.
getPanel() - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Get the panel.
getParameters() - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Get the parameters
getParameters() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult.GlobalTest
Get the parameters.
getPreferredSize() - Method in class fr.ens.transcriptome.doelan.App
Get the minimun size of the main window.
getPreferredSpan(int) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Determines the preferred span for this view along an axis.
getQualityGlobalTestResults(Container) - Static method in class fr.ens.transcriptome.doelan.data.DoelanDataUtils
This methods return all the global test results found in a Container
getQualityTestResults(Container) - Static method in class fr.ens.transcriptome.doelan.data.DoelanDataUtils
This methods return all the test results found in a Container
getQualityTestSuiteSelected() - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Return the quality test suite url selected.
getQualityUnitTestResults(Container) - Static method in class fr.ens.transcriptome.doelan.data.DoelanDataUtils
This methods return all the unit test results found in a Container
getRealFeatures() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Get the count of the realFeatures (not abscent).
getReport() - Method in class fr.ens.transcriptome.doelan.Core
Get the report widget
getReport() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanShowReport
Get the report widget.
getResult() - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Get the result
getResult() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
test is the test passed.
getResult() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the result of the test suite.
getResultAllChannels() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Get the result for all channel.
getResultChannel532() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Get the result for 532 channel.
getResultChannel635() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Get the result for 635 channel.
getSelectionState() - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Determines whether the image is selected, and if it's the only thing selected.
getSpotRejectedId() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the identifier of teh rejected spots.
getStatus() - Method in class fr.ens.transcriptome.doelan.Core
Get the status widget.
getStatus() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanShowReport
Get the status widget.
getStatus() - Method in class fr.ens.transcriptome.doelan.gui.StatusWidget
Get the status of the testsuite.
getStatusBar() - Method in class fr.ens.transcriptome.doelan.Core
Get the status bar object.
getStatusWidget() - Static method in class fr.ens.transcriptome.doelan.gui.StatusWidget
Get the status Widget.
getStyleSheet() - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
 
getTable() - Method in class fr.ens.transcriptome.doelan.Core
Get the table.
getTable() - Method in class fr.ens.transcriptome.doelan.gui.TestSuiteTabWidget
Get the table widget.
getTest() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult.GlobalTest
Get the test.
getTestDescription() - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Get Test description.
getTestId() - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
The identifier of the test.
getTestIdsOrder() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the order of the tests.
getTestSuiteList() - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Get the test suite list.
getTestSuiteListFilename() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get the absolute path of the test suite list file.
getTestSuiteListURL() - Method in class fr.ens.transcriptome.doelan.Core
Get the URL of the test suite list.
getTestSuiteName() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Get the test suite name.
getTestSuiteResult(Container) - Static method in class fr.ens.transcriptome.doelan.data.DoelanDataUtils
This methods return the first test suite result found in a Container
getTestSuiteTabWidget() - Static method in class fr.ens.transcriptome.doelan.gui.TestSuiteTabWidget
 
getTestSuiteURLs(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Return all the TestSuiteURL for a chip type
getTestType() - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Get the type of the test
getThreshold() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Get the value of the threshold.
getThreshold() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Get the Threshold.
getThreshold() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Get the Threshold.
getThresholdEqualityType() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Get the type of equality between the threshold and this value.
getThresholdEqualityType() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Get the type of equality between the threshold and this value.
getTip(int) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Get the tip
getTitle() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the title of the plot.
getType() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResultData
Get the type of the data.
getType() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResultData
Get the type of the data.
getType() - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResultData
Get the type of the data.
getURL() - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteURL
Get the URL of the test TestSuiteURL
getUnit() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Get the unit of the value and the threshold.
getUnit() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Get the unit of the value and the threshold.
getUrl() - Method in class fr.ens.transcriptome.doelan.gui.TestSuitePanel
Get the url of the test suite
getValue() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Get the value.
getValue() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Get the value.
getValueAt(int, int) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Get a value.
getViewFactory() - Method in class fr.ens.transcriptome.doelan.gui.DoelanEditorKit
Get the factor viewer.
getWidth() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Get the width of the image.
getXAxisLegend() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Get the x axis legend
getYAxisLegend() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Get the y axis legend
getYPosition() - Method in class fr.ens.transcriptome.doelan.gui.StatusWidget
Get the y position of the panel.
getYPosition() - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Get the y position of the panel.

