Formatted source
authoramwaterhouse <Andrew Waterhouse>
Wed, 8 Jun 2005 13:41:35 +0000 (13:41 +0000)
committeramwaterhouse <Andrew Waterhouse>
Wed, 8 Jun 2005 13:41:35 +0000 (13:41 +0000)
commit588042b69abf8e60bcc950b24c283933c7dd422f
treeeba2594f0aa5ccc4b7cf80f6cc1064249a3d6e21
parent5cd8e373c75fb348ecda4d94d8a46468fb92756d
Formatted source
220 files changed:
src/MCview/Atom.java
src/MCview/Bond.java
src/MCview/MCMatrix.java
src/MCview/PDBChain.java
src/MCview/PDBfile.java
src/MCview/Residue.java
src/MCview/Zsort.java
src/MCview/myAtom.java
src/MCview/rotCanvas.java
src/ext/vamsas/JPredWS.java
src/ext/vamsas/JPredWSService.java
src/ext/vamsas/JPredWSServiceLocator.java
src/ext/vamsas/JpredResult.java
src/ext/vamsas/JpredSoapBindingStub.java
src/ext/vamsas/Msfalignment.java
src/ext/vamsas/MuscleWS.java
src/ext/vamsas/MuscleWSService.java
src/ext/vamsas/MuscleWSServiceLocator.java
src/ext/vamsas/MuscleWSSoapBindingStub.java
src/ext/vamsas/Result.java
src/ext/vamsas/Secstructpred.java
src/ext/vamsas/Sequence.java
src/jalview/analysis/AAFrequency.java
src/jalview/analysis/AlignSeq.java
src/jalview/analysis/AlignmentSorter.java
src/jalview/analysis/AlignmentUtil.java
src/jalview/analysis/CompareAlignments.java
src/jalview/analysis/Conservation.java
src/jalview/analysis/NJTree.java
src/jalview/analysis/PCA.java
src/jalview/analysis/SeqsetUtils.java
src/jalview/analysis/SequenceIdMatcher.java
src/jalview/appletgui/APopupMenu.java
src/jalview/appletgui/AlignFrame.java
src/jalview/appletgui/AlignViewport.java
src/jalview/appletgui/AlignmentPanel.java
src/jalview/appletgui/AnnotationLabels.java
src/jalview/appletgui/AnnotationPanel.java
src/jalview/appletgui/ColumnSelection.java
src/jalview/appletgui/CutAndPasteTransfer.java
src/jalview/appletgui/FeatureRenderer.java
src/jalview/appletgui/Finder.java
src/jalview/appletgui/FontChooser.java
src/jalview/appletgui/IdCanvas.java
src/jalview/appletgui/IdPanel.java
src/jalview/appletgui/IdwidthAdjuster.java
src/jalview/appletgui/OverviewPanel.java
src/jalview/appletgui/PCAPanel.java
src/jalview/appletgui/PaintRefresher.java
src/jalview/appletgui/PairwiseAlignPanel.java
src/jalview/appletgui/RedundancyPanel.java
src/jalview/appletgui/RotatableCanvas.java
src/jalview/appletgui/ScalePanel.java
src/jalview/appletgui/SeqCanvas.java
src/jalview/appletgui/SeqPanel.java
src/jalview/appletgui/SequenceRenderer.java
src/jalview/appletgui/SliderPanel.java
src/jalview/appletgui/TreeCanvas.java
src/jalview/appletgui/TreePanel.java
src/jalview/appletgui/UserDefinedColours.java
src/jalview/bin/Cache.java
src/jalview/bin/Jalview.java
src/jalview/bin/JalviewLite.java
src/jalview/binding/Alignment.java
src/jalview/binding/Annotation.java
src/jalview/binding/AnnotationElement.java
src/jalview/binding/Colour.java
src/jalview/binding/JGroup.java
src/jalview/binding/JSeq.java
src/jalview/binding/JalviewModel.java
src/jalview/binding/JalviewModelSequence.java
src/jalview/binding/JalviewModelSequence2.java
src/jalview/binding/JalviewModelSequence2Item.java
src/jalview/binding/JalviewUserColours.java
src/jalview/binding/JalviewUserColoursItem.java
src/jalview/binding/Residue.java
src/jalview/binding/Sequence.java
src/jalview/binding/SequenceSet.java
src/jalview/binding/SequenceType.java
src/jalview/binding/UserColour.java
src/jalview/binding/UserColourScheme.java
src/jalview/binding/UserColours.java
src/jalview/binding/VAMSAS.java
src/jalview/binding/VamsasModel.java
src/jalview/binding/Viewport.java
src/jalview/datamodel/Alignment.java
src/jalview/datamodel/AlignmentAnnotation.java
src/jalview/datamodel/AlignmentI.java
src/jalview/datamodel/AlignmentOrder.java
src/jalview/datamodel/Annotation.java
src/jalview/datamodel/BinaryNode.java
src/jalview/datamodel/BinarySequence.java
src/jalview/datamodel/HistoryItem.java
src/jalview/datamodel/Sequence.java
src/jalview/datamodel/SequenceFeature.java
src/jalview/datamodel/SequenceGroup.java
src/jalview/datamodel/SequenceI.java
src/jalview/datamodel/SequenceNode.java
src/jalview/datamodel/SequencePoint.java
src/jalview/datamodel/SuperGroup.java
src/jalview/gui/AlignFrame.java
src/jalview/gui/AlignViewport.java
src/jalview/gui/AlignmentPanel.java
src/jalview/gui/AnnotationLabels.java
src/jalview/gui/AnnotationPanel.java
src/jalview/gui/ColumnSelection.java
