JAL-1807 still testing
authorhansonr <hansonr@stolaf.edu>
Fri, 24 Jul 2015 09:33:04 +0000 (10:33 +0100)
committerhansonr <hansonr@stolaf.edu>
Fri, 24 Jul 2015 09:33:04 +0000 (10:33 +0100)
commit6319110ce33faa76ee6cf9832e78faa224510fed
tree0d12e58a5663da0f8252acd6bf2c81d9273c81d3
parent7301a2415adab88038b291fc54caeeb3a5a47a44
JAL-1807 still testing
632 files changed:
bin/MCview/Atom.js
bin/MCview/Bond.js
bin/MCview/PDBChain.js
bin/MCview/PDBfile.js
bin/MCview/Residue.js
bin/awt2swing/Button.js
bin/awt2swing/Canvas.js
bin/awt2swing/Checkbox.js
bin/awt2swing/CheckboxMenuItem.js
bin/awt2swing/Choice.js
bin/awt2swing/Frame.js
bin/awt2swing/Label.js
bin/awt2swing/Menu.js
bin/awt2swing/MenuBar.js
bin/awt2swing/MenuItem.js
bin/awt2swing/Panel.js
bin/awt2swing/PopupMenu.js
bin/awt2swing/ScrollPane.js
bin/awt2swing/Scrollbar.js
bin/awt2swing/TextArea.js
bin/awt2swing/TextField.js
bin/com/stevesoft/pat/AmpersandRule.js
bin/com/stevesoft/pat/Any.js
bin/com/stevesoft/pat/BackG.js
bin/com/stevesoft/pat/BackMatch.js
bin/com/stevesoft/pat/BackRefRule.js
bin/com/stevesoft/pat/Backup.js
bin/com/stevesoft/pat/BasicStringBufferLike.js
bin/com/stevesoft/pat/Bits.js
bin/com/stevesoft/pat/Boundary.js
bin/com/stevesoft/pat/Bracket.js
bin/com/stevesoft/pat/CaseMgr.js
bin/com/stevesoft/pat/ChangeRule.js
bin/com/stevesoft/pat/CodeRule.js
bin/com/stevesoft/pat/Ctrl.js
bin/com/stevesoft/pat/Custom.js
bin/com/stevesoft/pat/CustomEndpoint.js
bin/com/stevesoft/pat/DirFileRegex.js
bin/com/stevesoft/pat/DotMulti.js
bin/com/stevesoft/pat/End.js
bin/com/stevesoft/pat/FastBracket.js
bin/com/stevesoft/pat/FastMulti.js
bin/com/stevesoft/pat/FileRegex.js
bin/com/stevesoft/pat/Group.js
bin/com/stevesoft/pat/LeftRule.js
bin/com/stevesoft/pat/MessageManager.js
bin/com/stevesoft/pat/Multi.js
bin/com/stevesoft/pat/MultiMin.js
bin/com/stevesoft/pat/Multi_stage2.js
bin/com/stevesoft/pat/NoPattern.js
bin/com/stevesoft/pat/NonDirFileRegex.js
bin/com/stevesoft/pat/NotImplementedError.js
bin/com/stevesoft/pat/NullPattern.js
bin/com/stevesoft/pat/NullRule.js
bin/com/stevesoft/pat/Or.js
bin/com/stevesoft/pat/OrMark.js
bin/com/stevesoft/pat/PartialBuffer.js
bin/com/stevesoft/pat/Pattern.js
bin/com/stevesoft/pat/PatternSub.js
bin/com/stevesoft/pat/PopRule.js
bin/com/stevesoft/pat/Prop.js
bin/com/stevesoft/pat/Pthings.js
bin/com/stevesoft/pat/PushRule.js
bin/com/stevesoft/pat/RBuffer.js
bin/com/stevesoft/pat/Range.js
bin/com/stevesoft/pat/RegOpt.js
bin/com/stevesoft/pat/RegRes.js
bin/com/stevesoft/pat/RegSyntax.js
bin/com/stevesoft/pat/RegSyntaxError.js
bin/com/stevesoft/pat/Regex.js
bin/com/stevesoft/pat/RegexReader.js
bin/com/stevesoft/pat/RegexTokenizer.js
bin/com/stevesoft/pat/RegexWriter.js
bin/com/stevesoft/pat/ReplaceRule.js
bin/com/stevesoft/pat/Replacer.js
bin/com/stevesoft/pat/RightRule.js
bin/com/stevesoft/pat/Rthings.js
bin/com/stevesoft/pat/RuleHolder.js
bin/com/stevesoft/pat/Skip.js
bin/com/stevesoft/pat/Skip2.js
bin/com/stevesoft/pat/SkipBMH.js
bin/com/stevesoft/pat/Skipped.js
bin/com/stevesoft/pat/SpecialRule.js
bin/com/stevesoft/pat/Start.js
bin/com/stevesoft/pat/StrPos.js
bin/com/stevesoft/pat/StringBufferLike.js
