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Clotho-Core-master
ClothoApps
BamBglUnrestricted
src
org
clothocad
format
bambglunrestricted
connect.java
BglBrickiDigester
src
org
clothocad
tool
bglbrickdigester
connect.java
digestMultiple.java
BglBricks
src
org
clothocad
format
bglbricks
connect.java
CollectionViewTool
src
org
clothocad
tool
collectionview
GlassMessage.java
StartupMessage.java
browser.java
connectCollectionView.java
viewer.java
CollectorBrowser
src
org
clothocad
tool
collectorbrowser
connect.java
ConcatenateFormat
src
org
clothocad
format
concatenateformat
connect.java
ConfigurableConnection
src
org
clothocad
connection
configurableconnection
ConfigurableConnection.java
ConnectionConfigTool
src
org
clothocad
tool
connectconfigtool
blueTextField.java
frame.java
tool.java
FormatEditor
src
org
clothocad
tool
formateditor
blueTextField.java
connect.java
frame.java
Freeform
src
org
clothocad
format
freeform
connect.java
GoldenGateFour
src
org
clothocad
format
goldengatefour
connect.java
GoldenGateTwo
src
org
clothocad
format
goldengatetwo
connect.java
Grapevine
src
org
clothocad
tool
grapevine
BrowseNotes.java
NoteEditor.java
PDFGenerator.java
ScrollablePanel.java
blueTextField.java
connect.java
factoidEditor.java
factoidPanel.java
subNotePanel.java
HibernateConnectionLibrary
src
org
clothocad
hibernate
ExampleQueries.java
HibernateConnection.java
data
AttachmentTable.java
CollectionTable.java
Collectionxref.java
CollectionxrefId.java
CompositeXref.java
ContainerTable.java
FactoidTable.java
FamilyNoteXref.java
FamilyNoteXrefId.java
FamilyTable.java
FeatureFamilyXref.java
FeatureFamilyXrefId.java
FeatureNoteXref.java
FeatureNoteXrefId.java
FeatureTable.java
FeatureTraitXref.java
FeatureTraitXrefId.java
FlexfieldDataXref.java
FlexfieldTable.java
FormatTable.java
GrammarTable.java
InstitutionTable.java
LabTable.java
NoteFactoidXref.java
NoteFactoidXrefId.java
NoteNoteXref.java
NoteNoteXrefId.java
NoteTable.java
NucseqAnnotation.java
NucseqTable.java
OligoTable.java
PartGrammarXref.java
PartGrammarXrefId.java
PartTable.java
PersonTable.java
PlasmidTable.java
PlateTable.java
PlateTypeTable.java
SampleDataTable.java
SampleDataXref.java
SampleDataXrefId.java
SampleTable.java
SearchtagTable.java
StrainNoteXref.java
StrainNoteXrefId.java
StrainPlasmidXref.java
StrainPlasmidXrefId.java
StrainTable.java
TraitFamilyXref.java
TraitFamilyXrefId.java
TraitTable.java
VectorTable.java
WikitextTable.java
hibernateDatum.java
InstitutionEditor
src
org
clothocad
tool
institutioneditor
blueTextField.java
connect.java
frame.java
LabEditor
src
org
clothocad
tool
labeditor
blueTextArea.java
blueTextField.java
connect.java
frame.java
LocalConnection
src
org
clothocad
connection
localconnection
LocalConnection.java
OnStartuper
src
org
clothocad
widget
onstartup
connect.java
PersonEditor
src
org
clothocad
tool
personeditor
GlassMessage.java
blueTextArea.java
blueTextField.java
connect.java
frame.java
PluginManager
src
org
clothocore
tool
pluginmanager
gui
ApplicationFrame.java
ChooseDefaultConnection.java
ChoosePreferredViewers.java
CurvesPanel.java
FancyPanel.java
GradientPanel.java
OpeningScreenChooser.java
RightClickPopup.java
ShowAndHideWidgets.java
StackLayout.java
UninstallPlugins.java
io
FileTreeWalk.java
FileTreeWalker.java
UnixGlobFileFilter.java
connectPMToClotho.java
RFC10
src
org
clothocad
format
rfc10
connect.java
RFC10cds
src
org
clothocad
format
rfctencds
connect.java
SearchAlgorithms
src
org
clothocad
algorithm
searchalgorithm
connect.java
searchActor.java
SeqAnalyzer
src
org
clothocad
algorithm
seqanalyzer
SequenceChecker.java
SequenceCheckerActor.java
sequencing
ABIClassification.java
ABITrace.java
AlignedAbi.java
BaseResult.java
LinkedButton.java
Nmapper.java
jcatest.java
newSeqAnalysis.java
seqAnalysis.java
seqReport.java
sequencingPanel.java
test.java
SequenceChecker
src
gui
Tester.java
jaligner
Alignment.java
Cell.java
Directions.java
Markups.java
NeedlemanWunsch.java
NeedlemanWunschGotoh.java
Sequence.java
SmithWatermanGotoh.java
TracebackNode.java
example
NeedlemanWunschExample.java
NeedlemanWunschGotohExample.java
SmithWatermanGotohExample.java
formats
CLUSTAL.java
FASTA.java
Format.java
FormatFactory.java
Pair.java
matrix
MatricesCompartor.java
Matrix.java
