JAL-3063 Castor removed from codebase
authorgmungoc <g.m.carstairs@dundee.ac.uk>
Mon, 3 Dec 2018 15:03:53 +0000 (15:03 +0000)
committergmungoc <g.m.carstairs@dundee.ac.uk>
Mon, 3 Dec 2018 15:03:53 +0000 (15:03 +0000)
commit8669979d57e2019889afaefafe65b945ae7c172d
treeaa76e93b48f4c0a361021574a413891e61d06fef
parenta5f48be3f383f9d2a0de386c95647c593f7db1e3
JAL-3063 Castor removed from codebase
167 files changed:
.ant-targets-build.xml
.classpath
build.xml
lib/castor-1.1-cycle-xml.jar [deleted file]
resources/embl_mapping.xml [deleted file]
schemas/castor-mapping.xsd [deleted file]
src/castor.properties [deleted file]
src/jalview/binding/Alignment.java [deleted file]
src/jalview/binding/Annotation.java [deleted file]
src/jalview/binding/AnnotationElement.java [deleted file]
src/jalview/binding/Colour.java [deleted file]
src/jalview/binding/CompoundMatcher.java [deleted file]
src/jalview/binding/Feature.java [deleted file]
src/jalview/binding/FeatureMatcher.java [deleted file]
src/jalview/binding/FeatureMatcherSet.java [deleted file]
src/jalview/binding/FeatureSettings.java [deleted file]
src/jalview/binding/Features.java [deleted file]
src/jalview/binding/Filter.java [deleted file]
src/jalview/binding/JGroup.java [deleted file]
src/jalview/binding/JSeq.java [deleted file]
src/jalview/binding/JalviewModel.java [deleted file]
src/jalview/binding/JalviewModelSequence.java [deleted file]
src/jalview/binding/JalviewUserColours.java [deleted file]
src/jalview/binding/MatchCondition.java [deleted file]
src/jalview/binding/MatcherSet.java [deleted file]
src/jalview/binding/Pdbentry.java [deleted file]
src/jalview/binding/PdbentryItem.java [deleted file]
src/jalview/binding/Pdbids.java [deleted file]
src/jalview/binding/Property.java [deleted file]
src/jalview/binding/Sequence.java [deleted file]
src/jalview/binding/SequenceSet.java [deleted file]
src/jalview/binding/SequenceType.java [deleted file]
src/jalview/binding/Setting.java [deleted file]
src/jalview/binding/Tree.java [deleted file]
src/jalview/binding/UserColourScheme.java [deleted file]
src/jalview/binding/UserColours.java [deleted file]
src/jalview/binding/VAMSAS.java [deleted file]
src/jalview/binding/VamsasModel.java [deleted file]
src/jalview/binding/Viewport.java [deleted file]
src/jalview/binding/types/ColourThreshTypeType.java [deleted file]
src/jalview/binding/types/FeatureMatcherByType.java [deleted file]
src/jalview/binding/types/NoValueColour.java [deleted file]
src/jalview/gui/Desktop.java
src/jalview/gui/Jalview2XML.java [deleted file]
src/jalview/gui/Jalview2XML_V1.java [deleted file]
src/jalview/io/VamsasAppDatastore.java
src/jalview/jbgui/GDesktop.java
src/jalview/project/Jalview2XML.java
src/jalview/schemabinding/version2/.castor.cdr [deleted file]
src/jalview/schemabinding/version2/AlcodMap.java [deleted file]
src/jalview/schemabinding/version2/Alcodon.java [deleted file]
src/jalview/schemabinding/version2/AlcodonFrame.java [deleted file]
src/jalview/schemabinding/version2/Annotation.java [deleted file]
src/jalview/schemabinding/version2/AnnotationColourScheme.java [deleted file]
src/jalview/schemabinding/version2/AnnotationColours.java [deleted file]
src/jalview/schemabinding/version2/AnnotationElement.java [deleted file]
src/jalview/schemabinding/version2/CalcIdParam.java [deleted file]
src/jalview/schemabinding/version2/Colour.java [deleted file]
src/jalview/schemabinding/version2/CompoundMatcher.java [deleted file]
src/jalview/schemabinding/version2/DBRef.java [deleted file]
src/jalview/schemabinding/version2/Feature.java [deleted file]
src/jalview/schemabinding/version2/FeatureMatcher.java [deleted file]
src/jalview/schemabinding/version2/FeatureMatcherSet.java [deleted file]
src/jalview/schemabinding/version2/FeatureSettings.java [deleted file]
src/jalview/schemabinding/version2/Features.java [deleted file]
src/jalview/schemabinding/version2/Filter.java [deleted file]
src/jalview/schemabinding/version2/Group.java [deleted file]
src/jalview/schemabinding/version2/HiddenColumns.java [deleted file]
