diff options
| author | glewis <glewis@FreeBSD.org> | 2002-06-16 01:08:49 +0000 |
|---|---|---|
| committer | glewis <glewis@FreeBSD.org> | 2002-06-16 01:08:49 +0000 |
| commit | dcfb43e59f99c06b35427d1581f3696eaef73f68 (patch) | |
| tree | f31560ef2c230e013dd56b2402784503367ebe58 /biology | |
| parent | c11810225b72cbeb7ccc4648431f0e7836e8e418 (diff) | |
| download | FreeBSD-ports-dcfb43e59f99c06b35427d1581f3696eaef73f68.zip FreeBSD-ports-dcfb43e59f99c06b35427d1581f3696eaef73f68.tar.gz | |
Unbreak this port:
. Fix dependencies to be in sync with the recent JDK ports renaming.
. Replace MASTER_SITES with a location that actually contains the
source.
. Fix the packing list.
Note that there is a much newer version of this application available,
but that is beyond the scope of what I was trying to do (just fix the
JDK dependency), as is the last two items.
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/biojava/Makefile | 6 | ||||
| -rw-r--r-- | biology/biojava/pkg-plist | 1165 |
2 files changed, 585 insertions, 586 deletions
diff --git a/biology/biojava/Makefile b/biology/biojava/Makefile index 001fe38..e12d2b8 100644 --- a/biology/biojava/Makefile +++ b/biology/biojava/Makefile @@ -8,14 +8,14 @@ PORTNAME= biojava PORTVERSION= 1.01 CATEGORIES= biology java -MASTER_SITES= ftp://ftp.biojava.org/pub/biojava/source/ +MASTER_SITES= http://www.biojava.org/download/source/ MAINTAINER= bio@freebsd.net -BUILD_DEPENDS= ${JAVA_COMMAND}:${PORTSDIR}/java/linux-jdk +BUILD_DEPENDS= ${JAVA_COMMAND}:${PORTSDIR}/java/linux-sun-jdk12 JDK_VERSION= 1.2.2 -JAVAVERSION= linux-jdk${JDK_VERSION} +JAVAVERSION= linux-sun-jdk${JDK_VERSION} JAVADIR= ${PREFIX}/${JAVAVERSION} JAVA_COMPILE= ${JAVADIR}/bin/javac JAVA_COMMAND= ${JAVADIR}/bin/java diff --git a/biology/biojava/pkg-plist b/biology/biojava/pkg-plist index 4075c88..0cb39e2 100644 --- a/biology/biojava/pkg-plist +++ b/biology/biojava/pkg-plist @@ -1,587 +1,586 @@ share/java/classes/biojava.jar share/java/classes/xml.jar -%%PORTDOCS%%share/doc/biojava-1.01/LICENSE -%%PORTDOCS%%share/doc/biojava-1.01/README -%%PORTDOCS%%share/doc/biojava-1.01/demos/acedb/AceTreeView.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/acedb/ServeAceAsCorba.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/acedb/AceClient.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/acedb/SequenceFetch.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/gff/GFFFilter.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/gff/EmblToGffFasta.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/gff/GFFToFeatures.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/gff/varC4-2.gff -%%PORTDOCS%%share/doc/biojava-1.01/demos/gff/AL121903.embl -%%PORTDOCS%%share/doc/biojava-1.01/demos/seq/db/AddFilesToIndex.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/seq/db/CreateIndex.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/seq/db/FetchSequence.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/seq/db/ListSeqsInIndex.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/seq/TestGenbank.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/seq/AL121903.genbank -%%PORTDOCS%%share/doc/biojava-1.01/demos/seq/TestTranslation.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/seq/TestEmbl.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/seq/AL121903.embl -%%PORTDOCS%%share/doc/biojava-1.01/demos/dist/TestDistribution.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/dp/PairwiseAlignment.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/dp/fake.fasta -%%PORTDOCS%%share/doc/biojava-1.01/demos/dp/ViterbiAlign.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/dp/package.html -%%PORTDOCS%%share/doc/biojava-1.01/demos/dp/SearchProfile.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/dp/fakepromoter.xml -%%PORTDOCS%%share/doc/biojava-1.01/demos/dp/Dice.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/BioCorba/CorbaDBServer.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/BioCorba/ChrI.prom.fasta -%%PORTDOCS%%share/doc/biojava-1.01/demos/BioCorba/CorbaDBClient.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/AL121903.embl -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/test.hmm -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/out.gff -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/AL121903.genbank -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/ChrI.prom.fasta -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/fakepromoter.xml -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/scoptest.fa -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/varC4-2.gff -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/varC4-2.dna -%%PORTDOCS%%share/doc/biojava-1.01/demos/files/fake.fasta -%%PORTDOCS%%share/doc/biojava-1.01/demos/symbol/TestAmbiguity.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/symbol/TestSimpleAlignment.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/symbol/Tools.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/symbol/TestOrderNSymbolList.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/symbol/TestGappedSymbolList.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/symbol/TestWindowedSymbolList.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/seqviewer/test.fa -%%PORTDOCS%%share/doc/biojava-1.01/demos/seqviewer/EmblViewer.java -%%PORTDOCS%%share/doc/biojava-1.01/demos/seqviewer/TestSequencePanel.java -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/UnknownHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/_Unknown_Operations.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/Unknown.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/_Unknown_Tie.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/_UnknownImplBase.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/_UnknownStub.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/UnknownHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/GNOME/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/socket/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/socket/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/socket/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/socket/SocketDriver.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/socket/SocketResultSet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticStringValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticAceNode.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticAceObject.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticAceSet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticDateValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticFloatValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticIntValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticModelInclude.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticModelNode.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticModelReference.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticModelType.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/StaticReference.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/staticobj/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/seq/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/seq/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/seq/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/seq/AceAnnotation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/seq/AceSequence.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/seq/AceSequenceDB.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceElement.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceNode.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceObject.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceSet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/Connection.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/Database.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/DateValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/Driver.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/FloatValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/IntValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/ModelInclude.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/ModelNode.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/ModelReference.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/ModelType.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/Reference.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/StringValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/Ace.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AcePerlParser.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceURL.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceUtils.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/Handler.