bin/com/stevesoft/pat/StringLike.js
bin/com/stevesoft/pat/StringRule.js
bin/com/stevesoft/pat/SubMark.js
bin/com/stevesoft/pat/TransPat.js
bin/com/stevesoft/pat/Transformer.js
bin/com/stevesoft/pat/UniValidator.js
bin/com/stevesoft/pat/Util.js
bin/com/stevesoft/pat/Validator.js
bin/com/stevesoft/pat/WantMoreTextReplaceRule.js
bin/com/stevesoft/pat/lookAhead.js
bin/com/stevesoft/pat/oneChar.js
bin/com/stevesoft/pat/package.js
bin/com/stevesoft/pat/parsePerl.js
bin/com/stevesoft/pat/patInf.js
bin/com/stevesoft/pat/patInt.js
bin/com/stevesoft/pat/wrap/CharArrayBufferWrap.js
bin/com/stevesoft/pat/wrap/CharArrayWrap.js
bin/com/stevesoft/pat/wrap/RandomAccessFileWrap.js
bin/com/stevesoft/pat/wrap/StringBufferWrap.js
bin/com/stevesoft/pat/wrap/StringWrap.js
bin/com/stevesoft/pat/wrap/WriterWrap.js
bin/fr/orsay/lri/varna/models/rna/RNA.js
bin/jalview/analysis/AAFrequency.js
bin/jalview/analysis/AlignSeq.js
bin/jalview/analysis/AlignmentAnnotationUtils.js
bin/jalview/analysis/AlignmentSorter.js
bin/jalview/analysis/AlignmentUtils.js
bin/jalview/analysis/AnnotationSorter.js
bin/jalview/analysis/CodingUtils.js
bin/jalview/analysis/CodonComparator.js
bin/jalview/analysis/Conservation.js
bin/jalview/analysis/Dna.js
bin/jalview/analysis/Finder.js
bin/jalview/analysis/Grouping.js
bin/jalview/analysis/NJTree.js
bin/jalview/analysis/PCA.js
bin/jalview/analysis/ParseProperties.js
bin/jalview/analysis/Rna.js
bin/jalview/analysis/SecStrConsensus.js
bin/jalview/analysis/SeqsetUtils.js
bin/jalview/analysis/SequenceIdMatcher.js
bin/jalview/analysis/StructureFrequency.js
bin/jalview/analysis/WUSSParseException.js
bin/jalview/analysis/package.js
bin/jalview/analysis/scoremodels/FeatureScoreModel.js
bin/jalview/analysis/scoremodels/PIDScoreModel.js
bin/jalview/analysis/scoremodels/PairwiseSeqScoreModel.js
bin/jalview/analysis/scoremodels/SWScoreModel.js
bin/jalview/api/AlignCalcManagerI.js
bin/jalview/api/AlignCalcWorkerI.js
bin/jalview/api/AlignExportSettingI.js
bin/jalview/api/AlignViewControllerGuiI.js
bin/jalview/api/AlignViewControllerI.js
bin/jalview/api/AlignViewportI.js
bin/jalview/api/AlignmentViewPanel.js
bin/jalview/api/ComplexAlignFile.js
bin/jalview/api/FeatureRenderer.js
bin/jalview/api/FeatureSettingsControllerI.js
bin/jalview/api/FeatureSettingsModelI.js
bin/jalview/api/FeaturesDisplayedI.js
bin/jalview/api/OOMHandlerI.js
bin/jalview/api/RotatableCanvasI.js
bin/jalview/api/SequenceRenderer.js
bin/jalview/api/SequenceStructureBinding.js
bin/jalview/api/SplitContainerI.js
bin/jalview/api/StructureSelectionManagerProvider.js
bin/jalview/api/ViewStyleI.js
bin/jalview/api/analysis/ScoreModelI.js
bin/jalview/api/analysis/ViewBasedAnalysisI.js
bin/jalview/api/structures/JalviewStructureDisplayI.js
bin/jalview/appletgui/APopupMenu.js
bin/jalview/appletgui/AlignFrame.js
bin/jalview/appletgui/AlignViewport.js
bin/jalview/appletgui/AlignmentPanel.js
bin/jalview/appletgui/AnnotationColourChooser.js
bin/jalview/appletgui/AnnotationColumnChooser.js
bin/jalview/appletgui/AnnotationLabels.js
bin/jalview/appletgui/AnnotationPanel.js
bin/jalview/appletgui/AnnotationRowFilter.js
