This commit was manufactured by cvs2svn to create branch 'VamJalview'.

Cherrypick from master 2006-09-07 11:39:36 UTC jimp 'added copy consensus sequence to consensus annotation popup menu':
    src/jalview/appletgui/Tooltip.java
    src/jalview/datamodel/.cvsignore
    src/jalview/datamodel/AlignmentView.java
    src/jalview/datamodel/CigarArray.java
    src/jalview/datamodel/CigarBase.java
    src/jalview/datamodel/CigarCigar.java
    src/jalview/datamodel/CigarSimple.java
    src/jalview/datamodel/ColumnSelection.java
    src/jalview/datamodel/DBRefSource.java
    src/jalview/datamodel/SeqCigar.java
    src/jalview/datamodel/UniprotProteinName.java
    src/jalview/gui/AnnotationExporter.java
    src/jalview/gui/DasSourceBrowser.java
    src/jalview/gui/Jalview2XML_V1.java
    src/jalview/io/AnnotationFile.java
    src/jalview/io/DBRefFetcher.java
    src/jalview/io/DasSequenceFeatureFetcher.java
    src/jalview/io/FeaturesFile.java
    src/jalview/io/JnetAnnotationMaker.java
    src/jalview/io/StockholmFile.java
    src/jalview/jbgui/GDasSourceBrowser.java
    src/jalview/schemabinding/version2/Alignment.java
    src/jalview/schemabinding/version2/AlignmentDescriptor.java
    src/jalview/schemabinding/version2/Annotation.java
    src/jalview/schemabinding/version2/AnnotationColours.java
    src/jalview/schemabinding/version2/AnnotationColoursDescriptor.java
    src/jalview/schemabinding/version2/AnnotationDescriptor.java
    src/jalview/schemabinding/version2/AnnotationElement.java
    src/jalview/schemabinding/version2/AnnotationElementDescriptor.java
    src/jalview/schemabinding/version2/Colour.java
    src/jalview/schemabinding/version2/ColourDescriptor.java
    src/jalview/schemabinding/version2/DBRef.java
    src/jalview/schemabinding/version2/DBRefDescriptor.java
    src/jalview/schemabinding/version2/Feature.java
    src/jalview/schemabinding/version2/FeatureDescriptor.java
    src/jalview/schemabinding/version2/FeatureSettings.java
    src/jalview/schemabinding/version2/FeatureSettingsDescriptor.java
    src/jalview/schemabinding/version2/Features.java
    src/jalview/schemabinding/version2/FeaturesDescriptor.java
    src/jalview/schemabinding/version2/HiddenColumns.java
    src/jalview/schemabinding/version2/HiddenColumnsDescriptor.java
    src/jalview/schemabinding/version2/JGroup.java
    src/jalview/schemabinding/version2/JGroupDescriptor.java
    src/jalview/schemabinding/version2/JSeq.java
    src/jalview/schemabinding/version2/JSeqDescriptor.java
    src/jalview/schemabinding/version2/JalviewModel.java
    src/jalview/schemabinding/version2/JalviewModelDescriptor.java
    src/jalview/schemabinding/version2/JalviewModelSequence.java
    src/jalview/schemabinding/version2/JalviewModelSequenceDescriptor.java
    src/jalview/schemabinding/version2/JalviewUserColours.java
    src/jalview/schemabinding/version2/JalviewUserColoursDescriptor.java
    src/jalview/schemabinding/version2/OtherData.java
    src/jalview/schemabinding/version2/OtherDataDescriptor.java
    src/jalview/schemabinding/version2/Pdbentry.java
    src/jalview/schemabinding/version2/PdbentryDescriptor.java
    src/jalview/schemabinding/version2/PdbentryItem.java
    src/jalview/schemabinding/version2/PdbentryItemDescriptor.java
    src/jalview/schemabinding/version2/Pdbids.java
    src/jalview/schemabinding/version2/PdbidsDescriptor.java
    src/jalview/schemabinding/version2/Property.java
    src/jalview/schemabinding/version2/PropertyDescriptor.java
    src/jalview/schemabinding/version2/Sequence.java
    src/jalview/schemabinding/version2/SequenceDescriptor.java
    src/jalview/schemabinding/version2/SequenceSet.java
    src/jalview/schemabinding/version2/SequenceSetDescriptor.java
    src/jalview/schemabinding/version2/SequenceType.java
    src/jalview/schemabinding/version2/SequenceTypeDescriptor.java
    src/jalview/schemabinding/version2/Setting.java
    src/jalview/schemabinding/version2/SettingDescriptor.java
    src/jalview/schemabinding/version2/ThresholdLine.java
    src/jalview/schemabinding/version2/ThresholdLineDescriptor.java
    src/jalview/schemabinding/version2/Tree.java
    src/jalview/schemabinding/version2/TreeDescriptor.java
    src/jalview/schemabinding/version2/UserColourScheme.java
    src/jalview/schemabinding/version2/UserColourSchemeDescriptor.java
    src/jalview/schemabinding/version2/UserColours.java
    src/jalview/schemabinding/version2/UserColoursDescriptor.java
    src/jalview/schemabinding/version2/VAMSAS.java
    src/jalview/schemabinding/version2/VAMSASDescriptor.java
    src/jalview/schemabinding/version2/VamsasModel.java
    src/jalview/schemabinding/version2/VamsasModelDescriptor.java
    src/jalview/schemabinding/version2/Viewport.java
    src/jalview/schemabinding/version2/ViewportDescriptor.java
    src/jalview/util/ShiftList.java
    src/jalview/util/TableSorter.java
    src/jalview/ws/MsaWSThread.java
    src/jalview/ws/WSThread.java
    src/org/biojava/dasobert/das/DAS_FeatureRetrieve.java
    src/org/biojava/dasobert/das/DAS_Feature_Handler.java
    src/org/biojava/dasobert/das/FeatureThread.java
    src/org/biojava/dasobert/das2/Das2Capability.java
    src/org/biojava/dasobert/das2/Das2CapabilityImpl.java
    src/org/biojava/dasobert/das2/Das2Source.java
    src/org/biojava/dasobert/das2/Das2SourceImpl.java
    src/org/biojava/dasobert/das2/DasSourceConverter.java
    src/org/biojava/dasobert/das2/io/DAS2SourceHandler.java
    src/org/biojava/dasobert/das2/io/DasSourceReader.java
    src/org/biojava/dasobert/das2/io/DasSourceReaderImpl.java
    src/org/biojava/dasobert/dasregistry/Das1Source.java
    src/org/biojava/dasobert/dasregistry/Das2Validator.java
    src/org/biojava/dasobert/dasregistry/DasCoordSysComparator.java
    src/org/biojava/dasobert/dasregistry/DasCoordinateSystem.java
    src/org/biojava/dasobert/dasregistry/DasSource.java
    src/org/biojava/dasobert/dasregistry/DasSourceComparator.java
    src/org/biojava/dasobert/eventmodel/FeatureEvent.java
    src/org/biojava/dasobert/eventmodel/FeatureListener.java
    src/org/biojava/dasobert/eventmodel/ObjectListener.java
    src/org/biojava/dasobert/eventmodel/SequenceEvent.java
    src/org/biojava/dasobert/eventmodel/SequenceListener.java