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceURLException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/AceError.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/acedb/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/UnableToProcess.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_AnonymousSeq_Operations.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeq_Operations.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqDB_Operations.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Operations.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_Seq_Operations.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqDB_Operations.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeature_Operations.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Operations.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/AnonymousSeq.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeq.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqDB.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqIterator.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/Seq.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqDB.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeature.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureIterator.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_AnonymousSeq_Tie.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_AnonymousSeqImplBase.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_AnonymousSeqStub.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeq_Tie.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqDB_Tie.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqDBImplBase.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqDBStub.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqImplBase.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Tie.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqIteratorImplBase.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqStub.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqIteratorStub.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_Seq_Tie.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqDB_Tie.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqDBImplBase.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqDBStub.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeature_Tie.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureImplBase.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Tie.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureIteratorImplBase.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureIteratorStub.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureStub.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqImplBase.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqStub.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/AnonymousSeqHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/AnonymousSeqHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/EndOfStreamHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/EndOfStreamHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSetHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSetHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSetListHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSetListHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/OutOfRangeHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/OutOfRangeHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/primaryidListHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/primaryidListHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqDBHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqDBHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqIteratorHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqIteratorHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/RequestTooLargeHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/RequestTooLargeHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqDBHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqDBHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureIteratorHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureIteratorHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureListHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureListHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqType.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqTypeHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqTypeHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/stringListHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/stringListHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/UnableToProcessHelper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/UnableToProcessHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/EndOfStream.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/OutOfRange.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/RequestTooLarge.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/IgnoreRecordException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFDocumentHandler.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFErrorHandler.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecord.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFEntrySet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFErrorHandler.AbortErrorHandler.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFErrorHandler.SkipRecordErrorHandler.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFFilterer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFParser.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.AcceptAll.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.FeatureFilter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.SequenceFilter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.SourceFilter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFWriter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/SequencesAsGFF.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/SimpleGFFRecord.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/program/Meme.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/ModelVetoException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/DotState.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/DPMatrix.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/EmissionState.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/MarkovModel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/ModelInState.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/ModelTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/State.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/StatePath.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/StoppingCriteria.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/Trainable.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/TrainingAlgorithm.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/TransitionListener.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/TransitionTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/WeightMatrix.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/DP.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/AbstractTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/BaumWelchSampler.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/BaumWelchTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/DP.ReverseIterator.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/DPFactory.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/MagicalState.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/ModelChangeEvent.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/ModelView.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/ModelView.ViewTransitionTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/PairDPMatrix.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/PairwiseDP.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/ProfileHMM.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleDotState.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleEmissionState.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleMarkovModel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleModelInState.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/Transition.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleModelTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleStatePath.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleTransitionTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleWeightMatrix.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/TrainerTransition.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/TransitionEvent.