bin/jalview/appletgui/AppletJmol.js
bin/jalview/appletgui/AppletJmolBinding.js
bin/jalview/appletgui/CutAndPasteTransfer.js
bin/jalview/appletgui/EditNameDialog.js
bin/jalview/appletgui/EmbmenuFrame.js
bin/jalview/appletgui/ExtJmol.js
bin/jalview/appletgui/FeatureColourChooser.js
bin/jalview/appletgui/FeatureRenderer.js
bin/jalview/appletgui/FeatureSettings.js
bin/jalview/appletgui/Finder.js
bin/jalview/appletgui/FontChooser.js
bin/jalview/appletgui/IdCanvas.js
bin/jalview/appletgui/IdPanel.js
bin/jalview/appletgui/IdwidthAdjuster.js
bin/jalview/appletgui/JVDialog.js
bin/jalview/appletgui/OverviewPanel.js
bin/jalview/appletgui/PCAPanel.js
bin/jalview/appletgui/PaintRefresher.js
bin/jalview/appletgui/PairwiseAlignPanel.js
bin/jalview/appletgui/RedundancyPanel.js
bin/jalview/appletgui/RotatableCanvas.js
bin/jalview/appletgui/ScalePanel.js
bin/jalview/appletgui/SeqCanvas.js
bin/jalview/appletgui/SeqPanel.js
bin/jalview/appletgui/SequenceRenderer.js
bin/jalview/appletgui/SliderPanel.js
bin/jalview/appletgui/SplitFrame.js
bin/jalview/appletgui/TitledPanel.js
bin/jalview/appletgui/Tooltip.js
bin/jalview/appletgui/TreeCanvas.js
bin/jalview/appletgui/TreePanel.js
bin/jalview/appletgui/UserDefinedColours.js
bin/jalview/bin/Cache.js
bin/jalview/bin/JalviewLite.js
bin/jalview/commands/ChangeCaseCommand.js
bin/jalview/commands/CommandI.js
bin/jalview/commands/EditCommand.js
bin/jalview/commands/OrderCommand.js
bin/jalview/commands/RemoveGapColCommand.js
bin/jalview/commands/RemoveGapsCommand.js
bin/jalview/commands/SlideSequencesCommand.js
bin/jalview/commands/TrimRegionCommand.js
bin/jalview/controller/AlignViewController.js
bin/jalview/controller/FeatureSettingsController.js
bin/jalview/controller/FeatureSettingsControllerGuiI.js
bin/jalview/datamodel/ASequence.js
bin/jalview/datamodel/ASequenceI.js
bin/jalview/datamodel/AlignedCodon.js
bin/jalview/datamodel/AlignedCodonFrame.js
bin/jalview/datamodel/Alignment.js
bin/jalview/datamodel/AlignmentAnnotation.js
bin/jalview/datamodel/AlignmentI.js
bin/jalview/datamodel/AlignmentOrder.js
bin/jalview/datamodel/AlignmentView.js
bin/jalview/datamodel/AnnotatedCollectionI.js
bin/jalview/datamodel/Annotation.js
bin/jalview/datamodel/BinaryNode.js
bin/jalview/datamodel/BinarySequence.js
bin/jalview/datamodel/CigarArray.js
bin/jalview/datamodel/CigarBase.js
bin/jalview/datamodel/CigarCigar.js
bin/jalview/datamodel/CigarSimple.js
bin/jalview/datamodel/ColumnSelection.js
bin/jalview/datamodel/DBRefEntry.js
bin/jalview/datamodel/DBRefSource.js
bin/jalview/datamodel/FeatureProperties.js
bin/jalview/datamodel/GraphLine.js
bin/jalview/datamodel/HiddenSequences.js
bin/jalview/datamodel/IncompleteCodonException.js
bin/jalview/datamodel/Mapping.js
bin/jalview/datamodel/NodeTransformI.js
bin/jalview/datamodel/PDBEntry.js
bin/jalview/datamodel/Provenance.js
bin/jalview/datamodel/ProvenanceEntry.js
bin/jalview/datamodel/RnaViewerModel.js
bin/jalview/datamodel/SearchResults.js
bin/jalview/datamodel/SecondaryStructureAnnotation.js
bin/jalview/datamodel/SeqCigar.js
bin/jalview/datamodel/Sequence.js
bin/jalview/datamodel/SequenceCollectionI.js