H

HeterogeneousFeatureTest - class fr.ens.transcriptome.doelan.tests.HeterogeneousFeatureTest.
This class defines a test for Test Heterogeneity of features.
HeterogeneousFeatureTest() - Constructor for class fr.ens.transcriptome.doelan.tests.HeterogeneousFeatureTest
Public constructor.

I

INTERNALS_MODULES - Static variable in class fr.ens.transcriptome.doelan.Defaults
Internals modules.
imageUpdate(Image, int, int, int, int, int) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Update the image.
init() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Initialize default values.
init() - Method in class fr.ens.transcriptome.doelan.GenepixApplet
Applet init method.
init() - Method in class fr.ens.transcriptome.doelan.gui.CommonWindow
Initiatilze the application.
install(JEditorPane) - Method in class fr.ens.transcriptome.doelan.gui.DoelanEditorKit
Overide the install method of the EditorKit.
isATestSuite() - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Test if a test suite is set.
isAddable() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure
Test if the test could be diplayed in the list of tests to add.
isAddable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest
Test if the test could be diplayed in the list of tests to add.
isAddable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityTest
Test if the test could be diplayed in the list of tests to add.
isAddable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityUnitTest
Test if the test could be diplayed in the list of tests to add.
isAppletMode() - Method in class fr.ens.transcriptome.doelan.Core
Test if the applet is enable.
isAppletMode() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Test if applet mode is set.
isCellEditable(int, int) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Returns true if the cell at rowIndex and columnIndex is editable.
isChipTypeMode() - Method in class fr.ens.transcriptome.doelan.gui.RenameTestSuiteWidget
Test if is in chip type mode.
isDeletable() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure
Test if the test is deletable().
isDeletable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest
Test if the test is deletable().
isDeletable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityTest
Test if the test is deletable().
isDeletable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityUnitTest
Test if the test is deletable().
isEditable() - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
 
isFilterFlags() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Test new flags must be filtered.
isGlobalResult() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Test if there is a result for each channel.
isModifiable() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure
Test if the test is modifiable.
isModifiable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest
Test if the test is modifiable.
isModifiable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityTest
Test if the test is modifiable.
isModifiable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityUnitTest
Test if the test is modifiable.
isOk() - Method in class fr.ens.transcriptome.doelan.gui.NewWorkflowElementWidget
Test if ok.
isPass() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Test if the test pass.
isPercent() - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Test if the value is a percentage.
isPercent() - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Test if the value is a percentage.
isShowable() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure
Test if the test could be showed.
isShowable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest
Test if the test could be showed.
isShowable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityTest
Test if the test could be showed.
isShowable() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityUnitTest
Test if the test could be showed.
isSuite() - Method in class fr.ens.transcriptome.doelan.Core
Test if a suite is load in memory.
isThresholdCaptionRight() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Test if the position of the caption for the threshold is on the right.
isUniqueInstance() - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanConfigure
Test if only one instance of the test could be created.
isUniqueInstance() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest
Test if only one instance of the test could be created.
isUniqueInstance() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityTest
Test if only one instance of the test could be created.
isUniqueInstance() - Method in class fr.ens.transcriptome.doelan.algorithms.QualityUnitTest
Test if only one instance of the test could be created.
isYLogAxis() - Method in class fr.ens.transcriptome.doelan.DoelanChart
Test if the Y axis is in log scale

L

LICENCE - Static variable in class fr.ens.transcriptome.doelan.Defaults
Licence.
LOAD_ALGORITHM - Static variable in class fr.ens.transcriptome.doelan.Core
Identifier of the load algorithm.
licence() - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Get information about the project.
loadNewWorkflow(QualityTestSuiteURL) - Method in class fr.ens.transcriptome.doelan.Core
Load an new workflow

