diff options
| author | ijliao <ijliao@FreeBSD.org> | 2001-07-09 02:15:34 +0800 |
|---|---|---|
| committer | ijliao <ijliao@FreeBSD.org> | 2001-07-09 02:15:34 +0800 |
| commit | c8dc45c63a4bf9bbbf55aa65558e1f6dd865ae31 (patch) | |
| tree | 118498cf961690fd51023ccb66d49a5436135f85 /biology | |
| parent | dafbb9237cbff4eba442e8db2c2c48a30303ac27 (diff) | |
| download | freebsd-ports-gnome-c8dc45c63a4bf9bbbf55aa65558e1f6dd865ae31.tar.gz freebsd-ports-gnome-c8dc45c63a4bf9bbbf55aa65558e1f6dd865ae31.tar.zst freebsd-ports-gnome-c8dc45c63a4bf9bbbf55aa65558e1f6dd865ae31.zip | |
Add NOPORTDOCS support to pkg-plist
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/biojava/Makefile | 2 | ||||
| -rw-r--r-- | biology/biojava/pkg-plist | 1169 | ||||
| -rw-r--r-- | biology/fastdnaml/Makefile | 2 | ||||
| -rw-r--r-- | biology/fastdnaml/pkg-plist | 6 | ||||
| -rw-r--r-- | biology/molden/pkg-plist | 102 | ||||
| -rw-r--r-- | biology/mopac/pkg-plist | 34 | ||||
| -rw-r--r-- | biology/psi88/Makefile | 6 | ||||
| -rw-r--r-- | biology/psi88/pkg-plist | 38 | ||||
| -rw-r--r-- | biology/tinker/pkg-plist | 690 | ||||
| -rw-r--r-- | biology/tinker/pkg-plist.viewer | 694 | ||||
| -rw-r--r-- | biology/xmolwt/pkg-plist | 18 |
11 files changed, 1380 insertions, 1381 deletions
diff --git a/biology/biojava/Makefile b/biology/biojava/Makefile index 76fe2ff54f1e..001fe38a3ce2 100644 --- a/biology/biojava/Makefile +++ b/biology/biojava/Makefile @@ -41,7 +41,7 @@ do-install: ${CP} -R ${WRKSRC}/demos ${PREFIX}/share/java/${PKGNAME}/;) .if !defined(NOPORTDOCS) - @(${CP} -R ${WRKSRC}/docs ${PREFIX}/share/java/${PKGNAME}) + @(${CP} -R ${WRKSRC}/docs ${PREFIX}/share/doc/${PKGNAME}) .endif) post-install: diff --git a/biology/biojava/pkg-plist b/biology/biojava/pkg-plist index c0c4de8b8630..4075c88d44db 100644 --- a/biology/biojava/pkg-plist +++ b/biology/biojava/pkg-plist @@ -1,588 +1,587 @@ share/java/classes/biojava.jar share/java/classes/xml.jar -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 -share/java/biojava-1.01/docs/api/GNOME/UnknownHolder.html -share/java/biojava-1.01/docs/api/GNOME/package-tree.html -share/java/biojava-1.01/docs/api/GNOME/package-frame.html -share/java/biojava-1.01/docs/api/GNOME/_Unknown_Operations.html -share/java/biojava-1.01/docs/api/GNOME/Unknown.html -share/java/biojava-1.01/docs/api/GNOME/_Unknown_Tie.html -share/java/biojava-1.01/docs/api/GNOME/_UnknownImplBase.html -share/java/biojava-1.01/docs/api/GNOME/_UnknownStub.html -share/java/biojava-1.01/docs/api/GNOME/UnknownHelper.html -share/java/biojava-1.01/docs/api/GNOME/package-summary.html -share/java/biojava-1.01/docs/api/org/acedb/socket/package-summary.html -share/java/biojava-1.01/docs/api/org/acedb/socket/package-tree.html -share/java/biojava-1.01/docs/api/org/acedb/socket/package-frame.html -share/java/biojava-1.01/docs/api/org/acedb/socket/SocketDriver.html -share/java/biojava-1.01/docs/api/org/acedb/socket/SocketResultSet.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticStringValue.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/package-tree.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/package-frame.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticAceNode.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticAceObject.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticAceSet.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticDateValue.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticFloatValue.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticIntValue.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticModelInclude.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticModelNode.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticModelReference.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticModelType.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/StaticReference.html -share/java/biojava-1.01/docs/api/org/acedb/staticobj/package-summary.html -share/java/biojava-1.01/docs/api/org/acedb/seq/package-summary.html -share/java/biojava-1.01/docs/api/org/acedb/seq/package-tree.html -share/java/biojava-1.01/docs/api/org/acedb/seq/package-frame.html -share/java/biojava-1.01/docs/api/org/acedb/seq/AceAnnotation.html -share/java/biojava-1.01/docs/api/org/acedb/seq/AceSequence.html -share/java/biojava-1.01/docs/api/org/acedb/seq/AceSequenceDB.html -share/java/biojava-1.01/docs/api/org/acedb/AceElement.html -share/java/biojava-1.01/docs/api/org/acedb/AceNode.html -share/java/biojava-1.01/docs/api/org/acedb/AceObject.html -share/java/biojava-1.01/docs/api/org/acedb/AceSet.html -share/java/biojava-1.01/docs/api/org/acedb/AceValue.html -share/java/biojava-1.01/docs/api/org/acedb/Connection.html -share/java/biojava-1.01/docs/api/org/acedb/Database.html -share/java/biojava-1.01/docs/api/org/acedb/DateValue.html -share/java/biojava-1.01/docs/api/org/acedb/Driver.html -share/java/biojava-1.01/docs/api/org/acedb/FloatValue.html -share/java/biojava-1.01/docs/api/org/acedb/IntValue.html -share/java/biojava-1.01/docs/api/org/acedb/ModelInclude.html -share/java/biojava-1.01/docs/api/org/acedb/ModelNode.html -share/java/biojava-1.01/docs/api/org/acedb/ModelReference.html -share/java/biojava-1.01/docs/api/org/acedb/ModelType.html -share/java/biojava-1.01/docs/api/org/acedb/Reference.html -share/java/biojava-1.01/docs/api/org/acedb/StringValue.html -share/java/biojava-1.01/docs/api/org/acedb/Ace.html -share/java/biojava-1.01/docs/api/org/acedb/AcePerlParser.html -share/java/biojava-1.01/docs/api/org/acedb/AceURL.html -share/java/biojava-1.01/docs/api/org/acedb/AceUtils.html -share/java/biojava-1.01/docs/api/org/acedb/Handler.html -share/java/biojava-1.01/docs/api/org/acedb/AceException.html -share/java/biojava-1.01/docs/api/org/acedb/AceURLException.html -share/java/biojava-1.01/docs/api/org/acedb/package-summary.html -share/java/biojava-1.01/docs/api/org/acedb/AceError.html -share/java/biojava-1.01/docs/api/org/acedb/package-tree.html -share/java/biojava-1.01/docs/api/org/acedb/package-frame.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/UnableToProcess.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/package-tree.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/package-frame.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_AnonymousSeq_Operations.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeq_Operations.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqDB_Operations.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Operations.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_Seq_Operations.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqDB_Operations.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeature_Operations.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Operations.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/AnonymousSeq.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeq.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqDB.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqIterator.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/Seq.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqDB.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeature.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureIterator.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_AnonymousSeq_Tie.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_AnonymousSeqImplBase.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_AnonymousSeqStub.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeq_Tie.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqDB_Tie.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqDBImplBase.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqDBStub.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqImplBase.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqIterator_Tie.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqIteratorImplBase.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqStub.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_PrimarySeqIteratorStub.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_Seq_Tie.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqDB_Tie.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqDBImplBase.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqDBStub.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeature_Tie.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureImplBase.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureIterator_Tie.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureIteratorImplBase.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureIteratorStub.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqFeatureStub.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqImplBase.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/_SeqStub.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/AnonymousSeqHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/AnonymousSeqHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/EndOfStreamHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/EndOfStreamHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSet.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSetHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSetHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSetListHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/NameValueSetListHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/OutOfRangeHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/OutOfRangeHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/primaryidListHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/primaryidListHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqDBHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqDBHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqIteratorHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/PrimarySeqIteratorHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/RequestTooLargeHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/RequestTooLargeHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqDBHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqDBHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureIteratorHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureIteratorHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureListHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqFeatureListHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqType.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqTypeHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/SeqTypeHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/stringListHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/stringListHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/UnableToProcessHelper.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/UnableToProcessHolder.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/EndOfStream.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/OutOfRange.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/RequestTooLarge.html -share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/IgnoreRecordException.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFDocumentHandler.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFErrorHandler.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecord.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFEntrySet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFErrorHandler.AbortErrorHandler.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFErrorHandler.SkipRecordErrorHandler.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFFilterer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFParser.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.AcceptAll.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.FeatureFilter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.SequenceFilter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFRecordFilter.SourceFilter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/GFFWriter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/SequencesAsGFF.