bin/jalview/datamodel/SequenceDummy.js
bin/jalview/datamodel/SequenceFeature.js
bin/jalview/datamodel/SequenceGroup.js
bin/jalview/datamodel/SequenceI.js
bin/jalview/datamodel/SequenceNode.js
bin/jalview/datamodel/SequencePoint.js
bin/jalview/datamodel/StructureViewerModel.js
bin/jalview/datamodel/UniprotEntry.js
bin/jalview/datamodel/UniprotFile.js
bin/jalview/datamodel/UniprotProteinName.js
bin/jalview/datamodel/UniprotSequence.js
bin/jalview/ext/jmol/JmolCommands.js
bin/jalview/ext/varna/JalviewVarnaBinding.js
bin/jalview/ext/varna/RnaModel.js
bin/jalview/ext/varna/VarnaCommands.js
bin/jalview/io/AlignFile.js
bin/jalview/io/AlignmentProperties.js
bin/jalview/io/AnnotationFile.js
bin/jalview/io/AppletFormatAdapter.js
bin/jalview/io/FastaFile.js
bin/jalview/io/FeaturesFile.js
bin/jalview/io/FileParse.js
bin/jalview/io/IdentifyFile.js
bin/jalview/io/JPredFile.js
bin/jalview/io/JnetAnnotationMaker.js
bin/jalview/io/MSFfile.js
bin/jalview/io/ModellerDescription.js
bin/jalview/io/NewickFile.js
bin/jalview/io/PIRFile.js
bin/jalview/io/PfamFile.js
bin/jalview/io/PhylipFile.js
bin/jalview/io/PileUpfile.js
bin/jalview/io/SequenceAnnotationReport.js
bin/jalview/io/TCoffeeScoreFile.js
bin/jalview/javascript/JSFunctionExec.js
bin/jalview/javascript/JalviewLiteJsApi.js
bin/jalview/javascript/JsCallBack.js
bin/jalview/javascript/JsSelectionSender.js
bin/jalview/javascript/MouseOverListener.js
bin/jalview/javascript/MouseOverStructureListener.js
bin/jalview/jsdev/Constants.js
bin/jalview/jsdev/GenericFileAdapter.js
bin/jalview/jsdev/JSRegex.js
bin/jalview/jsdev/JavaScriptRegExp.js
bin/jalview/jsdev/RegExp.js
bin/jalview/jsdev/api/RegExpInterface.js
bin/jalview/jsdev/api/VarnaRNA.js
bin/jalview/math/AlignmentDimension.js
bin/jalview/math/Matrix.js
bin/jalview/math/RotatableMatrix.js
bin/jalview/renderer/AnnotationRenderer.js
bin/jalview/renderer/AwtRenderPanelI.js
bin/jalview/renderer/seqfeatures/FeatureRenderer.js
bin/jalview/schemes/AnnotationColourGradient.js
bin/jalview/schemes/Blosum62ColourScheme.js
bin/jalview/schemes/BuriedColourScheme.js
bin/jalview/schemes/ClustalxColourScheme.js
bin/jalview/schemes/ColourSchemeI.js
bin/jalview/schemes/ColourSchemeProperty.js
bin/jalview/schemes/Consensus.js
bin/jalview/schemes/CovariationColourScheme.js
bin/jalview/schemes/FollowerColourScheme.js
bin/jalview/schemes/GraduatedColor.js
bin/jalview/schemes/HelixColourScheme.js
bin/jalview/schemes/HydrophobicColourScheme.js
bin/jalview/schemes/NucleotideColourScheme.js
bin/jalview/schemes/PIDColourScheme.js
bin/jalview/schemes/PurinePyrimidineColourScheme.js
bin/jalview/schemes/RNAHelicesColour.js
bin/jalview/schemes/RNAHelicesColourChooser.js
bin/jalview/schemes/RNAInteractionColourScheme.js
bin/jalview/schemes/ResidueColourScheme.js
bin/jalview/schemes/ResidueProperties.js
bin/jalview/schemes/ScoreColourScheme.js
bin/jalview/schemes/ScoreMatrix.js
bin/jalview/schemes/StrandColourScheme.js
bin/jalview/schemes/TCoffeeColourScheme.js
bin/jalview/schemes/TaylorColourScheme.js
bin/jalview/schemes/TurnColourScheme.js
bin/jalview/schemes/UserColourScheme.js
bin/jalview/schemes/ZappoColourScheme.js
bin/jalview/schemes/package.js