M

MANUFACTURER - Static variable in class fr.ens.transcriptome.doelan.Defaults
Manufacturer.
MANUFACTURER_WEBSITE - Static variable in class fr.ens.transcriptome.doelan.Defaults
Web site.
MIDDLE - Static variable in class fr.ens.transcriptome.doelan.gui.MyImageView
 
MainTabWidget - class fr.ens.transcriptome.doelan.gui.MainTabWidget.
Main Panel.
MainTabWidget() - Constructor for class fr.ens.transcriptome.doelan.gui.MainTabWidget
Public constructor.
MaxDiameterFeatureTest - class fr.ens.transcriptome.doelan.tests.MaxDiameterFeatureTest.
This class defines a quality test based on spot diameter.
MaxDiameterFeatureTest() - Constructor for class fr.ens.transcriptome.doelan.tests.MaxDiameterFeatureTest
Public constructor.
MinDiameterFeatureTest - class fr.ens.transcriptome.doelan.tests.MinDiameterFeatureTest.
This class defines a quality test based on the minimal spot diameter.
MinDiameterFeatureTest() - Constructor for class fr.ens.transcriptome.doelan.tests.MinDiameterFeatureTest
Public constructor.
MinimalIntensityTest - class fr.ens.transcriptome.doelan.tests.MinimalIntensityTest.
Test there are real spots in "abscent" spot.
MinimalIntensityTest() - Constructor for class fr.ens.transcriptome.doelan.tests.MinimalIntensityTest
Public constructor.
MyImageView - class fr.ens.transcriptome.doelan.gui.MyImageView.
Image viewer
MyImageView(Element, Map) - Constructor for class fr.ens.transcriptome.doelan.gui.MyImageView
Creates a new view that represents an IMG element.
main(String[]) - Static method in class fr.ens.transcriptome.doelan.App
Main method.
main(InputStream) - Static method in class fr.ens.transcriptome.doelan.App
Main method.
main(Properties, String[]) - Static method in class fr.ens.transcriptome.doelan.App
Main method.
main(String[]) - Static method in class fr.ens.transcriptome.doelan.EclipseApp
Main method.
modelToView(int, Shape, Position.Bias) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Provides a mapping from the document model coordinate space to the coordinate space of the view mapped to it.
mouseClicked(MouseEvent) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
On double-click, open image properties dialog.
mouseDragged(MouseEvent) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Resize image if initial click was in grow-box:
mouseEntered(MouseEvent) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Mouse event
mouseExited(MouseEvent) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Mouse event
mouseMoved(MouseEvent) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Mouse event
mousePressed(MouseEvent) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Select or grow image when clicked.
mouseReleased(MouseEvent) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Mouse event

N

NewTestSuiteWidget - class fr.ens.transcriptome.doelan.gui.NewTestSuiteWidget.
Widget to create a new test suite list.
NewTestSuiteWidget(QualityTestSuiteList, String) - Constructor for class fr.ens.transcriptome.doelan.gui.NewTestSuiteWidget
This is the default constructor.
NewWorkflowElementWidget - class fr.ens.transcriptome.doelan.gui.NewWorkflowElementWidget.
Widget for creating new WorkflowElement.
NewWorkflowElementWidget(ModuleLocation[]) - Constructor for class fr.ens.transcriptome.doelan.gui.NewWorkflowElementWidget
This is the default constructor
NotFoundFeatureTest - class fr.ens.transcriptome.doelan.tests.NotFoundFeatureTest.
This class define a test based on not found spot flags.
NotFoundFeatureTest() - Constructor for class fr.ens.transcriptome.doelan.tests.NotFoundFeatureTest
Public constructor.

P

paint(Graphics, Shape) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Paints the image.