src/jalview/schemabinding/version2/JGroup.java [deleted file]
src/jalview/schemabinding/version2/JSeq.java [deleted file]
src/jalview/schemabinding/version2/JalviewModel.java [deleted file]
src/jalview/schemabinding/version2/JalviewModelSequence.java [deleted file]
src/jalview/schemabinding/version2/JalviewUserColours.java [deleted file]
src/jalview/schemabinding/version2/MapListFrom.java [deleted file]
src/jalview/schemabinding/version2/MapListTo.java [deleted file]
src/jalview/schemabinding/version2/MapListType.java [deleted file]
src/jalview/schemabinding/version2/Mapping.java [deleted file]
src/jalview/schemabinding/version2/MappingChoice.java [deleted file]
src/jalview/schemabinding/version2/MatchCondition.java [deleted file]
src/jalview/schemabinding/version2/MatcherSet.java [deleted file]
src/jalview/schemabinding/version2/OtherData.java [deleted file]
src/jalview/schemabinding/version2/Pdbentry.java [deleted file]
src/jalview/schemabinding/version2/PdbentryItem.java [deleted file]
src/jalview/schemabinding/version2/Pdbids.java [deleted file]
src/jalview/schemabinding/version2/Property.java [deleted file]
src/jalview/schemabinding/version2/RnaViewer.java [deleted file]
src/jalview/schemabinding/version2/SecondaryStructure.java [deleted file]
src/jalview/schemabinding/version2/Sequence.java [deleted file]
src/jalview/schemabinding/version2/SequenceSet.java [deleted file]
src/jalview/schemabinding/version2/SequenceSetProperties.java [deleted file]
src/jalview/schemabinding/version2/SequenceType.java [deleted file]
src/jalview/schemabinding/version2/Setting.java [deleted file]
src/jalview/schemabinding/version2/StructureState.java [deleted file]
src/jalview/schemabinding/version2/ThresholdLine.java [deleted file]
src/jalview/schemabinding/version2/Tree.java [deleted file]
src/jalview/schemabinding/version2/UserColourScheme.java [deleted file]
src/jalview/schemabinding/version2/UserColours.java [deleted file]
src/jalview/schemabinding/version2/VAMSAS.java [deleted file]
src/jalview/schemabinding/version2/VamsasModel.java [deleted file]
src/jalview/schemabinding/version2/Viewport.java [deleted file]
src/jalview/schemabinding/version2/WebServiceParameterSet.java [deleted file]
src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/AnnotationColourSchemeDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/CalcIdParamDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/CompoundMatcherDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/FeatureMatcherDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/FeatureMatcherSetDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/FilterDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/MatchConditionDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/MatcherSetDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/RnaViewerDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/SecondaryStructureDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java [deleted file]
src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java [deleted file]
src/jalview/schemabinding/version2/types/.castor.cdr [deleted file]
src/jalview/schemabinding/version2/types/ColourThreshTypeType.java [deleted file]
src/jalview/schemabinding/version2/types/FeatureMatcherByType.java [deleted file]
src/jalview/schemabinding/version2/types/NoValueColour.java [deleted file]
src/jalview/schemabinding/version2/types/descriptors/ColourThreshTypeTypeDescriptor.java [deleted file]
src/jalview/schemabinding/version2/types/descriptors/FeatureMatcherByTypeDescriptor.java [deleted file]
src/jalview/schemabinding/version2/types/descriptors/NoValueColourDescriptor.java [deleted file]
src/jalview/schemes/ColourSchemeLoader.java
test/jalview/gui/AlignFrameTest.java
test/jalview/io/CrossRef2xmlTests.java
test/jalview/io/Jalview2xmlTests.java [deleted file]
test/jalview/ws/jabaws/RNAStructExportImport.java
utils/castor-1.1-cycle-codegen-anttask.jar [deleted file]
utils/castor-1.1-cycle-codegen.jar [deleted file]