Changeset 22682

Timestamp:

03/09/10 11:39:30 (17 months ago)

Author:

alex

Message:

Check in of Richard Bower's MineManager project into the intermine repository

Location:

trunk/intermine/MineManager

Files:

: 289 added

. (added)
README (added)
common (added)
common/pom.xml (added)
common/src (added)
common/src/main (added)
common/src/main/java (added)
common/src/main/java/org (added)
common/src/main/java/org/intermine (added)
common/src/main/java/org/intermine/common (added)
common/src/main/java/org/intermine/common/swing (added)
common/src/main/java/org/intermine/common/swing/ButtonPanel.java (added)
common/src/main/java/org/intermine/common/swing/EnumComboRenderer.java (added)
common/src/main/java/org/intermine/common/swing/GenericMutableComboBoxModel.java (added)
common/src/main/java/org/intermine/common/swing/GridBagHelper.java (added)
common/src/main/java/org/intermine/common/swing/Messages.java (added)
common/src/main/java/org/intermine/common/swing/ProgressDialog.java (added)
common/src/main/java/org/intermine/common/swing/StandardJDialog.java (added)
common/src/main/java/org/intermine/common/swing/SystemProcessProgressDialog.java (added)
common/src/main/java/org/intermine/common/swing/SystemProcessSwingWorker.java (added)
common/src/main/java/org/intermine/common/swing/WindowUtils.java (added)
common/src/main/java/org/intermine/common/swing/package.html (added)
common/src/main/java/org/intermine/common/swing/table (added)
common/src/main/java/org/intermine/common/swing/table/GenericTableModel.java (added)
common/src/main/java/org/intermine/common/swing/table/package.html (added)
common/src/main/java/org/intermine/common/swing/text (added)
common/src/main/java/org/intermine/common/swing/text/DecimalDocument.java (added)
common/src/main/java/org/intermine/common/swing/text/IntegerDocument.java (added)
common/src/main/java/org/intermine/common/swing/text/LimitedSizeDocument.java (added)
common/src/main/java/org/intermine/common/swing/text/RestrictedInputDocument.java (added)
common/src/main/java/org/intermine/common/swing/text/package.html (added)
common/src/main/java/org/intermine/common/util (added)
common/src/main/java/org/intermine/common/util/CollectionChecks.java (added)
common/src/main/java/org/intermine/common/util/EnumByNameComparator.java (added)
common/src/main/java/org/intermine/common/util/package.html (added)
common/src/main/java/overview.html (added)
common/src/site (added)
common/src/site/apt (added)
common/src/site/apt/index.apt (added)
common/src/site/site.xml (added)
installer (added)
installer/pom.xml (added)
installer/run (added)
installer/src (added)
installer/src/main (added)
installer/src/main/java (added)
installer/src/main/java/org (added)
installer/src/main/java/org/intermine (added)
installer/src/main/java/org/intermine/install (added)
installer/src/main/java/org/intermine/install/IntermineInstaller.java (added)
installer/src/main/java/org/intermine/install/database (added)
installer/src/main/java/org/intermine/install/database/DatabaseConnectionException.java (added)
installer/src/main/java/org/intermine/install/database/DatabaseCreationException.java (added)
installer/src/main/java/org/intermine/install/database/DatabaseUtil.java (added)
installer/src/main/java/org/intermine/install/database/PasswordException.java (added)
installer/src/main/java/org/intermine/install/database/package.html (added)
installer/src/main/java/org/intermine/install/package.html (added)
installer/src/main/java/org/intermine/install/project (added)
installer/src/main/java/org/intermine/install/project/event (added)
installer/src/main/java/org/intermine/install/project/event/ProjectAdapter.java (added)
installer/src/main/java/org/intermine/install/project/event/ProjectEvent.java (added)
installer/src/main/java/org/intermine/install/project/event/ProjectListener.java (added)
installer/src/main/java/org/intermine/install/project/event/ProjectListenerSupport.java (added)
installer/src/main/java/org/intermine/install/project/event/package.html (added)
installer/src/main/java/org/intermine/install/project/postprocessing (added)
installer/src/main/java/org/intermine/install/project/postprocessing/PostProcessorInfo.java (added)
installer/src/main/java/org/intermine/install/project/postprocessing/PostProcessorLoader.java (added)
installer/src/main/java/org/intermine/install/project/postprocessing/package.html (added)
installer/src/main/java/org/intermine/install/project/source (added)
installer/src/main/java/org/intermine/install/project/source/SourceInfo.java (added)