Q

QualityGlobalTest - class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest.
This class define a abstract global test.
QualityGlobalTest() - Constructor for class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest
Public constructor.
QualityGlobalTestResult - class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult.
This class define a result from a QualityUnitTest
QualityGlobalTestResult(BioAssay, QualityGlobalTest) - Constructor for class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Public constructor.
QualityGlobalTestResultData - class fr.ens.transcriptome.doelan.data.QualityGlobalTestResultData.
Wrapper of QualityGlobalTestResult.
QualityGlobalTestResultData(QualityGlobalTestResult) - Constructor for class fr.ens.transcriptome.doelan.data.QualityGlobalTestResultData
Public constructor.
QualityTest - class fr.ens.transcriptome.doelan.algorithms.QualityTest.
This class is the super class of QualityUnitTest and QualityGlobalTest.
QualityTest() - Constructor for class fr.ens.transcriptome.doelan.algorithms.QualityTest
Public constructor.
QualityTestIOFactory - class fr.ens.transcriptome.doelan.io.QualityTestIOFactory.
A factory for testsuitelist io.
QualityTestIOFactory() - Constructor for class fr.ens.transcriptome.doelan.io.QualityTestIOFactory
 
QualityTestResult - class fr.ens.transcriptome.doelan.data.QualityTestResult.
This clas is the abstract superclass of QualityUnitTest and QualityGlobalUnit
QualityTestResult() - Constructor for class fr.ens.transcriptome.doelan.data.QualityTestResult
 
QualityTestSuiteList - class fr.ens.transcriptome.doelan.data.QualityTestSuiteList.
This class defines a container for testsuites.
QualityTestSuiteList() - Constructor for class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
 
QualityTestSuiteListIO - interface fr.ens.transcriptome.doelan.io.QualityTestSuiteListIO.
This interface defines generics methods to read and write test suites parameters.
QualityTestSuiteTableModel - class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel.
Table model for QualityUnitTest
QualityTestSuiteTableModel() - Constructor for class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
 
QualityTestSuiteURL - class fr.ens.transcriptome.doelan.data.QualityTestSuiteURL.
This class define a location to a qualtity test suite.
QualityTestSuiteURL() - Constructor for class fr.ens.transcriptome.doelan.data.QualityTestSuiteURL
 
QualityUnitTest - class fr.ens.transcriptome.doelan.algorithms.QualityUnitTest.
This class define a quality unit test.
QualityUnitTest() - Constructor for class fr.ens.transcriptome.doelan.algorithms.QualityUnitTest
Public constructor.
QualityUnitTestResult - class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.
This class define a result from a QualityUnitTest
QualityUnitTestResult(BioAssay, QualityUnitTest) - Constructor for class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Public constructor.
QualityUnitTestResult.SummaryResult - class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult.
This class define the result for a channel.
QualityUnitTestResultData - class fr.ens.transcriptome.doelan.data.QualityUnitTestResultData.
Wrapper of QualityUnitTestResult.
QualityUnitTestResultData(QualityUnitTestResult) - Constructor for class fr.ens.transcriptome.doelan.data.QualityUnitTestResultData
Public constructor.

R

REJECTED_SPOT_IDENTIFIER - Static variable in class fr.ens.transcriptome.doelan.Defaults
The identifier of the rejected spots.
RESULT_EVENT - Static variable in class fr.ens.transcriptome.doelan.algorithms.QualityTest
Identifier for result event.
RenameTestSuiteWidget - class fr.ens.transcriptome.doelan.gui.RenameTestSuiteWidget.
 
RenameTestSuiteWidget(QualityTestSuiteList, String, QualityTestSuiteURL) - Constructor for class fr.ens.transcriptome.doelan.gui.RenameTestSuiteWidget
This is the default constructor
ReportTabWidget - class fr.ens.transcriptome.doelan.gui.ReportTabWidget.
Report widget.
ReportTabWidget(JLabel) - Constructor for class fr.ens.transcriptome.doelan.gui.ReportTabWidget
Public constructor.
read() - Method in interface fr.ens.transcriptome.doelan.io.QualityTestSuiteListIO
Read a test suite list.
removeChipType(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Remove a chip if it is empty.
removeTestSuite(QualityTestSuiteURL) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Remove a test suite
renameChipType(String, String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Rename a chip type
renameTestSuite(String, String, String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Rename a test suite
repaint(long) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Request that this view be repainted.
requestFocus() - Method in class fr.ens.transcriptome.doelan.gui.RenameTestSuiteWidget
Set the focus on the textField
resize(int, int) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Change the size of this image.