bin/jalview/structure/AlignmentViewPanelListener.js
bin/jalview/structure/AtomSpec.js
bin/jalview/structure/CommandListener.js
bin/jalview/structure/SecondaryStructureListener.js
bin/jalview/structure/SelectionListener.js
bin/jalview/structure/SelectionSource.js
bin/jalview/structure/SequenceListener.js
bin/jalview/structure/StructureListener.js
bin/jalview/structure/StructureMapping.js
bin/jalview/structure/StructureMappingcommandSet.js
bin/jalview/structure/StructureSelectionManager.js
bin/jalview/structure/VamsasListener.js
bin/jalview/structure/VamsasSource.js
bin/jalview/structures/models/AAStructureBindingModel.js
bin/jalview/structures/models/SequenceStructureBindingModel.js
bin/jalview/util/ColorUtils.js
bin/jalview/util/Comparison.js
bin/jalview/util/DBRefUtils.js
bin/jalview/util/Format.js
bin/jalview/util/GroupUrlLink.js
bin/jalview/util/MapList.js
bin/jalview/util/MappingUtils.js
bin/jalview/util/MessageManager.js
bin/jalview/util/ParseHtmlBodyAndLinks.js
bin/jalview/util/Platform.js
bin/jalview/util/QuickSort.js
bin/jalview/util/ReverseListIterator.js
bin/jalview/util/ShiftList.js
bin/jalview/util/StringUtils.js
bin/jalview/util/TableSorter.js
bin/jalview/util/UrlLink.js
bin/jalview/viewmodel/AlignmentViewport.js
bin/jalview/viewmodel/PCAModel.js
bin/jalview/viewmodel/annotationfilter/AnnotationFilterParameter.js
bin/jalview/viewmodel/seqfeatures/FeatureRendererModel.js
bin/jalview/viewmodel/seqfeatures/FeatureRendererSettings.js
bin/jalview/viewmodel/seqfeatures/FeatureSettingsModel.js
bin/jalview/viewmodel/seqfeatures/FeaturesDisplayed.js
bin/jalview/viewmodel/styles/ViewStyle.js
bin/jalview/workers/AlignCalcManager.js
bin/jalview/workers/AlignCalcWorker.js
bin/jalview/workers/ComplementConsensusThread.js
bin/jalview/workers/ConsensusThread.js
bin/jalview/workers/ConservationThread.js
bin/jalview/workers/StrucConsensusThread.js
bin/javajs/J2SIgnoreImport.js
bin/javajs/J2SRequireImport.js
bin/javajs/api/BytePoster.js
bin/javajs/api/EigenInterface.js
bin/javajs/api/EventManager.js
bin/javajs/api/FontManager.js
bin/javajs/api/GenericBinaryDocument.js
bin/javajs/api/GenericCifDataParser.js
bin/javajs/api/GenericColor.js
bin/javajs/api/GenericFileInterface.js
bin/javajs/api/GenericImageDialog.js
bin/javajs/api/GenericImageEncoder.js
bin/javajs/api/GenericLineReader.js
bin/javajs/api/GenericMenuInterface.js
bin/javajs/api/GenericMouseInterface.js
bin/javajs/api/GenericPlatform.js
bin/javajs/api/GenericZipInputStream.js
bin/javajs/api/GenericZipTools.js
bin/javajs/api/HTMLElement.js
bin/javajs/api/HTMLWindowEvent.js
bin/javajs/api/Interface.js
bin/javajs/api/JSInterface.js
bin/javajs/api/JSONEncodable.js
bin/javajs/api/JmolObjectInterface.js
bin/javajs/api/PlatformViewer.js
bin/javajs/api/SC.js
bin/javajs/api/SwingController.js
bin/javajs/api/ZInputStream.js
bin/javajs/awt/BorderLayout.js
bin/javajs/awt/Color.js
bin/javajs/awt/Component.js
bin/javajs/awt/Container.js
bin/javajs/awt/Dimension.js
bin/javajs/awt/Font.js
bin/javajs/awt/LayoutManager.js
bin/javajs/awt/event/ActionEvent.js
bin/javajs/awt/event/ActionListener.js
bin/javajs/awt/event/Event.js