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/SimpleGFFRecord.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/program/Meme.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/ModelVetoException.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/DotState.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/DPMatrix.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/EmissionState.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/MarkovModel.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/ModelInState.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/ModelTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/State.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/StatePath.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/StoppingCriteria.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/Trainable.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/TrainingAlgorithm.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/TransitionListener.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/TransitionTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/WeightMatrix.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/DP.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/AbstractTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/BaumWelchSampler.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/BaumWelchTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/DP.ReverseIterator.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/DPFactory.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/MagicalState.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/ModelChangeEvent.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/ModelView.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/ModelView.ViewTransitionTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/PairDPMatrix.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/PairwiseDP.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/ProfileHMM.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleDotState.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleEmissionState.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleMarkovModel.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleModelInState.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/Transition.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleModelTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleStatePath.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleTransitionTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/SimpleWeightMatrix.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/TrainerTransition.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/TransitionEvent.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/WeightMatrixAnnotator.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/WMAsMM.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/XmlMarkovModel.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/IllegalTransitionException.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dp/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/SymbolSequenceRenderer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/FeatureRenderer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/SequenceRenderer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/BasicFeatureRenderer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/FeatureBlockSequenceRenderer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/sequence/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/LogoPainter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/SymbolStyle.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/BarLogoPainter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/DistributionLogo.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/DNAStyle.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/PlainStyle.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/SequencePanel.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/SequencePanel.Border.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/SimpleSymbolStyle.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/gui/TextLogoPainter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/UniformDistribution.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/Distribution.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/DistributionFactory.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/DistributionTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/DistributionTrainerContext.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/AbstractDistribution.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/ComplementaryDistribution.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/DistributionFactory.DefaultDistributionFactory.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/DNADistribution.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/GapDistribution.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/IgnoreCountsTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/PairDistribution.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/SimpleDistribution.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/SimpleDistributionTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/SimpleDistributionTrainerContext.html -share/java/biojava-1.01/docs/api/org/biojava/bio/dist/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/SimpleSeqSimilaritySearchSubHit.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/SeqSimilaritySearcher.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/SeqSimilaritySearchHit.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/SeqSimilaritySearchResult.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/SeqSimilaritySearchSubHit.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/SimpleSeqSimilaritySearchHit.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/SimpleSeqSimilaritySearchResult.html -share/java/biojava-1.01/docs/api/org/biojava/bio/search/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/SimpleSequenceDBInstallation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/IDMaker.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/SequenceDB.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/SequenceDBInstallation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/AnnotatedSequenceDB.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/CachingSequenceDB.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/HashSequenceDB.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/IDMaker.ByName.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/IDMaker.ByURN.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/IndexedSequenceDB.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/StreamWriter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/AlignmentFormat.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/FastaDescriptionReader.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/FeatureBuilder.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/SequenceFormat.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/DefaultDescriptionReader.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/EmblFormat.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/FastaFormat.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/GenbankFormat.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/SimpleFeatureBuilder.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/StreamReader.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/StreamReader.Context.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/Feature.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureHolder.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureRealizer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/RealizingFeatureHolder.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/Sequence.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/SequenceAnnotator.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/SequenceFactory.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/SequenceIterator.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/StrandedFeature.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/AbstractFeatureHolder.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/DNATools.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/Feature.Template.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.AcceptAllFilter.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.And.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.BySource.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.ByType.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.ContainedByLocation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.Not.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.Or.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureFilter.OverlapsLocation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/FeatureHolder.EmptyFeatureHolder.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/GeneticCode.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/MergeFeatureHolder.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/ProteinTools.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/SimpleFeatureHolder.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/SimpleFeatureRealizer.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/SimpleSequence.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/SimpleSequenceFactory.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/StrandedFeature.Strand.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/StrandedFeature.Template.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/ViewSequence.html -share/java/biojava-1.01/docs/api/org/biojava/bio/seq/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/IllegalSymbolException.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/Alignment.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/Alphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/AtomicSymbol.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/CrossProductAlphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/CrossProductSymbol.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/FiniteAlphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/Location.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/Symbol.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SymbolList.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SymbolParser.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/TranslationTable.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/AbstractAlphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/AbstractSymbolList.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/AllTokensAlphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/Alphabet.EmptyAlphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/AlphabetManager.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/AlphabetManager.ListWrapper.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/CompoundLocation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/CrossProductSymbolNameParser.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/DoubleAlphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/DoubleAlphabet.DoubleSymbol.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/FixedWidthParser.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/GappedSymbolList.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/IntegerAlphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/IntegerAlphabet.IntegerSymbol.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/Location.EmptyLocation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/Location.LocationComparator.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/NameParser.