S

SHOW_REPORT_ALGORITHM - Static variable in class fr.ens.transcriptome.doelan.Core
Identifier of the show report algorithm.
STATUS_ERROR - Static variable in class fr.ens.transcriptome.doelan.gui.StatusWidget
Testsuite error.
STATUS_FAILLED - Static variable in class fr.ens.transcriptome.doelan.gui.StatusWidget
Testsuite failled.
STATUS_NOT_STARTED - Static variable in class fr.ens.transcriptome.doelan.gui.StatusWidget
Testsuite not started.
STATUS_NO_DATA_TO_TEST - Static variable in class fr.ens.transcriptome.doelan.gui.StatusWidget
Testsuite no data to test.
STATUS_PASS - Static variable in class fr.ens.transcriptome.doelan.gui.StatusWidget
Testsuite success.
STATUS_STARTED - Static variable in class fr.ens.transcriptome.doelan.gui.StatusWidget
Testsuite started.
SUBDIR_DATA - Static variable in class fr.ens.transcriptome.doelan.Defaults
sub directory for data.
SUBDIR_REPORT - Static variable in class fr.ens.transcriptome.doelan.Defaults
sub directory for the reports.
SaturatedPixelsTest - class fr.ens.transcriptome.doelan.tests.SaturatedPixelsTest.
This class define a test for saturated pixel of features from a bioassay.
SaturatedPixelsTest() - Constructor for class fr.ens.transcriptome.doelan.tests.SaturatedPixelsTest
Public constructor.
StatusWidget - class fr.ens.transcriptome.doelan.gui.StatusWidget.
Status widget.
StatusWidget(JPanel, int) - Constructor for class fr.ens.transcriptome.doelan.gui.StatusWidget
Public constructor.
SuiteChooserWidget - class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget.
Suite chooser widget.
SuiteChooserWidget(MainTabWidget, JPanel, int) - Constructor for class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Public constructor.
saveWorkflow(QualityTestSuiteURL) - Method in class fr.ens.transcriptome.doelan.Core
Save a workflow.
setApplet(Applet) - Method in class fr.ens.transcriptome.doelan.Core
Set the applet.
setApplet(Applet) - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanLoadGenepixData
Set the applet.
setAppletMode(boolean) - Static method in class fr.ens.transcriptome.doelan.DoelanRegistery
Set the applet mode.
setArrayPlot(Image) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Set the arrayplot image.
setBins(int) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the number of bins
setBioAssay(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Set the bioassay reference.
setBioAssay(BioAssay) - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Set the bioassay reference.
setButtonText(String) - Method in class fr.ens.transcriptome.doelan.gui.FileChooserWidget
Set the text of the button
setChipType(String) - Method in class fr.ens.transcriptome.doelan.gui.TestSuiteTabWidget
Set the chip type to display.
setChipTypeMode(boolean) - Method in class fr.ens.transcriptome.doelan.gui.RenameTestSuiteWidget
Set if the chip type mode is set.
setChipTypeName(String) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Set the name of the type of the chip.
setContainer(Container) - Method in class fr.ens.transcriptome.doelan.gui.CommonWindow
Set the Graphical Container.
setData(double[]) - Method in class fr.ens.transcriptome.doelan.DoelanChart
set the data
setData(QualityGlobalTestResult) - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResultData
Set the Result.
setData(QualityUnitTestResult) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResultData
Set the Result.
setData(TestSuiteResult) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResultData
Set the Result.
setDescription(String) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Set the data description
setEmptySpotIds(String[]) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Set the identifiers of the empty spots.
setFilterFlags(boolean) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Set if the new flags must be filtered.
setGalData(BioAssay) - Method in class fr.ens.transcriptome.doelan.gui.ReportTabWidget
Set the new Gal file.
setGlobalResultType(boolean) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Set if there is a result for each channel.
setHeight(int) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the height of the image.
setHistCaption(String) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the histogram caption
setHtmlReport(String) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Set the code of the html report.
setImage(Image) - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Set the image.
