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JAL-3033 and more classes for examples core
author
Jim Procter
<jprocter@issues.jalview.org>
Wed, 10 Apr 2019 13:56:32 +0000
(14:56 +0100)
committer
Jim Procter
<jprocter@issues.jalview.org>
Wed, 10 Apr 2019 13:56:32 +0000
(14:56 +0100)
classlists/jvexamplefile.txt
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diff --git
a/classlists/jvexamplefile.txt
b/classlists/jvexamplefile.txt
index
a980e32
..
ae01fe1
100644
(file)
--- a/
classlists/jvexamplefile.txt
+++ b/
classlists/jvexamplefile.txt
@@
-1,3
+1,6
@@
+
+com/stevesoft/pat/Any.js
+com/stevesoft/pat/Bracket.js
com/stevesoft/pat/Branch.js
com/stevesoft/pat/CaseMgr.js
com/stevesoft/pat/DotMulti.js
com/stevesoft/pat/Branch.js
com/stevesoft/pat/CaseMgr.js
com/stevesoft/pat/DotMulti.js
@@
-20,10
+23,12
@@
com/stevesoft/pat/Pattern.js
com/stevesoft/pat/PatternSub.js
com/stevesoft/pat/Pthings.js
com/stevesoft/pat/Range.js
com/stevesoft/pat/PatternSub.js
com/stevesoft/pat/Pthings.js
com/stevesoft/pat/Range.js
+com/stevesoft/pat/RegHolder.js
com/stevesoft/pat/RegOpt.js
com/stevesoft/pat/RegRes.js
com/stevesoft/pat/Regex.js
com/stevesoft/pat/ReplaceRule.js
com/stevesoft/pat/RegOpt.js
com/stevesoft/pat/RegRes.js
com/stevesoft/pat/Regex.js
com/stevesoft/pat/ReplaceRule.js
+com/stevesoft/pat/Replacer.js
com/stevesoft/pat/Rthings.js
com/stevesoft/pat/Skip.js
com/stevesoft/pat/StrPos.js
com/stevesoft/pat/Rthings.js
com/stevesoft/pat/Skip.js
com/stevesoft/pat/StrPos.js
@@
-232,10
+237,10
@@
jalview/gui/ViewSelectionMenu.js
jalview/io/AlignFile.js
jalview/io/AlignmentFileReaderI.js
jalview/io/AlignmentFileWriterI.js
jalview/io/AlignFile.js
jalview/io/AlignmentFileReaderI.js
jalview/io/AlignmentFileWriterI.js
+jalview/io/AnnotationFile.js
jalview/io/AppletFormatAdapter.js
jalview/io/DataSourceType.js
jalview/io/FastaFile.js
jalview/io/AppletFormatAdapter.js
jalview/io/DataSourceType.js
jalview/io/FastaFile.js
-com/stevesoft/pat/Bracket.js
jalview/io/FileFormat.js
jalview/io/FileFormatI.js
jalview/io/FileFormats.js
jalview/io/FileFormat.js
jalview/io/FileFormatI.js
jalview/io/FileFormats.js
@@
-243,15
+248,18
@@
jalview/io/FileLoader.js
jalview/io/FileParse.js
jalview/io/FormatAdapter.js
jalview/io/IdentifyFile.js
jalview/io/FileParse.js
jalview/io/FormatAdapter.js
jalview/io/IdentifyFile.js
+jalview/io/JPredFile.js
jalview/io/JalviewFileChooser.js
jalview/io/JalviewFileFilter.js
jalview/io/JalviewFileView.js
jalview/io/JalviewFileChooser.js
jalview/io/JalviewFileFilter.js
jalview/io/JalviewFileView.js
+jalview/io/JnetAnnotationMaker.js
jalview/io/NewickFile.js
jalview/io/PDBFeatureSettings.js
jalview/io/PIRFile.js
jalview/io/ScoreMatrixFile.js
jalview/io/SequenceAnnotationReport.js
jalview/io/StructureFile.js
jalview/io/NewickFile.js