bin/javajs/awt/event/ItemEvent.js
bin/javajs/awt/event/WindowEvent.js
bin/javajs/awt/event/WindowListener.js
bin/javajs/export/PDFCreator.js
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bin/javajs/img/Jpg64Encoder.js
bin/javajs/img/JpgEncoder.js
bin/javajs/img/PdfEncoder.js
bin/javajs/img/PngEncoder.js
bin/javajs/img/PpmEncoder.js
bin/javajs/img/package.js
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bin/javajs/util/CU.js
bin/javajs/util/CifDataParser.js
bin/javajs/util/CompoundDocDirEntry.js
bin/javajs/util/CompoundDocHeader.js
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bin/javajs/util/DF.js
bin/javajs/util/DataReader.js
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bin/javajs/util/Encoding.js
bin/javajs/util/LimitedLineReader.js
bin/javajs/util/ListDataReader.js
bin/javajs/util/Lst.js
bin/javajs/util/M3.js
bin/javajs/util/M34.js
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bin/javajs/util/OC.js
bin/javajs/util/P3.js
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bin/javajs/util/Quat.js
bin/javajs/util/Rdr.js
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bin/javajs/util/T3.js
bin/javajs/util/T3d.js
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bin/javajs/util/V3.js
bin/javajs/util/V3d.js
bin/javajs/util/XmlUtil.js
bin/javajs/util/ZipData.js
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bin/netscape/javascript/JSException.js
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bin/org/exolab/castor/mapping/Mapping.js
bin/org/exolab/castor/xml/Unmarshaller.js
bin/org/jmol/viewer/Viewer.js
bin/swingjs/JSThread.js
bin/swingjs/api/DOMNode.js
bin/swingjs/api/JSFunction.js
unused/appletgui/APopupMenu.java
unused/appletgui/AlignFrame.java
unused/appletgui/AlignViewport.java
unused/appletgui/AlignmentPanel.java
unused/appletgui/AnnotationColourChooser.java
unused/appletgui/AnnotationColumnChooser.java
unused/appletgui/AnnotationLabels.java
unused/appletgui/AnnotationPanel.java
unused/appletgui/AnnotationRowFilter.java
unused/appletgui/CutAndPasteTransfer.java
unused/appletgui/EditNameDialog.java
unused/appletgui/EmbmenuFrame.java
unused/appletgui/ExtJmol.java
unused/appletgui/FeatureColourChooser.java
unused/appletgui/FeatureRenderer.java
unused/appletgui/FeatureSettings.java
unused/appletgui/Finder.java
unused/appletgui/IdCanvas.java
unused/appletgui/IdPanel.java
unused/appletgui/IdwidthAdjuster.java
unused/appletgui/JVDialog.java
unused/appletgui/OverviewPanel.java
unused/appletgui/PCAPanel.java
unused/appletgui/PaintRefresher.java
unused/appletgui/PairwiseAlignPanel.java
unused/appletgui/RedundancyPanel.java
unused/appletgui/RotatableCanvas.java
unused/appletgui/ScalePanel.java
unused/appletgui/SeqCanvas.java
unused/appletgui/SeqPanel.java
unused/appletgui/SequenceRenderer.java
unused/appletgui/SliderPanel.java
unused/appletgui/SplitFrame.java
unused/appletgui/TitledPanel.java
unused/appletgui/Tooltip.java
unused/appletgui/TreeCanvas.java
unused/appletgui/TreePanel.java
unused/appletgui/UserDefinedColours.java
unused/com/stevesoft/pat/AmpersandRule.java
unused/com/stevesoft/pat/Any.java