setImages(Map) - Method in class fr.ens.transcriptome.doelan.gui.ReportTabWidget
Set the image for the HTML render.
setLocation(int, int) - Method in class fr.ens.transcriptome.doelan.gui.EditParametersWidget
Set the location of the widget.
setMainTab(MainTabWidget) - Method in class fr.ens.transcriptome.doelan.Core
Set the main tab widget
setMainTabWidget(MainTabWidget) - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Set the common window.
setMapImages(Map) - Method in class fr.ens.transcriptome.doelan.gui.DoelanEditorKit
Set the map of the images.
setMapImages(Map) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Set the map of the images.
setMessage(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Set the message of the test.
setMnemonicKey(int) - Method in class fr.ens.transcriptome.doelan.gui.DescriptionWidget
set the mnemonic key.
setMnemonicKey(int) - Method in class fr.ens.transcriptome.doelan.gui.FileChooserWidget
set the mnemonic key.
setName(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteURL
Set the name of the TestSuiteURL
setNewArrayList(BioAssay) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Set the new array list.
setNewFlags(boolean[]) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Set the new flags values after the test.
setPanel(JPanel) - Method in class fr.ens.transcriptome.doelan.gui.StatusWidget
Set the panel.
setPanel(JPanel) - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Set the panel.
setParameters(Parameters) - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Set the parameters of the test.
setParameters(Parameters) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult.GlobalTest
Set the parameters
setParent(View) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Establishes the parent view for this view.
setPass(boolean) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Set if the test pass.
setPercent(boolean) - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Set if the value is a percentage.
setPercent(boolean) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Set if the value is a percentage.
setRealFeatures(int) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult
Set the count of the realFeatures (not abscent).
setReport(ReportTabWidget) - Method in class fr.ens.transcriptome.doelan.Core
Set the report widget.
setReport(ReportTabWidget) - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanShowReport
Set the report widget.
setResult(boolean) - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Set the result
setResult(boolean) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Set the result of the test suite.
setSize(float, float) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Set the size of the view.
setSpotRejectedId(String) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Set the identifier for the rejected spots.
setStartButtonEnable(boolean) - Method in class fr.ens.transcriptome.doelan.gui.TestSuitePanel
Enable the start button.
setStatus(StatusWidget) - Method in class fr.ens.transcriptome.doelan.Core
Set the status widget.
setStatus(StatusWidget) - Method in class fr.ens.transcriptome.doelan.algorithms.DoelanShowReport
Set the status widget.
setStatus(int) - Method in class fr.ens.transcriptome.doelan.gui.StatusWidget
Set the status of the testsuite.
setStatusBar(JLabel) - Method in class fr.ens.transcriptome.doelan.Core
Set the status bar object.
setTable(TestSuitePanel) - Method in class fr.ens.transcriptome.doelan.Core
Set the table.
setTest(QualityGlobalTest) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult.GlobalTest
Set the test.
setTestDescription(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Set Test description.
setTestId(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Set the identifier of the test.
setTestSuite(String) - Method in class fr.ens.transcriptome.doelan.gui.TestSuiteTabWidget
Set the test suite to display.
setTestSuiteList(QualityTestSuiteList) - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Set the test suite list.
setTestSuiteListURL(URL) - Method in class fr.ens.transcriptome.doelan.Core
Set the URL of the test suite list.
setTestSuiteName(String) - Method in class fr.ens.transcriptome.doelan.data.TestSuiteResult
Set the test suite name.
setTestSuiteName(String) - Method in class fr.ens.transcriptome.doelan.gui.StatusWidget
Set the test suite name.
setTestSuiteRadioButton(JRadioButton) - Method in class fr.ens.transcriptome.doelan.gui.RenameTestSuiteWidget
 