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/WeightMatrixAnnotator.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/WMAsMM.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/XmlMarkovModel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/IllegalTransitionException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dp/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/SymbolSequenceRenderer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/FeatureRenderer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/SequenceRenderer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/BasicFeatureRenderer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/FeatureBlockSequenceRenderer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/LogoPainter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/SymbolStyle.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/BarLogoPainter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/DistributionLogo.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/DNAStyle.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/PlainStyle.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/SequencePanel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/SequencePanel.Border.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/SimpleSymbolStyle.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/TextLogoPainter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/UniformDistribution.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/Distribution.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/DistributionFactory.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/DistributionTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/DistributionTrainerContext.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/AbstractDistribution.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/ComplementaryDistribution.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/DistributionFactory.DefaultDistributionFactory.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/DNADistribution.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/GapDistribution.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/IgnoreCountsTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/PairDistribution.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/SimpleDistribution.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/SimpleDistributionTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/SimpleDistributionTrainerContext.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/dist/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/SimpleSeqSimilaritySearchSubHit.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/SeqSimilaritySearcher.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/SeqSimilaritySearchHit.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/SeqSimilaritySearchResult.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/SeqSimilaritySearchSubHit.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/SimpleSeqSimilaritySearchHit.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/SimpleSeqSimilaritySearchResult.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/search/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/SimpleSequenceDBInstallation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/IDMaker.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/SequenceDB.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/SequenceDBInstallation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/AnnotatedSequenceDB.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/CachingSequenceDB.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/HashSequenceDB.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/IDMaker.ByName.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/IDMaker.ByURN.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/IndexedSequenceDB.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/StreamWriter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/AlignmentFormat.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/FastaDescriptionReader.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/FeatureBuilder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/SequenceFormat.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/DefaultDescriptionReader.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/EmblFormat.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/FastaFormat.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/GenbankFormat.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/SimpleFeatureBuilder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/StreamReader.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/StreamReader.Context.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/Feature.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureRealizer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/RealizingFeatureHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/Sequence.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/SequenceAnnotator.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/SequenceFactory.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/SequenceIterator.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/StrandedFeature.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/AbstractFeatureHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/DNATools.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/Feature.Template.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.AcceptAllFilter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.And.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.BySource.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.ByType.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.ContainedByLocation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.Not.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.Or.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.OverlapsLocation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureHolder.EmptyFeatureHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/GeneticCode.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/MergeFeatureHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/ProteinTools.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/SimpleFeatureHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/SimpleFeatureRealizer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/SimpleSequence.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/SimpleSequenceFactory.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/StrandedFeature.Strand.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/StrandedFeature.Template.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/ViewSequence.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/IllegalSymbolException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/Alignment.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/Alphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/AtomicSymbol.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/CrossProductAlphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/CrossProductSymbol.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/FiniteAlphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/Location.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/Symbol.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SymbolList.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SymbolParser.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/TranslationTable.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/AbstractAlphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/AbstractSymbolList.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/AllTokensAlphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/Alphabet.EmptyAlphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/AlphabetManager.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/AlphabetManager.ListWrapper.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/CompoundLocation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/CrossProductSymbolNameParser.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/DoubleAlphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/DoubleAlphabet.DoubleSymbol.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/FixedWidthParser.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/GappedSymbolList.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/IntegerAlphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/IntegerAlphabet.IntegerSymbol.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/Location.EmptyLocation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/Location.LocationComparator.