unused/com/stevesoft/pat/BackG.java
unused/com/stevesoft/pat/BackMatch.java
unused/com/stevesoft/pat/BackRefRule.java
unused/com/stevesoft/pat/Backup.java
unused/com/stevesoft/pat/BasicStringBufferLike.java
unused/com/stevesoft/pat/Bits.java
unused/com/stevesoft/pat/Boundary.java
unused/com/stevesoft/pat/Bracket.java
unused/com/stevesoft/pat/CaseMgr.java
unused/com/stevesoft/pat/ChangeRule.java
unused/com/stevesoft/pat/CodeRule.java
unused/com/stevesoft/pat/Ctrl.java
unused/com/stevesoft/pat/Custom.java
unused/com/stevesoft/pat/CustomEndpoint.java
unused/com/stevesoft/pat/DotMulti.java
unused/com/stevesoft/pat/End.java
unused/com/stevesoft/pat/FastBracket.java
unused/com/stevesoft/pat/FastMulti.java
unused/com/stevesoft/pat/Group.java
unused/com/stevesoft/pat/LeftRule.java
unused/com/stevesoft/pat/Multi.java
unused/com/stevesoft/pat/MultiMin.java
unused/com/stevesoft/pat/Multi_stage2.java
unused/com/stevesoft/pat/NoPattern.java
unused/com/stevesoft/pat/NotImplementedError.java
unused/com/stevesoft/pat/NullPattern.java
unused/com/stevesoft/pat/NullRule.java
unused/com/stevesoft/pat/Or.java
unused/com/stevesoft/pat/OrMark.java
unused/com/stevesoft/pat/PartialBuffer.java
unused/com/stevesoft/pat/Pattern.java
unused/com/stevesoft/pat/PatternSub.java
unused/com/stevesoft/pat/PopRule.java
unused/com/stevesoft/pat/Prop.java
unused/com/stevesoft/pat/Pthings.java
unused/com/stevesoft/pat/PushRule.java
unused/com/stevesoft/pat/RBuffer.java
unused/com/stevesoft/pat/Range.java
unused/com/stevesoft/pat/RegOpt.java
unused/com/stevesoft/pat/RegRes.java
unused/com/stevesoft/pat/RegSyntax.java
unused/com/stevesoft/pat/RegSyntaxError.java
unused/com/stevesoft/pat/Regex.java
unused/com/stevesoft/pat/RegexReader.java
unused/com/stevesoft/pat/RegexTokenizer.java
unused/com/stevesoft/pat/RegexWriter.java
unused/com/stevesoft/pat/ReplaceRule.java
unused/com/stevesoft/pat/Replacer.java
unused/com/stevesoft/pat/RightRule.java
unused/com/stevesoft/pat/Rthings.java
unused/com/stevesoft/pat/RuleHolder.java
unused/com/stevesoft/pat/Skip.java
unused/com/stevesoft/pat/Skip2.java
unused/com/stevesoft/pat/SkipBMH.java
unused/com/stevesoft/pat/Skipped.java
unused/com/stevesoft/pat/SpecialRule.java
unused/com/stevesoft/pat/Start.java
unused/com/stevesoft/pat/StrPos.java
unused/com/stevesoft/pat/StringBufferLike.java
unused/com/stevesoft/pat/StringLike.java
unused/com/stevesoft/pat/StringRule.java
unused/com/stevesoft/pat/SubMark.java
unused/com/stevesoft/pat/TransPat.java
unused/com/stevesoft/pat/Transformer.java
unused/com/stevesoft/pat/UniValidator.java
unused/com/stevesoft/pat/Util.java
unused/com/stevesoft/pat/Validator.java
unused/com/stevesoft/pat/WantMoreTextReplaceRule.java
unused/com/stevesoft/pat/lookAhead.java
unused/com/stevesoft/pat/oneChar.java
unused/com/stevesoft/pat/parsePerl.java
unused/com/stevesoft/pat/patInf.java
unused/com/stevesoft/pat/patInt.java
unused/com/stevesoft/pat/wrap/CharArrayBufferWrap.java
unused/com/stevesoft/pat/wrap/CharArrayWrap.java
unused/com/stevesoft/pat/wrap/StringBufferWrap.java
unused/com/stevesoft/pat/wrap/StringWrap.java
unused/com/stevesoft/pat/wrap/WriterWrap.java