setTestType(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestResult
Set the type of the test.
setText(String) - Method in class fr.ens.transcriptome.doelan.gui.ReportTabWidget
Set the text of the report.
setThreshold(double) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the threshold
setThreshold(double) - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Set the threshold.
setThreshold(double) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Set the threshold.
setThresholdCaptionRight(boolean) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the position of the caption for the threshold.
setThresholdEqualityType(String) - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Set the equality type between the the threshold and its value.
setThresholdEqualityType(String) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Set the equality type between the the threshold and its value.
setTitle(String) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the title of the plot.
setURL(URL) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteURL
Set the url of the TestSuite
setUnit(String) - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Set the unit of the value and the threshold.
setUnit(String) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Set the unit of the value and the threshold.
setUrl(String) - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteURL
Set the url of the TestSuite
setUrl(QualityTestSuiteURL) - Method in class fr.ens.transcriptome.doelan.gui.TestSuitePanel
Set the url of the test suite
setValue(double) - Method in class fr.ens.transcriptome.doelan.data.QualityGlobalTestResult
Set the value.
setValue(double) - Method in class fr.ens.transcriptome.doelan.data.QualityUnitTestResult.SummaryResult
Set the value.
setValueAt(Object, int, int) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Sets the value in the cell at columnIndex and rowIndex to aValue.
setWidth(int) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the width of the image.
setWorking(boolean) - Method in class fr.ens.transcriptome.doelan.gui.MainTabWidget
Set the state of the application.
setXAxisLegend(String) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the x axis legend
setYAxisLegend(String) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Get the y axis legend
setYLogAxis(boolean) - Method in class fr.ens.transcriptome.doelan.DoelanChart
Set the log scale for the y axis
setYPosition(int) - Method in class fr.ens.transcriptome.doelan.gui.StatusWidget
Set the y position of the widget.
setYPosition(int) - Method in class fr.ens.transcriptome.doelan.gui.SuiteChooserWidget
Set the y position of the widget.
showMessage(String, boolean) - Static method in class fr.ens.transcriptome.doelan.gui.CommonWindow
Show a message to the user.
showStatusBarMessage(String) - Static method in class fr.ens.transcriptome.doelan.gui.CommonWindow
Set the message for the status bar.
size() - Method in class fr.ens.transcriptome.doelan.data.QualityTestSuiteList
Return the number of chip types.
start() - Method in class fr.ens.transcriptome.doelan.gui.MainTabWidget
Start analysis.
startWorkflow(String, String, String, String, String, Applet, WorkflowListener) - Method in class fr.ens.transcriptome.doelan.Core
Start the workflow.
stopWorkflow() - Method in class fr.ens.transcriptome.doelan.Core
Stop the workflow.