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/NameParser.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/OrderNSymbolList.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/PointLocation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/RangeLocation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/ReverseSymbolList.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleAlignment.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleAlphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleAtomicSymbol.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleSymbol.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleSymbolList.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleTranslationTable.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SingletonAlphabet.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SuffixTree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SuffixTree.SuffixNode.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/SymbolList.EmptySymbolList.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/TokenParser.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/TranslatedSymbolList.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/WindowedSymbolList.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/IllegalAlphabetException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/SimpleAnnotation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/BioException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/BioError.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/Annotatable.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/Annotation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/Annotation.EmptyAnnotation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bio/OverlayAnnotation.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SymbolListAdapter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/AnonymousSeqImpl.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/FeatureAdapter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqDBImpl.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqImpl.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqIteratorImpl.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SeqDBImpl.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureImpl.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureIteratorImpl.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SeqImpl.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SequenceAdapter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SequenceDBAdapter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SequenceIteratorAdapter.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/GNOME/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/GNOME/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/GNOME/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/bridge/GNOME/UnknownImpl.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/TrainRegression.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.DepthScaler.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/ClassifierExample.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/ClassifierExample.PointClassifier.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/Classify.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.MultipleScalar.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.NullModelScaler.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.SelectionScalar.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.UniformScaler.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SVM_Light.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SVM_Light.LabelledVector.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/Train.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/ItemValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SVMClassifierModel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SVMKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SVMTarget.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/TrainingContext.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/TrainingListener.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/AbstractSVMClassifierModel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/AbstractSVMTarget.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/CachingKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/DiagonalAddKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/DiagonalCachingKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/LinearKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/ListSumKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SMOTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/NestedKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/NormalizingKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/PolynomialKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/RadialBaseKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SigmoidKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SimpleItemValue.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SimpleSVMClassifierModel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SimpleSVMTarget.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SMORegressionTrainer.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SparseVector.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SparseVector.NormalizingKernel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/SVMRegressionModel.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/TrainingEvent.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/contract/Contract.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/contract/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/contract/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/contract/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/contract/AssertionFailedException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/contract/PostconditionNotMetException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/contract/PreconditionNotMetException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/xml/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/xml/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/xml/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/xml/XMLPeerFactory.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/xml/XMLDispatcher.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/xml/XMLPeerBuilder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/package-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/ObjectUtil.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/StaticMemberPlaceHolder.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/TypedProperties.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/package-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/ParserException.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/org/biojava/utils/package-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/deprecated-list.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/allclasses-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/index.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/packages.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/overview-summary.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/overview-frame.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/serialized-form.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/package-list -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/help-doc.