jalview/io/PDBFeatureSettings.js
jalview/io/PIRFile.js
jalview/io/ScoreMatrixFile.js
jalview/io/SequenceAnnotationReport.js
jalview/io/StructureFile.js
+jalview/io/TCoffeeScoreFile.js
jalview/io/cache/JvCacheableInputBox.js
jalview/javascript/json/JSON.js
jalview/javascript/log4j/ConsoleAppender.js
jalview/io/cache/JvCacheableInputBox.js
jalview/javascript/json/JSON.js
jalview/javascript/log4j/ConsoleAppender.js
@@
-390,6
+398,7
@@
jalview/xml/binding/jalview/Annotation.js
jalview/xml/binding/jalview/AnnotationElement.js
jalview/xml/binding/jalview/Feature.js
jalview/xml/binding/jalview/JalviewModel.js
jalview/xml/binding/jalview/AnnotationElement.js
jalview/xml/binding/jalview/Feature.js
jalview/xml/binding/jalview/JalviewModel.js
+jalview/xml/binding/jalview/ObjectFactory.js
jalview/xml/binding/jalview/Pdbentry.js
jalview/xml/binding/jalview/Sequence.js
jalview/xml/binding/jalview/SequenceSet.js
jalview/xml/binding/jalview/Pdbentry.js
jalview/xml/binding/jalview/Sequence.js
jalview/xml/binding/jalview/SequenceSet.js
@@
-822,6
+831,7
@@
javax/xml/bind/annotation/adapters/CollapsedStringAdapter.js
javax/xml/bind/annotation/adapters/XmlAdapter.js
javax/xml/bind/helpers/AbstractUnmarshallerImpl.js
javax/xml/bind/helpers/DefaultValidationEventHandler.js
javax/xml/bind/annotation/adapters/XmlAdapter.js
javax/xml/bind/helpers/AbstractUnmarshallerImpl.js
javax/xml/bind/helpers/DefaultValidationEventHandler.js
+javax/xml/datatype/DatatypeFactory.js
javax/xml/datatype/XMLGregorianCalendar.js
javax/xml/namespace/QName.js
javax/xml/stream/XMLInputFactory.js
javax/xml/datatype/XMLGregorianCalendar.js
javax/xml/namespace/QName.js
javax/xml/stream/XMLInputFactory.js
@@
-848,6
+858,7
@@
net/miginfocom/layout/UnitValue.js
net/miginfocom/swing/MigLayout.js
net/miginfocom/swing/SwingComponentWrapper.js
net/miginfocom/swing/SwingContainerWrapper.js
net/miginfocom/swing/MigLayout.js
net/miginfocom/swing/SwingComponentWrapper.js
net/miginfocom/swing/SwingContainerWrapper.js
+org/apache/xerces/jaxp/datatype/DatatypeFactoryImpl.js
org/apache/xerces/jaxp/datatype/XMLGregorianCalendarImpl.js
org/jmol/adapter/readers/cif/CifReader.js
org/jmol/adapter/readers/cif/MMCifReader.js
org/apache/xerces/jaxp/datatype/XMLGregorianCalendarImpl.js
org/jmol/adapter/readers/cif/CifReader.js
org/jmol/adapter/readers/cif/MMCifReader.js
@@
-1161,6
+1172,7
@@
swingjs/plaf/TextListener.js
swingjs/xml/JSJAXBClass.js
swingjs/xml/JSJAXBContext.js
swingjs/xml/JSJAXBContextFactory.js
swingjs/xml/JSJAXBClass.js
swingjs/xml/JSJAXBContext.js
swingjs/xml/JSJAXBContextFactory.js
+swingjs/xml/JSJAXBDatatypeFactory.js
swingjs/xml/JSJAXBField.js
swingjs/xml/JSJAXBUnmarshaller.js
swingjs/xml/JSSAXAttributes.js
swingjs/xml/JSJAXBField.js
swingjs/xml/JSJAXBUnmarshaller.js
swingjs/xml/JSSAXAttributes.js