installer/src/main/java/org/intermine/install/project/source/SourceInfoLoader.java (added)
installer/src/main/java/org/intermine/install/project/source/SourceTypeCreator.java (added)
installer/src/main/java/org/intermine/install/project/source/package.html (added)
installer/src/main/java/org/intermine/install/properties (added)
installer/src/main/java/org/intermine/install/properties/InterminePropertyKeys.java (added)
installer/src/main/java/org/intermine/install/properties/MinePropertiesLoader.java (added)
installer/src/main/java/org/intermine/install/properties/package.html (added)
installer/src/main/java/org/intermine/install/swing (added)
installer/src/main/java/org/intermine/install/swing/AddSourceDialog.java (added)
installer/src/main/java/org/intermine/install/swing/BuildProjectDialog.java (added)
installer/src/main/java/org/intermine/install/swing/CreateDatabaseDialog.java (added)
installer/src/main/java/org/intermine/install/swing/CreateDatabaseWorker.java (added)
installer/src/main/java/org/intermine/install/swing/CreateMineWorker.java (added)
installer/src/main/java/org/intermine/install/swing/CreatePropertiesDialog.java (added)
installer/src/main/java/org/intermine/install/swing/MakeMineDialog.java (added)
installer/src/main/java/org/intermine/install/swing/NewDerivedTypeDialog.java (added)
installer/src/main/java/org/intermine/install/swing/NewMineDialog.java (added)
installer/src/main/java/org/intermine/install/swing/PostProcessorDialog.java (added)
installer/src/main/java/org/intermine/install/swing/PreferencesDialog.java (added)
installer/src/main/java/org/intermine/install/swing/ProjectEditor.java (added)
installer/src/main/java/org/intermine/install/swing/package.html (added)
installer/src/main/java/org/intermine/install/swing/source (added)
installer/src/main/java/org/intermine/install/swing/source/PropertyComponentCreator.java (added)
installer/src/main/java/org/intermine/install/swing/source/PropertyComponentWrapper.java (added)
installer/src/main/java/org/intermine/install/swing/source/SourceListModel.java (added)
installer/src/main/java/org/intermine/install/swing/source/SourceListRenderer.java (added)
installer/src/main/java/org/intermine/install/swing/source/SourcePanel.java (added)
installer/src/main/java/org/intermine/install/swing/source/SourcePropertiesPanel.java (added)
installer/src/main/java/org/intermine/install/swing/source/package.html (added)
installer/src/main/java/overview.html (added)
installer/src/main/resources (added)
installer/src/main/resources/log4j.xml (added)
installer/src/main/resources/org (added)
installer/src/main/resources/org/intermine (added)
installer/src/main/resources/org/intermine/install (added)
installer/src/main/resources/org/intermine/install/messages_en.properties (added)
installer/src/main/resources/org/intermine/install/postgres_messages_en.properties (added)
installer/src/main/resources/org/intermine/install/preferences.properties (added)
installer/src/main/resources/org/intermine/install/project (added)
installer/src/main/resources/org/intermine/install/project/postprocessing (added)
installer/src/main/resources/org/intermine/install/project/postprocessing/postprocessors.csv (added)
installer/src/main/resources/org/intermine/install/project/sources (added)
installer/src/main/resources/org/intermine/install/project/sources/biogrid.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/biopax.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/chado-db.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/custom-file.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/ensembl.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/entrez-organism.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/fasta.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/fasta_defaults.properties (added)
installer/src/main/resources/org/intermine/install/project/sources/gff.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/go-annotation.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/go.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/intact.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/intermine-items-large-xml-file.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/intermine-items-xml-file.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/interpro.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/kegg-orthologues.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/kegg-pathway.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/miranda.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/obo.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/pdb.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/psi-mi-ontology.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/pubmed.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/snp.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/so.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/sourcetypes.txt (added)
