diff --git a/biology/Makefile b/biology/Makefile index d07fc1553357..b1798bf04f78 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -1,6 +1,7 @@ # $FreeBSD$ # + SUBDIR += artemis SUBDIR += babel SUBDIR += biojava SUBDIR += chemeq diff --git a/biology/artemis/Makefile b/biology/artemis/Makefile new file mode 100644 index 000000000000..58af9beae029 --- /dev/null +++ b/biology/artemis/Makefile @@ -0,0 +1,33 @@ +# New ports collection makefile for: artemis +# Date created: 10 Nov 2001 +# Whom: camson@bilateral.com.au +# +# $FreeBSD$ +# + +PORTNAME= artemis +PORTVERSION= 4.0 +CATEGORIES= biology +MASTER_SITES= http://www.sanger.ac.uk/Software/Artemis/v4/ +DISTNAME= artemis_compiled_v4 + +MAINTAINER= chuynh@biolateral.com.au + +RUN_DEPENDS= ${JAVA_COMMAND}:${PORTSDIR}/java/jdk13 + +WRKSRC= ${WRKDIR}/${PORTNAME} + +JDK_VERSION= 1.3.1 +JDK_DIR= ${PREFIX}/jdk${JDK_VERSION} +JAVA_COMMAND= ${JDK_DIR}/bin/java + +NO_BUILD= yes + +do-install: + @${MKDIR} ${PREFIX}/${PORTNAME}-${PORTVERSION} + @${TAR} -C ${WRKSRC} -cf- . | ${TAR} -C ${PREFIX}/${PORTNAME}-${PORTVERSION} -xpf- + @${LN} -s ${PREFIX}/${PORTNAME}-${PORTVERSION}/art ${PREFIX}/bin/art + +PLIST_SUB= PORTVERSION="${PORTVERSION}" + +.include diff --git a/biology/artemis/distinfo b/biology/artemis/distinfo new file mode 100644 index 000000000000..dfad7f95ddd1 --- /dev/null +++ b/biology/artemis/distinfo @@ -0,0 +1 @@ +MD5 (artemis_compiled_v4.tar.gz) = e970b57e993a6b6d254ae70f83e1304e diff --git a/biology/artemis/pkg-comment b/biology/artemis/pkg-comment new file mode 100644 index 000000000000..26b8a15a2327 --- /dev/null +++ b/biology/artemis/pkg-comment @@ -0,0 +1 @@ +A DNA sequence viewer and annotation tool diff --git a/biology/artemis/pkg-descr b/biology/artemis/pkg-descr new file mode 100644 index 000000000000..7aed26ffa578 --- /dev/null +++ b/biology/artemis/pkg-descr @@ -0,0 +1,7 @@ +Artemis is a DNA sequence viewer and annotation tool that allows visualisation +of sequence features and the results of analyses within the context of the +sequence, and its six-frame translation. Artemis is written in Java, reads +EMBL or GENBANK format sequences and feature tables, and can work on sequences +of any size. + +WWW: http://www.sanger.ac.uk/Software/Artemis/manual diff --git a/biology/artemis/pkg-plist b/biology/artemis/pkg-plist new file mode 100644 index 000000000000..03ec13e72536 --- /dev/null +++ b/biology/artemis/pkg-plist @@ -0,0 +1,1486 @@ +artemis-4.0/CVS/Root +artemis-4.0/CVS/Repository +artemis-4.0/CVS/Entries +artemis-4.0/.cvsignore +artemis-4.0/AppGlobal.java +artemis-4.0/COPYING +artemis-4.0/COPYING.JacORB +artemis-4.0/CorbaApplet.java +artemis-4.0/Diana.java +artemis-4.0/INSTALL +artemis-4.0/Makefile +artemis-4.0/README +artemis-4.0/art +artemis-4.0/art.bat +artemis-4.0/mart +artemis-4.0/results_to_netscape +artemis-4.0/run_blast +artemis-4.0/run_blastn +artemis-4.0/run_blastp +artemis-4.0/run_blastx +artemis-4.0/run_fasta +artemis-4.0/run_hth +artemis-4.0/run_jalview +artemis-4.0/run_sigcleave +artemis-4.0/run_tblastn +artemis-4.0/run_tblastx +artemis-4.0/META-INF/CVS/Root +artemis-4.0/META-INF/CVS/Repository +artemis-4.0/META-INF/CVS/Entries +artemis-4.0/META-INF/MANIFEST.MF +artemis-4.0/collections/CVS/Root +artemis-4.0/collections/CVS/Repository +artemis-4.0/collections/CVS/Entries +artemis-4.0/collections/ArrayEnumeration.java +artemis-4.0/collections/Assertable.java +artemis-4.0/collections/Bag.java +artemis-4.0/collections/BinaryFunction.java +artemis-4.0/collections/CEImpl.java +artemis-4.0/collections/CLCell.java +artemis-4.0/collections/CLEnumeration.java +artemis-4.0/collections/Cell.java +artemis-4.0/collections/CheckedBag.java +artemis-4.0/collections/CheckedCollection.java +artemis-4.0/collections/CheckedMap.java +artemis-4.0/collections/CheckedSeq.java +artemis-4.0/collections/CheckedSet.java +artemis-4.0/collections/Keyed.java +artemis-4.0/collections/CircularList.java +artemis-4.0/collections/Collection.java +artemis-4.0/collections/CollectionEnumeration.java +artemis-4.0/collections/Comparator.java +artemis-4.0/collections/Dynarray.java +artemis-4.0/collections/CorruptedEnumerationException.java +artemis-4.0/collections/DAEnumeration.java +artemis-4.0/collections/DefaultComparator.java +artemis-4.0/collections/DefaultImplementations.java +artemis-4.0/collections/ElementSortedCollection.java +artemis-4.0/collections/FilteringEnumeration.java +artemis-4.0/collections/Function.java +artemis-4.0/collections/HTEnumeration.java +artemis-4.0/collections/HTPairEnumeration.java +artemis-4.0/collections/HashTableParams.java +artemis-4.0/collections/HashedMap.java +artemis-4.0/collections/HashedSet.java +artemis-4.0/collections/IllegalElementException.java +artemis-4.0/collections/Immutable.java +artemis-4.0/collections/ImplementationCheckable.java +artemis-4.0/collections/IncrBag.java +artemis-4.0/collections/ImplementationError.java +artemis-4.0/collections/IncrCollectionEnumeration.java +artemis-4.0/collections/IncrImpl.java +artemis-4.0/collections/IncrMap.java +artemis-4.0/collections/IncrSeq.java +artemis-4.0/collections/IncrSet.java +artemis-4.0/collections/InterleavingEnumeration.java +artemis-4.0/collections/KeySortedCollection.java +artemis-4.0/collections/LBEnumeration.java +artemis-4.0/collections/LLCell.java +artemis-4.0/collections/LLCellEnumeration.java +artemis-4.0/collections/LLMap.java +artemis-4.0/collections/LLPair.java +artemis-4.0/collections/LLPairEnumeration.java +artemis-4.0/collections/LinkedBuffer.java +artemis-4.0/collections/LinkedList.java +artemis-4.0/collections/Map.java +artemis-4.0/collections/MappingEnumeration.java +artemis-4.0/collections/Pair.java +artemis-4.0/collections/Predicate.java +artemis-4.0/collections/Procedure.java +artemis-4.0/collections/RBCell.java +artemis-4.0/collections/RBCellEnumeration.java +artemis-4.0/collections/RBMap.java +artemis-4.0/collections/RBPair.java +artemis-4.0/collections/RBPairEnumeration.java +artemis-4.0/collections/RBTree.java +artemis-4.0/collections/Seq.java +artemis-4.0/collections/Set.java +artemis-4.0/collections/SimpleTest.java +artemis-4.0/collections/SortableCollection.java +artemis-4.0/collections/UpdatableBag.java +artemis-4.0/collections/UpdatableBagImpl.java +artemis-4.0/collections/UpdatableCollection.java +artemis-4.0/collections/UpdatableImpl.java +artemis-4.0/collections/UpdatableMap.java +artemis-4.0/collections/UpdatableMapImpl.java +artemis-4.0/collections/javaMake +artemis-4.0/collections/UpdatableSeq.java +artemis-4.0/collections/UpdatableSeqImpl.java +artemis-4.0/collections/UpdatableSet.java +artemis-4.0/collections/UpdatableSetImpl.java +artemis-4.0/collections/collections_Dynarray.h +artemis-4.0/collections/Dynarray.class +artemis-4.0/collections/UpdatableSeqImpl.class +artemis-4.0/collections/UpdatableSeq.class +artemis-4.0/collections/SortableCollection.class +artemis-4.0/collections/Seq.class +artemis-4.0/collections/UpdatableImpl.class +artemis-4.0/collections/UpdatableCollection.class +artemis-4.0/collections/IllegalElementException.class +artemis-4.0/collections/CorruptedEnumerationException.class +artemis-4.0/collections/ImplementationError.class +artemis-4.0/collections/Collection.class +artemis-4.0/collections/Assertable.class +artemis-4.0/collections/ImplementationCheckable.class +artemis-4.0/collections/Comparator.class +artemis-4.0/collections/Predicate.class +artemis-4.0/collections/CollectionEnumeration.class +artemis-4.0/collections/DAEnumeration.class +artemis-4.0/collections/CEImpl.class +artemis-4.0/collections/KeySortedCollection.class +artemis-4.0/collections/Map.class +artemis-4.0/collections/ElementSortedCollection.class +artemis-4.0/collections/Bag.class +artemis-4.0/collections/Set.class +artemis-4.0/collections/RBTree.class +artemis-4.0/collections/UpdatableBagImpl.class +artemis-4.0/collections/UpdatableBag.class +artemis-4.0/collections/RBCell.class +artemis-4.0/collections/Cell.class +artemis-4.0/collections/DefaultComparator.class +artemis-4.0/collections/RBCellEnumeration.class +artemis-4.0/collections/Keyed.class +artemis-4.0/corba/CVS/Root +artemis-4.0/corba/CVS/Repository +artemis-4.0/corba/CVS/Entries +artemis-4.0/corba/apollo.idl +artemis-4.0/corba/ensembl.idl +artemis-4.0/corba/nsdb.idl +artemis-4.0/corba/nsdb_write.idl +artemis-4.0/corba/seqdb.idl +artemis-4.0/corba/types.idl +artemis-4.0/diana/CVS/Root +artemis-4.0/diana/CVS/Repository +artemis-4.0/diana/CVS/Entries +artemis-4.0/diana/AlignMatch.java +artemis-4.0/diana/AlignMatchVector.java +artemis-4.0/diana/ChangeEvent.java +artemis-4.0/diana/ChangeListener.java +artemis-4.0/diana/ClipBoard.java +artemis-4.0/diana/ComparisonData.java +artemis-4.0/diana/ComparisonDataFactory.java +artemis-4.0/diana/ComparisonDataParseException.java +artemis-4.0/diana/Entry.java +artemis-4.0/diana/EntryChangeEvent.java +artemis-4.0/diana/EntryChangeListener.java +artemis-4.0/diana/EntryGroup.java +artemis-4.0/diana/EntryGroupChangeEvent.java +artemis-4.0/diana/EntryGroupChangeListener.java +artemis-4.0/diana/EntrySource.java +artemis-4.0/diana/plot/CVS/Root +artemis-4.0/diana/plot/CVS/Repository +artemis-4.0/diana/plot/CVS/Entries +artemis-4.0/diana/plot/AGWindowAlgorithm.java +artemis-4.0/diana/plot/ATDeviationAlgorithm.java +artemis-4.0/diana/plot/Algorithm.java +artemis-4.0/diana/plot/BaseAlgorithm.java +artemis-4.0/diana/plot/Codon12CorrelationAlgorithm.java +artemis-4.0/diana/plot/CodonUsageAlgorithm.java +artemis-4.0/diana/plot/CodonUsageFormatException.java +artemis-4.0/diana/plot/CodonUsageWeight.java +artemis-4.0/diana/plot/CodonWeight.java +artemis-4.0/diana/plot/CoilFeatureAlgorithm.java +artemis-4.0/diana/plot/HydroAlgorithm.java +artemis-4.0/diana/plot/FeatureAlgorithm.java +artemis-4.0/diana/plot/GCDeviationAlgorithm.java +artemis-4.0/diana/plot/GCFrameAlgorithm.java +artemis-4.0/diana/plot/GCSDWindowAlgorithm.java +artemis-4.0/diana/plot/GCWindowAlgorithm.java +artemis-4.0/diana/plot/HydrophilicityAlgorithm.java +artemis-4.0/diana/plot/HydrophobicityAlgorithm.java +artemis-4.0/diana/plot/UserDataAlgorithm.java +artemis-4.0/diana/plot/CodonUsageAlgorithm.class +artemis-4.0/diana/plot/BaseAlgorithm.class +artemis-4.0/diana/plot/Algorithm.class +artemis-4.0/diana/plot/UserDataAlgorithm.class +artemis-4.0/diana/plot/CodonUsageWeight.class +artemis-4.0/diana/plot/CodonWeight.class +artemis-4.0/diana/plot/GCWindowAlgorithm.class +artemis-4.0/diana/plot/GCSDWindowAlgorithm.class +artemis-4.0/diana/plot/AGWindowAlgorithm.class +artemis-4.0/diana/plot/GCFrameAlgorithm.class +artemis-4.0/diana/plot/Codon12CorrelationAlgorithm.class +artemis-4.0/diana/plot/GCDeviationAlgorithm.class +artemis-4.0/diana/plot/ATDeviationAlgorithm.class +artemis-4.0/diana/plot/CodonUsageFormatException.class +artemis-4.0/diana/plot/FeatureAlgorithm.class +artemis-4.0/diana/plot/HydroAlgorithm.class +artemis-4.0/diana/plot/HydrophobicityAlgorithm.class +artemis-4.0/diana/plot/HydrophilicityAlgorithm.class +artemis-4.0/diana/plot/CoilFeatureAlgorithm.class +artemis-4.0/diana/EntrySourceVector.java +artemis-4.0/diana/EntryVector.java +artemis-4.0/diana/ExternalApplication.java +artemis-4.0/diana/ExternalProgram.java +artemis-4.0/diana/ExternalProgramException.java +artemis-4.0/diana/ExternalProgramVector.java +artemis-4.0/diana/ExternalSearchProgram.java +artemis-4.0/diana/Feature.java +artemis-4.0/diana/FeatureChangeEvent.java +artemis-4.0/diana/FeatureChangeListener.java +artemis-4.0/diana/FeatureEnumeration.java +artemis-4.0/diana/FeatureFromVectorPredicate.java +artemis-4.0/diana/FeatureKeyPredicate.java +artemis-4.0/diana/FeatureKeyQualifierPredicate.java +artemis-4.0/diana/FeatureSegment.java +artemis-4.0/diana/FeaturePredicate.java +artemis-4.0/diana/FeatureSegmentVector.java +artemis-4.0/diana/FeatureVector.java +artemis-4.0/diana/FilteredEntryGroup.java +artemis-4.0/diana/GotoEvent.java +artemis-4.0/diana/GotoEventSource.java +artemis-4.0/diana/GotoListener.java +artemis-4.0/diana/LastSegmentException.java +artemis-4.0/diana/Logger.java +artemis-4.0/diana/MSPcrunchComparisonData.java +artemis-4.0/diana/MUMmerComparisonData.java +artemis-4.0/diana/Options.java +artemis-4.0/diana/Selectable.java +artemis-4.0/diana/Selection.java +artemis-4.0/diana/SelectionChangeEvent.java +artemis-4.0/diana/SelectionChangeListener.java +artemis-4.0/diana/helix.gif +artemis-4.0/diana/SimpleComparisonData.java +artemis-4.0/diana/SimpleEntryGroup.java +artemis-4.0/diana/SimpleGotoEventSource.java +artemis-4.0/diana/sanger-centre.gif +artemis-4.0/diana/components/CVS/Root +artemis-4.0/diana/components/CVS/Repository +artemis-4.0/diana/components/CVS/Entries +artemis-4.0/diana/components/ActMain.java +artemis-4.0/diana/components/AddMenu.java +artemis-4.0/diana/components/AlignmentViewer.java +artemis-4.0/diana/components/ArtemisMain.java +artemis-4.0/diana/components/BasePlot.java +artemis-4.0/diana/components/BasePlotGroup.java +artemis-4.0/diana/components/CanvasPanel.java +artemis-4.0/diana/components/Comparator.java +artemis-4.0/diana/components/ComparatorDialog.java +artemis-4.0/diana/components/CorbaEntrySource.java +artemis-4.0/diana/components/DisplayAdjustmentEvent.java +artemis-4.0/diana/components/DisplayAdjustmentListener.java +artemis-4.0/diana/components/DisplayComponent.java +artemis-4.0/diana/components/EMBLCorbaEntrySource.java +artemis-4.0/diana/components/EditMenu.java +artemis-4.0/diana/components/EnsemblEntrySource.java +artemis-4.0/diana/components/EntryActionListener.java +artemis-4.0/diana/components/EntryEdit.java +artemis-4.0/diana/components/EntryEditVector.java +artemis-4.0/diana/components/EntryFileDialog.java +artemis-4.0/diana/components/EntryGroupDisplay.java +artemis-4.0/diana/components/EntryGroupInfoDisplay.java +artemis-4.0/diana/components/EntryGroupMenu.java +artemis-4.0/diana/components/EntryGroupPanel.java +artemis-4.0/diana/components/EntryHeaderEdit.java +artemis-4.0/diana/components/ExternalProgramOptions.java +artemis-4.0/diana/components/FeatureAminoAcidViewer.java +artemis-4.0/diana/components/FeatureBaseViewer.java +artemis-4.0/diana/components/FeatureDisplay.java +artemis-4.0/diana/components/FeatureDisplayOwner.java +artemis-4.0/diana/components/FeatureEdit.java +artemis-4.0/diana/components/FeatureInfo.java +artemis-4.0/diana/components/FeatureList.java +artemis-4.0/diana/components/FeatureListFrame.java +artemis-4.0/diana/components/FeaturePlot.java +artemis-4.0/diana/components/FeaturePlotGroup.java +artemis-4.0/diana/components/FeaturePopup.java +artemis-4.0/diana/components/FeatureViewer.java +artemis-4.0/diana/components/FileDialogEntrySource.java +artemis-4.0/diana/components/FileViewer.java +artemis-4.0/diana/components/GotoMenu.java +artemis-4.0/diana/components/KeyChoice.java +artemis-4.0/diana/components/KeyChooser.java +artemis-4.0/diana/components/ListDialog.java +artemis-4.0/diana/components/LogViewer.java +artemis-4.0/diana/components/MarkerRangeRequester.java +artemis-4.0/diana/components/MarkerRangeRequesterEvent.java +artemis-4.0/diana/components/MarkerRangeRequesterListener.java +artemis-4.0/diana/components/MessageDialog.java +artemis-4.0/diana/components/MessageFrame.java +artemis-4.0/diana/components/Navigator.java +artemis-4.0/diana/components/Plot.java +artemis-4.0/diana/components/PlotMouseListener.java +artemis-4.0/diana/components/ProcessWatcher.java +artemis-4.0/diana/components/ProcessWatcherEvent.java +artemis-4.0/diana/components/ProcessWatcherListener.java +artemis-4.0/diana/components/QualifierChoice.java +artemis-4.0/diana/components/RawFeatureEdit.java +artemis-4.0/diana/components/RunMenu.java +artemis-4.0/diana/components/ScoreChangeEvent.java +artemis-4.0/diana/components/ScoreChangeListener.java +artemis-4.0/diana/components/ScoreChanger.java +artemis-4.0/diana/components/ScoreScrollbar.java +artemis-4.0/diana/components/SearchResultViewer.java +artemis-4.0/diana/components/SelectMenu.java +artemis-4.0/diana/components/SelectionInfoDisplay.java +artemis-4.0/diana/components/SelectionMenu.java +artemis-4.0/diana/components/SelectionViewer.java +artemis-4.0/diana/components/Selector.java +artemis-4.0/diana/components/SequenceViewer.java +artemis-4.0/diana/components/Splash.java +artemis-4.0/diana/components/TextDialog.java +artemis-4.0/diana/components/TextRequester.java +artemis-4.0/diana/components/TextRequesterEvent.java +artemis-4.0/diana/components/TextRequesterListener.java +artemis-4.0/diana/components/ViewMenu.java +artemis-4.0/diana/components/WritableEMBLCorbaEntrySource.java +artemis-4.0/diana/components/WriteMenu.java +artemis-4.0/diana/components/Plot.class +artemis-4.0/diana/components/YesNoDialog.java +artemis-4.0/diana/components/ArtemisMain.class +artemis-4.0/diana/components/ArtemisMain$1.class +artemis-4.0/diana/components/ArtemisMain$2.class +artemis-4.0/diana/components/ArtemisMain$3.class +artemis-4.0/diana/components/ArtemisMain$4.class +artemis-4.0/diana/components/ArtemisMain$5.class +artemis-4.0/diana/components/ArtemisMain$6.class +artemis-4.0/diana/components/Splash.class +artemis-4.0/diana/components/Splash$1.class +artemis-4.0/diana/components/Splash$2.class +artemis-4.0/diana/components/Splash$3.class +artemis-4.0/diana/components/EntryEditVector.class +artemis-4.0/diana/components/LogViewer.class +artemis-4.0/diana/components/LogViewer$1.class +artemis-4.0/diana/components/EntryEdit.class +artemis-4.0/diana/components/EntryEdit$1.class +artemis-4.0/diana/components/EntryEdit$2.class +artemis-4.0/diana/components/EntryEdit$3.class +artemis-4.0/diana/components/EntryEdit$4.class +artemis-4.0/diana/components/EntryEdit$5.class +artemis-4.0/diana/components/EntryEdit$6.class +artemis-4.0/diana/components/EntryEdit$7.class +artemis-4.0/diana/components/EntryEdit$8.class +artemis-4.0/diana/components/EntryEdit$9.class +artemis-4.0/diana/components/EntryEdit$10.class +artemis-4.0/diana/components/EntryEdit$11.class +artemis-4.0/diana/components/EntryEdit$12.class +artemis-4.0/diana/components/EntryEdit$13.class +artemis-4.0/diana/components/EntryEdit$14.class +artemis-4.0/diana/components/EntryEdit$15.class +artemis-4.0/diana/components/ReadFeaturesActionListener.class +artemis-4.0/diana/components/SaveEntryActionListener.class +artemis-4.0/diana/components/SaveEntryAsActionListener.class +artemis-4.0/diana/components/SaveEntryAsEMBLActionListener.class +artemis-4.0/diana/components/SaveEntryAsGenbankActionListener.class +artemis-4.0/diana/components/SaveEntryAsGFFActionListener.class +artemis-4.0/diana/components/SaveEntryAsSubmissionActionListener.class +artemis-4.0/diana/components/MessageDialog.class +artemis-4.0/diana/components/FeatureDisplayOwner.class +artemis-4.0/diana/components/EntryFileDialog.class +artemis-4.0/diana/components/MessageDialog$1.class +artemis-4.0/diana/components/MessageDialog$2.class +artemis-4.0/diana/components/MessageDialog$3.class +artemis-4.0/diana/components/FileDialogEntrySource.class +artemis-4.0/diana/components/EMBLCorbaEntrySource.class +artemis-4.0/diana/components/CorbaEntrySource.class +artemis-4.0/diana/components/WritableEMBLCorbaEntrySource.class +artemis-4.0/diana/components/FileViewer.class +artemis-4.0/diana/components/FileViewer$1.class +artemis-4.0/diana/components/FileViewer$2.class +artemis-4.0/diana/components/FileViewer$3.class +artemis-4.0/diana/components/MessageFrame.class +artemis-4.0/diana/components/MessageFrame$1.class +artemis-4.0/diana/components/MessageFrame$2.class +artemis-4.0/diana/components/MessageFrame$3.class +artemis-4.0/diana/components/ViewMenu.class +artemis-4.0/diana/components/ViewMenu$1.class +artemis-4.0/diana/components/ViewMenu$2.class +artemis-4.0/diana/components/ViewMenu$3.class +artemis-4.0/diana/components/ViewMenu$4.class +artemis-4.0/diana/components/ViewMenu$5.class +artemis-4.0/diana/components/ViewMenu$6.class +artemis-4.0/diana/components/ViewMenu$7.class +artemis-4.0/diana/components/ViewMenu$8.class +artemis-4.0/diana/components/ViewMenu$9.class +artemis-4.0/diana/components/ViewMenu$10.class +artemis-4.0/diana/components/ViewMenu$11.class +artemis-4.0/diana/components/ViewMenu$12.class +artemis-4.0/diana/components/ViewMenu$13.class +artemis-4.0/diana/components/ViewMenu$14.class +artemis-4.0/diana/components/ViewMenu$15.class +artemis-4.0/diana/components/ViewMenu$16.class +artemis-4.0/diana/components/ViewMenu$17.class +artemis-4.0/diana/components/ViewMenu$18.class +artemis-4.0/diana/components/ViewMenu$19.class +artemis-4.0/diana/components/ViewMenu$20.class +artemis-4.0/diana/components/ViewMenu$21.class +artemis-4.0/diana/components/ViewMenu$22.class +artemis-4.0/diana/components/ViewMenu$23.class +artemis-4.0/diana/components/ViewMenu$24.class +artemis-4.0/diana/components/ViewMenu$25.class +artemis-4.0/diana/components/ViewMenu$26.class +artemis-4.0/diana/components/ViewMenu$27.class +artemis-4.0/diana/components/ViewMenu$28.class +artemis-4.0/diana/components/ViewMenu$29.class +artemis-4.0/diana/components/SelectionMenu.class +artemis-4.0/diana/components/AddMenu.class +artemis-4.0/diana/components/AddMenu$1.class +artemis-4.0/diana/components/AddMenu$2.class +artemis-4.0/diana/components/AddMenu$3.class +artemis-4.0/diana/components/AddMenu$4.class +artemis-4.0/diana/components/AddMenu$5.class +artemis-4.0/diana/components/AddMenu$6.class +artemis-4.0/diana/components/AddMenu$7.class +artemis-4.0/diana/components/AddMenu$8.class +artemis-4.0/diana/components/AddMenu$9.class +artemis-4.0/diana/components/AddMenu$10.class +artemis-4.0/diana/components/AddMenu$11.class +artemis-4.0/diana/components/AddMenu$12.class +artemis-4.0/diana/components/AddMenu$13.class +artemis-4.0/diana/components/AddMenu$14.class +artemis-4.0/diana/components/AddMenu$15.class +artemis-4.0/diana/components/EntryGroupDisplay.class +artemis-4.0/diana/components/EntryGroupDisplay$1.class +artemis-4.0/diana/components/EntryGroupDisplay$2.class +artemis-4.0/diana/components/FeatureDisplay.class +artemis-4.0/diana/components/GotoMenu.class +artemis-4.0/diana/components/FeatureDisplay$1.class +artemis-4.0/diana/components/FeatureDisplay$2.class +artemis-4.0/diana/components/EditMenu.class +artemis-4.0/diana/components/FeatureDisplay$3.class +artemis-4.0/diana/components/FeatureDisplay$4.class +artemis-4.0/diana/components/FeatureDisplay$5.class +artemis-4.0/diana/components/FeatureDisplay$6.class +artemis-4.0/diana/components/EntryGroupPanel.class +artemis-4.0/diana/components/DisplayComponent.class +artemis-4.0/diana/components/EntryGroupPanel$1.class +artemis-4.0/diana/components/CanvasPanel.class +artemis-4.0/diana/components/CanvasPanel$1.class +artemis-4.0/diana/components/BasePlotGroup.class +artemis-4.0/diana/components/SelectionInfoDisplay.class +artemis-4.0/diana/components/DisplayAdjustmentListener.class +artemis-4.0/diana/components/FeatureList.class +artemis-4.0/diana/components/FeatureList$1.class +artemis-4.0/diana/components/FeatureList$2.class +artemis-4.0/diana/components/FeatureList$3.class +artemis-4.0/diana/components/YesNoDialog.class +artemis-4.0/diana/components/YesNoDialog$1.class +artemis-4.0/diana/components/YesNoDialog$2.class +artemis-4.0/diana/components/YesNoDialog$3.class +artemis-4.0/diana/components/EntryGroupMenu.class +artemis-4.0/diana/components/EntryGroupMenu$1.class +artemis-4.0/diana/components/EntryGroupMenu$2.class +artemis-4.0/diana/components/EntryGroupMenu$3.class +artemis-4.0/diana/components/EntryGroupMenu$4.class +artemis-4.0/diana/components/EntryGroupMenu$5.class +artemis-4.0/diana/components/EntryGroupMenu$6.class +artemis-4.0/diana/components/SelectMenu.class +artemis-4.0/diana/components/SelectMenu$1.class +artemis-4.0/diana/components/SelectMenu$2.class +artemis-4.0/diana/components/SelectMenu$3.class +artemis-4.0/diana/components/SelectMenu$4.class +artemis-4.0/diana/components/SelectMenu$5.class +artemis-4.0/diana/components/SelectMenu$6.class +artemis-4.0/diana/components/SelectMenu$7.class +artemis-4.0/diana/components/SelectMenu$8.class +artemis-4.0/diana/components/SelectMenu$9.class +artemis-4.0/diana/components/SelectMenu$10.class +artemis-4.0/diana/components/SelectMenu$11.class +artemis-4.0/diana/components/SelectMenu$12.class +artemis-4.0/diana/components/SelectMenu$13.class +artemis-4.0/diana/components/SelectMenu$14.class +artemis-4.0/diana/components/SelectMenu$15.class +artemis-4.0/diana/components/SelectMenu$16.class +artemis-4.0/diana/components/GotoMenu$1.class +artemis-4.0/diana/components/GotoMenu$2.class +artemis-4.0/diana/components/GotoMenu$3.class +artemis-4.0/diana/components/GotoMenu$4.class +artemis-4.0/diana/components/GotoMenu$5.class +artemis-4.0/diana/components/GotoMenu$6.class +artemis-4.0/diana/components/GotoMenu$7.class +artemis-4.0/diana/components/GotoMenu$8.class +artemis-4.0/diana/components/GotoMenu$9.class +artemis-4.0/diana/components/GotoMenu$10.class +artemis-4.0/diana/components/EditMenu$1.class +artemis-4.0/diana/components/EditMenu$2.class +artemis-4.0/diana/components/EditMenu$3.class +artemis-4.0/diana/components/EditMenu$4.class +artemis-4.0/diana/components/EditMenu$5.class +artemis-4.0/diana/components/EditMenu$6.class +artemis-4.0/diana/components/EditMenu$7.class +artemis-4.0/diana/components/EditMenu$8.class +artemis-4.0/diana/components/EditMenu$9.class +artemis-4.0/diana/components/EditMenu$10.class +artemis-4.0/diana/components/EditMenu$11.class +artemis-4.0/diana/components/EditMenu$12.class +artemis-4.0/diana/components/EditMenu$13.class +artemis-4.0/diana/components/EditMenu$14.class +artemis-4.0/diana/components/EditMenu$15.class +artemis-4.0/diana/components/EditMenu$16.class +artemis-4.0/diana/components/EditMenu$17.class +artemis-4.0/diana/components/EditMenu$18.class +artemis-4.0/diana/components/EditMenu$19.class +artemis-4.0/diana/components/EditMenu$20.class +artemis-4.0/diana/components/EditMenu$21.class +artemis-4.0/diana/components/EditMenu$22.class +artemis-4.0/diana/components/WriteMenu.class +artemis-4.0/diana/components/WriteMenu$1.class +artemis-4.0/diana/components/WriteMenu$2.class +artemis-4.0/diana/components/WriteMenu$3.class +artemis-4.0/diana/components/WriteMenu$4.class +artemis-4.0/diana/components/WriteMenu$5.class +artemis-4.0/diana/components/WriteMenu$6.class +artemis-4.0/diana/components/WriteMenu$7.class +artemis-4.0/diana/components/WriteMenu$8.class +artemis-4.0/diana/components/WriteMenu$9.class +artemis-4.0/diana/components/WriteMenu$10.class +artemis-4.0/diana/components/WriteMenu$11.class +artemis-4.0/diana/components/WriteMenu$12.class +artemis-4.0/diana/components/WriteMenu$13.class +artemis-4.0/diana/components/WriteMenu$14.class +artemis-4.0/diana/components/WriteMenu$15.class +artemis-4.0/diana/components/WriteMenu$16.class +artemis-4.0/diana/components/WriteMenu$17.class +artemis-4.0/diana/components/WriteMenu$18.class +artemis-4.0/diana/components/WriteMenu$19.class +artemis-4.0/diana/components/WriteMenu$20.class +artemis-4.0/diana/components/WriteMenu$21.class +artemis-4.0/diana/components/RunMenu.class +artemis-4.0/diana/components/RunMenu$1.class +artemis-4.0/diana/components/RunMenu$2.class +artemis-4.0/diana/components/EntryActionListener.class +artemis-4.0/diana/components/BasePlot.class +artemis-4.0/diana/components/BasePlot$1.class +artemis-4.0/diana/components/Plot$1.class +artemis-4.0/diana/components/Plot$2.class +artemis-4.0/diana/components/Plot$3.class +artemis-4.0/diana/components/Plot$4.class +artemis-4.0/diana/components/Plot$5.class +artemis-4.0/diana/components/Plot$6.class +artemis-4.0/diana/components/Plot$7.class +artemis-4.0/diana/components/TextDialog.class +artemis-4.0/diana/components/TextDialog$1.class +artemis-4.0/diana/components/TextDialog$2.class +artemis-4.0/diana/components/TextDialog$3.class +artemis-4.0/diana/components/ListDialog.class +artemis-4.0/diana/components/ListDialog$1.class +artemis-4.0/diana/components/ListDialog$2.class +artemis-4.0/diana/components/SelectionViewer.class +artemis-4.0/diana/components/SelectionViewer$1.class +artemis-4.0/diana/components/EntryGroupInfoDisplay.class +artemis-4.0/diana/components/EntryGroupInfoDisplay$1.class +artemis-4.0/diana/components/EntryGroupInfoDisplay$2.class +artemis-4.0/diana/components/EntryGroupInfoDisplay$3.class +artemis-4.0/diana/components/FeatureListFrame.class +artemis-4.0/diana/components/FeatureListFrame$1.class +artemis-4.0/diana/components/FeatureListFrame$2.class +artemis-4.0/diana/components/FeatureListFrame$3.class +artemis-4.0/diana/components/KeyChooser.class +artemis-4.0/diana/components/KeyChooser$1.class +artemis-4.0/diana/components/KeyChooser$2.class +artemis-4.0/diana/components/KeyChooser$3.class +artemis-4.0/diana/components/KeyChooser$4.class +artemis-4.0/diana/components/KeyChoice.class +artemis-4.0/diana/components/KeyChoice$1.class +artemis-4.0/diana/components/FeatureViewer.class +artemis-4.0/diana/components/FeatureViewer$1.class +artemis-4.0/diana/components/FeaturePlotGroup.class +artemis-4.0/diana/components/FeaturePlotGroup$1.class +artemis-4.0/diana/components/FeaturePlotGroup$2.class +artemis-4.0/diana/components/FeaturePlotGroup$3.class +artemis-4.0/diana/components/FeaturePlotGroup$4.class +artemis-4.0/diana/components/FeaturePlotGroup$5.class +artemis-4.0/diana/components/SearchResultViewer.class +artemis-4.0/diana/components/SearchResultViewer$1.class +artemis-4.0/diana/components/FeatureInfo.class +artemis-4.0/diana/components/FeatureInfo$1.class +artemis-4.0/diana/components/FeatureInfo$2.class +artemis-4.0/diana/components/FeatureBaseViewer.class +artemis-4.0/diana/components/FeatureBaseViewer$1.class +artemis-4.0/diana/components/FeatureAminoAcidViewer.class +artemis-4.0/diana/components/FeatureAminoAcidViewer$1.class +artemis-4.0/diana/components/FeatureEdit.class +artemis-4.0/diana/components/FeatureEdit$1.class +artemis-4.0/diana/components/FeatureEdit$2.class +artemis-4.0/diana/components/FeatureEdit$3.class +artemis-4.0/diana/components/FeatureEdit$4.class +artemis-4.0/diana/components/FeatureEdit$5.class +artemis-4.0/diana/components/FeatureEdit$6.class +artemis-4.0/diana/components/FeatureEdit$7.class +artemis-4.0/diana/components/FeatureEdit$8.class +artemis-4.0/diana/components/FeatureEdit$9.class +artemis-4.0/diana/components/FeatureEdit$10.class +artemis-4.0/diana/components/TextRequester.class +artemis-4.0/diana/components/TextRequester$1.class +artemis-4.0/diana/components/TextRequester$2.class +artemis-4.0/diana/components/TextRequester$3.class +artemis-4.0/diana/components/TextRequesterListener.class +artemis-4.0/diana/components/TextRequesterEvent.class +artemis-4.0/diana/components/FeaturePopup.class +artemis-4.0/diana/components/FeaturePopup$1.class +artemis-4.0/diana/components/FeaturePopup$2.class +artemis-4.0/diana/components/Selector.class +artemis-4.0/diana/components/FeaturePopup$3.class +artemis-4.0/diana/components/FeaturePopup$4.class +artemis-4.0/diana/components/FeaturePopup$5.class +artemis-4.0/diana/components/FeaturePopup$6.class +artemis-4.0/diana/components/FeaturePopup$7.class +artemis-4.0/diana/components/FeaturePopup$8.class +artemis-4.0/diana/components/FeaturePopup$9.class +artemis-4.0/diana/components/FeaturePopup$10.class +artemis-4.0/diana/components/FeaturePopup$11.class +artemis-4.0/diana/components/FeaturePopup$12.class +artemis-4.0/diana/components/FeaturePopup$13.class +artemis-4.0/diana/components/FeaturePopup$14.class +artemis-4.0/diana/components/FeaturePopup$15.class +artemis-4.0/diana/components/FeaturePopup$16.class +artemis-4.0/diana/components/FeaturePopup$17.class +artemis-4.0/diana/components/FeaturePopup$18.class +artemis-4.0/diana/components/FeaturePopup$19.class +artemis-4.0/diana/components/FeaturePopup$20.class +artemis-4.0/diana/components/FeaturePopup$21.class +artemis-4.0/diana/components/DisplayAdjustmentEvent.class +artemis-4.0/diana/components/EntryHeaderEdit.class +artemis-4.0/diana/components/EntryHeaderEdit$1.class +artemis-4.0/diana/components/Selector$1.class +artemis-4.0/diana/components/Selector$2.class +artemis-4.0/diana/components/Selector$3.class +artemis-4.0/diana/components/Selector$4.class +artemis-4.0/diana/components/Selector$5.class +artemis-4.0/diana/components/Selector$6.class +artemis-4.0/diana/components/Selector$7.class +artemis-4.0/diana/components/Selector$8.class +artemis-4.0/diana/components/Selector$9.class +artemis-4.0/diana/components/Selector$10.class +artemis-4.0/diana/components/Selector$11.class +artemis-4.0/diana/components/Selector$12.class +artemis-4.0/diana/components/MarkerRangeRequester.class +artemis-4.0/diana/components/MarkerRangeRequesterListener.class +artemis-4.0/diana/components/MarkerRangeRequesterEvent.class +artemis-4.0/diana/components/Navigator.class +artemis-4.0/diana/components/Navigator$1.class +artemis-4.0/diana/components/Navigator$2.class +artemis-4.0/diana/components/Navigator$3.class +artemis-4.0/diana/components/Navigator$4.class +artemis-4.0/diana/components/Navigator$5.class +artemis-4.0/diana/components/Navigator$6.class +artemis-4.0/diana/components/Navigator$7.class +artemis-4.0/diana/components/Navigator$8.class +artemis-4.0/diana/components/Navigator$9.class +artemis-4.0/diana/components/ProcessWatcher.class +artemis-4.0/diana/components/ExternalProgramOptions.class +artemis-4.0/diana/components/ExternalProgramOptions$1.class +artemis-4.0/diana/components/PlotMouseListener.class +artemis-4.0/diana/components/FeaturePlot.class +artemis-4.0/diana/components/SequenceViewer.class +artemis-4.0/diana/components/QualifierChoice.class +artemis-4.0/diana/components/ProcessWatcherListener.class +artemis-4.0/diana/components/ProcessWatcherEvent.class +artemis-4.0/diana/components/ScoreChangeListener.class +artemis-4.0/diana/components/ScoreChangeEvent.class +artemis-4.0/diana/components/ScoreChanger.class +artemis-4.0/diana/components/ScoreChanger$1.class +artemis-4.0/diana/components/ScoreChanger$2.class +artemis-4.0/diana/components/ScoreChanger$3.class +artemis-4.0/diana/components/ScoreChanger$4.class +artemis-4.0/diana/components/ScoreChanger$5.class +artemis-4.0/diana/components/ScoreScrollbar.class +artemis-4.0/diana/sequence/CVS/Root +artemis-4.0/diana/sequence/CVS/Repository +artemis-4.0/diana/sequence/CVS/Entries +artemis-4.0/diana/sequence/AminoAcidSequence.java +artemis-4.0/diana/sequence/BasePattern.java +artemis-4.0/diana/sequence/BasePatternFormatException.java +artemis-4.0/diana/sequence/Bases.java +artemis-4.0/diana/sequence/Marker.java +artemis-4.0/diana/sequence/MarkerChangeEvent.java +artemis-4.0/diana/sequence/MarkerChangeListener.java +artemis-4.0/diana/sequence/MarkerRange.java +artemis-4.0/diana/sequence/MarkerRangeVector.java +artemis-4.0/diana/sequence/NoSequenceException.java +artemis-4.0/diana/sequence/SequenceChangeEvent.java +artemis-4.0/diana/sequence/SequenceChangeListener.java +artemis-4.0/diana/sequence/Strand.java +artemis-4.0/diana/sequence/NoSequenceException.class +artemis-4.0/diana/sequence/SequenceChangeListener.class +artemis-4.0/diana/sequence/Bases.class +artemis-4.0/diana/sequence/MarkerRange.class +artemis-4.0/diana/sequence/Marker.class +artemis-4.0/diana/sequence/MarkerInternal.class +artemis-4.0/diana/sequence/MarkerChangeListener.class +artemis-4.0/diana/sequence/Strand.class +artemis-4.0/diana/sequence/SequenceChangeEvent.class +artemis-4.0/diana/sequence/AminoAcidSequence.class +artemis-4.0/diana/sequence/BasePattern.class +artemis-4.0/diana/sequence/BasePatternFormatException.class +artemis-4.0/diana/sequence/MarkerRangeVector.class +artemis-4.0/diana/sequence/MarkerChangeEvent.class +artemis-4.0/diana/Logger.class +artemis-4.0/diana/Options.class +artemis-4.0/diana/EntryGroupChangeListener.class +artemis-4.0/diana/EntryChangeListener.class +artemis-4.0/diana/ChangeListener.class +artemis-4.0/diana/Entry.class +artemis-4.0/diana/Entry$FeatureEnumerator.class +artemis-4.0/diana/FeatureChangeListener.class +artemis-4.0/diana/Selectable.class +artemis-4.0/diana/FeatureEnumeration.class +artemis-4.0/diana/Selection.class +artemis-4.0/diana/EntryGroup.class +artemis-4.0/diana/SimpleEntryGroup.class +artemis-4.0/diana/SimpleEntryGroup$FeatureEnumerator.class +artemis-4.0/diana/EntryVector.class +artemis-4.0/diana/EntrySourceVector.class +artemis-4.0/diana/EntrySource.class +artemis-4.0/diana/ExternalProgramVector.class +artemis-4.0/diana/ExternalSearchProgram.class +artemis-4.0/diana/ExternalProgram.class +artemis-4.0/diana/ExternalProgramException.class +artemis-4.0/diana/ExternalApplication.class +artemis-4.0/diana/GotoEventSource.class +artemis-4.0/diana/SelectionChangeListener.class +artemis-4.0/diana/GotoListener.class +artemis-4.0/diana/SimpleGotoEventSource.class +artemis-4.0/diana/GotoEvent.class +artemis-4.0/diana/EntryGroupChangeEvent.class +artemis-4.0/diana/ChangeEvent.class +artemis-4.0/diana/EntryChangeEvent.class +artemis-4.0/diana/FeatureVector.class +artemis-4.0/diana/FeaturePredicate.class +artemis-4.0/diana/Feature.class +artemis-4.0/diana/LastSegmentException.class +artemis-4.0/diana/FilteredEntryGroup.class +artemis-4.0/diana/FilteredEntryGroup$1.class +artemis-4.0/diana/FilteredEntryGroup$2.class +artemis-4.0/diana/FilteredEntryGroup$3.class +artemis-4.0/diana/FilteredEntryGroup$FeatureEnumerator.class +artemis-4.0/diana/FeatureSegment.class +artemis-4.0/diana/FeatureKeyQualifierPredicate.class +artemis-4.0/diana/FeatureChangeEvent.class +artemis-4.0/diana/FeatureKeyPredicate.class +artemis-4.0/diana/FeatureFromVectorPredicate.class +artemis-4.0/diana/FeatureSegmentVector.class +artemis-4.0/diana/SelectionChangeEvent.class +artemis-4.0/docs/CVS/Root +artemis-4.0/docs/CVS/Repository +artemis-4.0/docs/CVS/Entries +artemis-4.0/docs/.cvsignore +artemis-4.0/docs/Makefile +artemis-4.0/docs/acknowledgements.sgml +artemis-4.0/docs/act_display_menus.sgml +artemis-4.0/docs/act_file_menu.sgml +artemis-4.0/docs/act_intro_chapter.sgml +artemis-4.0/docs/act_main_window.sgml +artemis-4.0/docs/act_main_window_1.gif +artemis-4.0/docs/act_main_window_2.gif +artemis-4.0/docs/act_main_window_3.gif +artemis-4.0/docs/act_main_window_4.gif +artemis-4.0/docs/act_main_window_5.gif +artemis-4.0/docs/act_manual.sgml +artemis-4.0/docs/act_start_chapter.sgml +artemis-4.0/docs/act_user_manual_screen_shot.gif +artemis-4.0/docs/artemis.dsl +artemis-4.0/docs/concepts.sgml +artemis-4.0/docs/copyright.sgml +artemis-4.0/docs/display_common.sgml +artemis-4.0/docs/display_menu.sgml +artemis-4.0/docs/feature_list.sgml +artemis-4.0/docs/file_menu.sgml +artemis-4.0/docs/getting_java.sgml +artemis-4.0/docs/intro_chapter.sgml +artemis-4.0/docs/main_window_1.gif +artemis-4.0/docs/main_window_2.gif +artemis-4.0/docs/main_window_3.gif +artemis-4.0/docs/main_window_4.gif +artemis-4.0/docs/main_window_5.gif +artemis-4.0/docs/main_window_6.gif +artemis-4.0/docs/main_window_chapter.sgml +artemis-4.0/docs/manual.sgml +artemis-4.0/docs/menus.sgml +artemis-4.0/docs/mousebuttons.sgml +artemis-4.0/docs/options.sgml +artemis-4.0/docs/requirements.sgml +artemis-4.0/docs/run_menu.sgml +artemis-4.0/docs/start_chapter.sgml +artemis-4.0/docs/unix_args.sgml +artemis-4.0/docs/user_manual_screen_shot.gif +artemis-4.0/docs/views_popup.sgml +artemis-4.0/docs/views_scale.sgml +artemis-4.0/docs/views_scrolling.sgml +artemis-4.0/docs/views_selection.sgml +artemis-4.0/embl/CVS/Root +artemis-4.0/embl/CVS/Repository +artemis-4.0/embl/CVS/Entries +artemis-4.0/embl/.cvsignore +artemis-4.0/etc/CVS/Root +artemis-4.0/etc/CVS/Repository +artemis-4.0/etc/CVS/Entries +artemis-4.0/etc/c1215.embl +artemis-4.0/etc/changes.shtml +artemis-4.0/etc/feature_keys +artemis-4.0/etc/options +artemis-4.0/etc/pombe.usage +artemis-4.0/etc/qualifier_types +artemis-4.0/lib/CVS/Root +artemis-4.0/lib/CVS/Repository +artemis-4.0/lib/CVS/Entries +artemis-4.0/lib/JacORB.jar +artemis-4.0/uk/CVS/Root +artemis-4.0/uk/CVS/Repository +artemis-4.0/uk/CVS/Entries +artemis-4.0/uk/ac/CVS/Root +artemis-4.0/uk/ac/CVS/Repository +artemis-4.0/uk/ac/CVS/Entries +artemis-4.0/uk/ac/sanger/CVS/Root +artemis-4.0/uk/ac/sanger/CVS/Repository +artemis-4.0/uk/ac/sanger/CVS/Entries +artemis-4.0/uk/ac/sanger/pathogens/CVS/Root +artemis-4.0/uk/ac/sanger/pathogens/CVS/Repository +artemis-4.0/uk/ac/sanger/pathogens/CVS/Entries +artemis-4.0/uk/ac/sanger/pathogens/Document.java +artemis-4.0/uk/ac/sanger/pathogens/FastVector.java +artemis-4.0/uk/ac/sanger/pathogens/FileDocument.java +artemis-4.0/uk/ac/sanger/pathogens/FileProgressDocument.java +artemis-4.0/uk/ac/sanger/pathogens/InputStreamProgressEvent.java +artemis-4.0/uk/ac/sanger/pathogens/InputStreamProgressListener.java +artemis-4.0/uk/ac/sanger/pathogens/OutOfRangeException.java +artemis-4.0/uk/ac/sanger/pathogens/ProgressInputStream.java +artemis-4.0/uk/ac/sanger/pathogens/ReadOnlyException.java +artemis-4.0/uk/ac/sanger/pathogens/StringVector.java +artemis-4.0/uk/ac/sanger/pathogens/URLDocument.java +artemis-4.0/uk/ac/sanger/pathogens/embl/CVS/Root +artemis-4.0/uk/ac/sanger/pathogens/embl/CVS/Repository +artemis-4.0/uk/ac/sanger/pathogens/embl/CVS/Entries +artemis-4.0/uk/ac/sanger/pathogens/embl/BetweenRange.java +artemis-4.0/uk/ac/sanger/pathogens/embl/ComparableFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/CorbaEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/CorbaFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/CorbaSequence.java +artemis-4.0/uk/ac/sanger/pathogens/embl/DateStampFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/DocumentEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/DocumentEntryAutosaveThread.java +artemis-4.0/uk/ac/sanger/pathogens/embl/DocumentEntryFactory.java +artemis-4.0/uk/ac/sanger/pathogens/embl/DocumentFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EMBLObject.java +artemis-4.0/uk/ac/sanger/pathogens/embl/Entry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EmblDocumentEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EmblMisc.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EmblStreamFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EmblStreamSequence.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EnsemblCorbaEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EnsemblCorbaFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EnsemblCorbaSequence.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EntryInformation.java +artemis-4.0/uk/ac/sanger/pathogens/embl/EntryInformationException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/FastaStreamSequence.java +artemis-4.0/uk/ac/sanger/pathogens/embl/Feature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureComparator.java +artemis-4.0/uk/ac/sanger/pathogens/embl/Key.java +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureEnumeration.java +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureHeader.java +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureTable.java +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureTree.java +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureVector.java +artemis-4.0/uk/ac/sanger/pathogens/embl/FuzzyRange.java +artemis-4.0/uk/ac/sanger/pathogens/embl/GFFDocumentEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/GFFMisc.java +artemis-4.0/uk/ac/sanger/pathogens/embl/GFFEntryInformation.java +artemis-4.0/uk/ac/sanger/pathogens/embl/GFFStreamFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/GenbankDocumentEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/GenbankMisc.java +artemis-4.0/uk/ac/sanger/pathogens/embl/GenbankStreamFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/GenbankStreamSequence.java +artemis-4.0/uk/ac/sanger/pathogens/embl/InvalidKeyException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/InvalidQualifierException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/InvalidRelationException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/KeyVector.java +artemis-4.0/uk/ac/sanger/pathogens/embl/LineGroup.java +artemis-4.0/uk/ac/sanger/pathogens/embl/LineGroupVector.java +artemis-4.0/uk/ac/sanger/pathogens/embl/LinePushBackReader.java +artemis-4.0/uk/ac/sanger/pathogens/embl/Location.java +artemis-4.0/uk/ac/sanger/pathogens/embl/LocationLexer.java +artemis-4.0/uk/ac/sanger/pathogens/embl/Qualifier.java +artemis-4.0/uk/ac/sanger/pathogens/embl/LocationParseException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/LocationParseNode.java +artemis-4.0/uk/ac/sanger/pathogens/embl/LocationParseNodeVector.java +artemis-4.0/uk/ac/sanger/pathogens/embl/LowerInteger.java +artemis-4.0/uk/ac/sanger/pathogens/embl/MSPcrunchDocumentEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/MSPcrunchEntryInformation.java +artemis-4.0/uk/ac/sanger/pathogens/embl/MSPcrunchStreamFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/MiscLineGroup.java +artemis-4.0/uk/ac/sanger/pathogens/embl/OutOfDateException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/PublicDBDocumentEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/PublicDBStreamFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/PushBackException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierInfo.java +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierInfoException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierInfoVector.java +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierParseException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierVector.java +artemis-4.0/uk/ac/sanger/pathogens/embl/RWCorbaEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/RWCorbaFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/Range.java +artemis-4.0/uk/ac/sanger/pathogens/embl/RangeVector.java +artemis-4.0/uk/ac/sanger/pathogens/embl/RawStreamSequence.java +artemis-4.0/uk/ac/sanger/pathogens/embl/ReadFormatException.java +artemis-4.0/uk/ac/sanger/pathogens/embl/ReadOnlyEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/Sequence.java +artemis-4.0/uk/ac/sanger/pathogens/embl/SimpleDocumentEntry.java +artemis-4.0/uk/ac/sanger/pathogens/embl/SimpleDocumentFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/SimpleEntryInformation.java +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamFeature.java +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamFeatureTable.java +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamQualifier.java +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamSequence.java +artemis-4.0/uk/ac/sanger/pathogens/embl/UpperInteger.java +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamSequenceFactory.java +artemis-4.0/uk/ac/sanger/pathogens/embl/embl.example +artemis-4.0/uk/ac/sanger/pathogens/embl/Key.class +artemis-4.0/uk/ac/sanger/pathogens/embl/KeyVector.class +artemis-4.0/uk/ac/sanger/pathogens/embl/EntryInformation.class +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierInfoException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/SimpleEntryInformation.class +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierInfo.class +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierInfoVector.class +artemis-4.0/uk/ac/sanger/pathogens/embl/DocumentEntryFactory.class +artemis-4.0/uk/ac/sanger/pathogens/embl/EntryInformationException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/InvalidKeyException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/Entry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/ReadFormatException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/InvalidRelationException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/Qualifier.class +artemis-4.0/uk/ac/sanger/pathogens/embl/InvalidQualifierException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/EmblStreamFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/PublicDBStreamFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/SimpleDocumentFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/DocumentFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/ComparableFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/LineGroup.class +artemis-4.0/uk/ac/sanger/pathogens/embl/Feature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/EMBLObject.class +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierParseException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/DocumentEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/EmblDocumentEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/PublicDBDocumentEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/SimpleDocumentEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/Range.class +artemis-4.0/uk/ac/sanger/pathogens/embl/SimpleDocumentEntry$1.class +artemis-4.0/uk/ac/sanger/pathogens/embl/RangeVector.class +artemis-4.0/uk/ac/sanger/pathogens/embl/Location.class +artemis-4.0/uk/ac/sanger/pathogens/embl/LocationLexer.class +artemis-4.0/uk/ac/sanger/pathogens/embl/LocationLexer$TokenEnumeration.class +artemis-4.0/uk/ac/sanger/pathogens/embl/LocationParseException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/QualifierVector.class +artemis-4.0/uk/ac/sanger/pathogens/embl/Sequence.class +artemis-4.0/uk/ac/sanger/pathogens/embl/EmblStreamSequence.class +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamSequence.class +artemis-4.0/uk/ac/sanger/pathogens/embl/FastaStreamSequence.class +artemis-4.0/uk/ac/sanger/pathogens/embl/RawStreamSequence.class +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamQualifier.class +artemis-4.0/uk/ac/sanger/pathogens/embl/OutOfDateException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/LinePushBackReader.class +artemis-4.0/uk/ac/sanger/pathogens/embl/PushBackException.class +artemis-4.0/uk/ac/sanger/pathogens/embl/DateStampFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/GenbankStreamFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/GFFStreamFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/FuzzyRange.class +artemis-4.0/uk/ac/sanger/pathogens/embl/GenbankStreamSequence.class +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamSequenceFactory.class +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureHeader.class +artemis-4.0/uk/ac/sanger/pathogens/embl/EmblMisc.class +artemis-4.0/uk/ac/sanger/pathogens/embl/MiscLineGroup.class +artemis-4.0/uk/ac/sanger/pathogens/embl/MSPcrunchStreamFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/GenbankMisc.class +artemis-4.0/uk/ac/sanger/pathogens/embl/GFFMisc.class +artemis-4.0/uk/ac/sanger/pathogens/embl/GFFDocumentEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/MSPcrunchDocumentEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/GenbankDocumentEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureVector.class +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureEnumeration.class +artemis-4.0/uk/ac/sanger/pathogens/embl/LocationParseNode.class +artemis-4.0/uk/ac/sanger/pathogens/embl/LineGroupVector.class +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureTable.class +artemis-4.0/uk/ac/sanger/pathogens/embl/StreamFeatureTable.class +artemis-4.0/uk/ac/sanger/pathogens/embl/DocumentEntryAutosaveThread.class +artemis-4.0/uk/ac/sanger/pathogens/embl/LowerInteger.class +artemis-4.0/uk/ac/sanger/pathogens/embl/UpperInteger.class +artemis-4.0/uk/ac/sanger/pathogens/embl/LocationParseNodeVector.class +artemis-4.0/uk/ac/sanger/pathogens/embl/BetweenRange.class +artemis-4.0/uk/ac/sanger/pathogens/embl/CorbaEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/ReadOnlyEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/RWCorbaEntry.class +artemis-4.0/uk/ac/sanger/pathogens/embl/RWCorbaEntry$1.class +artemis-4.0/uk/ac/sanger/pathogens/embl/NucFeatureHasher.class +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureTree.class +artemis-4.0/uk/ac/sanger/pathogens/embl/GFFEntryInformation.class +artemis-4.0/uk/ac/sanger/pathogens/embl/MSPcrunchEntryInformation.class +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureTree$FeatureEnumerator.class +artemis-4.0/uk/ac/sanger/pathogens/embl/FeatureComparator.class +artemis-4.0/uk/ac/sanger/pathogens/embl/CorbaSequence.class +artemis-4.0/uk/ac/sanger/pathogens/embl/CorbaFeature.class +artemis-4.0/uk/ac/sanger/pathogens/embl/RWCorbaFeature.class +artemis-4.0/uk/ac/sanger/pathogens/OutOfRangeException.class +artemis-4.0/uk/ac/sanger/pathogens/ReadOnlyException.class +artemis-4.0/uk/ac/sanger/pathogens/StringVector.class +artemis-4.0/uk/ac/sanger/pathogens/InputStreamProgressListener.class +artemis-4.0/uk/ac/sanger/pathogens/StringVector$1.class +artemis-4.0/uk/ac/sanger/pathogens/InputStreamProgressEvent.class +artemis-4.0/uk/ac/sanger/pathogens/Document.class +artemis-4.0/uk/ac/sanger/pathogens/FileDocument.class +artemis-4.0/uk/ac/sanger/pathogens/FastVector.class +artemis-4.0/uk/ac/sanger/pathogens/FileProgressDocument.class +artemis-4.0/uk/ac/sanger/pathogens/ProgressInputStream.class +artemis-4.0/type/stringListHolder.java +artemis-4.0/type/stringListHelper.java +artemis-4.0/type/longListHolder.java +artemis-4.0/type/longListHelper.java +artemis-4.0/type/ulongListHolder.java +artemis-4.0/type/ulongListHelper.java +artemis-4.0/type/NoResult.java +artemis-4.0/type/NoResultHolder.java +artemis-4.0/type/NoResultHelper.java +artemis-4.0/type/NoWritePermission.java +artemis-4.0/type/NoWritePermissionHolder.java +artemis-4.0/type/NoWritePermissionHelper.java +artemis-4.0/type/InvalidRelation.java +artemis-4.0/type/InvalidRelationHolder.java +artemis-4.0/type/InvalidRelationHelper.java +artemis-4.0/type/IndexOutOfRange.java +artemis-4.0/type/IndexOutOfRangeHolder.java +artemis-4.0/type/IndexOutOfRangeHelper.java +artemis-4.0/type/InvalidArgumentValue.java +artemis-4.0/type/InvalidArgumentValueHolder.java +artemis-4.0/type/InvalidArgumentValueHelper.java +artemis-4.0/type/ParseError.java +artemis-4.0/type/ParseErrorHolder.java +artemis-4.0/type/ParseErrorHelper.java +artemis-4.0/type/Date.java +artemis-4.0/type/DateHolder.java +artemis-4.0/type/DateHelper.java +artemis-4.0/type/DateListHolder.java +artemis-4.0/type/DateListHelper.java +artemis-4.0/type/Person.java +artemis-4.0/type/PersonHolder.java +artemis-4.0/type/PersonHelper.java +artemis-4.0/type/PersonListHolder.java +artemis-4.0/type/PersonListHelper.java +artemis-4.0/type/Revision.java +artemis-4.0/type/RevisionHolder.java +artemis-4.0/type/RevisionHelper.java +artemis-4.0/type/RevisionListHolder.java +artemis-4.0/type/RevisionListHelper.java +artemis-4.0/type/DbXref.java +artemis-4.0/type/DbXrefHolder.java +artemis-4.0/type/DbXrefHelper.java +artemis-4.0/type/DbXrefListHolder.java +artemis-4.0/type/DbXrefListHelper.java +artemis-4.0/type/AminoAcid.java +artemis-4.0/type/AminoAcidHolder.java +artemis-4.0/type/AminoAcidHelper.java +artemis-4.0/type/AminoAcidListHolder.java +artemis-4.0/type/AminoAcidListHelper.java +artemis-4.0/type/CodonTranslation.java +artemis-4.0/type/CodonTranslationHolder.java +artemis-4.0/type/CodonTranslationHelper.java +artemis-4.0/type/CodonTranslationListHolder.java +artemis-4.0/type/CodonTranslationListHelper.java +artemis-4.0/type/AntiCodon.java +artemis-4.0/type/AntiCodonHolder.java +artemis-4.0/type/AntiCodonHelper.java +artemis-4.0/type/AntiCodonListHolder.java +artemis-4.0/type/AntiCodonListHelper.java +artemis-4.0/type/TranslationException.java +artemis-4.0/type/TranslationExceptionHolder.java +artemis-4.0/type/TranslationExceptionHelper.java +artemis-4.0/type/RepeatUnit.java +artemis-4.0/type/Exact_ftc.java +artemis-4.0/type/TranslationExceptionListHolder.java +artemis-4.0/type/TranslationExceptionListHelper.java +artemis-4.0/type/SpliceConsensus.java +artemis-4.0/type/SpliceConsensusHolder.java +artemis-4.0/type/SpliceConsensusHelper.java +artemis-4.0/type/SpliceConsensusListHolder.java +artemis-4.0/type/SpliceConsensusListHelper.java +artemis-4.0/type/RepeatUnitHolder.java +artemis-4.0/type/RepeatUnitHelper.java +artemis-4.0/type/RepeatUnitListHolder.java +artemis-4.0/type/RepeatUnitListHelper.java +artemis-4.0/type/FuzzyTypeCodeHelper.java +artemis-4.0/type/In_ftc.java +artemis-4.0/type/Between_ftc.java +artemis-4.0/type/Less_ftc.java +artemis-4.0/type/Greater_ftc.java +artemis-4.0/type/Fuzzy.java +artemis-4.0/type/FuzzyHolder.java +artemis-4.0/type/FuzzyHelper.java +artemis-4.0/type/FuzzyListHolder.java +artemis-4.0/type/FuzzyListHelper.java +artemis-4.0/type/NoResult.class +artemis-4.0/type/InvalidRelation.class +artemis-4.0/type/InvalidArgumentValue.class +artemis-4.0/type/IndexOutOfRange.class +artemis-4.0/type/DbXref.class +artemis-4.0/type/Revision.class +artemis-4.0/type/InvalidRelationHelper.class +artemis-4.0/type/InvalidArgumentValueHelper.class +artemis-4.0/type/IndexOutOfRangeHelper.class +artemis-4.0/type/Date.class +artemis-4.0/type/stringListHelper.class +artemis-4.0/type/NoResultHelper.class +artemis-4.0/type/TranslationException.class +artemis-4.0/type/CodonTranslation.class +artemis-4.0/type/AntiCodon.class +artemis-4.0/type/SpliceConsensus.class +artemis-4.0/type/RepeatUnit.class +artemis-4.0/type/Fuzzy.class +artemis-4.0/type/AminoAcid.class +artemis-4.0/type/DbXrefListHelper.class +artemis-4.0/type/RevisionListHelper.class +artemis-4.0/type/DbXrefHelper.class +artemis-4.0/type/RevisionHelper.class +artemis-4.0/type/DateHelper.class +artemis-4.0/type/RepeatUnitHelper.class +artemis-4.0/type/SpliceConsensusHelper.class +artemis-4.0/type/AntiCodonHelper.class +artemis-4.0/type/CodonTranslationHelper.class +artemis-4.0/type/AminoAcidHelper.class +artemis-4.0/type/TranslationExceptionHelper.class +artemis-4.0/type/FuzzyHelper.class +artemis-4.0/nsdb/NucSeqListHolder.java +artemis-4.0/nsdb/NucSeqListHelper.java +artemis-4.0/nsdb/NucFeatureListHolder.java +artemis-4.0/nsdb/NucFeatureListHelper.java +artemis-4.0/nsdb/LocationListHolder.java +artemis-4.0/nsdb/LocationListHelper.java +artemis-4.0/nsdb/FeatureLocationListHolder.java +artemis-4.0/nsdb/FeatureLocationListHelper.java +artemis-4.0/nsdb/EntryInfoListHolder.java +artemis-4.0/nsdb/EntryInfoListHelper.java +artemis-4.0/nsdb/InexactLocation.java +artemis-4.0/nsdb/InexactLocationHolder.java +artemis-4.0/nsdb/InexactLocationHelper.java +artemis-4.0/nsdb/EntryInfo.java +artemis-4.0/nsdb/EntryInfoOperations.java +artemis-4.0/nsdb/EntryInfoHelper.java +artemis-4.0/nsdb/EntryInfoHolder.java +artemis-4.0/nsdb/_EntryInfoStub.java +artemis-4.0/nsdb/EntryInfoPOA.java +artemis-4.0/nsdb/EntryInfoPOATie.java +artemis-4.0/nsdb/Location.java +artemis-4.0/nsdb/LocationOperations.java +artemis-4.0/nsdb/LocationHelper.java +artemis-4.0/nsdb/LocationHolder.java +artemis-4.0/nsdb/_LocationStub.java +artemis-4.0/nsdb/LocationPOA.java +artemis-4.0/nsdb/LocationPOATie.java +artemis-4.0/nsdb/LocationPackage/IdListHolder.java +artemis-4.0/nsdb/LocationPackage/IdListHelper.java +artemis-4.0/nsdb/LocationPackage/LocNodeTypeCodeHelper.java +artemis-4.0/nsdb/LocationPackage/LocVirtualSegment.java +artemis-4.0/nsdb/LocationPackage/LocVirtualSegmentHolder.java +artemis-4.0/nsdb/LocationPackage/LocVirtualSegmentHelper.java +artemis-4.0/nsdb/LocationPackage/LocGapHolder.java +artemis-4.0/nsdb/LocationPackage/LocGapHelper.java +artemis-4.0/nsdb/LocationPackage/LocPhysicalSegmentHolder.java +artemis-4.0/nsdb/LocationPackage/LocPhysicalSegmentHelper.java +artemis-4.0/nsdb/LocationPackage/LocOperator.java +artemis-4.0/nsdb/LocationPackage/LocOperatorHolder.java +artemis-4.0/nsdb/LocationPackage/LocOperatorHelper.java +artemis-4.0/nsdb/LocationPackage/LocationNode_u.java +artemis-4.0/nsdb/LocationPackage/LocOperator.class +artemis-4.0/nsdb/LocationPackage/LocationNode_uHolder.java +artemis-4.0/nsdb/LocationPackage/LocationNode_uHelper.java +artemis-4.0/nsdb/LocationPackage/LocationNodeListHolder.java +artemis-4.0/nsdb/LocationPackage/LocationNodeListHelper.java +artemis-4.0/nsdb/LocationPackage/LocationNode_u.class +artemis-4.0/nsdb/LocationPackage/LocVirtualSegment.class +artemis-4.0/nsdb/LocationPackage/LocationNodeListHelper.class +artemis-4.0/nsdb/LocationPackage/LocationNode_uHelper.class +artemis-4.0/nsdb/LocationPackage/LocOperatorHelper.class +artemis-4.0/nsdb/LocationPackage/LocGapHelper.class +artemis-4.0/nsdb/LocationPackage/LocPhysicalSegmentHelper.class +artemis-4.0/nsdb/LocationPackage/LocVirtualSegmentHelper.class +artemis-4.0/nsdb/LocationPackage/IdListHelper.class +artemis-4.0/nsdb/FeatureLocation.java +artemis-4.0/nsdb/FeatureLocationOperations.java +artemis-4.0/nsdb/FeatureLocationPOA.java +artemis-4.0/nsdb/FeatureLocationHelper.java +artemis-4.0/nsdb/FeatureLocationHolder.java +artemis-4.0/nsdb/_FeatureLocationStub.java +artemis-4.0/nsdb/FeatureLocationPOATie.java +artemis-4.0/nsdb/NucFeature.java +artemis-4.0/nsdb/NucFeaturePOA.java +artemis-4.0/nsdb/NucFeatureOperations.java +artemis-4.0/nsdb/NucFeatureHelper.java +artemis-4.0/nsdb/NucFeatureHolder.java +artemis-4.0/nsdb/_NucFeatureStub.java +artemis-4.0/nsdb/NucFeaturePOATie.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierTypeCodeHelper.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierValue_u.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierValue_uHolder.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierValue_uHelper.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierValueListHolder.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierValueListHelper.java +artemis-4.0/nsdb/NucFeaturePackage/Qualifier.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierHolder.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierHelper.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierListHolder.java +artemis-4.0/nsdb/NucFeaturePackage/QualifierListHelper.java +artemis-4.0/nsdb/NucFeaturePackage/Qualifier.class +artemis-4.0/nsdb/NucFeaturePackage/QualifierValue_u.class +artemis-4.0/nsdb/NucFeaturePackage/QualifierListHelper.class +artemis-4.0/nsdb/NucFeaturePackage/QualifierHelper.class +artemis-4.0/nsdb/NucFeaturePackage/QualifierValue_uHelper.class +artemis-4.0/nsdb/NucFeaturePackage/QualifierValueListHelper.class +artemis-4.0/nsdb/NucSeq.java +artemis-4.0/nsdb/NucSeqOperations.java +artemis-4.0/nsdb/NucSeqHelper.java +artemis-4.0/nsdb/NucSeqHolder.java +artemis-4.0/nsdb/_NucSeqStub.java +artemis-4.0/nsdb/NucSeqPOA.java +artemis-4.0/nsdb/NucSeqPOATie.java +artemis-4.0/nsdb/Embl.java +artemis-4.0/nsdb/EmblSeq.java +artemis-4.0/nsdb/EmblSeqOperations.java +artemis-4.0/nsdb/EmblSeqHelper.java +artemis-4.0/nsdb/EmblSeqHolder.java +artemis-4.0/nsdb/_EmblSeqStub.java +artemis-4.0/nsdb/EmblSeqPOA.java +artemis-4.0/nsdb/EmblSeqPOATie.java +artemis-4.0/nsdb/EmblOperations.java +artemis-4.0/nsdb/EmblHelper.java +artemis-4.0/nsdb/EmblHolder.java +artemis-4.0/nsdb/_EmblStub.java +artemis-4.0/nsdb/EmblPOA.java +artemis-4.0/nsdb/EmblPOATie.java +artemis-4.0/nsdb/EmblPackage/Superceded.java +artemis-4.0/nsdb/EmblPackage/SupercededHolder.java +artemis-4.0/nsdb/EmblPackage/SupercededHelper.java +artemis-4.0/nsdb/EmblPackage/Superceded.class +artemis-4.0/nsdb/EmblPackage/SupercededHelper.class +artemis-4.0/nsdb/OutOfDate.java +artemis-4.0/nsdb/LocationParse.java +artemis-4.0/nsdb/OutOfDateHolder.java +artemis-4.0/nsdb/OutOfDateHelper.java +artemis-4.0/nsdb/ReadOnlyException.java +artemis-4.0/nsdb/ReadOnlyExceptionHolder.java +artemis-4.0/nsdb/ReadOnlyExceptionHelper.java +artemis-4.0/nsdb/LocationParseHolder.java +artemis-4.0/nsdb/LocationParseHelper.java +artemis-4.0/nsdb/QualifierParse.java +artemis-4.0/nsdb/QualifierParseHolder.java +artemis-4.0/nsdb/QualifierParseHelper.java +artemis-4.0/nsdb/InvalidQualifier.java +artemis-4.0/nsdb/InvalidQualifierHolder.java +artemis-4.0/nsdb/InvalidQualifierHelper.java +artemis-4.0/nsdb/NucFeatureWriterListHolder.java +artemis-4.0/nsdb/NucFeatureWriterListHelper.java +artemis-4.0/nsdb/datestamp_tHelper.java +artemis-4.0/nsdb/Datestamp.java +artemis-4.0/nsdb/DatestampHolder.java +artemis-4.0/nsdb/DatestampHelper.java +artemis-4.0/nsdb/EntryStats.java +artemis-4.0/nsdb/EntryStatsHolder.java +artemis-4.0/nsdb/EntryStatsHelper.java +artemis-4.0/nsdb/ServerInfo.java +artemis-4.0/nsdb/EmblWriter.java +artemis-4.0/nsdb/ServerInfoHolder.java +artemis-4.0/nsdb/ServerInfoHelper.java +artemis-4.0/nsdb/EmblWriterOperations.java +artemis-4.0/nsdb/EmblWriterHelper.java +artemis-4.0/nsdb/EmblWriterHolder.java +artemis-4.0/nsdb/_EmblWriterStub.java +artemis-4.0/nsdb/EmblWriterPOA.java +artemis-4.0/nsdb/EmblWriterPOATie.java +artemis-4.0/nsdb/InvalidKey.java +artemis-4.0/nsdb/InvalidKeyHolder.java +artemis-4.0/nsdb/InvalidKeyHelper.java +artemis-4.0/nsdb/CommitFailed.java +artemis-4.0/nsdb/CommitFailedHolder.java +artemis-4.0/nsdb/CommitFailedHelper.java +artemis-4.0/nsdb/EmblSeqWriter.java +artemis-4.0/nsdb/EmblSeqWriterOperations.java +artemis-4.0/nsdb/EmblSeqWriterHelper.java +artemis-4.0/nsdb/EmblSeqWriterHolder.java +artemis-4.0/nsdb/_EmblSeqWriterStub.java +artemis-4.0/nsdb/EmblSeqWriterPOA.java +artemis-4.0/nsdb/EmblSeqWriterPOATie.java +artemis-4.0/nsdb/NucFeatureWriter.java +artemis-4.0/nsdb/NucFeatureWriterOperations.java +artemis-4.0/nsdb/Embl.class +artemis-4.0/nsdb/NucFeatureWriterHelper.java +artemis-4.0/nsdb/NucFeatureWriterHolder.java +artemis-4.0/nsdb/_NucFeatureWriterStub.java +artemis-4.0/nsdb/NucFeatureWriterPOA.java +artemis-4.0/nsdb/NucFeatureWriterPOATie.java +artemis-4.0/nsdb/EmblSeq.class +artemis-4.0/nsdb/EmblSeqOperations.class +artemis-4.0/nsdb/NucSeq.class +artemis-4.0/nsdb/EntryInfo.class +artemis-4.0/nsdb/NucSeqOperations.class +artemis-4.0/nsdb/EntryInfoOperations.class +artemis-4.0/nsdb/InexactLocation.class +artemis-4.0/nsdb/ServerInfo.class +artemis-4.0/nsdb/EntryStats.class +artemis-4.0/nsdb/EmblOperations.class +artemis-4.0/nsdb/EmblWriter.class +artemis-4.0/nsdb/EmblWriterOperations.class +artemis-4.0/nsdb/EmblWriterHelper.class +artemis-4.0/nsdb/NucFeature.class +artemis-4.0/nsdb/NucFeatureOperations.class +artemis-4.0/nsdb/EmblSeqWriter.class +artemis-4.0/nsdb/EmblSeqWriterOperations.class +artemis-4.0/nsdb/LocationParse.class +artemis-4.0/nsdb/InvalidKey.class +artemis-4.0/nsdb/ReadOnlyException.class +artemis-4.0/nsdb/CommitFailed.class +artemis-4.0/nsdb/NucFeatureWriter.class +artemis-4.0/nsdb/NucFeatureWriterOperations.class +artemis-4.0/nsdb/QualifierParse.class +artemis-4.0/nsdb/InvalidQualifier.class +artemis-4.0/nsdb/OutOfDate.class +artemis-4.0/nsdb/EmblHelper.class +artemis-4.0/nsdb/Location.class +artemis-4.0/nsdb/LocationOperations.class +artemis-4.0/nsdb/InexactLocationHelper.class +artemis-4.0/nsdb/_EmblWriterStub.class +artemis-4.0/nsdb/FeatureLocation.class +artemis-4.0/nsdb/FeatureLocationOperations.class +artemis-4.0/nsdb/Datestamp.class +artemis-4.0/nsdb/_EmblStub.class +artemis-4.0/nsdb/LocationParseHelper.class +artemis-4.0/nsdb/CommitFailedHelper.class +artemis-4.0/nsdb/EmblSeqWriterHelper.class +artemis-4.0/nsdb/NucFeatureWriterHelper.class +artemis-4.0/nsdb/QualifierParseHelper.class +artemis-4.0/nsdb/ServerInfoHelper.class +artemis-4.0/nsdb/EmblSeqHelper.class +artemis-4.0/nsdb/_EmblSeqWriterStub.class +artemis-4.0/nsdb/_NucFeatureWriterStub.class +artemis-4.0/nsdb/EntryStatsHelper.class +artemis-4.0/nsdb/_EmblSeqStub.class +artemis-4.0/nsdb/NucFeatureListHelper.class +artemis-4.0/nsdb/DatestampHelper.class +artemis-4.0/nsdb/NucFeatureHelper.class +artemis-4.0/nsdb/ReadOnlyExceptionHelper.class +artemis-4.0/nsdb/LocationHelper.class +artemis-4.0/nsdb/InvalidKeyHelper.class +artemis-4.0/nsdb/InvalidQualifierHelper.class +artemis-4.0/nsdb/OutOfDateHelper.class +artemis-4.0/nsdb/FeatureLocationHelper.class +artemis-4.0/nsdb/_NucFeatureStub.class +artemis-4.0/nsdb/_LocationStub.class +artemis-4.0/nsdb/_FeatureLocationStub.class +artemis-4.0/seqdb/BioSeq.java +artemis-4.0/seqdb/BioSeqOperations.java +artemis-4.0/seqdb/BioSeqHelper.java +artemis-4.0/seqdb/BioSeqHolder.java +artemis-4.0/seqdb/_BioSeqStub.java +artemis-4.0/seqdb/BioSeqPOA.java +artemis-4.0/seqdb/BioSeqPOATie.java +artemis-4.0/seqdb/Feature.java +artemis-4.0/seqdb/FeatureOperations.java +artemis-4.0/seqdb/FeatureHelper.java +artemis-4.0/seqdb/FeatureHolder.java +artemis-4.0/seqdb/_FeatureStub.java +artemis-4.0/seqdb/FeaturePOA.java +artemis-4.0/seqdb/FeaturePOATie.java +artemis-4.0/seqdb/SeqInfo.java +artemis-4.0/seqdb/SeqInfoOperations.java +artemis-4.0/seqdb/SeqInfoHelper.java +artemis-4.0/seqdb/SeqInfoPOA.java +artemis-4.0/seqdb/SeqInfoHolder.java +artemis-4.0/seqdb/_SeqInfoStub.java +artemis-4.0/seqdb/SeqInfoPOATie.java +artemis-4.0/seqdb/SeqInfo.class +artemis-4.0/seqdb/SeqInfoOperations.class +artemis-4.0/seqdb/BioSeqOperations.class +artemis-4.0/seqdb/BioSeq.class +artemis-4.0/seqdb/Feature.class +artemis-4.0/seqdb/FeatureOperations.class +artemis-4.0/Ensembl/artemis/RequestedSequenceTooLong.java +artemis-4.0/Ensembl/artemis/RequestedSequenceTooLongHolder.java +artemis-4.0/Ensembl/artemis/RequestedSequenceTooLongHelper.java +artemis-4.0/Ensembl/artemis/NoEntry.java +artemis-4.0/Ensembl/artemis/NoEntryHolder.java +artemis-4.0/Ensembl/artemis/NoEntryHelper.java +artemis-4.0/Ensembl/artemis/BioSequence.java +artemis-4.0/Ensembl/artemis/BioSequenceOperations.java +artemis-4.0/Ensembl/artemis/BioSequenceHelper.java +artemis-4.0/Ensembl/artemis/BioSequenceHolder.java +artemis-4.0/Ensembl/artemis/_BioSequenceStub.java +artemis-4.0/Ensembl/artemis/BioSequencePOA.java +artemis-4.0/Ensembl/artemis/BioSequencePOATie.java +artemis-4.0/Ensembl/artemis/Qualifier.java +artemis-4.0/Ensembl/artemis/QualifierHolder.java +artemis-4.0/Ensembl/artemis/QualifierHelper.java +artemis-4.0/Ensembl/artemis/QualifierListHolder.java +artemis-4.0/Ensembl/artemis/QualifierListHelper.java +artemis-4.0/Ensembl/artemis/Feature.java +artemis-4.0/Ensembl/artemis/FeatureOperations.java +artemis-4.0/Ensembl/artemis/FeatureHelper.java +artemis-4.0/Ensembl/artemis/FeatureHolder.java +artemis-4.0/Ensembl/artemis/_FeatureStub.java +artemis-4.0/Ensembl/artemis/FeaturePOA.java +artemis-4.0/Ensembl/artemis/DB.java +artemis-4.0/Ensembl/artemis/FeaturePOATie.java +artemis-4.0/Ensembl/artemis/FeatureListHolder.java +artemis-4.0/Ensembl/artemis/FeatureListHelper.java +artemis-4.0/Ensembl/artemis/Entry.java +artemis-4.0/Ensembl/artemis/EntryOperations.java +artemis-4.0/Ensembl/artemis/EntryHelper.java +artemis-4.0/Ensembl/artemis/EntryHolder.java +artemis-4.0/Ensembl/artemis/_EntryStub.java +artemis-4.0/Ensembl/artemis/EntryPOA.java +artemis-4.0/Ensembl/artemis/EntryPOATie.java +artemis-4.0/Ensembl/artemis/QualifierDefinitionListHolder.java +artemis-4.0/Ensembl/artemis/QualifierDefinitionListHelper.java +artemis-4.0/Ensembl/artemis/FeatureDefinition.java +artemis-4.0/Ensembl/artemis/FeatureDefinitionHolder.java +artemis-4.0/Ensembl/artemis/FeatureDefinitionHelper.java +artemis-4.0/Ensembl/artemis/FeatureDefinitionListHolder.java +artemis-4.0/Ensembl/artemis/FeatureDefinitionListHelper.java +artemis-4.0/Ensembl/artemis/EntryNameListHolder.java +artemis-4.0/Ensembl/artemis/EntryNameListHelper.java +artemis-4.0/Ensembl/artemis/DBOperations.java +artemis-4.0/Ensembl/artemis/DBHelper.java +artemis-4.0/Ensembl/artemis/DBHolder.java +artemis-4.0/Ensembl/artemis/_DBStub.java +artemis-4.0/Ensembl/artemis/DBPOA.java +artemis-4.0/Ensembl/artemis/DBPOATie.java +artemis-4.0/Diana.class +artemis-4.0/AppGlobal.class +bin/art +@dirrm artemis-4.0/META-INF/CVS +@dirrm artemis-4.0/META-INF +@dirrm artemis-4.0/collections/CVS +@dirrm artemis-4.0/collections +@dirrm artemis-4.0/corba/CVS +@dirrm artemis-4.0/corba +@dirrm artemis-4.0/diana/CVS +@dirrm artemis-4.0/diana/plot/CVS +@dirrm artemis-4.0/diana/plot +@dirrm artemis-4.0/diana/components/CVS +@dirrm artemis-4.0/diana/components +@dirrm artemis-4.0/diana/sequence/CVS +@dirrm artemis-4.0/diana/sequence +@dirrm artemis-4.0/diana +@dirrm artemis-4.0/docs/CVS +@dirrm artemis-4.0/docs +@dirrm artemis-4.0/embl/CVS +@dirrm artemis-4.0/embl +@dirrm artemis-4.0/etc/CVS +@dirrm artemis-4.0/etc +@dirrm artemis-4.0/lib/CVS +@dirrm artemis-4.0/lib +@dirrm artemis-4.0/uk/CVS +@dirrm artemis-4.0/uk/ac/sanger/CVS +@dirrm artemis-4.0/uk/ac/sanger/pathogens/CVS +@dirrm artemis-4.0/uk/ac/sanger/pathogens/embl/CVS +@dirrm artemis-4.0/uk/ac/sanger/pathogens/embl +@dirrm artemis-4.0/uk/ac/sanger/pathogens +@dirrm artemis-4.0/uk/ac/CVS +@dirrm artemis-4.0/uk/ac/sanger +@dirrm artemis-4.0/uk/ac +@dirrm artemis-4.0/uk +@dirrm artemis-4.0/type +@dirrm artemis-4.0/nsdb/LocationPackage +@dirrm artemis-4.0/nsdb/NucFeaturePackage +@dirrm artemis-4.0/nsdb/EmblPackage +@dirrm artemis-4.0/nsdb +@dirrm artemis-4.0/seqdb +@dirrm artemis-4.0/Ensembl/artemis +@dirrm artemis-4.0/Ensembl +@dirrm artemis-4.0/CVS +@dirrm artemis-4.0