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/overview-tree.html -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/stylesheet.css -%%PORTDOCS%%share/doc/biojava-1.01/docs/api/index-all.html +share/java/biojava-1.01/LICENSE +share/java/biojava-1.01/README +share/java/biojava-1.01/demos/acedb/AceTreeView.java +share/java/biojava-1.01/demos/acedb/ServeAceAsCorba.java +share/java/biojava-1.01/demos/acedb/AceClient.java +share/java/biojava-1.01/demos/acedb/SequenceFetch.java +share/java/biojava-1.01/demos/gff/GFFFilter.java +share/java/biojava-1.01/demos/gff/EmblToGffFasta.java +share/java/biojava-1.01/demos/gff/GFFToFeatures.java +share/java/biojava-1.01/demos/gff/varC4-2.gff +share/java/biojava-1.01/demos/gff/AL121903.embl +share/java/biojava-1.01/demos/seq/db/AddFilesToIndex.java +share/java/biojava-1.01/demos/seq/db/CreateIndex.java +share/java/biojava-1.01/demos/seq/db/FetchSequence.java +share/java/biojava-1.01/demos/seq/db/ListSeqsInIndex.java +share/java/biojava-1.01/demos/seq/TestGenbank.java +share/java/biojava-1.01/demos/seq/AL121903.genbank +share/java/biojava-1.01/demos/seq/TestTranslation.java +share/java/biojava-1.01/demos/seq/TestEmbl.java +share/java/biojava-1.01/demos/seq/AL121903.embl +share/java/biojava-1.01/demos/dist/TestDistribution.java +share/java/biojava-1.01/demos/dp/PairwiseAlignment.java +share/java/biojava-1.01/demos/dp/fake.fasta +share/java/biojava-1.01/demos/dp/ViterbiAlign.java +share/java/biojava-1.01/demos/dp/package.html +share/java/biojava-1.01/demos/dp/SearchProfile.java +share/java/biojava-1.01/demos/dp/fakepromoter.xml +share/java/biojava-1.01/demos/dp/Dice.java +share/java/biojava-1.01/demos/BioCorba/CorbaDBServer.java +share/java/biojava-1.01/demos/BioCorba/ChrI.prom.fasta +share/java/biojava-1.01/demos/BioCorba/CorbaDBClient.java +share/java/biojava-1.01/demos/files/AL121903.embl +share/java/biojava-1.01/demos/files/test.hmm +share/java/biojava-1.01/demos/files/out.gff +share/java/biojava-1.01/demos/files/AL121903.genbank +share/java/biojava-1.01/demos/files/ChrI.prom.fasta +share/java/biojava-1.01/demos/files/fakepromoter.xml +share/java/biojava-1.01/demos/files/scoptest.fa +share/java/biojava-1.01/demos/files/varC4-2.gff +share/java/biojava-1.01/demos/files/varC4-2.dna +share/java/biojava-1.01/demos/files/fake.fasta +share/java/biojava-1.01/demos/symbol/TestAmbiguity.java +share/java/biojava-1.01/demos/symbol/TestSimpleAlignment.java +share/java/biojava-1.01/demos/symbol/Tools.java +share/java/biojava-1.01/demos/symbol/TestOrderNSymbolList.java +share/java/biojava-1.01/demos/symbol/TestGappedSymbolList.java +share/java/biojava-1.01/demos/symbol/TestWindowedSymbolList.java +share/java/biojava-1.01/demos/seqviewer/test.fa +share/java/biojava-1.01/demos/seqviewer/EmblViewer.java +share/java/biojava-1.01/demos/seqviewer/TestSequencePanel.java +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/UnknownHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/_Unknown_Operations.html +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/Unknown.html +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/_Unknown_Tie.html +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/_UnknownImplBase.html +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/_UnknownStub.html +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/UnknownHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/GNOME/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/SocketDriver.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/socket/SocketResultSet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticStringValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticAceNode.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticAceObject.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticAceSet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticDateValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticFloatValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticIntValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticModelInclude.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticModelNode.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticModelReference.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticModelType.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/StaticReference.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/staticobj/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/AceAnnotation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/AceSequence.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/seq/AceSequenceDB.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceElement.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceNode.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceObject.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceSet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Connection.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Database.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/DateValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Driver.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/FloatValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/IntValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/ModelInclude.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/ModelNode.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/ModelReference.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/ModelType.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Reference.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/StringValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Ace.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AcePerlParser.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceURL.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceUtils.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/Handler.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceURLException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/AceError.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/acedb/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/UnableToProcess.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_AnonymousSeq_Operations.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeq_Operations.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDB_Operations.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Operations.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_Seq_Operations.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqDB_Operations.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeature_Operations.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Operations.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/AnonymousSeq.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeq.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqDB.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqIterator.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/Seq.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqDB.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeature.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureIterator.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_AnonymousSeq_Tie.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_AnonymousSeqImplBase.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_AnonymousSeqStub.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeq_Tie.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDB_Tie.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDBImplBase.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqDBStub.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqImplBase.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Tie.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIteratorImplBase.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqStub.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_PrimarySeqIteratorStub.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_Seq_Tie.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqDB_Tie.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqDBImplBase.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqDBStub.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeature_Tie.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureImplBase.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Tie.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIteratorImplBase.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureIteratorStub.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqFeatureStub.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqImplBase.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/_SeqStub.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/AnonymousSeqHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/AnonymousSeqHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/EndOfStreamHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/EndOfStreamHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSetHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSetHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSetListHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/NameValueSetListHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/OutOfRangeHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/OutOfRangeHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/primaryidListHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/primaryidListHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqDBHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqDBHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqIteratorHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/PrimarySeqIteratorHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/RequestTooLargeHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/RequestTooLargeHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqDBHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqDBHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureIteratorHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureIteratorHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureListHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqFeatureListHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqType.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqTypeHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/SeqTypeHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/stringListHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/stringListHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/UnableToProcessHelper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/UnableToProcessHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/EndOfStream.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/OutOfRange.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/RequestTooLarge.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/Biocorba/Seqcore/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/IgnoreRecordException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFDocumentHandler.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFErrorHandler.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecord.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFEntrySet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFErrorHandler.AbortErrorHandler.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFErrorHandler.SkipRecordErrorHandler.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFFilterer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFParser.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.AcceptAll.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.FeatureFilter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.SequenceFilter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFRecordFilter.SourceFilter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/GFFWriter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/SequencesAsGFF.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/SimpleGFFRecord.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/gff/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/program/Meme.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelVetoException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DotState.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DPMatrix.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/EmissionState.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/MarkovModel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelInState.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/State.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/StatePath.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/StoppingCriteria.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/Trainable.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TrainingAlgorithm.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TransitionListener.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TransitionTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/WeightMatrix.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DP.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/AbstractTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/BaumWelchSampler.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/BaumWelchTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DP.ReverseIterator.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/DPFactory.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/MagicalState.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelChangeEvent.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelView.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ModelView.ViewTransitionTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/PairDPMatrix.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/PairwiseDP.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/ProfileHMM.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleDotState.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleEmissionState.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleMarkovModel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleModelInState.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/Transition.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleModelTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleStatePath.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleTransitionTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/SimpleWeightMatrix.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TrainerTransition.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/TransitionEvent.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/WeightMatrixAnnotator.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/WMAsMM.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/XmlMarkovModel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/IllegalTransitionException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dp/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/SymbolSequenceRenderer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/FeatureRenderer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/SequenceRenderer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/BasicFeatureRenderer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/FeatureBlockSequenceRenderer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/LogoPainter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/SymbolStyle.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/BarLogoPainter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/DistributionLogo.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/DNAStyle.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/PlainStyle.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/SequencePanel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/SequencePanel.Border.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/SimpleSymbolStyle.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/gui/TextLogoPainter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/UniformDistribution.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/Distribution.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DistributionFactory.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DistributionTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DistributionTrainerContext.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/AbstractDistribution.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/ComplementaryDistribution.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DistributionFactory.DefaultDistributionFactory.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/DNADistribution.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/GapDistribution.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/IgnoreCountsTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/PairDistribution.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/SimpleDistribution.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/SimpleDistributionTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/SimpleDistributionTrainerContext.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/dist/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SimpleSeqSimilaritySearchSubHit.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SeqSimilaritySearcher.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SeqSimilaritySearchHit.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SeqSimilaritySearchResult.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SeqSimilaritySearchSubHit.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SimpleSeqSimilaritySearchHit.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/SimpleSeqSimilaritySearchResult.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/search/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/SimpleSequenceDBInstallation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/IDMaker.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/SequenceDB.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/SequenceDBInstallation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/AnnotatedSequenceDB.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/CachingSequenceDB.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/HashSequenceDB.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/IDMaker.ByName.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/IDMaker.ByURN.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/IndexedSequenceDB.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/db/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/StreamWriter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/AlignmentFormat.