installer/src/main/resources/org/intermine/install/project/sources/treefam.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/uniprot-keywords.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/uniprot.xml (added)
installer/src/main/resources/org/intermine/install/project/sources/update-publications.xml (added)
installer/src/main/resources/org/intermine/install/templates (added)
installer/src/main/resources/org/intermine/install/templates/defaultmine.properties (added)
installer/src/main/resources/org/intermine/install/templates/mineproperties.template (added)
installer/src/main/xsd (added)
installer/src/main/xsd/sourcedescriptor.xsd (added)
installer/src/site (added)
installer/src/site/apt (added)
installer/src/site/apt/index.apt (added)
installer/src/site/site.xml (added)
installer/src/test (added)
installer/src/test/java (added)
installer/src/test/java/org (added)
installer/src/test/java/org/intermine (added)
installer/src/test/java/org/intermine/install (added)
installer/src/test/java/org/intermine/install/project (added)
installer/src/test/java/org/intermine/install/project/source (added)
installer/src/test/java/org/intermine/install/project/source/SourceInfoLoaderTest.java (added)
installer/src/test/java/org/intermine/install/project/source/package.html (added)
installer/src/test/sourcetest (added)
installer/src/test/sourcetest/bio (added)
installer/src/test/sourcetest/bio/sources (added)
installer/src/test/sourcetest/bio/sources/example-sources (added)
installer/src/test/sourcetest/bio/sources/example-sources/malaria-gff (added)
installer/src/test/sourcetest/bio/sources/example-sources/malaria-gff/project.properties (added)
installer/src/test/sourcetest/bio/sources/fasta (added)
installer/src/test/sourcetest/bio/sources/fasta/project.properties (added)
installer/src/test/sourcetest/project (added)
jdk15 (added)
jdk15/pom.xml (added)
jdk15/src (added)
jdk15/src/main (added)
jdk15/src/main/java (added)
jdk15/src/main/java/org (added)
jdk15/src/main/java/org/intermine (added)
jdk15/src/main/java/org/intermine/swing (added)
jdk15/src/main/java/org/intermine/swing/jdk15 (added)
jdk15/src/main/java/org/intermine/swing/jdk15/SwingDropTarget.java (added)
jdk15/src/main/java/org/intermine/swing/jdk15/SwingWorker.java (added)
jdk15/src/main/java/org/intermine/swing/jdk15/TransferHandler.java (added)
jdk15/src/main/java/org/intermine/swing/jdk15/package.html (added)
jgraphx (added)
jgraphx/README (added)
jgraphx/install (added)
jgraphx/jgraphx-1.4.0.2-sources.jar (added)
jgraphx/jgraphx-1.4.0.2.jar (added)
modelviewer (added)
modelviewer/pom.xml (added)
modelviewer/run (added)
modelviewer/src (added)
modelviewer/src/main (added)
modelviewer/src/main/java (added)
modelviewer/src/main/java/org (added)
modelviewer/src/main/java/org/intermine (added)
modelviewer/src/main/java/org/intermine/modelviewer (added)
modelviewer/src/main/java/org/intermine/modelviewer/IntermineModelViewer.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/ProjectLoader.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/genomic (added)
modelviewer/src/main/java/org/intermine/modelviewer/genomic/GenomicAddition.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/genomic/ModelBuilder.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/genomic/package.html (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb/BackupContentHandler.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb/ConfigParser.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb/CoreHandler.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb/GenomicCoreHandler.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb/GenomicHandler.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb/KnownNamespacePrefixMatcher.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb/NamespaceFilter.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb/ProjectHandler.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/jaxb/package.html (added)
modelviewer/src/main/java/org/intermine/modelviewer/model (added)