T

TESTSUITE_RESULT_TYPE - Static variable in class fr.ens.transcriptome.doelan.data.DoelanDataDefaults
Testsuite result type.
TEST_SUITE_LIST_FILE - Static variable in class fr.ens.transcriptome.doelan.Defaults
Default test suite list file.
TEST_SUITE_NAME_ANNOTATION_KEY - Static variable in class fr.ens.transcriptome.doelan.Defaults
Annatotation key of the test suite name.
TEXTTOP - Static variable in class fr.ens.transcriptome.doelan.gui.MyImageView
 
TOP - Static variable in class fr.ens.transcriptome.doelan.gui.MyImageView
 
TestSuitePanel - class fr.ens.transcriptome.doelan.gui.TestSuitePanel.
 
TestSuitePanel() - Constructor for class fr.ens.transcriptome.doelan.gui.TestSuitePanel
Public constructor.
TestSuiteResult - class fr.ens.transcriptome.doelan.data.TestSuiteResult.
This class contains the report information of a testsuite.
TestSuiteResult(String, String, String) - Constructor for class fr.ens.transcriptome.doelan.data.TestSuiteResult
Public Constructor.
TestSuiteResult.GlobalTest - class fr.ens.transcriptome.doelan.data.TestSuiteResult.GlobalTest.
This class defines a object which contains a global test and its parameters
TestSuiteResult.GlobalTest(QualityGlobalTest, Parameters) - Constructor for class fr.ens.transcriptome.doelan.data.TestSuiteResult.GlobalTest
Public constructor.
TestSuiteResultData - class fr.ens.transcriptome.doelan.data.TestSuiteResultData.
This class define a nividic data object for testsuite results.
TestSuiteResultData(TestSuiteResult) - Constructor for class fr.ens.transcriptome.doelan.data.TestSuiteResultData
Public constructor.
TestSuiteTabWidget - class fr.ens.transcriptome.doelan.gui.TestSuiteTabWidget.
The testsuite panel
TestSuiteTabWidget() - Constructor for class fr.ens.transcriptome.doelan.gui.TestSuiteTabWidget
Public constructor
tableChanged(TableModelEvent) - Method in class fr.ens.transcriptome.doelan.gui.TestSuitePanel
This method is call when the table has been changed.
test(BioAssay, BioAssay, Parameters, QualityUnitTestResult[]) - Method in class fr.ens.transcriptome.doelan.algorithms.QualityGlobalTest
Do the test.
test(BioAssay, BioAssay, Parameters) - Method in class fr.ens.transcriptome.doelan.algorithms.QualityUnitTest
Test the quality of the bioassay.
test(BioAssay, BioAssay, Parameters) - Method in class fr.ens.transcriptome.doelan.tests.DiameterFeatureTest
Test the quality of the bioassay.
test(BioAssay, BioAssay, Parameters) - Method in class fr.ens.transcriptome.doelan.tests.FeatureFlagTest
Test the quality of the bioassay.
test(BioAssay, BioAssay, Parameters) - Method in class fr.ens.transcriptome.doelan.tests.GenericTest
Test the quality of the bioassay.
test(BioAssay, BioAssay, Parameters, QualityUnitTestResult[]) - Method in class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeatureRemoved
Do the test.
test(BioAssay, BioAssay, Parameters, QualityUnitTestResult[]) - Method in class fr.ens.transcriptome.doelan.tests.GlobalMaxBadFeaturesTest
Do the test.
test(BioAssay, BioAssay, Parameters) - Method in class fr.ens.transcriptome.doelan.tests.HeterogeneousFeatureTest
Test the quality of the bioassay.
test(BioAssay, BioAssay, Parameters) - Method in class fr.ens.transcriptome.doelan.tests.MaxDiameterFeatureTest
Test the quality of the bioassay.
test(BioAssay, BioAssay, Parameters) - Method in class fr.ens.transcriptome.doelan.tests.MinDiameterFeatureTest
Test the quality of the bioassay.
test(BioAssay, BioAssay, Parameters) - Method in class fr.ens.transcriptome.doelan.tests.MinimalIntensityTest
Test the quality of the bioassay.
test(BioAssay, BioAssay, Parameters) - Method in class fr.ens.transcriptome.doelan.tests.SaturatedPixelsTest
Test the quality of the bioassay.

U

UNIT_TEST_RESULT_TYPE - Static variable in class fr.ens.transcriptome.doelan.data.DoelanDataDefaults
Unit test result type.

V

VERSION - Static variable in class fr.ens.transcriptome.doelan.Defaults
Version of the application.
viewToModel(float, float, Shape, Position.Bias[]) - Method in class fr.ens.transcriptome.doelan.gui.MyImageView
Provides a mapping from the view coordinate space to the logical coordinate space of the model.

W

WEBSITE - Static variable in class fr.ens.transcriptome.doelan.Defaults
Web site.
WINDOW_HEIGHT - Static variable in class fr.ens.transcriptome.doelan.Defaults
Main window height.
WINDOW_WIDTH - Static variable in class fr.ens.transcriptome.doelan.Defaults
Main window width.
workflowNewException(PlatformException) - Method in class fr.ens.transcriptome.doelan.Core
Throws an execption to a listener.
workflowNewException(PlatformException) - Method in class fr.ens.transcriptome.doelan.gui.MainTabWidget
Throws an execption to a listener.
workflowNewException(PlatformException) - Method in class fr.ens.transcriptome.doelan.gui.QualityTestSuiteTableModel
Throws an execption to a listener.
workflowStateChanged(WorkflowEvent) - Method in class fr.ens.transcriptome.doelan.Core
Invoked when the target of the listener has changed its state.
workflowStateChanged(WorkflowEvent) - Method in class fr.ens.transcriptome.doelan.gui.MainTabWidget
Invoked when the target of the listener has changed its state.
write(QualityTestSuiteList) - Method in interface fr.ens.transcriptome.doelan.io.QualityTestSuiteListIO
Write a test suite

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Copyright © 2004-2005 École Normale Supérieure Microarray Platform. All Rights Reserved.