src/jalview/gui/CutAndPasteTransfer.java
src/jalview/gui/Desktop.java
src/jalview/gui/FeatureRenderer.java
src/jalview/gui/Finder.java
src/jalview/gui/FontChooser.java
src/jalview/gui/IdCanvas.java
src/jalview/gui/IdPanel.java
src/jalview/gui/IdwidthAdjuster.java
src/jalview/gui/Jalview2XML.java
src/jalview/gui/OverviewPanel.java
src/jalview/gui/PCAPanel.java
src/jalview/gui/PaintRefresher.java
src/jalview/gui/PairwiseAlignPanel.java
src/jalview/gui/PopupMenu.java
src/jalview/gui/Preferences.java
src/jalview/gui/RedundancyPanel.java
src/jalview/gui/RotatableCanvas.java
src/jalview/gui/ScalePanel.java
src/jalview/gui/SeqCanvas.java
src/jalview/gui/SeqPanel.java
src/jalview/gui/SequenceRenderer.java
src/jalview/gui/SliderPanel.java
src/jalview/gui/SplashScreen.java
src/jalview/gui/TreeCanvas.java
src/jalview/gui/TreePanel.java
src/jalview/gui/UserDefinedColours.java
src/jalview/gui/WebserviceInfo.java
src/jalview/io/AlignFile.java
src/jalview/io/BLCFile.java
src/jalview/io/ClustalFile.java
src/jalview/io/EBIFetchClient.java
src/jalview/io/FastaFile.java
src/jalview/io/FileParse.java
src/jalview/io/FormatAdapter.java
src/jalview/io/HTMLOutput.java
src/jalview/io/IdentifyFile.java
src/jalview/io/JPredFile.java
src/jalview/io/JalviewFileChooser.java
src/jalview/io/JalviewFileFilter.java
src/jalview/io/JalviewFileView.java
src/jalview/io/MSFfile.java
src/jalview/io/NewickFile.java
src/jalview/io/PIRFile.java
src/jalview/io/PfamFile.java
src/jalview/io/PileUpfile.java
src/jalview/io/SequenceFeatureFetcher.java
src/jalview/io/WSWUBlastClient.java
src/jalview/jbappletgui/GAlignFrame.java
src/jalview/jbappletgui/GAlignmentPanel.java
src/jalview/jbappletgui/GCutAndPasteTransfer.java
src/jalview/jbappletgui/GFinder.java
src/jalview/jbappletgui/GFontChooser.java
src/jalview/jbappletgui/GPCAPanel.java
src/jalview/jbappletgui/GPairwiseAlignPanel.java
src/jalview/jbappletgui/GSliderPanel.java
src/jalview/jbappletgui/GTreePanel.java
src/jalview/jbappletgui/GUserDefinedColours.java
src/jalview/jbgui/GAlignFrame.java
src/jalview/jbgui/GAlignmentPanel.java
src/jalview/jbgui/GCutAndPasteTransfer.java
src/jalview/jbgui/GDesktop.java
src/jalview/jbgui/GFinder.java
src/jalview/jbgui/GFontChooser.java
src/jalview/jbgui/GPCAPanel.java
src/jalview/jbgui/GPairwiseAlignPanel.java
src/jalview/jbgui/GPreferences.java
src/jalview/jbgui/GSliderPanel.java
src/jalview/jbgui/GTreePanel.java
src/jalview/jbgui/GUserDefinedColours.java
src/jalview/jbgui/GWebserviceInfo.java
src/jalview/math/Matrix.java
src/jalview/math/RotatableMatrix.java
src/jalview/schemes/Blosum62ColourScheme.java
src/jalview/schemes/BuriedColourScheme.java
src/jalview/schemes/ClustalxColourScheme.java
src/jalview/schemes/ColourSchemeI.java
src/jalview/schemes/ColourSchemeProperty.java
src/jalview/schemes/Consensus.java
src/jalview/schemes/ConservationColourScheme.java
src/jalview/schemes/HelixColourScheme.java
src/jalview/schemes/HydrophobicColourScheme.java
src/jalview/schemes/NucleotideColourScheme.java
src/jalview/schemes/PIDColourScheme.java
src/jalview/schemes/ResidueColourScheme.java
src/jalview/schemes/ResidueProperties.java
src/jalview/schemes/ScoreColourScheme.java
src/jalview/schemes/StrandColourScheme.java
src/jalview/schemes/TaylorColourScheme.java
src/jalview/schemes/TurnColourScheme.java
src/jalview/schemes/UserColourScheme.java
src/jalview/schemes/ZappoColourScheme.java
src/jalview/util/BrowserLauncher.java
src/jalview/util/Comparison.java
src/jalview/util/Format.java
src/jalview/util/QuickSort.java
src/jalview/ws/JPredClient.java
src/jalview/ws/MsaWSClient.java
src/jalview/ws/MsaWServices.java
src/jalview/ws/WSClient.java
src/jalview/ws/WSClientI.java
src/vamsas/objects/simple/Alignment.java
src/vamsas/objects/simple/Alignment_Helper.java
src/vamsas/objects/simple/MsaResult.java
src/vamsas/objects/simple/MsaResult_Helper.java
src/vamsas/objects/simple/Object.java
src/vamsas/objects/simple/Object_Helper.java
src/vamsas/objects/simple/Result.java
src/vamsas/objects/simple/Result_Helper.java
src/vamsas/objects/simple/Sequence.java
src/vamsas/objects/simple/SequenceSet.java
src/vamsas/objects/simple/SequenceSet_Helper.java
src/vamsas/objects/simple/Sequence_Helper.java
src/vamsas/objects/simple/WsJobId.java
src/vamsas/objects/simple/WsJobId_Helper.java