MatrixGenerator.java
MatrixLoader.java
MatrixLoaderException.java
test
NeedlemanWunschGotohTester.java
NeedlemanWunschTester.java
RandomSequenceGenerator.java
SmithWatermanGotohTester.java
ui
AlignCommandLine.java
AlignWindow.java
clipboard
ClipboardHandler.java
ClipboardHandlerAWT.java
ClipboardHandlerFactory.java
ClipboardListener.java
ClipboardPoller.java
filechooser
FileChooser.java
FileChooserException.java
FileChooserFactory.java
FileChooserTrusted.java
NamedInputStream.java
images
ToolbarIcons.java
logging
DocumentHandler.java
RecordFormatter.java
util
PrintJobMointor.java
TextComponentUtil.java
TextComponentUtilException.java
util
Commons.java
SequenceParser.java
SequenceParserException.java
org
clothocad
tool
sequencechecker
Clone.java
Construct.java
SeqCheckController.java
SeqCheckerTopComponent.java
SequencingResult.java
sequencing
ABITrace.java
Analyzer.java
InteractiveReport.java
SeqReport.java
Tester.java
TraceExtract.java
sbbseq.java
temprunner.java
SpeXba
src
org
clothocad
format
spexba
connect.java
StringAppendAlgorithm
src
org
clothocad
algorithm
stringappend
StringAppendAlgorithm.java
StringAppendAlgorithmFactory.java
WikiEditorPanel
src
org
clothocad
wikieditorpanel
WikiEditorPanel.java
ClothoFabApps
FabDash
src
org
clothocore
widget
fabdash
CollectionBrowser.java
Connect.java
FileMenuPopulator.java
HelpMenuPopulator.java
InventoryTabsTopComponent.java
InventoryTopComponent.java
InventoryTransferHandler.java
MakeObjectFrame.java
OutputHandler.java
PopulateTools.java
SearchTopComponent.java
UserFrame.java
browser
ObjTypeChooser.java
ScrollablePanel.java
SearchBar.java
SuperSearch.java
ToolAppBrowser
src
org
clothocad
tool
toolappbrowser
Connect.java
tc
BrowsePanel.java
BrowseTCTopComponent.java
ScrollablePanel.java
ClothoProject
ClothoCore
src
org
clothocore
api
actor
Actor.java
RunStatus.java
data
BooleanToken.java
CharacterToken.java
DoubleToken.java
IntegerToken.java
ListToken.java
MapToken.java
ObjBaseToken.java
StringToken.java
Token.java
io
InputPort.java
ListInputPort.java
ListOutputPort.java
MapInputPort.java
MapOutputPort.java
ObjBaseInputPort.java
ObjBaseOutputPort.java
OutputPort.java
Port.java
workflow
CompositeActor.java
IOLink.java
IfElseAlgorithm.java
LoopActor.java
core
Collator.java
Collector.java
PluginManager.java
PluginTypeEnum.java
QuickStart.java
wrapper
AlgorithmWrapper.java
ConnectionWrapper.java
PluginWrapper.java
ToolWrapper.java
ViewerWrapper.java
WidgetWrapper.java
support
ClothoDependency.java
ClothoHelp.java
data
Annotation.java
Attachment.java
Collection.java
Comment.java
ConflictResolution.java
Container.java
DataListener.java
ExpData.java
Factoid.java
Family.java
Feature.java
FlexField.java
Format.java
Grammar.java
Institution.java
Lab.java
Note.java
NucSeq.java
ObjBase.java
ObjLink.java
ObjType.java
Oligo.java
OligoSample.java
Part.java
Person.java
PhagebookListener.java
Plasmid.java
PlasmidSample.java
Plate.java
PlateType.java
Reference.java
Sample.java
SampleData.java
SequenceRead.java
Strain.java
StrainSample.java
Vector.java
WikiText.java
XMLImporter.java
dnd
CopyAndPaste.java
DragHandler.java
ObjBaseDropTarget.java
ObjBaseDropTargetListener.java
ObjBaseObserver.java
ObjBaseTransferHandler.java
RefreshEvent.java
TransferableObject.java
plugin
ClothoAlgorithm.java
ClothoConnection.java
ClothoFormat.java
ClothoGrammar.java
ClothoPlugin.java
ClothoTool.java
ClothoViewer.java
ClothoWidget.java
boot
Installer.java
core
Hub.java
util
basic
FileUtils.java
ImageSource.java
ObjBasePopup.java
ReaderInputStream.java
UnknownKeywordException.java
blast
BlastNCBIQuery.java
BlastRequester.java
buttons
GlassButton.java
TransparentButton.java
chooser
ClothoOpenChooser.java
ClothoOpenChooserFrame.java
ClothoSaveChooser.java
ClothoSaveChooserFrame.java
def
DefaultPluginManager.java
DefaultViewer.java
dialog
ClothoDialogBox.java
DialogFrame.java
WaitingDialog.java
elements
AutoComboBox.java
AutoTextField.java
frames
GraphicFrame.java
OptionFrame.java
misc
BareBonesBrowserLaunch.java
ClothoSearchUtil.java
ClothoTxtUtil.java
CommandHelp.java
StackLayout.java
WordGenerator.java
panels
CardPanel.java
ClothoJEditorPane.java
ClothoSequenceJPanel.java
xml
XMLParser.java
XmlGenerator.java
MenuTasks
src
org
clothocad
library
menutasks
ImportIDT.java