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/OrderNSymbolList.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/PointLocation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/RangeLocation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/ReverseSymbolList.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleAlignment.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleAlphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleAtomicSymbol.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleSymbol.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleSymbolList.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SimpleTranslationTable.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SingletonAlphabet.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SuffixTree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SuffixTree.SuffixNode.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/SymbolList.EmptySymbolList.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/TokenParser.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/TranslatedSymbolList.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/WindowedSymbolList.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/IllegalAlphabetException.html -share/java/biojava-1.01/docs/api/org/biojava/bio/symbol/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/SimpleAnnotation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/BioException.html -share/java/biojava-1.01/docs/api/org/biojava/bio/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bio/BioError.html -share/java/biojava-1.01/docs/api/org/biojava/bio/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bio/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bio/Annotatable.html -share/java/biojava-1.01/docs/api/org/biojava/bio/Annotation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/Annotation.EmptyAnnotation.html -share/java/biojava-1.01/docs/api/org/biojava/bio/OverlayAnnotation.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SymbolListAdapter.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/AnonymousSeqImpl.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/FeatureAdapter.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqDBImpl.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqImpl.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/PrimarySeqIteratorImpl.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SeqDBImpl.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureImpl.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SeqFeatureIteratorImpl.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SeqImpl.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SequenceAdapter.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SequenceDBAdapter.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/SequenceIteratorAdapter.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/GNOME/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/GNOME/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/GNOME/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/bridge/GNOME/UnknownImpl.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/TrainRegression.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.DepthScaler.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/ClassifierExample.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/ClassifierExample.PointClassifier.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/Classify.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.MultipleScalar.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.NullModelScaler.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.SelectionScalar.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SuffixTreeKernel.UniformScaler.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SVM_Light.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/SVM_Light.LabelledVector.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/Train.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/ItemValue.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SVMClassifierModel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SVMKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SVMTarget.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/TrainingContext.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/TrainingListener.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/AbstractSVMClassifierModel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/AbstractSVMTarget.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/CachingKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/DiagonalAddKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/DiagonalCachingKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/LinearKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/ListSumKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SMOTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/NestedKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/NormalizingKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/PolynomialKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/RadialBaseKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SigmoidKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SimpleItemValue.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SimpleSVMClassifierModel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SimpleSVMTarget.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SMORegressionTrainer.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SparseVector.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SparseVector.NormalizingKernel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/SVMRegressionModel.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/stats/svm/TrainingEvent.html -share/java/biojava-1.01/docs/api/org/biojava/utils/contract/Contract.html -share/java/biojava-1.01/docs/api/org/biojava/utils/contract/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/utils/contract/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/utils/contract/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/utils/contract/AssertionFailedException.html -share/java/biojava-1.01/docs/api/org/biojava/utils/contract/PostconditionNotMetException.html -share/java/biojava-1.01/docs/api/org/biojava/utils/contract/PreconditionNotMetException.html -share/java/biojava-1.01/docs/api/org/biojava/utils/xml/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/utils/xml/package-tree.html -share/java/biojava-1.01/docs/api/org/biojava/utils/xml/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/utils/xml/XMLPeerFactory.html -share/java/biojava-1.01/docs/api/org/biojava/utils/xml/XMLDispatcher.html -share/java/biojava-1.01/docs/api/org/biojava/utils/xml/XMLPeerBuilder.html -share/java/biojava-1.01/docs/api/org/biojava/utils/package-frame.html -share/java/biojava-1.01/docs/api/org/biojava/utils/ObjectUtil.html -share/java/biojava-1.01/docs/api/org/biojava/utils/StaticMemberPlaceHolder.html -share/java/biojava-1.01/docs/api/org/biojava/utils/TypedProperties.html -share/java/biojava-1.01/docs/api/org/biojava/utils/package-summary.html -share/java/biojava-1.01/docs/api/org/biojava/utils/ParserException.html -share/java/biojava-1.01/docs/api/org/biojava/utils/package-tree.html -share/java/biojava-1.01/docs/api/deprecated-list.html -share/java/biojava-1.01/docs/api/allclasses-frame.html -share/java/biojava-1.01/docs/api/index.html -share/java/biojava-1.01/docs/api/packages.html -share/java/biojava-1.01/docs/api/overview-summary.html -share/java/biojava-1.01/docs/api/overview-frame.html -share/java/biojava-1.01/docs/api/serialized-form.html -share/java/biojava-1.01/docs/api/package-list -share/java/biojava-1.01/docs/api/help-doc.html -share/java/biojava-1.01/docs/api/overview-tree.html -share/java/biojava-1.01/docs/api/stylesheet.css -share/java/biojava-1.01/docs/api/index-all.html +%%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 @dirrm share/java/classes -@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 -@dirrm share/java/biojava-1.01/docs/api/GNOME -@dirrm share/java/biojava-1.01/docs/api/org/acedb/socket -@dirrm share/java/biojava-1.01/docs/api/org/acedb/staticobj -@dirrm share/java/biojava-1.01/docs/api/org/acedb/seq -@dirrm share/java/biojava-1.01/docs/api/org/acedb -@dirrm share/java/biojava-1.01/docs/api/org/Biocorba/Seqcore -@dirrm share/java/biojava-1.01/docs/api/org/Biocorba -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/program/gff -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/program -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/dp -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/gui/sequence -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/gui -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/dist -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/search -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/seq/db -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/seq/io -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/seq -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio/symbol -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bio -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba/Seqcore -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bridge/Biocorba -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bridge/GNOME -@dirrm share/java/biojava-1.01/docs/api/org/biojava/bridge -@dirrm share/java/biojava-1.01/docs/api/org/biojava/stats/svm/tools -@dirrm share/java/biojava-1.01/docs/api/org/biojava/stats/svm -@dirrm share/java/biojava-1.01/docs/api/org/biojava/stats -@dirrm share/java/biojava-1.01/docs/api/org/biojava/utils/contract -@dirrm share/java/biojava-1.01/docs/api/org/biojava/utils/xml -@dirrm share/java/biojava-1.01/docs/api/org/biojava/utils -@dirrm share/java/biojava-1.01/docs/api/org/biojava -@dirrm share/java/biojava-1.01/docs/api/org -@dirrm share/java/biojava-1.01/docs/api -@dirrm share/java/biojava-1.01/docs -@dirrm share/java/biojava-1.01 -@dirrm share/java +%%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 +%%PORTDOCS%%@dirrm share/doc/biojava-1.01 diff --git a/biology/fastdnaml/Makefile b/biology/fastdnaml/Makefile index 494e6a26a907..9a42e40174a1 100644 --- a/biology/fastdnaml/Makefile +++ b/biology/fastdnaml/Makefile @@ -25,7 +25,7 @@ do-install: post-install: .if !defined(NOPORTDOCS) ${MKDIR} ${PREFIX}/share/doc/${PORTNAME} - ${INSTALL_MAN} ${WRKSRC}/docs/*.txt ${PREFIX}/share/doc/${PORTNAME} + ${INSTALL_DATA} ${WRKSRC}/docs/*.txt ${PREFIX}/share/doc/${PORTNAME} .endif .include <bsd.port.mk> diff --git a/biology/fastdnaml/pkg-plist b/biology/fastdnaml/pkg-plist index d2d7d1f04e57..cc19e20c3922 100644 --- a/biology/fastdnaml/pkg-plist +++ b/biology/fastdnaml/pkg-plist @@ -32,7 +32,7 @@ bin/fastdnaml/usertree bin/fastdnaml/usertrees bin/fastdnaml/weights bin/fastdnaml/weights_categories -share/doc/fastdnaml/fastDNAml_doc_1.2.txt -share/doc/fastdnaml/fastDNAml_scripts.txt +%%PORTDOCS%%share/doc/fastdnaml/fastDNAml_doc_1.2.txt +%%PORTDOCS%%share/doc/fastdnaml/fastDNAml_scripts.txt @dirrm bin/fastdnaml -@dirrm share/doc/fastdnaml +%%PORTDOCS%%@dirrm share/doc/fastdnaml diff --git a/biology/molden/pkg-plist b/biology/molden/pkg-plist index ed451a6d4716..76ccf186cf28 100644 --- a/biology/molden/pkg-plist +++ b/biology/molden/pkg-plist @@ -1,52 +1,52 @@ bin/molden -share/doc/molden/figures.ps.Z -share/doc/molden/manual.ps.Z -share/doc/molden/manual.txt.Z -share/molden/test/adf.molf -share/molden/test/ampac.arc -share/molden/test/ampac.test -share/molden/test/bucky.xyz -share/molden/test/chemx.test -share/molden/test/complex2.out -share/molden/test/esp.test -share/molden/test/esp.txt -share/molden/test/esp.xyz -share/molden/test/fragment -share/molden/test/gamess_uk.freq -share/molden/test/gamess_uk.input -share/molden/test/gamess_uk.test1 -share/molden/test/gamess_uk.test2 -share/molden/test/gamess_us.h2o_631g_opt.out -share/molden/test/gamess_us.irc -share/molden/test/gamess_us_uhf_opt -share/molden/test/gaussian.freq -share/molden/test/gaussian.input -share/molden/test/gaussian.test -share/molden/test/jaguar.cube -share/molden/test/mopac.freq -share/molden/test/mopac.test -share/molden/test/pdb.test -share/molden/test/reacpth.xyz -share/molden/test/shelx.ins -share/molden/test/surface.molf -share/molden/test/test.fdat -share/molden/test/test.mol2 -share/molden/test/test_homo.cube -share/molden/test/tinker_charmm.xyz -share/molden/test/tinker_mm3.xyz -share/molden/test/uracil.fdat -share/molden/test/uracil_gauss.out -share/molden/test/vamp.test -share/molden/utils/INFO -share/molden/utils/ch_backspace -share/molden/utils/ch_mxcon -share/molden/utils/ch_par -share/molden/utils/colors -share/molden/utils/ircextract.awk -share/molden/utils/molden -share/molden/utils/multi_vrml.csh -share/molden/utils/multi_vrml_orbitals.csh -@dirrm share/molden/test -@dirrm share/molden/utils -@dirrm share/molden -@dirrm share/doc/molden +%%PORTDOCS%%share/doc/molden/figures.ps.Z +%%PORTDOCS%%share/doc/molden/manual.ps.Z +%%PORTDOCS%%share/doc/molden/manual.txt.Z +%%PORTDOCS%%share/molden/test/adf.molf +%%PORTDOCS%%share/molden/test/ampac.arc +%%PORTDOCS%%share/molden/test/ampac.test +%%PORTDOCS%%share/molden/test/bucky.xyz +%%PORTDOCS%%share/molden/test/chemx.test +%%PORTDOCS%%share/molden/test/complex2.out +%%PORTDOCS%%share/molden/test/esp.test +%%PORTDOCS%%share/molden/test/esp.txt +%%PORTDOCS%%share/molden/test/esp.xyz +%%PORTDOCS%%share/molden/test/fragment +%%PORTDOCS%%share/molden/test/gamess_uk.freq +%%PORTDOCS%%share/molden/test/gamess_uk.input +%%PORTDOCS%%share/molden/test/gamess_uk.test1 +%%PORTDOCS%%share/molden/test/gamess_uk.test2 +%%PORTDOCS%%share/molden/test/gamess_us.h2o_631g_opt.out +%%PORTDOCS%%share/molden/test/gamess_us.irc +%%PORTDOCS%%share/molden/test/gamess_us_uhf_opt +%%PORTDOCS%%share/molden/test/gaussian.freq +%%PORTDOCS%%share/molden/test/gaussian.input +%%PORTDOCS%%share/molden/test/gaussian.test +%%PORTDOCS%%share/molden/test/jaguar.cube +%%PORTDOCS%%share/molden/test/mopac.freq +%%PORTDOCS%%share/molden/test/mopac.test +%%PORTDOCS%%share/molden/test/pdb.test +%%PORTDOCS%%share/molden/test/reacpth.xyz +%%PORTDOCS%%share/molden/test/shelx.ins +%%PORTDOCS%%share/molden/test/surface.molf +%%PORTDOCS%%share/molden/test/test.fdat +%%PORTDOCS%%share/molden/test/test.mol2 +%%PORTDOCS%%share/molden/test/test_homo.cube +%%PORTDOCS%%share/molden/test/tinker_charmm.xyz +%%PORTDOCS%%share/molden/test/tinker_mm3.xyz +%%PORTDOCS%%share/molden/test/uracil.fdat +%%PORTDOCS%%share/molden/test/uracil_gauss.out +%%PORTDOCS%%share/molden/test/vamp.test +%%PORTDOCS%%share/molden/utils/INFO +%%PORTDOCS%%share/molden/utils/ch_backspace +%%PORTDOCS%%share/molden/utils/ch_mxcon +%%PORTDOCS%%share/molden/utils/ch_par +%%PORTDOCS%%share/molden/utils/colors +%%PORTDOCS%%share/molden/utils/ircextract.awk +%%PORTDOCS%%share/molden/utils/molden +%%PORTDOCS%%share/molden/utils/multi_vrml.csh +%%PORTDOCS%%share/molden/utils/multi_vrml_orbitals.csh +%%PORTDOCS%%@dirrm share/molden/test +%%PORTDOCS%%@dirrm share/molden/utils +%%PORTDOCS%%@dirrm share/molden +%%PORTDOCS%%@dirrm share/doc/molden diff --git a/biology/mopac/pkg-plist b/biology/mopac/pkg-plist index c5b16ce925c0..7a49ffbf6757 100644 --- a/biology/mopac/pkg-plist +++ b/biology/mopac/pkg-plist @@ -1,19 +1,19 @@ bin/MOPAC7 bin/rmopac -share/doc/mopac/mopac.tex -share/doc/mopac/mopac.dvi -share/examples/mopac/h2o.dat -share/mopac/test/test_cos.dat -share/mopac/test/test_cos.out -share/mopac/test/test_ef_.dat -share/mopac/test/test_ef_.out -share/mopac/test/test_gre.dat -share/mopac/test/test_gre.end -share/mopac/test/test_gre.out -share/mopac/test/test_pol.dat -share/mopac/test/test_pol.out -share/mopac/test/test.csh -@dirrm share/examples/mopac -@dirrm share/doc/mopac -@dirrm share/mopac/test -@dirrm share/mopac +%%PORTDOCS%%share/doc/mopac/mopac.tex +%%PORTDOCS%%share/doc/mopac/mopac.dvi +%%PORTDOCS%%share/examples/mopac/h2o.dat +%%PORTDOCS%%share/mopac/test/test_cos.dat +%%PORTDOCS%%share/mopac/test/test_cos.out +%%PORTDOCS%%share/mopac/test/test_ef_.dat +%%PORTDOCS%%share/mopac/test/test_ef_.out +%%PORTDOCS%%share/mopac/test/test_gre.dat +%%PORTDOCS%%share/mopac/test/test_gre.end +%%PORTDOCS%%share/mopac/test/test_gre.out +%%PORTDOCS%%share/mopac/test/test_pol.dat +%%PORTDOCS%%share/mopac/test/test_pol.out +%%PORTDOCS%%share/mopac/test/test.csh +%%PORTDOCS%%@dirrm share/examples/mopac +%%PORTDOCS%%@dirrm share/doc/mopac +%%PORTDOCS%%@dirrm share/mopac/test +%%PORTDOCS%%@dirrm share/mopac diff --git a/biology/psi88/Makefile b/biology/psi88/Makefile index 36654e4ca86a..e814c3c2b8ba 100644 --- a/biology/psi88/Makefile +++ b/biology/psi88/Makefile @@ -29,9 +29,9 @@ post-install: .if !defined(NOPORTDOCS) ${MKDIR} ${PREFIX}/share/doc/psi88 ${MKDIR} ${PREFIX}/share/doc/psi88/examples - ${INSTALL_MAN} ${WRKDIR}/${DISTNAME}/README ${PREFIX}/share/doc/psi88 - ${INSTALL_MAN} ${WRKDIR}/${DISTNAME}/psi88.doc ${PREFIX}/share/doc/psi88 - ${INSTALL_MAN} ${WRKDIR}/${DISTNAME}/examples/* ${PREFIX}/share/doc/psi88/examples + @${INSTALL_DATA} ${WRKDIR}/${DISTNAME}/README ${PREFIX}/share/doc/psi88 + @${INSTALL_DATA} ${WRKDIR}/${DISTNAME}/psi88.doc ${PREFIX}/share/doc/psi88 + @${INSTALL_DATA} ${WRKDIR}/${DISTNAME}/examples/* ${PREFIX}/share/doc/psi88/examples .endif .include <bsd.port.mk> diff --git a/biology/psi88/pkg-plist b/biology/psi88/pkg-plist index ce0007c57359..1c5f1e9f5714 100644 --- a/biology/psi88/pkg-plist +++ b/biology/psi88/pkg-plist @@ -9,22 +9,22 @@ bin/preplot bin/rpsi1 bin/rpsi2 bin/rpsicon -share/doc/psi88/psi88.doc -share/doc/psi88/README -share/doc/psi88/examples/ad634a.psi1 -share/doc/psi88/examples/ad634a.psi2 -share/doc/psi88/examples/ad634a.psicon -share/doc/psi88/examples/ad635a.psi1 -share/doc/psi88/examples/ad635a.psi2 -share/doc/psi88/examples/ad635a.psicon -share/doc/psi88/examples/ad636a.psi1 -share/doc/psi88/examples/ad636a.psi2 -share/doc/psi88/examples/ad636a.psicon -share/doc/psi88/examples/ch3cl.psi1 -share/doc/psi88/examples/ch3cl.psi2 -share/doc/psi88/examples/ch3cl.psicon -share/doc/psi88/examples/test.psi1 -share/doc/psi88/examples/test.psi2 -share/doc/psi88/examples/test.psicon -@dirrm share/doc/psi88/examples -@dirrm share/doc/psi88 +%%PORTDOCS%%share/doc/psi88/psi88.doc +%%PORTDOCS%%share/doc/psi88/README +%%PORTDOCS%%share/doc/psi88/examples/ad634a.psi1 +%%PORTDOCS%%share/doc/psi88/examples/ad634a.psi2 +%%PORTDOCS%%share/doc/psi88/examples/ad634a.psicon +%%PORTDOCS%%share/doc/psi88/examples/ad635a.psi1 +%%PORTDOCS%%share/doc/psi88/examples/ad635a.psi2 +%%PORTDOCS%%share/doc/psi88/examples/ad635a.psicon +%%PORTDOCS%%share/doc/psi88/examples/ad636a.psi1 +%%PORTDOCS%%share/doc/psi88/examples/ad636a.psi2 +%%PORTDOCS%%share/doc/psi88/examples/ad636a.psicon +%%PORTDOCS%%share/doc/psi88/examples/ch3cl.psi1 +%%PORTDOCS%%share/doc/psi88/examples/ch3cl.psi2 +%%PORTDOCS%%share/doc/psi88/examples/ch3cl.psicon +%%PORTDOCS%%share/doc/psi88/examples/test.psi1 +%%PORTDOCS%%share/doc/psi88/examples/test.psi2 +%%PORTDOCS%%share/doc/psi88/examples/test.psicon +%%PORTDOCS%%@dirrm share/doc/psi88/examples +%%PORTDOCS%%@dirrm share/doc/psi88 diff --git a/biology/tinker/pkg-plist b/biology/tinker/pkg-plist index 4253b71400d9..afba39f57dc1 100644 --- a/biology/tinker/pkg-plist +++ b/biology/tinker/pkg-plist @@ -48,348 +48,348 @@ bin/xyzedit bin/xyzint bin/xyzpdb bin/xyzsybyl -share/doc/tinker/README -share/doc/tinker/announce.txt -share/doc/tinker/guide.pdf -share/doc/tinker/guide.ps.gz -share/doc/tinker/guide.txt -share/doc/tinker/license.pdf -share/doc/tinker/license.ps -share/doc/tinker/license.txt -share/doc/tinker/logo.pdf -share/doc/tinker/logo.ps.gz -share/doc/tinker/summary.pdf -share/doc/tinker/summary.ps -share/doc/tinker/summary.txt -share/examples/tinker/README -share/examples/tinker/anion.dat -share/examples/tinker/anion.dyn0 -share/examples/tinker/anion.key -share/examples/tinker/anion.log -share/examples/tinker/anion.run -share/examples/tinker/anion.xyz -share/examples/tinker/argon.1st -share/examples/tinker/argon.key -share/examples/tinker/argon.log -share/examples/tinker/argon.run -share/examples/tinker/clean.make -share/examples/tinker/cluster.dat -share/examples/tinker/cluster.key -share/examples/tinker/cluster.log -share/examples/tinker/cluster.run -share/examples/tinker/cluster.xyz -share/examples/tinker/crambin.key -share/examples/tinker/crambin.log -share/examples/tinker/crambin.pdb -share/examples/tinker/crambin.run -share/examples/tinker/cyclohex.boat -share/examples/tinker/cyclohex.chair -share/examples/tinker/cyclohex.key -share/examples/tinker/cyclohex.log -share/examples/tinker/cyclohex.run -share/examples/tinker/enkephalin.dat -share/examples/tinker/enkephalin.key -share/examples/tinker/enkephalin.log -share/examples/tinker/enkephalin.run -share/examples/tinker/formamide.cell -share/examples/tinker/formamide.dat -share/examples/tinker/formamide.key -share/examples/tinker/formamide.log -share/examples/tinker/formamide.run -share/examples/tinker/helix.1st -share/examples/tinker/helix.key -share/examples/tinker/helix.log -share/examples/tinker/helix.run -share/examples/tinker/salt.cell -share/examples/tinker/salt.key -share/examples/tinker/salt.log -share/examples/tinker/salt.run -share/tinker/bench/bench-1.key -share/tinker/bench/bench-1.run -share/tinker/bench/bench-1.xyz -share/tinker/bench/bench-2.key -share/tinker/bench/bench-2.run -share/tinker/bench/bench-2.xyz -share/tinker/bench/bench-3.key -share/tinker/bench/bench-3.run -share/tinker/bench/bench-3.xyz -share/tinker/bench/bench-4.dyn0 -share/tinker/bench/bench-4.key -share/tinker/bench/bench-4.log -share/tinker/bench/bench-4.run -share/tinker/bench/bench-4.xyz -share/tinker/bench/bench-5.dyn0 -share/tinker/bench/bench-5.key -share/tinker/bench/bench-5.run -share/tinker/bench/bench-5.xyz -share/tinker/bench/results-2.3 -share/tinker/bench/results-2.4 -share/tinker/bench/results-2.9 -share/tinker/bench/results-3.1 -share/tinker/bench/results-3.2 -share/tinker/bench/results-3.4 -share/tinker/bench/results-3.5 -share/tinker/bench/results-3.7 -share/tinker/bench/results-3.8 -share/tinker/params/README -share/tinker/params/amber.prm -share/tinker/params/amberN.prm -share/tinker/params/charmm.prm -share/tinker/params/emr.prm -share/tinker/params/hoch.prm -share/tinker/params/mm2.prm -share/tinker/params/mm3.prm -share/tinker/params/mm3pro.prm -share/tinker/params/opls.prm -share/tinker/params/oplsaa.prm -share/tinker/params/smooth.prm -share/tinker/params/smoothaa.prm -share/tinker/params/tinker.prm -share/tinker/params/water.prm -share/tinker/test/README -share/tinker/test/ala20.key -share/tinker/test/ala20.xyz -share/tinker/test/alkane.key -share/tinker/test/alkane.xyz -share/tinker/test/arach.int -share/tinker/test/arach.key -share/tinker/test/arach.xyz -share/tinker/test/azulene.int -share/tinker/test/azulene.key -share/tinker/test/azulene.xyz -share/tinker/test/bdna.int -share/tinker/test/bdna.key -share/tinker/test/bdna.make -share/tinker/test/bdna.seq -share/tinker/test/bdna.xyz -share/tinker/test/bearing.key -share/tinker/test/bearing.pdb -share/tinker/test/bearing.xyz -share/tinker/test/bearing2.key -share/tinker/test/bearing2.pdb -share/tinker/test/bearing2.xyz -share/tinker/test/benzene.int -share/tinker/test/benzene.key -share/tinker/test/benzene.xyz -share/tinker/test/bowl.int -share/tinker/test/bowl.key -share/tinker/test/bowl.xyz -share/tinker/test/bowl2.key -share/tinker/test/bowl2.xyz -share/tinker/test/bowl3.key -share/tinker/test/bowl3.xyz -share/tinker/test/butane.int -share/tinker/test/butane.key -share/tinker/test/butane.xyz -share/tinker/test/butane2.int -share/tinker/test/butane2.key -share/tinker/test/butane2.xyz -share/tinker/test/butanes.dyn -share/tinker/test/butanes.key -share/tinker/test/butanes.xyz -share/tinker/test/butanex.key -share/tinker/test/butanex.xyz -share/tinker/test/butopls.int -share/tinker/test/butopls.key -share/tinker/test/butopls.xyz -share/tinker/test/butopls2.int -share/tinker/test/butopls2.key -share/tinker/test/butopls2.xyz -share/tinker/test/c5.key -share/tinker/test/c5.seq -share/tinker/test/c5.xyz -share/tinker/test/c7ax.key -share/tinker/test/c7ax.seq -share/tinker/test/c7ax.xyz -share/tinker/test/c7eq.key -share/tinker/test/c7eq.seq -share/tinker/test/c7eq.xyz -share/tinker/test/calmodulin.key -share/tinker/test/calmodulin.pdb -share/tinker/test/calmodulin.seq -share/tinker/test/calmodulin.xyz -share/tinker/test/cpentene.key -share/tinker/test/cpentene.xyz -share/tinker/test/crambin.key -share/tinker/test/crambin.min -share/tinker/test/crambin.pdb -share/tinker/test/crambin.seq -share/tinker/test/crambin.super -share/tinker/test/crambin.xyz -share/tinker/test/crambinx.key -share/tinker/test/crambinx.ray -share/tinker/test/crambinx.xyz -share/tinker/test/crown.int -share/tinker/test/crown.key -share/tinker/test/crown.xyz -share/tinker/test/cychept.int -share/tinker/test/cychept.key -share/tinker/test/cychept.xyz -share/tinker/test/cyclo.int -share/tinker/test/cyclo.key -share/tinker/test/cyclo.xyz -share/tinker/test/cyclo2.int -share/tinker/test/cyclo2.key -share/tinker/test/cyclo2.xyz -share/tinker/test/diene.int -share/tinker/test/diene.key -share/tinker/test/diene.xyz -share/tinker/test/dimethane.key -share/tinker/test/dimethane.xyz -share/tinker/test/diwater.key -share/tinker/test/diwater.lin -share/tinker/test/diwater.min -share/tinker/test/diwater.xyz -share/tinker/test/enkephalin.int -share/tinker/test/enkephalin.key -share/tinker/test/enkephalin.make -share/tinker/test/enkephalin.seq -share/tinker/test/enkephalin.xyz -share/tinker/test/ermer.int -share/tinker/test/ermer.key -share/tinker/test/ermer.xyz -share/tinker/test/ester.key -share/tinker/test/ester.xyz -share/tinker/test/ethane.int -share/tinker/test/ethane.key -share/tinker/test/ethane.xyz -share/tinker/test/ethanol.int -share/tinker/test/ethanol.key -share/tinker/test/ethanol.xyz -share/tinker/test/ethylene.int -share/tinker/test/ethylene.key -share/tinker/test/ethylene.xyz -share/tinker/test/flane.int -share/tinker/test/flane.key -share/tinker/test/flane.xyz -share/tinker/test/form.key -share/tinker/test/form.xyz -share/tinker/test/formbig.key -share/tinker/test/formbig.xyz -share/tinker/test/formbox.key -share/tinker/test/formbox.xyz -share/tinker/test/furan.int -share/tinker/test/furan.key -share/tinker/test/furan.xyz -share/tinker/test/glucose.key -share/tinker/test/glucose.xyz -share/tinker/test/helix.key -share/tinker/test/helix.xyz -share/tinker/test/hexane.int -share/tinker/test/hexane.key -share/tinker/test/hexane.xyz -share/tinker/test/hexanes.dyn -share/tinker/test/hexanes.key -share/tinker/test/hexanes.run -share/tinker/test/hexanes.xyz -share/tinker/test/imidazole.int -share/tinker/test/imidazole.key -share/tinker/test/imidazole.xyz -share/tinker/test/imine.int -share/tinker/test/imine.key -share/tinker/test/imine.xyz -share/tinker/test/lactam.key -share/tinker/test/lactam.xyz -share/tinker/test/melittin.key -share/tinker/test/melittin.pdb -share/tinker/test/melittin.seq -share/tinker/test/melittin.xyz -share/tinker/test/methane.int -share/tinker/test/methane.key -share/tinker/test/methane.xyz -share/tinker/test/methanol.key -share/tinker/test/methanol.xyz -share/tinker/test/nacl.key -share/tinker/test/nacl.xyz -share/tinker/test/naphthalene.key -share/tinker/test/naphthalene.xyz -share/tinker/test/nma.int -share/tinker/test/nma.key -share/tinker/test/nma.xyz -share/tinker/test/nmabox.dyn -share/tinker/test/nmabox.key -share/tinker/test/nmabox.xyz -share/tinker/test/nstilbene.int -share/tinker/test/nstilbene.key -share/tinker/test/nstilbene.xyz -share/tinker/test/octane.int -share/tinker/test/octane.key -share/tinker/test/octane.xyz -share/tinker/test/octane2.int -share/tinker/test/octane2.key -share/tinker/test/octane2.xyz -share/tinker/test/octene.key -share/tinker/test/octene.xyz -share/tinker/test/palmitate.key -share/tinker/test/palmitate.xyz -share/tinker/test/peptide.int -share/tinker/test/peptide.key -share/tinker/test/peptide.make -share/tinker/test/peptide.min -share/tinker/test/peptide.pdb -share/tinker/test/peptide.seq -share/tinker/test/peptide.xyz -share/tinker/test/phenanth.key -share/tinker/test/phenanth.xyz -share/tinker/test/photo.key -share/tinker/test/photo.pdb -share/tinker/test/photo.seq -share/tinker/test/photo.xyz -share/tinker/test/propane.key -share/tinker/test/propane.ray -share/tinker/test/propane.xyz -share/tinker/test/propellane.int -share/tinker/test/propellane.key -share/tinker/test/propellane.xyz -share/tinker/test/propyne.key -share/tinker/test/propyne.xyz -share/tinker/test/pyridine.int -share/tinker/test/pyridine.key -share/tinker/test/pyridine.xyz -share/tinker/test/pyrrole.int -share/tinker/test/pyrrole.key -share/tinker/test/pyrrole.xyz -share/tinker/test/retinoic.key -share/tinker/test/retinoic.xyz -share/tinker/test/sterol.key -share/tinker/test/sterol.xyz -share/tinker/test/styrene.int -share/tinker/test/styrene.key -share/tinker/test/styrene.xyz -share/tinker/test/thiadiene.int -share/tinker/test/thiadiene.key -share/tinker/test/thiadiene.xyz -share/tinker/test/thiophene.int -share/tinker/test/thiophene.key -share/tinker/test/thiophene.xyz -share/tinker/test/thr.int -share/tinker/test/thr.key -share/tinker/test/thr.xyz -share/tinker/test/tip5p.key -share/tinker/test/tip5p.xyz -share/tinker/test/water.int -share/tinker/test/water.key -share/tinker/test/water.xyz -share/tinker/test/waterbig.key -share/tinker/test/waterbig.xyz -share/tinker/test/waterbox.dyn -share/tinker/test/waterbox.key -share/tinker/test/waterbox.xyz -share/tinker/test/waterhuge.key -share/tinker/test/waterhuge.xyz -share/tinker/test/wateroct.dyn -share/tinker/test/wateroct.key -share/tinker/test/wateroct.xyz -share/tinker/test/watersmall.dyn -share/tinker/test/watersmall.key -share/tinker/test/watersmall.xyz -share/tinker/test/white.int -share/tinker/test/white.key -share/tinker/test/white.xyz -share/tinker/tinker.txt -@dirrm share/doc/tinker -@dirrm share/examples/tinker -@dirrm share/tinker/bench -@dirrm share/tinker/params -@dirrm share/tinker/test -@dirrm share/tinker +%%PORTDOCS%%share/doc/tinker/README +%%PORTDOCS%%share/doc/tinker/announce.txt +%%PORTDOCS%%share/doc/tinker/guide.pdf +%%PORTDOCS%%share/doc/tinker/guide.ps.gz +%%PORTDOCS%%share/doc/tinker/guide.txt +%%PORTDOCS%%share/doc/tinker/license.pdf +%%PORTDOCS%%share/doc/tinker/license.ps +%%PORTDOCS%%share/doc/tinker/license.txt +%%PORTDOCS%%share/doc/tinker/logo.pdf +%%PORTDOCS%%share/doc/tinker/logo.ps.gz +%%PORTDOCS%%share/doc/tinker/summary.pdf +%%PORTDOCS%%share/doc/tinker/summary.ps +%%PORTDOCS%%share/doc/tinker/summary.txt +%%PORTDOCS%%share/examples/tinker/README +%%PORTDOCS%%share/examples/tinker/anion.dat +%%PORTDOCS%%share/examples/tinker/anion.dyn0 +%%PORTDOCS%%share/examples/tinker/anion.key +%%PORTDOCS%%share/examples/tinker/anion.log +%%PORTDOCS%%share/examples/tinker/anion.run +%%PORTDOCS%%share/examples/tinker/anion.xyz +%%PORTDOCS%%share/examples/tinker/argon.1st +%%PORTDOCS%%share/examples/tinker/argon.key +%%PORTDOCS%%share/examples/tinker/argon.log +%%PORTDOCS%%share/examples/tinker/argon.run +%%PORTDOCS%%share/examples/tinker/clean.make +%%PORTDOCS%%share/examples/tinker/cluster.dat +%%PORTDOCS%%share/examples/tinker/cluster.key +%%PORTDOCS%%share/examples/tinker/cluster.log +%%PORTDOCS%%share/examples/tinker/cluster.run +%%PORTDOCS%%share/examples/tinker/cluster.xyz +%%PORTDOCS%%share/examples/tinker/crambin.key +%%PORTDOCS%%share/examples/tinker/crambin.log +%%PORTDOCS%%share/examples/tinker/crambin.pdb +%%PORTDOCS%%share/examples/tinker/crambin.run +%%PORTDOCS%%share/examples/tinker/cyclohex.boat +%%PORTDOCS%%share/examples/tinker/cyclohex.chair +%%PORTDOCS%%share/examples/tinker/cyclohex.key +%%PORTDOCS%%share/examples/tinker/cyclohex.log +%%PORTDOCS%%share/examples/tinker/cyclohex.run +%%PORTDOCS%%share/examples/tinker/enkephalin.dat +%%PORTDOCS%%share/examples/tinker/enkephalin.key +%%PORTDOCS%%share/examples/tinker/enkephalin.log +%%PORTDOCS%%share/examples/tinker/enkephalin.run +%%PORTDOCS%%share/examples/tinker/formamide.cell +%%PORTDOCS%%share/examples/tinker/formamide.dat +%%PORTDOCS%%share/examples/tinker/formamide.key +%%PORTDOCS%%share/examples/tinker/formamide.log +%%PORTDOCS%%share/examples/tinker/formamide.run +%%PORTDOCS%%share/examples/tinker/helix.1st +%%PORTDOCS%%share/examples/tinker/helix.key +%%PORTDOCS%%share/examples/tinker/helix.log +%%PORTDOCS%%share/examples/tinker/helix.run +%%PORTDOCS%%share/examples/tinker/salt.cell +%%PORTDOCS%%share/examples/tinker/salt.key +%%PORTDOCS%%share/examples/tinker/salt.log +%%PORTDOCS%%share/examples/tinker/salt.run +%%PORTDOCS%%share/tinker/bench/bench-1.key +%%PORTDOCS%%share/tinker/bench/bench-1.run +%%PORTDOCS%%share/tinker/bench/bench-1.xyz +%%PORTDOCS%%share/tinker/bench/bench-2.key +%%PORTDOCS%%share/tinker/bench/bench-2.run +%%PORTDOCS%%share/tinker/bench/bench-2.xyz +%%PORTDOCS%%share/tinker/bench/bench-3.key +%%PORTDOCS%%share/tinker/bench/bench-3.run +%%PORTDOCS%%share/tinker/bench/bench-3.xyz +%%PORTDOCS%%share/tinker/bench/bench-4.dyn0 +%%PORTDOCS%%share/tinker/bench/bench-4.key +%%PORTDOCS%%share/tinker/bench/bench-4.log +%%PORTDOCS%%share/tinker/bench/bench-4.run +%%PORTDOCS%%share/tinker/bench/bench-4.xyz +%%PORTDOCS%%share/tinker/bench/bench-5.dyn0 +%%PORTDOCS%%share/tinker/bench/bench-5.key +%%PORTDOCS%%share/tinker/bench/bench-5.run +%%PORTDOCS%%share/tinker/bench/bench-5.xyz +%%PORTDOCS%%share/tinker/bench/results-2.3 +%%PORTDOCS%%share/tinker/bench/results-2.4 +%%PORTDOCS%%share/tinker/bench/results-2.9 +%%PORTDOCS%%share/tinker/bench/results-3.1 +%%PORTDOCS%%share/tinker/bench/results-3.2 +%%PORTDOCS%%share/tinker/bench/results-3.4 +%%PORTDOCS%%share/tinker/bench/results-3.5 +%%PORTDOCS%%share/tinker/bench/results-3.7 +%%PORTDOCS%%share/tinker/bench/results-3.8 +%%PORTDOCS%%share/tinker/params/README +%%PORTDOCS%%share/tinker/params/amber.prm +%%PORTDOCS%%share/tinker/params/amberN.prm +%%PORTDOCS%%share/tinker/params/charmm.prm +%%PORTDOCS%%share/tinker/params/emr.prm +%%PORTDOCS%%share/tinker/params/hoch.prm +%%PORTDOCS%%share/tinker/params/mm2.prm +%%PORTDOCS%%share/tinker/params/mm3.prm +%%PORTDOCS%%share/tinker/params/mm3pro.prm +%%PORTDOCS%%share/tinker/params/opls.prm +%%PORTDOCS%%share/tinker/params/oplsaa.prm +%%PORTDOCS%%share/tinker/params/smooth.prm +%%PORTDOCS%%share/tinker/params/smoothaa.prm +%%PORTDOCS%%share/tinker/params/tinker.prm +%%PORTDOCS%%share/tinker/params/water.prm +%%PORTDOCS%%share/tinker/test/README +%%PORTDOCS%%share/tinker/test/ala20.key +%%PORTDOCS%%share/tinker/test/ala20.xyz +%%PORTDOCS%%share/tinker/test/alkane.key +%%PORTDOCS%%share/tinker/test/alkane.xyz +%%PORTDOCS%%share/tinker/test/arach.int +%%PORTDOCS%%share/tinker/test/arach.key +%%PORTDOCS%%share/tinker/test/arach.xyz +%%PORTDOCS%%share/tinker/test/azulene.int +%%PORTDOCS%%share/tinker/test/azulene.key +%%PORTDOCS%%share/tinker/test/azulene.xyz +%%PORTDOCS%%share/tinker/test/bdna.int +%%PORTDOCS%%share/tinker/test/bdna.key +%%PORTDOCS%%share/tinker/test/bdna.make +%%PORTDOCS%%share/tinker/test/bdna.seq +%%PORTDOCS%%share/tinker/test/bdna.xyz +%%PORTDOCS%%share/tinker/test/bearing.key +%%PORTDOCS%%share/tinker/test/bearing.pdb +%%PORTDOCS%%share/tinker/test/bearing.xyz +%%PORTDOCS%%share/tinker/test/bearing2.key +%%PORTDOCS%%share/tinker/test/bearing2.pdb +%%PORTDOCS%%share/tinker/test/bearing2.xyz +%%PORTDOCS%%share/tinker/test/benzene.int +%%PORTDOCS%%share/tinker/test/benzene.key +%%PORTDOCS%%share/tinker/test/benzene.xyz +%%PORTDOCS%%share/tinker/test/bowl.int +%%PORTDOCS%%share/tinker/test/bowl.key +%%PORTDOCS%%share/tinker/test/bowl.xyz +%%PORTDOCS%%share/tinker/test/bowl2.key +%%PORTDOCS%%share/tinker/test/bowl2.xyz +%%PORTDOCS%%share/tinker/test/bowl3.key +%%PORTDOCS%%share/tinker/test/bowl3.xyz +%%PORTDOCS%%share/tinker/test/butane.int +%%PORTDOCS%%share/tinker/test/butane.key +%%PORTDOCS%%share/tinker/test/butane.xyz +%%PORTDOCS%%share/tinker/test/butane2.int +%%PORTDOCS%%share/tinker/test/butane2.key +%%PORTDOCS%%share/tinker/test/butane2.xyz +%%PORTDOCS%%share/tinker/test/butanes.dyn +%%PORTDOCS%%share/tinker/test/butanes.key +%%PORTDOCS%%share/tinker/test/butanes.xyz +%%PORTDOCS%%share/tinker/test/butanex.key +%%PORTDOCS%%share/tinker/test/butanex.xyz +%%PORTDOCS%%share/tinker/test/butopls.int +%%PORTDOCS%%share/tinker/test/butopls.key +%%PORTDOCS%%share/tinker/test/butopls.xyz +%%PORTDOCS%%share/tinker/test/butopls2.int +%%PORTDOCS%%share/tinker/test/butopls2.key +%%PORTDOCS%%share/tinker/test/butopls2.xyz +%%PORTDOCS%%share/tinker/test/c5.key +%%PORTDOCS%%share/tinker/test/c5.seq +%%PORTDOCS%%share/tinker/test/c5.xyz +%%PORTDOCS%%share/tinker/test/c7ax.key +%%PORTDOCS%%share/tinker/test/c7ax.seq +%%PORTDOCS%%share/tinker/test/c7ax.xyz +%%PORTDOCS%%share/tinker/test/c7eq.key +%%PORTDOCS%%share/tinker/test/c7eq.seq +%%PORTDOCS%%share/tinker/test/c7eq.xyz +%%PORTDOCS%%share/tinker/test/calmodulin.key +%%PORTDOCS%%share/tinker/test/calmodulin.pdb +%%PORTDOCS%%share/tinker/test/calmodulin.seq +%%PORTDOCS%%share/tinker/test/calmodulin.xyz +%%PORTDOCS%%share/tinker/test/cpentene.key +%%PORTDOCS%%share/tinker/test/cpentene.xyz +%%PORTDOCS%%share/tinker/test/crambin.key +%%PORTDOCS%%share/tinker/test/crambin.min +%%PORTDOCS%%share/tinker/test/crambin.pdb +%%PORTDOCS%%share/tinker/test/crambin.seq +%%PORTDOCS%%share/tinker/test/crambin.super +%%PORTDOCS%%share/tinker/test/crambin.xyz +%%PORTDOCS%%share/tinker/test/crambinx.key +%%PORTDOCS%%share/tinker/test/crambinx.ray +%%PORTDOCS%%share/tinker/test/crambinx.xyz +%%PORTDOCS%%share/tinker/test/crown.int +%%PORTDOCS%%share/tinker/test/crown.key +%%PORTDOCS%%share/tinker/test/crown.xyz +%%PORTDOCS%%share/tinker/test/cychept.int +%%PORTDOCS%%share/tinker/test/cychept.key +%%PORTDOCS%%share/tinker/test/cychept.xyz +%%PORTDOCS%%share/tinker/test/cyclo.int +%%PORTDOCS%%share/tinker/test/cyclo.key +%%PORTDOCS%%share/tinker/test/cyclo.xyz +%%PORTDOCS%%share/tinker/test/cyclo2.int +%%PORTDOCS%%share/tinker/test/cyclo2.key +%%PORTDOCS%%share/tinker/test/cyclo2.xyz +%%PORTDOCS%%share/tinker/test/diene.int +%%PORTDOCS%%share/tinker/test/diene.key +%%PORTDOCS%%share/tinker/test/diene.xyz +%%PORTDOCS%%share/tinker/test/dimethane.key +%%PORTDOCS%%share/tinker/test/dimethane.xyz +%%PORTDOCS%%share/tinker/test/diwater.key +%%PORTDOCS%%share/tinker/test/diwater.lin +%%PORTDOCS%%share/tinker/test/diwater.min +%%PORTDOCS%%share/tinker/test/diwater.xyz +%%PORTDOCS%%share/tinker/test/enkephalin.int +%%PORTDOCS%%share/tinker/test/enkephalin.key +%%PORTDOCS%%share/tinker/test/enkephalin.make +%%PORTDOCS%%share/tinker/test/enkephalin.seq +%%PORTDOCS%%share/tinker/test/enkephalin.xyz +%%PORTDOCS%%share/tinker/test/ermer.int +%%PORTDOCS%%share/tinker/test/ermer.key +%%PORTDOCS%%share/tinker/test/ermer.xyz +%%PORTDOCS%%share/tinker/test/ester.key +%%PORTDOCS%%share/tinker/test/ester.xyz +%%PORTDOCS%%share/tinker/test/ethane.int +%%PORTDOCS%%share/tinker/test/ethane.key +%%PORTDOCS%%share/tinker/test/ethane.xyz +%%PORTDOCS%%share/tinker/test/ethanol.int +%%PORTDOCS%%share/tinker/test/ethanol.key +%%PORTDOCS%%share/tinker/test/ethanol.xyz +%%PORTDOCS%%share/tinker/test/ethylene.int +%%PORTDOCS%%share/tinker/test/ethylene.key +%%PORTDOCS%%share/tinker/test/ethylene.xyz +%%PORTDOCS%%share/tinker/test/flane.int +%%PORTDOCS%%share/tinker/test/flane.key +%%PORTDOCS%%share/tinker/test/flane.xyz +%%PORTDOCS%%share/tinker/test/form.key +%%PORTDOCS%%share/tinker/test/form.xyz +%%PORTDOCS%%share/tinker/test/formbig.key +%%PORTDOCS%%share/tinker/test/formbig.xyz +%%PORTDOCS%%share/tinker/test/formbox.key +%%PORTDOCS%%share/tinker/test/formbox.xyz +%%PORTDOCS%%share/tinker/test/furan.int +%%PORTDOCS%%share/tinker/test/furan.key +%%PORTDOCS%%share/tinker/test/furan.xyz +%%PORTDOCS%%share/tinker/test/glucose.key +%%PORTDOCS%%share/tinker/test/glucose.xyz +%%PORTDOCS%%share/tinker/test/helix.key +%%PORTDOCS%%share/tinker/test/helix.xyz +%%PORTDOCS%%share/tinker/test/hexane.int +%%PORTDOCS%%share/tinker/test/hexane.key +%%PORTDOCS%%share/tinker/test/hexane.xyz +%%PORTDOCS%%share/tinker/test/hexanes.dyn +%%PORTDOCS%%share/tinker/test/hexanes.key +%%PORTDOCS%%share/tinker/test/hexanes.run +%%PORTDOCS%%share/tinker/test/hexanes.xyz +%%PORTDOCS%%share/tinker/test/imidazole.int +%%PORTDOCS%%share/tinker/test/imidazole.key +%%PORTDOCS%%share/tinker/test/imidazole.xyz +%%PORTDOCS%%share/tinker/test/imine.int +%%PORTDOCS%%share/tinker/test/imine.key +%%PORTDOCS%%share/tinker/test/imine.xyz +%%PORTDOCS%%share/tinker/test/lactam.key +%%PORTDOCS%%share/tinker/test/lactam.xyz +%%PORTDOCS%%share/tinker/test/melittin.key +%%PORTDOCS%%share/tinker/test/melittin.pdb +%%PORTDOCS%%share/tinker/test/melittin.seq +%%PORTDOCS%%share/tinker/test/melittin.xyz +%%PORTDOCS%%share/tinker/test/methane.int +%%PORTDOCS%%share/tinker/test/methane.key +%%PORTDOCS%%share/tinker/test/methane.xyz +%%PORTDOCS%%share/tinker/test/methanol.key +%%PORTDOCS%%share/tinker/test/methanol.xyz +%%PORTDOCS%%share/tinker/test/nacl.key +%%PORTDOCS%%share/tinker/test/nacl.xyz +%%PORTDOCS%%share/tinker/test/naphthalene.key +%%PORTDOCS%%share/tinker/test/naphthalene.xyz +%%PORTDOCS%%share/tinker/test/nma.int +%%PORTDOCS%%share/tinker/test/nma.key +%%PORTDOCS%%share/tinker/test/nma.xyz +%%PORTDOCS%%share/tinker/test/nmabox.dyn +%%PORTDOCS%%share/tinker/test/nmabox.key +%%PORTDOCS%%share/tinker/test/nmabox.xyz +%%PORTDOCS%%share/tinker/test/nstilbene.int +%%PORTDOCS%%share/tinker/test/nstilbene.key +%%PORTDOCS%%share/tinker/test/nstilbene.xyz +%%PORTDOCS%%share/tinker/test/octane.int +%%PORTDOCS%%share/tinker/test/octane.key +%%PORTDOCS%%share/tinker/test/octane.xyz +%%PORTDOCS%%share/tinker/test/octane2.int +%%PORTDOCS%%share/tinker/test/octane2.key +%%PORTDOCS%%share/tinker/test/octane2.xyz +%%PORTDOCS%%share/tinker/test/octene.key +%%PORTDOCS%%share/tinker/test/octene.xyz +%%PORTDOCS%%share/tinker/test/palmitate.key +%%PORTDOCS%%share/tinker/test/palmitate.xyz +%%PORTDOCS%%share/tinker/test/peptide.int +%%PORTDOCS%%share/tinker/test/peptide.key +%%PORTDOCS%%share/tinker/test/peptide.make +%%PORTDOCS%%share/tinker/test/peptide.min +%%PORTDOCS%%share/tinker/test/peptide.pdb +%%PORTDOCS%%share/tinker/test/peptide.seq +%%PORTDOCS%%share/tinker/test/peptide.xyz +%%PORTDOCS%%share/tinker/test/phenanth.key +%%PORTDOCS%%share/tinker/test/phenanth.xyz +%%PORTDOCS%%share/tinker/test/photo.key +%%PORTDOCS%%share/tinker/test/photo.pdb +%%PORTDOCS%%share/tinker/test/photo.seq +%%PORTDOCS%%share/tinker/test/photo.xyz +%%PORTDOCS%%share/tinker/test/propane.key +%%PORTDOCS%%share/tinker/test/propane.ray +%%PORTDOCS%%share/tinker/test/propane.xyz +%%PORTDOCS%%share/tinker/test/propellane.int +%%PORTDOCS%%share/tinker/test/propellane.key +%%PORTDOCS%%share/tinker/test/propellane.xyz +%%PORTDOCS%%share/tinker/test/propyne.key +%%PORTDOCS%%share/tinker/test/propyne.xyz +%%PORTDOCS%%share/tinker/test/pyridine.int +%%PORTDOCS%%share/tinker/test/pyridine.key +%%PORTDOCS%%share/tinker/test/pyridine.xyz +%%PORTDOCS%%share/tinker/test/pyrrole.int +%%PORTDOCS%%share/tinker/test/pyrrole.key +%%PORTDOCS%%share/tinker/test/pyrrole.xyz +%%PORTDOCS%%share/tinker/test/retinoic.key +%%PORTDOCS%%share/tinker/test/retinoic.xyz +%%PORTDOCS%%share/tinker/test/sterol.key +%%PORTDOCS%%share/tinker/test/sterol.xyz +%%PORTDOCS%%share/tinker/test/styrene.int +%%PORTDOCS%%share/tinker/test/styrene.key +%%PORTDOCS%%share/tinker/test/styrene.xyz +%%PORTDOCS%%share/tinker/test/thiadiene.int +%%PORTDOCS%%share/tinker/test/thiadiene.key +%%PORTDOCS%%share/tinker/test/thiadiene.xyz +%%PORTDOCS%%share/tinker/test/thiophene.int +%%PORTDOCS%%share/tinker/test/thiophene.key +%%PORTDOCS%%share/tinker/test/thiophene.xyz +%%PORTDOCS%%share/tinker/test/thr.int +%%PORTDOCS%%share/tinker/test/thr.key +%%PORTDOCS%%share/tinker/test/thr.xyz +%%PORTDOCS%%share/tinker/test/tip5p.key +%%PORTDOCS%%share/tinker/test/tip5p.xyz +%%PORTDOCS%%share/tinker/test/water.int +%%PORTDOCS%%share/tinker/test/water.key +%%PORTDOCS%%share/tinker/test/water.xyz +%%PORTDOCS%%share/tinker/test/waterbig.key +%%PORTDOCS%%share/tinker/test/waterbig.xyz +%%PORTDOCS%%share/tinker/test/waterbox.dyn +%%PORTDOCS%%share/tinker/test/waterbox.key +%%PORTDOCS%%share/tinker/test/waterbox.xyz +%%PORTDOCS%%share/tinker/test/waterhuge.key +%%PORTDOCS%%share/tinker/test/waterhuge.xyz +%%PORTDOCS%%share/tinker/test/wateroct.dyn +%%PORTDOCS%%share/tinker/test/wateroct.key +%%PORTDOCS%%share/tinker/test/wateroct.xyz +%%PORTDOCS%%share/tinker/test/watersmall.dyn +%%PORTDOCS%%share/tinker/test/watersmall.key +%%PORTDOCS%%share/tinker/test/watersmall.xyz +%%PORTDOCS%%share/tinker/test/white.int +%%PORTDOCS%%share/tinker/test/white.key +%%PORTDOCS%%share/tinker/test/white.xyz +%%PORTDOCS%%share/tinker/tinker.txt +%%PORTDOCS%%@dirrm share/doc/tinker +%%PORTDOCS%%@dirrm share/examples/tinker +%%PORTDOCS%%@dirrm share/tinker/bench +%%PORTDOCS%%@dirrm share/tinker/params +%%PORTDOCS%%@dirrm share/tinker/test +%%PORTDOCS%%@dirrm share/tinker diff --git a/biology/tinker/pkg-plist.viewer b/biology/tinker/pkg-plist.viewer index ce873ddf3322..d1d741483e17 100644 --- a/biology/tinker/pkg-plist.viewer +++ b/biology/tinker/pkg-plist.viewer @@ -51,350 +51,350 @@ bin/xyzedit bin/xyzint bin/xyzpdb bin/xyzsybyl -share/doc/tinker/README -share/doc/tinker/announce.txt -share/doc/tinker/guide.pdf -share/doc/tinker/guide.ps.gz -share/doc/tinker/guide.txt -share/doc/tinker/license.pdf -share/doc/tinker/license.ps -share/doc/tinker/license.txt -share/doc/tinker/logo.pdf -share/doc/tinker/logo.ps.gz -share/doc/tinker/summary.pdf -share/doc/tinker/summary.ps -share/doc/tinker/summary.txt -share/examples/tinker/README -share/examples/tinker/anion.dat -share/examples/tinker/anion.dyn0 -share/examples/tinker/anion.key -share/examples/tinker/anion.log -share/examples/tinker/anion.run -share/examples/tinker/anion.xyz -share/examples/tinker/argon.1st -share/examples/tinker/argon.key -share/examples/tinker/argon.log -share/examples/tinker/argon.run -share/examples/tinker/clean.make -share/examples/tinker/cluster.dat -share/examples/tinker/cluster.key -share/examples/tinker/cluster.log -share/examples/tinker/cluster.run -share/examples/tinker/cluster.xyz -share/examples/tinker/crambin.key -share/examples/tinker/crambin.log -share/examples/tinker/crambin.pdb -share/examples/tinker/crambin.run -share/examples/tinker/cyclohex.boat -share/examples/tinker/cyclohex.chair -share/examples/tinker/cyclohex.key -share/examples/tinker/cyclohex.log -share/examples/tinker/cyclohex.run -share/examples/tinker/enkephalin.dat -share/examples/tinker/enkephalin.key -share/examples/tinker/enkephalin.log -share/examples/tinker/enkephalin.run -share/examples/tinker/formamide.cell -share/examples/tinker/formamide.dat -share/examples/tinker/formamide.key -share/examples/tinker/formamide.log -share/examples/tinker/formamide.run -share/examples/tinker/helix.1st -share/examples/tinker/helix.key -share/examples/tinker/helix.log -share/examples/tinker/helix.run -share/examples/tinker/salt.cell -share/examples/tinker/salt.key -share/examples/tinker/salt.log -share/examples/tinker/salt.run -share/tinker/bench/bench-1.key -share/tinker/bench/bench-1.run -share/tinker/bench/bench-1.xyz -share/tinker/bench/bench-2.key -share/tinker/bench/bench-2.run -share/tinker/bench/bench-2.xyz -share/tinker/bench/bench-3.key -share/tinker/bench/bench-3.run -share/tinker/bench/bench-3.xyz -share/tinker/bench/bench-4.dyn0 -share/tinker/bench/bench-4.key -share/tinker/bench/bench-4.log -share/tinker/bench/bench-4.run -share/tinker/bench/bench-4.xyz -share/tinker/bench/bench-5.dyn0 -share/tinker/bench/bench-5.key -share/tinker/bench/bench-5.run -share/tinker/bench/bench-5.xyz -share/tinker/bench/results-2.3 -share/tinker/bench/results-2.4 -share/tinker/bench/results-2.9 -share/tinker/bench/results-3.1 -share/tinker/bench/results-3.2 -share/tinker/bench/results-3.4 -share/tinker/bench/results-3.5 -share/tinker/bench/results-3.7 -share/tinker/bench/results-3.8 -share/tinker/params/README -share/tinker/params/amber.prm -share/tinker/params/amberN.prm -share/tinker/params/charmm.prm -share/tinker/params/emr.prm -share/tinker/params/hoch.prm -share/tinker/params/mm2.prm -share/tinker/params/mm3.prm -share/tinker/params/mm3pro.prm -share/tinker/params/opls.prm -share/tinker/params/oplsaa.prm -share/tinker/params/smooth.prm -share/tinker/params/smoothaa.prm -share/tinker/params/tinker.prm -share/tinker/params/water.prm -share/tinker/rasmol/rasmol.hlp -share/tinker/test/README -share/tinker/test/ala20.key -share/tinker/test/ala20.xyz -share/tinker/test/alkane.key -share/tinker/test/alkane.xyz -share/tinker/test/arach.int -share/tinker/test/arach.key -share/tinker/test/arach.xyz -share/tinker/test/azulene.int -share/tinker/test/azulene.key -share/tinker/test/azulene.xyz -share/tinker/test/bdna.int -share/tinker/test/bdna.key -share/tinker/test/bdna.make -share/tinker/test/bdna.seq -share/tinker/test/bdna.xyz -share/tinker/test/bearing.key -share/tinker/test/bearing.pdb -share/tinker/test/bearing.xyz -share/tinker/test/bearing2.key -share/tinker/test/bearing2.pdb -share/tinker/test/bearing2.xyz -share/tinker/test/benzene.int -share/tinker/test/benzene.key -share/tinker/test/benzene.xyz -share/tinker/test/bowl.int -share/tinker/test/bowl.key -share/tinker/test/bowl.xyz -share/tinker/test/bowl2.key -share/tinker/test/bowl2.xyz -share/tinker/test/bowl3.key -share/tinker/test/bowl3.xyz -share/tinker/test/butane.int -share/tinker/test/butane.key -share/tinker/test/butane.xyz -share/tinker/test/butane2.int -share/tinker/test/butane2.key -share/tinker/test/butane2.xyz -share/tinker/test/butanes.dyn -share/tinker/test/butanes.key -share/tinker/test/butanes.xyz -share/tinker/test/butanex.key -share/tinker/test/butanex.xyz -share/tinker/test/butopls.int -share/tinker/test/butopls.key -share/tinker/test/butopls.xyz -share/tinker/test/butopls2.int -share/tinker/test/butopls2.key -share/tinker/test/butopls2.xyz -share/tinker/test/c5.key -share/tinker/test/c5.seq -share/tinker/test/c5.xyz -share/tinker/test/c7ax.key -share/tinker/test/c7ax.seq -share/tinker/test/c7ax.xyz -share/tinker/test/c7eq.key -share/tinker/test/c7eq.seq -share/tinker/test/c7eq.xyz -share/tinker/test/calmodulin.key -share/tinker/test/calmodulin.pdb -share/tinker/test/calmodulin.seq -share/tinker/test/calmodulin.xyz -share/tinker/test/cpentene.key -share/tinker/test/cpentene.xyz -share/tinker/test/crambin.key -share/tinker/test/crambin.min -share/tinker/test/crambin.pdb -share/tinker/test/crambin.seq -share/tinker/test/crambin.super -share/tinker/test/crambin.xyz -share/tinker/test/crambinx.key -share/tinker/test/crambinx.ray -share/tinker/test/crambinx.xyz -share/tinker/test/crown.int -share/tinker/test/crown.key -share/tinker/test/crown.xyz -share/tinker/test/cychept.int -share/tinker/test/cychept.key -share/tinker/test/cychept.xyz -share/tinker/test/cyclo.int -share/tinker/test/cyclo.key -share/tinker/test/cyclo.xyz -share/tinker/test/cyclo2.int -share/tinker/test/cyclo2.key -share/tinker/test/cyclo2.xyz -share/tinker/test/diene.int -share/tinker/test/diene.key -share/tinker/test/diene.xyz -share/tinker/test/dimethane.key -share/tinker/test/dimethane.xyz -share/tinker/test/diwater.key -share/tinker/test/diwater.lin -share/tinker/test/diwater.min -share/tinker/test/diwater.xyz -share/tinker/test/enkephalin.int -share/tinker/test/enkephalin.key -share/tinker/test/enkephalin.make -share/tinker/test/enkephalin.seq -share/tinker/test/enkephalin.xyz -share/tinker/test/ermer.int -share/tinker/test/ermer.key -share/tinker/test/ermer.xyz -share/tinker/test/ester.key -share/tinker/test/ester.xyz -share/tinker/test/ethane.int -share/tinker/test/ethane.key -share/tinker/test/ethane.xyz -share/tinker/test/ethanol.int -share/tinker/test/ethanol.key -share/tinker/test/ethanol.xyz -share/tinker/test/ethylene.int -share/tinker/test/ethylene.key -share/tinker/test/ethylene.xyz -share/tinker/test/flane.int -share/tinker/test/flane.key -share/tinker/test/flane.xyz -share/tinker/test/form.key -share/tinker/test/form.xyz -share/tinker/test/formbig.key -share/tinker/test/formbig.xyz -share/tinker/test/formbox.key -share/tinker/test/formbox.xyz -share/tinker/test/furan.int -share/tinker/test/furan.key -share/tinker/test/furan.xyz -share/tinker/test/glucose.key -share/tinker/test/glucose.xyz -share/tinker/test/helix.key -share/tinker/test/helix.xyz -share/tinker/test/hexane.int -share/tinker/test/hexane.key -share/tinker/test/hexane.xyz -share/tinker/test/hexanes.dyn -share/tinker/test/hexanes.key -share/tinker/test/hexanes.run -share/tinker/test/hexanes.xyz -share/tinker/test/imidazole.int -share/tinker/test/imidazole.key -share/tinker/test/imidazole.xyz -share/tinker/test/imine.int -share/tinker/test/imine.key -share/tinker/test/imine.xyz -share/tinker/test/lactam.key -share/tinker/test/lactam.xyz -share/tinker/test/melittin.key -share/tinker/test/melittin.pdb -share/tinker/test/melittin.seq -share/tinker/test/melittin.xyz -share/tinker/test/methane.int -share/tinker/test/methane.key -share/tinker/test/methane.xyz -share/tinker/test/methanol.key -share/tinker/test/methanol.xyz -share/tinker/test/nacl.key -share/tinker/test/nacl.xyz -share/tinker/test/naphthalene.key -share/tinker/test/naphthalene.xyz -share/tinker/test/nma.int -share/tinker/test/nma.key -share/tinker/test/nma.xyz -share/tinker/test/nmabox.dyn -share/tinker/test/nmabox.key -share/tinker/test/nmabox.xyz -share/tinker/test/nstilbene.int -share/tinker/test/nstilbene.key -share/tinker/test/nstilbene.xyz -share/tinker/test/octane.int -share/tinker/test/octane.key -share/tinker/test/octane.xyz -share/tinker/test/octane2.int -share/tinker/test/octane2.key -share/tinker/test/octane2.xyz -share/tinker/test/octene.key -share/tinker/test/octene.xyz -share/tinker/test/palmitate.key -share/tinker/test/palmitate.xyz -share/tinker/test/peptide.int -share/tinker/test/peptide.key -share/tinker/test/peptide.make -share/tinker/test/peptide.min -share/tinker/test/peptide.pdb -share/tinker/test/peptide.seq -share/tinker/test/peptide.xyz -share/tinker/test/phenanth.key -share/tinker/test/phenanth.xyz -share/tinker/test/photo.key -share/tinker/test/photo.pdb -share/tinker/test/photo.seq -share/tinker/test/photo.xyz -share/tinker/test/propane.key -share/tinker/test/propane.ray -share/tinker/test/propane.xyz -share/tinker/test/propellane.int -share/tinker/test/propellane.key -share/tinker/test/propellane.xyz -share/tinker/test/propyne.key -share/tinker/test/propyne.xyz -share/tinker/test/pyridine.int -share/tinker/test/pyridine.key -share/tinker/test/pyridine.xyz -share/tinker/test/pyrrole.int -share/tinker/test/pyrrole.key -share/tinker/test/pyrrole.xyz -share/tinker/test/retinoic.key -share/tinker/test/retinoic.xyz -share/tinker/test/sterol.key -share/tinker/test/sterol.xyz -share/tinker/test/styrene.int -share/tinker/test/styrene.key -share/tinker/test/styrene.xyz -share/tinker/test/thiadiene.int -share/tinker/test/thiadiene.key -share/tinker/test/thiadiene.xyz -share/tinker/test/thiophene.int -share/tinker/test/thiophene.key -share/tinker/test/thiophene.xyz -share/tinker/test/thr.int -share/tinker/test/thr.key -share/tinker/test/thr.xyz -share/tinker/test/tip5p.key -share/tinker/test/tip5p.xyz -share/tinker/test/water.int -share/tinker/test/water.key -share/tinker/test/water.xyz -share/tinker/test/waterbig.key -share/tinker/test/waterbig.xyz -share/tinker/test/waterbox.dyn -share/tinker/test/waterbox.key -share/tinker/test/waterbox.xyz -share/tinker/test/waterhuge.key -share/tinker/test/waterhuge.xyz -share/tinker/test/wateroct.dyn -share/tinker/test/wateroct.key -share/tinker/test/wateroct.xyz -share/tinker/test/watersmall.dyn -share/tinker/test/watersmall.key -share/tinker/test/watersmall.xyz -share/tinker/test/white.int -share/tinker/test/white.key -share/tinker/test/white.xyz -share/tinker/tinker.txt -@dirrm share/doc/tinker -@dirrm share/examples/tinker -@dirrm share/tinker/bench -@dirrm share/tinker/params -@dirrm share/tinker/rasmol -@dirrm share/tinker/test -@dirrm share/tinker +%%PORTDOCS%%share/doc/tinker/README +%%PORTDOCS%%share/doc/tinker/announce.txt +%%PORTDOCS%%share/doc/tinker/guide.pdf +%%PORTDOCS%%share/doc/tinker/guide.ps.gz +%%PORTDOCS%%share/doc/tinker/guide.txt +%%PORTDOCS%%share/doc/tinker/license.pdf +%%PORTDOCS%%share/doc/tinker/license.ps +%%PORTDOCS%%share/doc/tinker/license.txt +%%PORTDOCS%%share/doc/tinker/logo.pdf +%%PORTDOCS%%share/doc/tinker/logo.ps.gz +%%PORTDOCS%%share/doc/tinker/summary.pdf +%%PORTDOCS%%share/doc/tinker/summary.ps +%%PORTDOCS%%share/doc/tinker/summary.txt +%%PORTDOCS%%share/examples/tinker/README +%%PORTDOCS%%share/examples/tinker/anion.dat +%%PORTDOCS%%share/examples/tinker/anion.dyn0 +%%PORTDOCS%%share/examples/tinker/anion.key +%%PORTDOCS%%share/examples/tinker/anion.log +%%PORTDOCS%%share/examples/tinker/anion.run +%%PORTDOCS%%share/examples/tinker/anion.xyz +%%PORTDOCS%%share/examples/tinker/argon.1st +%%PORTDOCS%%share/examples/tinker/argon.key +%%PORTDOCS%%share/examples/tinker/argon.log +%%PORTDOCS%%share/examples/tinker/argon.run +%%PORTDOCS%%share/examples/tinker/clean.make +%%PORTDOCS%%share/examples/tinker/cluster.dat +%%PORTDOCS%%share/examples/tinker/cluster.key +%%PORTDOCS%%share/examples/tinker/cluster.log +%%PORTDOCS%%share/examples/tinker/cluster.run +%%PORTDOCS%%share/examples/tinker/cluster.xyz +%%PORTDOCS%%share/examples/tinker/crambin.key +%%PORTDOCS%%share/examples/tinker/crambin.log +%%PORTDOCS%%share/examples/tinker/crambin.pdb +%%PORTDOCS%%share/examples/tinker/crambin.run +%%PORTDOCS%%share/examples/tinker/cyclohex.boat +%%PORTDOCS%%share/examples/tinker/cyclohex.chair +%%PORTDOCS%%share/examples/tinker/cyclohex.key +%%PORTDOCS%%share/examples/tinker/cyclohex.log +%%PORTDOCS%%share/examples/tinker/cyclohex.run +%%PORTDOCS%%share/examples/tinker/enkephalin.dat +%%PORTDOCS%%share/examples/tinker/enkephalin.key +%%PORTDOCS%%share/examples/tinker/enkephalin.log +%%PORTDOCS%%share/examples/tinker/enkephalin.run +%%PORTDOCS%%share/examples/tinker/formamide.cell +%%PORTDOCS%%share/examples/tinker/formamide.dat +%%PORTDOCS%%share/examples/tinker/formamide.key +%%PORTDOCS%%share/examples/tinker/formamide.log +%%PORTDOCS%%share/examples/tinker/formamide.run +%%PORTDOCS%%share/examples/tinker/helix.1st +%%PORTDOCS%%share/examples/tinker/helix.key +%%PORTDOCS%%share/examples/tinker/helix.log +%%PORTDOCS%%share/examples/tinker/helix.run +%%PORTDOCS%%share/examples/tinker/salt.cell +%%PORTDOCS%%share/examples/tinker/salt.key +%%PORTDOCS%%share/examples/tinker/salt.log +%%PORTDOCS%%share/examples/tinker/salt.run +%%PORTDOCS%%share/tinker/bench/bench-1.key +%%PORTDOCS%%share/tinker/bench/bench-1.run +%%PORTDOCS%%share/tinker/bench/bench-1.xyz +%%PORTDOCS%%share/tinker/bench/bench-2.key +%%PORTDOCS%%share/tinker/bench/bench-2.run +%%PORTDOCS%%share/tinker/bench/bench-2.xyz +%%PORTDOCS%%share/tinker/bench/bench-3.key +%%PORTDOCS%%share/tinker/bench/bench-3.run +%%PORTDOCS%%share/tinker/bench/bench-3.xyz +%%PORTDOCS%%share/tinker/bench/bench-4.dyn0 +%%PORTDOCS%%share/tinker/bench/bench-4.key +%%PORTDOCS%%share/tinker/bench/bench-4.log +%%PORTDOCS%%share/tinker/bench/bench-4.run +%%PORTDOCS%%share/tinker/bench/bench-4.xyz +%%PORTDOCS%%share/tinker/bench/bench-5.dyn0 +%%PORTDOCS%%share/tinker/bench/bench-5.key +%%PORTDOCS%%share/tinker/bench/bench-5.run +%%PORTDOCS%%share/tinker/bench/bench-5.xyz +%%PORTDOCS%%share/tinker/bench/results-2.3 +%%PORTDOCS%%share/tinker/bench/results-2.4 +%%PORTDOCS%%share/tinker/bench/results-2.9 +%%PORTDOCS%%share/tinker/bench/results-3.1 +%%PORTDOCS%%share/tinker/bench/results-3.2 +%%PORTDOCS%%share/tinker/bench/results-3.4 +%%PORTDOCS%%share/tinker/bench/results-3.5 +%%PORTDOCS%%share/tinker/bench/results-3.7 +%%PORTDOCS%%share/tinker/bench/results-3.8 +%%PORTDOCS%%share/tinker/params/README +%%PORTDOCS%%share/tinker/params/amber.prm +%%PORTDOCS%%share/tinker/params/amberN.prm +%%PORTDOCS%%share/tinker/params/charmm.prm +%%PORTDOCS%%share/tinker/params/emr.prm +%%PORTDOCS%%share/tinker/params/hoch.prm +%%PORTDOCS%%share/tinker/params/mm2.prm +%%PORTDOCS%%share/tinker/params/mm3.prm +%%PORTDOCS%%share/tinker/params/mm3pro.prm +%%PORTDOCS%%share/tinker/params/opls.prm +%%PORTDOCS%%share/tinker/params/oplsaa.prm +%%PORTDOCS%%share/tinker/params/smooth.prm +%%PORTDOCS%%share/tinker/params/smoothaa.prm +%%PORTDOCS%%share/tinker/params/tinker.prm +%%PORTDOCS%%share/tinker/params/water.prm +%%PORTDOCS%%share/tinker/rasmol/rasmol.hlp +%%PORTDOCS%%share/tinker/test/README +%%PORTDOCS%%share/tinker/test/ala20.key +%%PORTDOCS%%share/tinker/test/ala20.xyz +%%PORTDOCS%%share/tinker/test/alkane.key +%%PORTDOCS%%share/tinker/test/alkane.xyz +%%PORTDOCS%%share/tinker/test/arach.int +%%PORTDOCS%%share/tinker/test/arach.key +%%PORTDOCS%%share/tinker/test/arach.xyz +%%PORTDOCS%%share/tinker/test/azulene.int +%%PORTDOCS%%share/tinker/test/azulene.key +%%PORTDOCS%%share/tinker/test/azulene.xyz +%%PORTDOCS%%share/tinker/test/bdna.int +%%PORTDOCS%%share/tinker/test/bdna.key +%%PORTDOCS%%share/tinker/test/bdna.make +%%PORTDOCS%%share/tinker/test/bdna.seq +%%PORTDOCS%%share/tinker/test/bdna.xyz +%%PORTDOCS%%share/tinker/test/bearing.key +%%PORTDOCS%%share/tinker/test/bearing.pdb +%%PORTDOCS%%share/tinker/test/bearing.xyz +%%PORTDOCS%%share/tinker/test/bearing2.key +%%PORTDOCS%%share/tinker/test/bearing2.pdb +%%PORTDOCS%%share/tinker/test/bearing2.xyz +%%PORTDOCS%%share/tinker/test/benzene.int +%%PORTDOCS%%share/tinker/test/benzene.key +%%PORTDOCS%%share/tinker/test/benzene.xyz +%%PORTDOCS%%share/tinker/test/bowl.int +%%PORTDOCS%%share/tinker/test/bowl.key +%%PORTDOCS%%share/tinker/test/bowl.xyz +%%PORTDOCS%%share/tinker/test/bowl2.key +%%PORTDOCS%%share/tinker/test/bowl2.xyz +%%PORTDOCS%%share/tinker/test/bowl3.key +%%PORTDOCS%%share/tinker/test/bowl3.xyz +%%PORTDOCS%%share/tinker/test/butane.int +%%PORTDOCS%%share/tinker/test/butane.key +%%PORTDOCS%%share/tinker/test/butane.xyz +%%PORTDOCS%%share/tinker/test/butane2.int +%%PORTDOCS%%share/tinker/test/butane2.key +%%PORTDOCS%%share/tinker/test/butane2.xyz +%%PORTDOCS%%share/tinker/test/butanes.dyn +%%PORTDOCS%%share/tinker/test/butanes.key +%%PORTDOCS%%share/tinker/test/butanes.xyz +%%PORTDOCS%%share/tinker/test/butanex.key +%%PORTDOCS%%share/tinker/test/butanex.xyz +%%PORTDOCS%%share/tinker/test/butopls.int +%%PORTDOCS%%share/tinker/test/butopls.key +%%PORTDOCS%%share/tinker/test/butopls.xyz +%%PORTDOCS%%share/tinker/test/butopls2.int +%%PORTDOCS%%share/tinker/test/butopls2.key +%%PORTDOCS%%share/tinker/test/butopls2.xyz +%%PORTDOCS%%share/tinker/test/c5.key +%%PORTDOCS%%share/tinker/test/c5.seq +%%PORTDOCS%%share/tinker/test/c5.xyz +%%PORTDOCS%%share/tinker/test/c7ax.key +%%PORTDOCS%%share/tinker/test/c7ax.seq +%%PORTDOCS%%share/tinker/test/c7ax.xyz +%%PORTDOCS%%share/tinker/test/c7eq.key +%%PORTDOCS%%share/tinker/test/c7eq.seq +%%PORTDOCS%%share/tinker/test/c7eq.xyz +%%PORTDOCS%%share/tinker/test/calmodulin.key +%%PORTDOCS%%share/tinker/test/calmodulin.pdb +%%PORTDOCS%%share/tinker/test/calmodulin.seq +%%PORTDOCS%%share/tinker/test/calmodulin.xyz +%%PORTDOCS%%share/tinker/test/cpentene.key +%%PORTDOCS%%share/tinker/test/cpentene.xyz +%%PORTDOCS%%share/tinker/test/crambin.key +%%PORTDOCS%%share/tinker/test/crambin.min +%%PORTDOCS%%share/tinker/test/crambin.pdb +%%PORTDOCS%%share/tinker/test/crambin.seq +%%PORTDOCS%%share/tinker/test/crambin.super +%%PORTDOCS%%share/tinker/test/crambin.xyz +%%PORTDOCS%%share/tinker/test/crambinx.key +%%PORTDOCS%%share/tinker/test/crambinx.ray +%%PORTDOCS%%share/tinker/test/crambinx.xyz +%%PORTDOCS%%share/tinker/test/crown.int +%%PORTDOCS%%share/tinker/test/crown.key +%%PORTDOCS%%share/tinker/test/crown.xyz +%%PORTDOCS%%share/tinker/test/cychept.int +%%PORTDOCS%%share/tinker/test/cychept.key +%%PORTDOCS%%share/tinker/test/cychept.xyz +%%PORTDOCS%%share/tinker/test/cyclo.int +%%PORTDOCS%%share/tinker/test/cyclo.key +%%PORTDOCS%%share/tinker/test/cyclo.xyz +%%PORTDOCS%%share/tinker/test/cyclo2.int +%%PORTDOCS%%share/tinker/test/cyclo2.key +%%PORTDOCS%%share/tinker/test/cyclo2.xyz +%%PORTDOCS%%share/tinker/test/diene.int +%%PORTDOCS%%share/tinker/test/diene.key +%%PORTDOCS%%share/tinker/test/diene.xyz +%%PORTDOCS%%share/tinker/test/dimethane.key +%%PORTDOCS%%share/tinker/test/dimethane.xyz +%%PORTDOCS%%share/tinker/test/diwater.key +%%PORTDOCS%%share/tinker/test/diwater.lin +%%PORTDOCS%%share/tinker/test/diwater.min +%%PORTDOCS%%share/tinker/test/diwater.xyz +%%PORTDOCS%%share/tinker/test/enkephalin.int +%%PORTDOCS%%share/tinker/test/enkephalin.key +%%PORTDOCS%%share/tinker/test/enkephalin.make +%%PORTDOCS%%share/tinker/test/enkephalin.seq +%%PORTDOCS%%share/tinker/test/enkephalin.xyz +%%PORTDOCS%%share/tinker/test/ermer.int +%%PORTDOCS%%share/tinker/test/ermer.key +%%PORTDOCS%%share/tinker/test/ermer.xyz +%%PORTDOCS%%share/tinker/test/ester.key +%%PORTDOCS%%share/tinker/test/ester.xyz +%%PORTDOCS%%share/tinker/test/ethane.int +%%PORTDOCS%%share/tinker/test/ethane.key +%%PORTDOCS%%share/tinker/test/ethane.xyz +%%PORTDOCS%%share/tinker/test/ethanol.int +%%PORTDOCS%%share/tinker/test/ethanol.key +%%PORTDOCS%%share/tinker/test/ethanol.xyz +%%PORTDOCS%%share/tinker/test/ethylene.int +%%PORTDOCS%%share/tinker/test/ethylene.key +%%PORTDOCS%%share/tinker/test/ethylene.xyz +%%PORTDOCS%%share/tinker/test/flane.int +%%PORTDOCS%%share/tinker/test/flane.key +%%PORTDOCS%%share/tinker/test/flane.xyz +%%PORTDOCS%%share/tinker/test/form.key +%%PORTDOCS%%share/tinker/test/form.xyz +%%PORTDOCS%%share/tinker/test/formbig.key +%%PORTDOCS%%share/tinker/test/formbig.xyz +%%PORTDOCS%%share/tinker/test/formbox.key +%%PORTDOCS%%share/tinker/test/formbox.xyz +%%PORTDOCS%%share/tinker/test/furan.int +%%PORTDOCS%%share/tinker/test/furan.key +%%PORTDOCS%%share/tinker/test/furan.xyz +%%PORTDOCS%%share/tinker/test/glucose.key +%%PORTDOCS%%share/tinker/test/glucose.xyz +%%PORTDOCS%%share/tinker/test/helix.key +%%PORTDOCS%%share/tinker/test/helix.xyz +%%PORTDOCS%%share/tinker/test/hexane.int +%%PORTDOCS%%share/tinker/test/hexane.key +%%PORTDOCS%%share/tinker/test/hexane.xyz +%%PORTDOCS%%share/tinker/test/hexanes.dyn +%%PORTDOCS%%share/tinker/test/hexanes.key +%%PORTDOCS%%share/tinker/test/hexanes.run +%%PORTDOCS%%share/tinker/test/hexanes.xyz +%%PORTDOCS%%share/tinker/test/imidazole.int +%%PORTDOCS%%share/tinker/test/imidazole.key +%%PORTDOCS%%share/tinker/test/imidazole.xyz +%%PORTDOCS%%share/tinker/test/imine.int +%%PORTDOCS%%share/tinker/test/imine.key +%%PORTDOCS%%share/tinker/test/imine.xyz +%%PORTDOCS%%share/tinker/test/lactam.key +%%PORTDOCS%%share/tinker/test/lactam.xyz +%%PORTDOCS%%share/tinker/test/melittin.key +%%PORTDOCS%%share/tinker/test/melittin.pdb +%%PORTDOCS%%share/tinker/test/melittin.seq +%%PORTDOCS%%share/tinker/test/melittin.xyz +%%PORTDOCS%%share/tinker/test/methane.int +%%PORTDOCS%%share/tinker/test/methane.key +%%PORTDOCS%%share/tinker/test/methane.xyz +%%PORTDOCS%%share/tinker/test/methanol.key +%%PORTDOCS%%share/tinker/test/methanol.xyz +%%PORTDOCS%%share/tinker/test/nacl.key +%%PORTDOCS%%share/tinker/test/nacl.xyz +%%PORTDOCS%%share/tinker/test/naphthalene.key +%%PORTDOCS%%share/tinker/test/naphthalene.xyz +%%PORTDOCS%%share/tinker/test/nma.int +%%PORTDOCS%%share/tinker/test/nma.key +%%PORTDOCS%%share/tinker/test/nma.xyz +%%PORTDOCS%%share/tinker/test/nmabox.dyn +%%PORTDOCS%%share/tinker/test/nmabox.key +%%PORTDOCS%%share/tinker/test/nmabox.xyz +%%PORTDOCS%%share/tinker/test/nstilbene.int +%%PORTDOCS%%share/tinker/test/nstilbene.key +%%PORTDOCS%%share/tinker/test/nstilbene.xyz +%%PORTDOCS%%share/tinker/test/octane.int +%%PORTDOCS%%share/tinker/test/octane.key +%%PORTDOCS%%share/tinker/test/octane.xyz +%%PORTDOCS%%share/tinker/test/octane2.int +%%PORTDOCS%%share/tinker/test/octane2.key +%%PORTDOCS%%share/tinker/test/octane2.xyz +%%PORTDOCS%%share/tinker/test/octene.key +%%PORTDOCS%%share/tinker/test/octene.xyz +%%PORTDOCS%%share/tinker/test/palmitate.key +%%PORTDOCS%%share/tinker/test/palmitate.xyz +%%PORTDOCS%%share/tinker/test/peptide.int +%%PORTDOCS%%share/tinker/test/peptide.key +%%PORTDOCS%%share/tinker/test/peptide.make +%%PORTDOCS%%share/tinker/test/peptide.min +%%PORTDOCS%%share/tinker/test/peptide.pdb +%%PORTDOCS%%share/tinker/test/peptide.seq +%%PORTDOCS%%share/tinker/test/peptide.xyz +%%PORTDOCS%%share/tinker/test/phenanth.key +%%PORTDOCS%%share/tinker/test/phenanth.xyz +%%PORTDOCS%%share/tinker/test/photo.key +%%PORTDOCS%%share/tinker/test/photo.pdb +%%PORTDOCS%%share/tinker/test/photo.seq +%%PORTDOCS%%share/tinker/test/photo.xyz +%%PORTDOCS%%share/tinker/test/propane.key +%%PORTDOCS%%share/tinker/test/propane.ray +%%PORTDOCS%%share/tinker/test/propane.xyz +%%PORTDOCS%%share/tinker/test/propellane.int +%%PORTDOCS%%share/tinker/test/propellane.key +%%PORTDOCS%%share/tinker/test/propellane.xyz +%%PORTDOCS%%share/tinker/test/propyne.key +%%PORTDOCS%%share/tinker/test/propyne.xyz +%%PORTDOCS%%share/tinker/test/pyridine.int +%%PORTDOCS%%share/tinker/test/pyridine.key +%%PORTDOCS%%share/tinker/test/pyridine.xyz +%%PORTDOCS%%share/tinker/test/pyrrole.int +%%PORTDOCS%%share/tinker/test/pyrrole.key +%%PORTDOCS%%share/tinker/test/pyrrole.xyz +%%PORTDOCS%%share/tinker/test/retinoic.key +%%PORTDOCS%%share/tinker/test/retinoic.xyz +%%PORTDOCS%%share/tinker/test/sterol.key +%%PORTDOCS%%share/tinker/test/sterol.xyz +%%PORTDOCS%%share/tinker/test/styrene.int +%%PORTDOCS%%share/tinker/test/styrene.key +%%PORTDOCS%%share/tinker/test/styrene.xyz +%%PORTDOCS%%share/tinker/test/thiadiene.int +%%PORTDOCS%%share/tinker/test/thiadiene.key +%%PORTDOCS%%share/tinker/test/thiadiene.xyz +%%PORTDOCS%%share/tinker/test/thiophene.int +%%PORTDOCS%%share/tinker/test/thiophene.key +%%PORTDOCS%%share/tinker/test/thiophene.xyz +%%PORTDOCS%%share/tinker/test/thr.int +%%PORTDOCS%%share/tinker/test/thr.key +%%PORTDOCS%%share/tinker/test/thr.xyz +%%PORTDOCS%%share/tinker/test/tip5p.key +%%PORTDOCS%%share/tinker/test/tip5p.xyz +%%PORTDOCS%%share/tinker/test/water.int +%%PORTDOCS%%share/tinker/test/water.key +%%PORTDOCS%%share/tinker/test/water.xyz +%%PORTDOCS%%share/tinker/test/waterbig.key +%%PORTDOCS%%share/tinker/test/waterbig.xyz +%%PORTDOCS%%share/tinker/test/waterbox.dyn +%%PORTDOCS%%share/tinker/test/waterbox.key +%%PORTDOCS%%share/tinker/test/waterbox.xyz +%%PORTDOCS%%share/tinker/test/waterhuge.key +%%PORTDOCS%%share/tinker/test/waterhuge.xyz +%%PORTDOCS%%share/tinker/test/wateroct.dyn +%%PORTDOCS%%share/tinker/test/wateroct.key +%%PORTDOCS%%share/tinker/test/wateroct.xyz +%%PORTDOCS%%share/tinker/test/watersmall.dyn +%%PORTDOCS%%share/tinker/test/watersmall.key +%%PORTDOCS%%share/tinker/test/watersmall.xyz +%%PORTDOCS%%share/tinker/test/white.int +%%PORTDOCS%%share/tinker/test/white.key +%%PORTDOCS%%share/tinker/test/white.xyz +%%PORTDOCS%%share/tinker/tinker.txt +%%PORTDOCS%%@dirrm share/doc/tinker +%%PORTDOCS%%@dirrm share/examples/tinker +%%PORTDOCS%%@dirrm share/tinker/bench +%%PORTDOCS%%@dirrm share/tinker/params +%%PORTDOCS%%@dirrm share/tinker/rasmol +%%PORTDOCS%%@dirrm share/tinker/test +%%PORTDOCS%%@dirrm share/tinker diff --git a/biology/xmolwt/pkg-plist b/biology/xmolwt/pkg-plist index a3966b1cdabe..d9414dad37dd 100644 --- a/biology/xmolwt/pkg-plist +++ b/biology/xmolwt/pkg-plist @@ -1,11 +1,11 @@ bin/gmolwt bin/molwt -share/doc/xmolwt/Howtouse.jp -share/doc/xmolwt/Readme -share/doc/xmolwt/Xmolwt -share/doc/xmolwt/dot.gtkrc -share/doc/xmolwt/gmolwt.gif -share/doc/xmolwt/xmolwt-e.html -share/doc/xmolwt/xmolwt.gif -share/doc/xmolwt/xmolwt.html -@dirrm share/doc/xmolwt +%%PORTDOCS%%share/doc/xmolwt/Howtouse.jp +%%PORTDOCS%%share/doc/xmolwt/Readme +%%PORTDOCS%%share/doc/xmolwt/Xmolwt +%%PORTDOCS%%share/doc/xmolwt/dot.gtkrc +%%PORTDOCS%%share/doc/xmolwt/gmolwt.gif +%%PORTDOCS%%share/doc/xmolwt/xmolwt-e.html +%%PORTDOCS%%share/doc/xmolwt/xmolwt.gif +%%PORTDOCS%%share/doc/xmolwt/xmolwt.html +%%PORTDOCS%%@dirrm share/doc/xmolwt |