modelviewer/src/main/java/org/intermine/modelviewer/model/Attribute.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/model/ForeignKey.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/model/Model.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/model/ModelClass.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/model/package.html (added)
modelviewer/src/main/java/org/intermine/modelviewer/package.html (added)
modelviewer/src/main/java/org/intermine/modelviewer/project (added)
modelviewer/src/main/java/org/intermine/modelviewer/project/PropertyNameComparator.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/project/SourceNameComparator.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/project/package.html (added)
modelviewer/src/main/java/org/intermine/modelviewer/store (added)
modelviewer/src/main/java/org/intermine/modelviewer/store/MineManagerBackingStore.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/store/package.html (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/CustomisedMxGraph.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/ModelViewer.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/attributetable (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/attributetable/AttributeInfo.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/attributetable/AttributeTable.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/attributetable/AttributeTableCellRenderer.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/attributetable/AttributeTableModel.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/attributetable/package.html (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/classtree (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/classtree/ClassTreeCellRenderer.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/classtree/ClassTreeModel.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/classtree/ClassTreeNode.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/classtree/ClassTreeRootNode.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/classtree/ModelClassTreeComparator.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/classtree/package.html (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/package.html (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/referencetable (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/referencetable/ReferenceInfo.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/referencetable/ReferenceTable.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/referencetable/ReferenceTableCellRenderer.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/referencetable/ReferenceTableModel.java (added)
modelviewer/src/main/java/org/intermine/modelviewer/swing/referencetable/package.html (added)
modelviewer/src/main/java/overview.html (added)
modelviewer/src/main/resources (added)
modelviewer/src/main/resources/log4j.xml (added)
modelviewer/src/main/resources/org (added)
modelviewer/src/main/resources/org/intermine (added)
modelviewer/src/main/resources/org/intermine/modelviewer (added)
modelviewer/src/main/resources/org/intermine/modelviewer/messages_en.properties (added)
modelviewer/src/main/xsd (added)
modelviewer/src/main/xsd/core.xsd (added)
modelviewer/src/main/xsd/genomic-core.xsd (added)
modelviewer/src/main/xsd/genomic.xsd (added)
modelviewer/src/main/xsd/project.xsd (added)
modelviewer/src/site (added)
modelviewer/src/site/apt (added)
modelviewer/src/site/apt/index.apt (added)
modelviewer/src/site/site.xml (added)
modelviewer/src/test (added)
modelviewer/src/test/java (added)
modelviewer/src/test/java/org (added)
modelviewer/src/test/java/org/intermine (added)
modelviewer/src/test/java/org/intermine/modelviewer (added)
modelviewer/src/test/java/org/intermine/modelviewer/jaxb (added)
modelviewer/src/test/java/org/intermine/modelviewer/jaxb/ConfigParserTest.java (added)
modelviewer/src/test/java/org/intermine/modelviewer/jaxb/package.html (added)
modelviewer/src/test/schema (added)
modelviewer/src/test/schema/core.xml (added)
modelviewer/src/test/schema/genomic_additions.xml (added)
modelviewer/src/test/schema/noschema (added)
modelviewer/src/test/schema/noschema/core.xml (added)
modelviewer/src/test/schema/noschema/genomic_additions.xml (added)
modelviewer/src/test/schema/noschema/project.xml (added)
modelviewer/src/test/schema/noschema/shortcuts.xml (added)
modelviewer/src/test/schema/project.xml (added)
modelviewer/src/test/schema/shortcuts.xml (added)
pom.xml (added)
src (added)
src/site (added)
src/site/apt (added)
src/site/apt/index.apt (added)
src/site/apt/swing.apt (added)
src/site/site.xml (added)

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