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/FastaDescriptionReader.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/FeatureBuilder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/SequenceFormat.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/DefaultDescriptionReader.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/EmblFormat.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/FastaFormat.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/GenbankFormat.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/SimpleFeatureBuilder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/StreamReader.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/StreamReader.Context.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/io/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/Feature.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureRealizer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/RealizingFeatureHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/Sequence.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SequenceAnnotator.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SequenceFactory.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SequenceIterator.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/StrandedFeature.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/AbstractFeatureHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/DNATools.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/Feature.Template.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.AcceptAllFilter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.And.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.BySource.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.ByType.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.ContainedByLocation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.Not.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.Or.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureFilter.OverlapsLocation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/FeatureHolder.EmptyFeatureHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/GeneticCode.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/MergeFeatureHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/ProteinTools.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SimpleFeatureHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SimpleFeatureRealizer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SimpleSequence.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/SimpleSequenceFactory.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/StrandedFeature.Strand.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/StrandedFeature.Template.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/ViewSequence.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/seq/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/IllegalSymbolException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Alignment.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Alphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AtomicSymbol.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/CrossProductAlphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/CrossProductSymbol.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/FiniteAlphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Location.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Symbol.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SymbolList.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SymbolParser.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/TranslationTable.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AbstractAlphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AbstractSymbolList.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AllTokensAlphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Alphabet.EmptyAlphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AlphabetManager.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/AlphabetManager.ListWrapper.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/CompoundLocation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/CrossProductSymbolNameParser.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/DoubleAlphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/DoubleAlphabet.DoubleSymbol.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/FixedWidthParser.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/GappedSymbolList.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/IntegerAlphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/IntegerAlphabet.IntegerSymbol.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Location.EmptyLocation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/Location.LocationComparator.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/NameParser.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/OrderNSymbolList.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/PointLocation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/RangeLocation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/ReverseSymbolList.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleAlignment.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleAlphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleAtomicSymbol.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleSymbol.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleSymbolList.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SimpleTranslationTable.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SingletonAlphabet.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SuffixTree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SuffixTree.SuffixNode.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/SymbolList.EmptySymbolList.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/TokenParser.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/TranslatedSymbolList.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/WindowedSymbolList.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/IllegalAlphabetException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/symbol/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/SimpleAnnotation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/BioException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/BioError.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/Annotatable.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/Annotation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/Annotation.EmptyAnnotation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bio/OverlayAnnotation.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SymbolListAdapter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/AnonymousSeqImpl.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/FeatureAdapter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqDBImpl.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqImpl.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqIteratorImpl.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqDBImpl.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureImpl.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureIteratorImpl.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SeqImpl.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SequenceAdapter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SequenceDBAdapter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/SequenceIteratorAdapter.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/GNOME/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/GNOME/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/GNOME/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/bridge/GNOME/UnknownImpl.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/TrainRegression.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.DepthScaler.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/ClassifierExample.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/ClassifierExample.PointClassifier.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/Classify.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.MultipleScalar.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.NullModelScaler.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.SelectionScalar.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SuffixTreeKernel.UniformScaler.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SVM_Light.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/SVM_Light.LabelledVector.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/Train.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/tools/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/ItemValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SVMClassifierModel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SVMKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SVMTarget.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/TrainingContext.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/TrainingListener.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/AbstractSVMClassifierModel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/AbstractSVMTarget.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/CachingKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/DiagonalAddKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/DiagonalCachingKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/LinearKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/ListSumKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SMOTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/NestedKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/NormalizingKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/PolynomialKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/RadialBaseKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SigmoidKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SimpleItemValue.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SimpleSVMClassifierModel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SimpleSVMTarget.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SMORegressionTrainer.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SparseVector.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SparseVector.NormalizingKernel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/SVMRegressionModel.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/stats/svm/TrainingEvent.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/Contract.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/AssertionFailedException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/PostconditionNotMetException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/contract/PreconditionNotMetException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/XMLPeerFactory.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/XMLDispatcher.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/xml/XMLPeerBuilder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/package-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/ObjectUtil.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/StaticMemberPlaceHolder.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/TypedProperties.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/package-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/ParserException.html +%%PORTDOCS%%share/doc/biojava-1.01/api/org/biojava/utils/package-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/deprecated-list.html +%%PORTDOCS%%share/doc/biojava-1.01/api/allclasses-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/index.html +%%PORTDOCS%%share/doc/biojava-1.01/api/packages.html +%%PORTDOCS%%share/doc/biojava-1.01/api/overview-summary.html +%%PORTDOCS%%share/doc/biojava-1.01/api/overview-frame.html +%%PORTDOCS%%share/doc/biojava-1.01/api/serialized-form.html +%%PORTDOCS%%share/doc/biojava-1.01/api/package-list +%%PORTDOCS%%share/doc/biojava-1.01/api/help-doc.html +%%PORTDOCS%%share/doc/biojava-1.01/api/overview-tree.html +%%PORTDOCS%%share/doc/biojava-1.01/api/stylesheet.css +%%PORTDOCS%%share/doc/biojava-1.01/api/index-all.html @dirrm share/java/classes -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/acedb -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/gff -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/seq/db -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/seq -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/dist -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/dp -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/BioCorba -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/files -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/symbol -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos/seqviewer -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/demos -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/GNOME -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/acedb/socket -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/acedb/staticobj -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/acedb/seq -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/acedb -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/Biocorba/Seqcore -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/Biocorba -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/program/gff -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/program -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/dp -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/gui/sequence -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/gui -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/dist -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/search -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/db -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/seq/io -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/seq -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio/symbol -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bio -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bridge/Biocorba -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bridge/GNOME -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/bridge -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/stats/svm/tools -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/stats/svm -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/stats -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/utils/contract -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/utils/xml -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava/utils -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org/biojava -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api/org -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs/api -%%PORTDOCS%%@dirrm share/doc/biojava-1.01/docs +@dirrm share/java/biojava-1.01/demos/acedb +@dirrm share/java/biojava-1.01/demos/gff +@dirrm share/java/biojava-1.01/demos/seq/db +@dirrm share/java/biojava-1.01/demos/seq +@dirrm share/java/biojava-1.01/demos/dist +@dirrm share/java/biojava-1.01/demos/dp +@dirrm share/java/biojava-1.01/demos/BioCorba +@dirrm share/java/biojava-1.01/demos/files +@dirrm share/java/biojava-1.01/demos/symbol +@dirrm share/java/biojava-1.01/demos/seqviewer +@dirrm share/java/biojava-1.01/demos +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/GNOME +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/acedb/socket +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/acedb/staticobj +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/acedb/seq +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/acedb +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/Biocorba/Seqcore +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/Biocorba +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/program/gff +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/program +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/dp +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/gui/sequence +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/gui +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/dist +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/search +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/seq/db +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/seq/io +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/seq +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio/symbol +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bio +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba/Seqcore +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bridge/Biocorba +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bridge/GNOME +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/bridge +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/stats/svm/tools +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/stats/svm +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/stats +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/utils/contract +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/utils/xml +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava/utils +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org/biojava +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api/org +%%PORTDOCS%%@dirrm share/doc/biojava-1.01/api %%PORTDOCS%%@dirrm share/doc/biojava-1.01 |
